#contig_id	alt_splicing_type	lend	rend	orient	supporting_pasa_asmbls	gene_annotations	supporing_transcripts	count_supporting_transcripts	alternative_overlapping_transcripts	count_alternative_transcripts
AmTr_v1.0_scaffold00034	retained_exon	3905514	3905582	-	asmbl_2360	none	blat.proc4231.chain_165,c13590_f1p2_2784.path1	2	blat.proc4209.chain_127,blat.proc4216.chain_248,blat.proc4227.chain_186,c10095_f1p3_2209.path1,c1203_f2p3_2807.path1,c417_f4p4_2901.path1	6
AmTr_v1.0_scaffold00058	retained_intron	550412	550496	+	asmbl_3279	none	blat.proc4188.chain_44,c9887_f1p0_1863.path1	2	blat.proc4131.chain_252,blat.proc4192.chain_220,blat.proc4205.chain_43,blat.proc4212.chain_41,c13930_f1p2_1953.path1,c148_f2p0_1767.path1,c2261_f1p3_1826.path1,c844_f3p2_1828.path1	8
AmTr_v1.0_scaffold00021	alternate_exon	1071848	1071984	-	asmbl_1569	none	blat.proc4177.chain_184,blat.proc4183.chain_219,c5463_f2p2_1793.path1,c810_f5p1_1840.path1	4	blat.proc4200.chain_20,blat.proc4200.chain_227,c15604_f2p3_1896.path1,c906_f3p9_1853.path1	4
AmTr_v1.0_scaffold00036	spliced_intron	2153506	2153589	-	asmbl_2391	none	blat.proc4198.chain_167	1	blat.proc4190.chain_80,blat.proc4198.chain_44,c12968_f1p2_1527.path1,c1590_f2p1_1909.path1,c8359_f1p2_1729.path1	5
AmTr_v1.0_scaffold00104	spliced_intron	1743782	1743866	+	asmbl_4638	none	blat.proc4196.chain_1,blat.proc4205.chain_134,c1908_f2p2_2017.path1,c4210_f1p2_2053.path1	4	blat.proc4214.chain_161,c998_f2p0_2688.path1	2
AmTr_v1.0_scaffold00025	alt_acceptor	5320677	5320678	-	asmbl_1972	none	blat.proc4137.chain_220,c6143_f1p0_1783.path1	2	blat.proc4141.chain_216,c1296_f1p0_1707.path1	2
AmTr_v1.0_scaffold00001	retained_intron	362773	362922	+	asmbl_15,asmbl_18	none	blat.proc4216.chain_147,c10322_f1p1_2871.path1	2	blat.proc4229.chain_76,c1901_f1p2_2779.path1	2
AmTr_v1.0_scaffold00038	alt_acceptor	63093	63094	-	asmbl_2451	none	blat.proc4181.chain_24,c1743_f2p2_2146.path1	2	blat.proc4181.chain_79,c1889_f2p1_1696.path1	2
AmTr_v1.0_scaffold00164	starts_in_intron	607234	607234	+	asmbl_5298	none	blat.proc4223.chain_36,c4998_f1p2_2745.path1	2	blat.proc4225.chain_172,c438_f6p5_2852.path1	2
AmTr_v1.0_scaffold00007	alt_acceptor	2767710	2767711	-	asmbl_644	none	blat.proc4221.chain_199,c3185_f1p1_2862.path1	2	blat.proc4185.chain_175,c8273_f1p0_2148.path1	2
AmTr_v1.0_scaffold00175	ends_in_intron	658307	658307	-	asmbl_5400	none	blat.proc4212.chain_18,c13425_f1p2_1821.path1	2	blat.proc4200.chain_235,blat.proc4202.chain_230,c1782_f2p1_1738.path1,c926_f3p2_2106.path1	4
AmTr_v1.0_scaffold00039	retained_intron	3575183	3575426	-	asmbl_2522	none	blat.proc4179.chain_240,blat.proc4202.chain_42,blat.proc4205.chain_3,blat.proc4212.chain_140,blat.proc4212.chain_149,c1100_f2p7_2039.path1,c15799_f2p1_1803.path1,c15923_f1p8_1942.path1,c1604_f2p7_1770.path1,c1893_f3p5_1921.path1	10	blat.proc4192.chain_108,c436_f8p5_1763.path1	2
AmTr_v1.0_scaffold00069	starts_in_intron	1534378	1534378	+	asmbl_3850	none	c13494_f1p1_2316.path1	1	c986_f2p1_1933.path1	1
AmTr_v1.0_scaffold00068	alt_acceptor	3166548	3166549	+	asmbl_3821	none	blat.proc4212.chain_118,c15434_f1p4_1890.path1	2	blat.proc4179.chain_170,blat.proc4183.chain_234,c1431_f2p1_2094.path1,c5613_f1p2_1764.path1	4
AmTr_v1.0_scaffold00045	starts_in_intron	4425726	4425726	-	asmbl_2796	none	blat.proc4137.chain_49,c2871_f1p2_1898.path1	2	blat.proc4137.chain_247,blat.proc4139.chain_229,blat.proc4141.chain_84,blat.proc4181.chain_77,blat.proc4192.chain_172,blat.proc4192.chain_257,blat.proc4198.chain_239,blat.proc4200.chain_256,blat.proc4205.chain_254,blat.proc4212.chain_13,blat.proc4212.chain_206,blat.proc4212.chain_213,blat.proc4212.chain_88,blat.proc4216.chain_208,blat.proc4216.chain_223,blat.proc4225.chain_108,blat.proc4225.chain_137,blat.proc4225.chain_93,blat.proc4227.chain_249,blat.proc4231.chain_216,blat.proc4231.chain_220,c11737_f1p13_2879.path1,c11846_f2p4_2651.path1,c13341_f1p10_2256.path1,c133_f8p18_2805.path1,c13704_f1p7_2032.path1,c1377_f2p1_2669.path1,c14571_f1p20_3204.path1,c14594_f2p1_2651.path1,c14966_f1p10_2193.path1,c173_f5p27_3055.path1,c1884_f2p1_2165.path1,c204_f1p7_2921.path1,c221_f9p20_2927.path1,c307_f5p18_2768.path1,c6530_f1p2_1789.path1,c6968_f1p16_2825.path1,c6999_f1p0_2198.path1,c700_f4p10_1956.path1,c7380_f1p5_3048.path1,c956_f3p10_2127.path1,c974_f3p10_1997.path1	42
AmTr_v1.0_scaffold00092	ends_in_intron	937136	937136	+	asmbl_4387	none	blat.proc4196.chain_186,c5600_f1p0_1968.path1	2	blat.proc4145.chain_204,blat.proc4147.chain_87,blat.proc4174.chain_226,blat.proc4179.chain_55,c10467_f1p2_961.path1,c1161_f3p1_2056.path1,c2270_f3p3_1007.path1,c4256_f1p3_1110.path1	8
AmTr_v1.0_scaffold00053	retained_exon	2719405	2719532	+	asmbl_3092,asmbl_3094	none	blat.proc4216.chain_235,blat.proc4227.chain_131,blat.proc4227.chain_59,c1034_f2p0_2961.path1,c356_f7p7_3003.path1,c824_f3p7_3054.path1	6	blat.proc4212.chain_236,blat.proc4212.chain_249,blat.proc4223.chain_263,blat.proc4223.chain_96,c274_f5p7_2966.path1,c321_f5p5_2848.path1,c6041_f1p3_2727.path1,c9570_f1p0_2952.path1	8
AmTr_v1.0_scaffold00041	skipped_exon	1171136	1174851	+	asmbl_2611	none	blat.proc4147.chain_118,c5212_f1p0_1134.path1	2	blat.proc4205.chain_79,c3309_f1p0_1460.path1	2
AmTr_v1.0_scaffold00003	alt_donor	5606859	5606860	+	asmbl_396	none	blat.proc4129.chain_191,c1481_f1p0_998.path1	2	blat.proc4133.chain_61,c2659_f1p0_1718.path1	2
AmTr_v1.0_scaffold00024	alt_acceptor	6231114	6231115	+	asmbl_1846	none	blat.proc4223.chain_19,c4759_f1p1_2801.path1	2	blat.proc4137.chain_223,c6161_f1p0_2046.path1	2
AmTr_v1.0_scaffold00024	alt_acceptor	6029558	6029559	+	asmbl_1842	none	blat.proc4177.chain_246,c989_f1p1_1907.path1	2	blat.proc4141.chain_4,c208_f2p1_2064.path1	2
AmTr_v1.0_scaffold00025	alt_acceptor	773344	773345	+	asmbl_1878	none	blat.proc4127.chain_133,c2427_f1p1_1055.path1	2	blat.proc4135.chain_171,blat.proc4198.chain_238,blat.proc4200.chain_100,c13689_f1p1_1660.path1,c406_f2p0_1765.path1,c572_f4p2_1773.path1	6
AmTr_v1.0_scaffold00032	spliced_intron	2213030	2213236	+	asmbl_2239	none	blat.proc4183.chain_218,c5456_f1p0_2173.path1	2	blat.proc4198.chain_73,c9191_f1p0_2167.path1	2
AmTr_v1.0_scaffold00030	retained_intron	498661	499490	+	asmbl_2146	none	c1017_f2p0_2818.path1	1	c2643_f2p0_1093.path1	1
AmTr_v1.0_scaffold00011	spliced_intron	8788509	8788647	-	asmbl_1033	none	blat.proc4139.chain_12,c169_f2p0_1634.path1	2	blat.proc4196.chain_176,c5404_f1p0_1936.path1	2
AmTr_v1.0_scaffold00059	starts_in_intron	1769185	1769185	-	asmbl_3395	none	blat.proc4221.chain_192,c2995_f1p0_2746.path1	2	blat.proc4177.chain_249,blat.proc4202.chain_117,c1361_f2p1_1991.path1,c995_f4p1_1905.path1	4
AmTr_v1.0_scaffold00107	spliced_intron	46943	47062	+	asmbl_4690	none	blat.proc4209.chain_221,blat.proc4212.chain_30,c12045_f1p2_2050.path1,c13599_f1p2_1734.path1	4	blat.proc4216.chain_33,c5750_f1p0_2980.path1	2
AmTr_v1.0_scaffold00003	retained_intron	2697108	2697337	-	asmbl_370	none	blat.proc4231.chain_19,c8198_f1p4_2892.path1	2	blat.proc4137.chain_47,blat.proc4139.chain_146,blat.proc4139.chain_164,blat.proc4143.chain_16,blat.proc4202.chain_84,blat.proc4212.chain_54,blat.proc4214.chain_85,blat.proc4214.chain_9,blat.proc4216.chain_233,blat.proc4216.chain_256,blat.proc4216.chain_37,c1217_f2p7_2138.path1,c14057_f1p8_1609.path1,c2004_f1p4_3242.path1,c2858_f1p2_1811.path1,c349_f5p10_2822.path1,c3813_f1p6_2717.path1,c412_f4p30_2969.path1,c456_f5p14_3131.path1,c5927_f1p23_2985.path1,c644_f3p20_3123.path1,c680_f1p2_3007.path1	22
AmTr_v1.0_scaffold00142	ends_in_intron	684326	684326	+	asmbl_5098	none	blat.proc4227.chain_87,c893_f3p5_2873.path1	2	blat.proc4141.chain_93,blat.proc4221.chain_14,c1167_f2p3_3059.path1,c7970_f1p2_2984.path1	4
AmTr_v1.0_scaffold00025	alt_donor	2673678	2673679	-	asmbl_1917	none	c4611_f1p0_1133.path1	1	c786_f7p3_1095.path1,c978_f4p0_1031.path1	2
AmTr_v1.0_scaffold00003	retained_exon	1250215	1251504	+	asmbl_339	none	blat.proc4225.chain_91,blat.proc4231.chain_120,c11720_f1p5_2592.path1,c12163_f1p4_2832.path1	4	c129_f2p2_3061.path1	1
AmTr_v1.0_scaffold00044	starts_in_intron	2029933	2029933	-	asmbl_2702	none	blat.proc4231.chain_100,c11487_f1p1_2623.path1	2	blat.proc4194.chain_252,c1851_f2p1_2138.path1	2
AmTr_v1.0_scaffold00012	alternate_exon	2358407	2358724	+	asmbl_1051	none	blat.proc4181.chain_50,c1820_f2p2_1821.path1	2	blat.proc4192.chain_82,blat.proc4200.chain_80,c15656_f2p1_1768.path1,c489_f8p6_1903.path1	4
AmTr_v1.0_scaffold00040	spliced_intron	782367	782622	+	asmbl_2549	none	blat.proc4129.chain_67,c356_f2p2_1021.path1	2	blat.proc4229.chain_75,c1897_f1p0_2871.path1	2
AmTr_v1.0_scaffold00022	alternate_exon	3880972	3881375	-	asmbl_1695	none	blat.proc4205.chain_212,c6156_f1p10_2496.path1	2	blat.proc4181.chain_167,blat.proc4192.chain_119,blat.proc4192.chain_12,blat.proc4192.chain_164,blat.proc4194.chain_239,blat.proc4229.chain_131,blat.proc4231.chain_1,blat.proc4231.chain_133,c12515_f1p11_2795.path1,c15001_f2p7_2497.path1,c1801_f2p9_2311.path1,c2106_f2p6_2037.path1,c3063_f1p19_2677.path1,c479_f6p18_2233.path1,c662_f2p17_2338.path1,c7572_f2p16_2715.path1	16
AmTr_v1.0_scaffold00053	alt_acceptor	17646	17647	+	asmbl_3070	none	blat.proc4227.chain_2,blat.proc4229.chain_25,c1492_f2p0_2758.path1,c699_f3p1_2914.path1	4	blat.proc4219.chain_122,blat.proc4219.chain_127,blat.proc4225.chain_160,c392_f6p3_2731.path1,c4400_f1p1_2821.path1,c768_f3p7_2922.path1,c777_f3p7_2689.path1	7
AmTr_v1.0_scaffold00042	retained_intron	2301291	2301784	-	asmbl_2650	none	blat.proc4139.chain_64,c4393_f1p1_1716.path1	2	blat.proc4125.chain_84,blat.proc4127.chain_17,c216_f2p3_1225.path1,c891_f1p3_1076.path1	4
AmTr_v1.0_scaffold00003	retained_exon	1249968	1250054	+	asmbl_341	none	c129_f2p2_3061.path1	1	blat.proc4139.chain_9	1
AmTr_v1.0_scaffold00062	retained_intron	3647392	3647566	-	asmbl_3585,asmbl_3587	none	blat.proc4183.chain_90,blat.proc4221.chain_155,c2374_f1p2_2932.path1,c3937_f1p1_2667.path1	4	blat.proc4188.chain_225,blat.proc4214.chain_118,blat.proc4229.chain_58,blat.proc4231.chain_75,c10540_f1p7_2748.path1,c11762_f1p0_2183.path1,c1704_f1p6_2779.path1,c802_f2p3_2640.path1	8
AmTr_v1.0_scaffold00058	retained_exon	4401060	4401240	+	asmbl_3351	none	blat.proc4198.chain_127,c10369_f1p4_1777.path1	2	blat.proc4188.chain_185,c11387_f1p1_2021.path1	2
AmTr_v1.0_scaffold00004	retained_intron	9450954	9451067	+	asmbl_505	none	blat.proc4198.chain_144,c10977_f1p1_1868.path1	2	blat.proc4177.chain_167,c771_f5p0_1800.path1	2
AmTr_v1.0_scaffold00121	alt_acceptor	1426041	1426042	+	asmbl_4906	none	blat.proc4225.chain_35,c10505_f1p0_2964.path1	2	blat.proc4221.chain_229,blat.proc4229.chain_259,c3661_f1p3_3058.path1,c7398_f1p7_2984.path1,c953_f2p6_2815.path1	5
AmTr_v1.0_scaffold00023	spliced_intron	1028843	1029050	+	asmbl_1747	none	blat.proc4221.chain_10,c1160_f2p3_2996.path1	2	blat.proc4216.chain_64,blat.proc4223.chain_24,blat.proc4227.chain_98,blat.proc4229.chain_93,blat.proc4231.chain_11,blat.proc4231.chain_55,c2176_f1p4_2795.path1,c4830_f1p6_3043.path1,c7309_f2p6_2931.path1,c7951_f1p5_2886.path1,c922_f3p12_3164.path1,c9646_f1p8_2814.path1	12
AmTr_v1.0_scaffold00044	alt_acceptor	462782	462783	-	asmbl_2668	none	blat.proc4223.chain_244	1	blat.proc4141.chain_9,c248_f2p0_2998.path1	2
AmTr_v1.0_scaffold00033	spliced_intron	2958897	2959032	-	asmbl_2308	none	blat.proc4147.chain_103,c4809_f3p0_1091.path1	2	blat.proc4129.chain_163,c1002_f1p1_1211.path1	2
AmTr_v1.0_scaffold00007	retained_intron	2479071	2479211	-	asmbl_636	none	blat.proc4190.chain_89,blat.proc4219.chain_232,c1059_f2p3_2839.path1,c13060_f1p0_1807.path1	4	blat.proc4221.chain_262,c4180_f1p2_3197.path1	2
AmTr_v1.0_scaffold00029	retained_intron	5917095	5917451	-	asmbl_2137	none	blat.proc4212.chain_179,c16502_f1p1_2292.path1	2	blat.proc4181.chain_152,blat.proc4196.chain_181,c2067_f2p0_1817.path1,c5473_f1p0_1939.path1	4
AmTr_v1.0_scaffold00065	spliced_intron	1977053	1979119	-	asmbl_3650	none	blat.proc4181.chain_7,blat.proc4192.chain_130,c1695_f2p1_1818.path1,c530_f7p2_1974.path1	4	blat.proc4133.chain_130,blat.proc4214.chain_205,c147_f2p2_2005.path1,c1566_f1p1_2744.path1	4
AmTr_v1.0_scaffold00009	alt_donor	2577333	2577334	+	asmbl_763	none	blat.proc4137.chain_248,blat.proc4190.chain_81,blat.proc4231.chain_223,c12982_f1p2_2431.path1,c14609_f1p11_2938.path1,c52_f3p4_3104.path1,c6534_f1p1_2986.path1	7	blat.proc4194.chain_102,c1353_f2p2_2259.path1	2
AmTr_v1.0_scaffold00009	spliced_intron	6436872	6437028	-	asmbl_804	none	blat.proc4196.chain_210,blat.proc4198.chain_152,blat.proc4219.chain_210,c1012_f2p4_2814.path1,c11268_f1p2_1921.path1,c6293_f1p2_1719.path1	6	c2517_f1p0_3041.path1	1
AmTr_v1.0_scaffold00268	skipped_exon	44876	45574	+	asmbl_5510	none	blat.proc4229.chain_161,blat.proc4229.chain_70,c1846_f1p5_2861.path1,c3808_f1p5_3100.path1	4	blat.proc4183.chain_54,c3580_f1p0_2087.path1	2
AmTr_v1.0_scaffold00007	alt_acceptor	4454240	4454241	+	asmbl_676	none	blat.proc4200.chain_231,blat.proc4205.chain_116,c3958_f1p3_2311.path1,c916_f3p7_2137.path1	4	blat.proc4177.chain_185,blat.proc4177.chain_264,blat.proc4200.chain_201,c1040_f3p10_2188.path1,c812_f3p9_2064.path1,c841_f3p11_2304.path1	6
AmTr_v1.0_scaffold00012	alt_donor	8455593	8455594	+	asmbl_1118	none	blat.proc4135.chain_204,c509_f2p1_1893.path1	2	blat.proc4135.chain_43,c1907_f1p2_1888.path1	2
AmTr_v1.0_scaffold00010	alternate_exon	8568953	8569481	-	asmbl_967	none	blat.proc4174.chain_189,c8436_f1p1_1176.path1	2	blat.proc4174.chain_27,c2124_f2p1_984.path1	2
AmTr_v1.0_scaffold00099	skipped_exon	1997242	1997854	-	asmbl_4535	none	blat.proc4169.chain_23,c11467_f2p14_950.path1	2	blat.proc4125.chain_186,blat.proc4171.chain_88,blat.proc4177.chain_65,c14404_f27p52_1065.path1,c3120_f1p6_952.path1,c800_f4p76_1104.path1	6
AmTr_v1.0_scaffold00095	alt_donor	1528597	1528598	-	asmbl_4452	none	blat.proc4229.chain_90,c2130_f1p1_2838.path1	2	blat.proc4139.chain_203,blat.proc4183.chain_53,blat.proc4209.chain_154,c1795_f2p1_1878.path1,c3579_f1p1_1672.path1,c5114_f1p0_1547.path1	6
AmTr_v1.0_scaffold00142	spliced_intron	222668	222805	+	asmbl_5091	none	blat.proc4192.chain_157,blat.proc4200.chain_157,c729_f4p5_1808.path1	3	blat.proc4135.chain_90,blat.proc4202.chain_182,blat.proc4202.chain_7,blat.proc4214.chain_207,c1023_f4p8_1950.path1,c129_f4p7_1952.path1,c1601_f2p7_1785.path1,c1823_f1p0_2825.path1	8
AmTr_v1.0_scaffold00019	retained_intron	2915771	2916159	+	asmbl_1464	none	blat.proc4183.chain_111,c4141_f1p0_1861.path1	2	blat.proc4179.chain_166,c1419_f2p4_1989.path1	2
AmTr_v1.0_scaffold00020	spliced_intron	5186136	5186211	-	asmbl_1554	none	blat.proc4137.chain_269,blat.proc4143.chain_125,blat.proc4214.chain_230,blat.proc4221.chain_58,blat.proc4223.chain_16,blat.proc4223.chain_87,blat.proc4229.chain_134,c1265_f2p6_2823.path1,c2783_f1p2_2706.path1,c3111_f1p5_3386.path1,c4699_f1p5_2762.path1,c53_f3p1_3282.path1,c5871_f1p7_2887.path1,c7462_f1p6_3174.path1	14	blat.proc4143.chain_134,c7823_f2p6_3379.path1	2
AmTr_v1.0_scaffold00183	starts_in_intron	471515	471515	+	asmbl_5459	none	blat.proc4181.chain_253,c2915_f1p0_1790.path1	2	blat.proc4171.chain_61,c646_f7p1_991.path1	2
AmTr_v1.0_scaffold00011	spliced_intron	8701045	8701945	+	asmbl_1029	none	blat.proc4137.chain_100,c4011_f1p0_2099.path1	2	blat.proc4214.chain_194,c1122_f2p0_2991.path1	2
AmTr_v1.0_scaffold00061	alt_donor	1322950	1322951	-	asmbl_3501	none	blat.proc4219.chain_106,c732_f3p2_2903.path1	2	blat.proc4229.chain_244,c6806_f1p3_2723.path1	2
AmTr_v1.0_scaffold00009	skipped_exon	3818807	3831059	-	asmbl_774	none	blat.proc4194.chain_3,c1007_f3p1_1778.path1	2	blat.proc4135.chain_203,c506_f2p1_1900.path1,c6043_f1p1_1664.path1	3
AmTr_v1.0_scaffold00130	alt_acceptor	1529517	1529518	+	asmbl_4975	none	blat.proc4139.chain_192,c4359_f1p0_2766.path1	2	blat.proc4216.chain_268,blat.proc4225.chain_221,c491_f5p2_2972.path1,c578_f4p7_3128.path1	4
AmTr_v1.0_scaffold00059	alt_donor	1121662	1121663	-	asmbl_3381,asmbl_3383	none	blat.proc4133.chain_263,blat.proc4192.chain_216,c62_f2p1_1769.path1,c832_f4p4_1936.path1	4	blat.proc4202.chain_221,c1751_f2p5_1817.path1	2
AmTr_v1.0_scaffold00016	starts_in_intron	6762830	6762830	+	asmbl_1299	none	blat.proc4188.chain_113,c10633_f1p1_1822.path1	2	blat.proc4205.chain_31,blat.proc4225.chain_240,blat.proc4231.chain_176,c13775_f1p6_2760.path1,c2060_f1p2_2108.path1,c621_f4p7_2953.path1	6
AmTr_v1.0_scaffold00056	starts_in_intron	3553090	3553090	+	asmbl_3193	none	blat.proc4181.chain_259,c2942_f1p2_1579.path1	2	blat.proc4190.chain_199,blat.proc4223.chain_106,c14206_f1p2_2180.path1,c6301_f1p2_3008.path1	4
AmTr_v1.0_scaffold00109	starts_in_intron	539223	539223	-	asmbl_4723	none	blat.proc4183.chain_149,c4581_f1p6_1899.path1	2	blat.proc4133.chain_115,blat.proc4200.chain_83,c34_f6p0_1945.path1,c500_f3p5_1838.path1	4
AmTr_v1.0_scaffold00004	alternate_exon	1520369	1520568	+	asmbl_463	none	blat.proc4216.chain_5,c4840_f1p4_2825.path1	2	blat.proc4190.chain_142,blat.proc4225.chain_159,c13652_f1p3_2528.path1,c388_f7p5_2720.path1	4
AmTr_v1.0_scaffold00025	alt_acceptor	4570502	4570503	-	asmbl_1963	none	blat.proc4183.chain_202,c5198_f1p1_2023.path1	2	blat.proc4205.chain_100,c3601_f1p2_1851.path1	2
AmTr_v1.0_scaffold00085	ends_in_intron	722198	722198	-	asmbl_4228	none	blat.proc4179.chain_71,c1196_f3p2_2241.path1	2	blat.proc4192.chain_244,c910_f3p2_1802.path1	2
AmTr_v1.0_scaffold00052	alt_acceptor	2427419	2427420	-	asmbl_3061	none	blat.proc4221.chain_177,c2743_f1p1_2784.path1	2	blat.proc4183.chain_127,c4312_f1p0_2488.path1	2
AmTr_v1.0_scaffold00027	alt_acceptor	5366203	5366204	+	asmbl_2016,asmbl_2019	none	blat.proc4135.chain_92,blat.proc4183.chain_51,blat.proc4194.chain_19,blat.proc4209.chain_198,c1045_f2p8_1996.path1,c11491_f1p7_1932.path1,c132_f4p5_2117.path1,c3566_f1p0_1878.path1	8	blat.proc4185.chain_128,c7727_f1p5_1946.path1	2
AmTr_v1.0_scaffold00025	alt_acceptor	2155127	2155128	+	asmbl_1908	none	blat.proc4231.chain_41,c9157_f1p1_2834.path1	2	blat.proc4205.chain_2,blat.proc4223.chain_154,blat.proc4223.chain_179,c1892_f2p2_2115.path1,c7388_f1p6_3691.path1,c7804_f1p5_2801.path1	6
AmTr_v1.0_scaffold00096	retained_intron	1253358	1254313	-	asmbl_4486	none	blat.proc4227.chain_109,c966_f2p1_2774.path1	2	blat.proc4135.chain_4,blat.proc4192.chain_101,blat.proc4196.chain_27,c149_f2p0_1716.path1,c2237_f1p3_1894.path1,c398_f10p4_1821.path1	6
AmTr_v1.0_scaffold00032	alt_acceptor	1055295	1055296	-	asmbl_2222	none	blat.proc4183.chain_36,c3407_f1p1_1792.path1	2	blat.proc4202.chain_98,c1260_f2p0_1929.path1	2
AmTr_v1.0_scaffold00002	retained_exon	3009365	3009472	-	asmbl_175	none	blat.proc4219.chain_266,c1124_f2p2_2946.path1	2	blat.proc4214.chain_77,blat.proc4225.chain_187,c486_f4p1_2790.path1,c615_f3p2_2800.path1	4
AmTr_v1.0_scaffold00019	retained_intron	6330392	6330526	-	asmbl_1519	none	blat.proc4219.chain_79,c680_f3p1_3046.path1	2	blat.proc4214.chain_20,c461_f3p1_2837.path1	2
AmTr_v1.0_scaffold00006	ends_in_intron	3697096	3697096	-	asmbl_561	none	blat.proc4131.chain_131,c4473_f1p1_1014.path1	2	blat.proc4190.chain_217,c14401_f1p2_2262.path1	2
AmTr_v1.0_scaffold00010	ends_in_intron	3629067	3629067	+	asmbl_890	none	blat.proc4147.chain_2,c2543_f2p2_942.path1	2	blat.proc4135.chain_236,blat.proc4198.chain_259,c1141_f1p0_1641.path1,c14488_f1p1_1723.path1	4
AmTr_v1.0_scaffold00130	alt_donor	1254826	1254827	+	asmbl_4971	none	blat.proc4137.chain_180,c5717_f1p0_2161.path1	2	blat.proc4179.chain_246,c1616_f2p1_2091.path1	2
AmTr_v1.0_scaffold00106	retained_exon	1140338	1140397	+	asmbl_4675	none	blat.proc4196.chain_104,c3720_f1p4_1930.path1	2	blat.proc4137.chain_131,blat.proc4177.chain_209,blat.proc4179.chain_102,blat.proc4183.chain_120,blat.proc4200.chain_260,c1250_f3p6_2042.path1,c4252_f1p5_2151.path1,c4580_f1p1_1917.path1,c898_f4p3_1871.path1,c988_f3p6_1910.path1	10
AmTr_v1.0_scaffold00041	retained_intron	1517133	1517542	+	asmbl_2618	none	blat.proc4190.chain_211,c14309_f1p1_1857.path1	2	blat.proc4131.chain_60,c3385_f1p1_1264.path1	2
AmTr_v1.0_scaffold00048	retained_exon	1631973	1632073	+	asmbl_2910	none	blat.proc4227.chain_240,c1356_f2p2_2714.path1	2	blat.proc4223.chain_221,c8748_f1p3_2735.path1	2
AmTr_v1.0_scaffold00007	alternate_exon	1876809	1877019	+	asmbl_629	none	blat.proc4190.chain_262,blat.proc4209.chain_54,c14827_f1p2_2189.path1,c8450_f1p4_1984.path1	4	blat.proc4179.chain_56,c1164_f3p3_2039.path1	2
AmTr_v1.0_scaffold00011	alt_acceptor	3970590	3970591	-	asmbl_995	none	blat.proc4198.chain_187,c12416_f1p0_2148.path1	2	blat.proc4133.chain_30,blat.proc4214.chain_260,blat.proc4216.chain_142,blat.proc4229.chain_222,blat.proc4231.chain_13,c10172_f1p8_3191.path1,c1465_f1p1_2410.path1,c4087_f1p8_3008.path1,c5949_f1p4_2723.path1,c8020_f1p4_2547.path1	10
AmTr_v1.0_scaffold00021	alternate_exon	603789	603950	-	asmbl_1564	none	blat.proc4141.chain_105,blat.proc4219.chain_15,c40_f5p7_3262.path1,c539_f4p10_3363.path1	4	blat.proc4216.chain_30,c5655_f1p9_3399.path1	2
AmTr_v1.0_scaffold00001	retained_intron	129343	129461	+	asmbl_8	none	blat.proc4205.chain_224,c6385_f1p12_1789.path1	2	blat.proc4177.chain_89,blat.proc4192.chain_34,c15233_f24p19_1848.path1,c399_f14p18_1801.path1	4
AmTr_v1.0_scaffold00022	spliced_intron	3864087	3864259	-	asmbl_1697	none	blat.proc4183.chain_257,c5892_f1p1_1930.path1	2	blat.proc4190.chain_191,c14159_f1p4_1773.path1	2
AmTr_v1.0_scaffold00059	alt_donor	2450977	2450978	-	asmbl_3415	none	blat.proc4137.chain_1,blat.proc4196.chain_142,blat.proc4209.chain_224,blat.proc4212.chain_159,c12102_f1p4_1841.path1,c16064_f3p4_2042.path1,c1707_f1p2_1928.path1,c4538_f1p3_1965.path1	8	blat.proc4135.chain_253,blat.proc4177.chain_253,blat.proc4194.chain_167,c1018_f3p7_2048.path1,c1323_f1p3_1862.path1,c1568_f2p6_2069.path1	6
AmTr_v1.0_scaffold00029	spliced_intron	6011624	6011717	+	asmbl_2140	none	blat.proc4200.chain_247,c957_f3p3_2050.path1	2	blat.proc4181.chain_10,c1705_f2p2_2278.path1	2
AmTr_v1.0_scaffold00136	spliced_intron	219563	219685	-	asmbl_5041	none	blat.proc4174.chain_263,c12418_f1p1_1029.path1	2	blat.proc4135.chain_184,c447_f2p3_1792.path1	2
AmTr_v1.0_scaffold00159	ends_in_intron	873312	873312	+	asmbl_5260	none	blat.proc4214.chain_69,c588_f3p5_2997.path1	2	blat.proc4125.chain_52,c289_f2p0_1033.path1	2
AmTr_v1.0_scaffold00060	alt_donor	2807015	2807016	-	asmbl_3470,asmbl_3472	none	blat.proc4216.chain_112,blat.proc4231.chain_210,c14532_f2p3_2829.path1,c9155_f1p1_2802.path1	4	blat.proc4229.chain_38,blat.proc4229.chain_49,c10504_f1p6_3107.path1,c1538_f2p6_2916.path1,c1593_f2p4_2906.path1	5
AmTr_v1.0_scaffold00041	retained_intron	2807406	2807484	-	asmbl_2629	none	blat.proc4190.chain_72,c12896_f1p1_2042.path1	2	blat.proc4133.chain_217,c2731_f1p0_2080.path1	2
AmTr_v1.0_scaffold00011	retained_intron	4511513	4511666	+	asmbl_1000	none	blat.proc4212.chain_245,c315_f5p3_2891.path1	2	blat.proc4125.chain_124,blat.proc4127.chain_222,c1864_f1p4_1045.path1,c84_f4p1_1241.path1	4
AmTr_v1.0_scaffold00077	spliced_intron	2310109	2310279	-	asmbl_4070	none	c1114_f2p9_2770.path1,c1190_f1p7_2878.path1	2	blat.proc4231.chain_62,c10075_f1p10_3141.path1,c1758_f1p8_2885.path1,c336_f4p11_2946.path1,c3634_f1p2_3055.path1	5
AmTr_v1.0_scaffold00033	retained_intron	1438181	1438637	+	asmbl_2288	none	blat.proc4229.chain_242,c6694_f1p0_2569.path1	2	blat.proc4137.chain_63,blat.proc4141.chain_107,blat.proc4181.chain_63,blat.proc4183.chain_167,blat.proc4185.chain_122,blat.proc4200.chain_38,blat.proc4202.chain_190,c15781_f6p18_1719.path1,c1623_f2p8_1612.path1,c1852_f2p9_1870.path1,c3094_f1p3_1591.path1,c4816_f1p10_1725.path1,c55_f4p2_1709.path1,c7665_f1p7_1751.path1	14
AmTr_v1.0_scaffold00056	starts_in_intron	1574109	1574109	+	asmbl_3166	none	blat.proc4135.chain_103,blat.proc4141.chain_177,blat.proc4196.chain_219,c179_f2p13_2260.path1,c365_f2p4_2157.path1,c6592_f1p20_1973.path1	6	c5036_f1p3_2376.path1	1
AmTr_v1.0_scaffold00004	spliced_intron	1973165	1974337	+	asmbl_470	none	blat.proc4188.chain_76,c10247_f1p1_1815.path1	2	blat.proc4223.chain_38,c5026_f1p2_2899.path1	2
AmTr_v1.0_scaffold00048	alt_donor	3929541	3929542	-	asmbl_2935	none	c5608_f1p1_1816.path1	1	blat.proc4181.chain_236,blat.proc4198.chain_62,c2782_f1p2_1838.path1,c8686_f1p2_1733.path1	4
AmTr_v1.0_scaffold00102	retained_intron	137010	137764	-	asmbl_4585	none	blat.proc4141.chain_7,blat.proc4190.chain_136,blat.proc4194.chain_45,c1149_f2p2_1817.path1,c13624_f1p1_2208.path1,c240_f2p0_1658.path1	6	blat.proc4139.chain_147,c734_f1p0_1593.path1	2
AmTr_v1.0_scaffold00053	spliced_intron	503870	504347	-	asmbl_3077	none	blat.proc4205.chain_9,c1906_f2p3_2148.path1	2	blat.proc4216.chain_127,c9764_f1p0_3088.path1	2
AmTr_v1.0_scaffold00003	retained_exon	2219274	2219418	-	asmbl_359	none	blat.proc4137.chain_149,c5201_f1p0_1918.path1	2	blat.proc4190.chain_163,c13849_f1p0_1677.path1	2
AmTr_v1.0_scaffold00095	alt_donor	1527914	1527915	-	asmbl_4453	none	blat.proc4139.chain_203,c5114_f1p0_1547.path1	2	blat.proc4183.chain_53,blat.proc4209.chain_154,c1795_f2p1_1878.path1,c3579_f1p1_1672.path1	4
AmTr_v1.0_scaffold00068	starts_in_intron	1900065	1900065	+	asmbl_3813	none	blat.proc4188.chain_199,c11542_f1p0_2017.path1	2	blat.proc4169.chain_200,blat.proc4169.chain_242,c17109_f2p2_898.path1,c17646_f2p2_1013.path1	4
AmTr_v1.0_scaffold00052	starts_in_intron	2608854	2608854	+	asmbl_3063	none	blat.proc4219.chain_138,c801_f2p1_3146.path1	2	c728_f1p1_3036.path1	1
AmTr_v1.0_scaffold00004	starts_in_intron	1265906	1265906	-	asmbl_457	none	blat.proc4190.chain_2,c12174_f1p1_2642.path1	2	blat.proc4194.chain_4,blat.proc4200.chain_133,blat.proc4212.chain_268,c1008_f3p2_1818.path1,c379_f4p1_3009.path1,c667_f5p3_2441.path1	6
AmTr_v1.0_scaffold00049	skipped_exon	1458673	1461100	+	asmbl_2973	none	blat.proc4133.chain_184,c1229_f1p0_2097.path1	2	blat.proc4214.chain_104,c728_f2p0_2818.path1	2
AmTr_v1.0_scaffold00044	ends_in_intron	1718749	1718749	+	asmbl_2695	none	blat.proc4137.chain_228,c6319_f1p0_2120.path1	2	blat.proc4139.chain_132,blat.proc4185.chain_176,c253_f2p0_1792.path1,c8284_f1p4_2041.path1	4
AmTr_v1.0_scaffold00022	starts_in_intron	3880266	3880266	-	asmbl_1694	none	blat.proc4231.chain_133,c12515_f1p11_2795.path1	2	blat.proc4181.chain_160,blat.proc4190.chain_48,blat.proc4212.chain_48,blat.proc4216.chain_267,blat.proc4227.chain_115,blat.proc4227.chain_76,blat.proc4231.chain_214,blat.proc4231.chain_232,blat.proc4231.chain_236,blat.proc4231.chain_5,c12610_f1p11_2872.path1,c14026_f1p12_2494.path1,c14557_f2p88_3146.path1,c14709_f150p118_3032.path1,c14782_f7p38_2786.path1,c2088_f2p8_2630.path1,c490_f2p62_2916.path1,c7647_f1p10_2984.path1,c858_f3p43_2827.path1,c958_f1p0_1124.path1,c979_f1p7_2728.path1	21
AmTr_v1.0_scaffold00058	alternate_exon	2444497	2445144	-	asmbl_3318	none	blat.proc4135.chain_207,c578_f1p6_2203.path1	2	blat.proc4125.chain_16,blat.proc4131.chain_103,blat.proc4135.chain_75,blat.proc4137.chain_260,blat.proc4137.chain_261,blat.proc4137.chain_76,blat.proc4139.chain_34,blat.proc4141.chain_11,blat.proc4141.chain_255,blat.proc4200.chain_77,c1195_f1p2_1738.path1,c120_f3p2_1200.path1,c141_f2p0_1744.path1,c259_f2p5_1619.path1,c2662_f1p3_1767.path1,c3360_f1p16_2033.path1,c34_f6p34_1948.path1,c4152_f1p4_1020.path1,c465_f9p2_1827.path1,c6782_f4p13_1814.path1,c6804_f3p1_1695.path1	21
AmTr_v1.0_scaffold00021	spliced_intron	5939249	5939339	-	asmbl_1629	none	blat.proc4202.chain_179,blat.proc4216.chain_32,blat.proc4229.chain_102,c1594_f2p0_1750.path1,c2466_f1p5_2805.path1,c5705_f1p8_3001.path1	6	blat.proc4212.chain_35,blat.proc4221.chain_32,c1202_f2p2_2786.path1,c13748_f1p3_1695.path1	4
AmTr_v1.0_scaffold00007	alternate_exon	1873340	1873408	+	asmbl_630	none	blat.proc4179.chain_56,c1164_f3p3_2039.path1	2	blat.proc4190.chain_262,blat.proc4209.chain_54,c14827_f1p2_2189.path1,c8450_f1p4_1984.path1	4
AmTr_v1.0_scaffold00058	spliced_intron	549219	549305	+	asmbl_3276,asmbl_3277,asmbl_3278,asmbl_3279,asmbl_3280	none	blat.proc4131.chain_252,blat.proc4135.chain_48,blat.proc4188.chain_44,blat.proc4192.chain_220,blat.proc4205.chain_43,c148_f2p0_1767.path1,c2111_f1p0_1772.path1,c2261_f1p3_1826.path1,c844_f3p2_1828.path1,c9887_f1p0_1863.path1	10	blat.proc4212.chain_41,c13930_f1p2_1953.path1	2
AmTr_v1.0_scaffold00003	alternate_exon	505310	527861	-	asmbl_327	none	blat.proc4141.chain_162,c307_f2p3_3053.path1	2	blat.proc4141.chain_252,c2552_f1p2_3137.path1	2
AmTr_v1.0_scaffold00049	alt_donor	2927789	2927790	-	asmbl_2991	none	blat.proc4202.chain_168,c1542_f2p0_1750.path1	2	blat.proc4188.chain_10,c9469_f1p0_1829.path1	2
AmTr_v1.0_scaffold00176	alt_acceptor	531878	531879	-	asmbl_5412	none	blat.proc4135.chain_27,c717_f1p0_1862.path1	2	blat.proc4205.chain_202,c5829_f1p2_1497.path1	2
AmTr_v1.0_scaffold00035	alt_acceptor	4004982	4004983	-	asmbl_2369	none	blat.proc4181.chain_96,c1944_f2p0_2018.path1	2	blat.proc4205.chain_172,c5065_f1p0_2217.path1	2
AmTr_v1.0_scaffold00016	alt_acceptor	2703304	2703305	+	asmbl_1254	none	blat.proc4229.chain_79,c1956_f1p3_3136.path1	2	blat.proc4231.chain_67,c10303_f1p3_3098.path1	2
AmTr_v1.0_scaffold00019	spliced_intron	5101188	5101294	+	asmbl_1490	none	blat.proc4143.chain_39,c1907_f2p1_1591.path1,c4712_f1p1_1427.path1	3	blat.proc4196.chain_36,c2429_f1p0_2209.path1	2
AmTr_v1.0_scaffold00119	retained_intron	377758	379767	+	asmbl_4869,asmbl_4870	none	blat.proc4221.chain_189,c2963_f1p4_3400.path1,c5825_f1p4_2994.path1	3	blat.proc4125.chain_256,blat.proc4131.chain_139,blat.proc4147.chain_83,blat.proc4169.chain_225,c17594_f2p6_1113.path1,c4138_f4p5_1042.path1,c4552_f1p6_677.path1,c59_f5p3_1399.path1	8
AmTr_v1.0_scaffold00078	retained_intron	2829533	2830313	+	asmbl_4138,asmbl_4139	none	blat.proc4171.chain_103,blat.proc4179.chain_226,blat.proc4181.chain_52,blat.proc4190.chain_34,blat.proc4205.chain_99,blat.proc4225.chain_12,blat.proc4225.chain_252,blat.proc4229.chain_205,c12450_f1p2_2241.path1,c1564_f2p1_1972.path1,c1832_f2p2_1663.path1,c3570_f1p2_1794.path1,c5399_f1p7_2780.path1,c650_f4p10_2875.path1,c880_f5p1_1027.path1,c9958_f1p7_2667.path1	16	blat.proc4125.chain_65,blat.proc4135.chain_209,blat.proc4174.chain_262,blat.proc4183.chain_133,blat.proc4185.chain_10,blat.proc4223.chain_220,blat.proc4227.chain_265,blat.proc4231.chain_185,c12405_f1p3_983.path1,c14145_f1p11_3113.path1,c1424_f2p13_2688.path1,c352_f1p1_1028.path1,c4332_f1p2_2508.path1,c604_f1p1_1812.path1,c6163_f1p2_1635.path1,c8728_f1p9_2804.path1	16
AmTr_v1.0_scaffold00012	retained_intron	7614072	7614944	-	asmbl_1104	none	blat.proc4135.chain_124,c271_f2p3_1879.path1	2	blat.proc4171.chain_60,c644_f7p2_1036.path1	2
AmTr_v1.0_scaffold00007	retained_intron	891020	891146	-	asmbl_616	none	blat.proc4192.chain_249,c924_f3p2_1956.path1	2	blat.proc4205.chain_121,c4024_f1p2_1689.path1	2
AmTr_v1.0_scaffold00113	spliced_intron	1711274	1711397	+	asmbl_4817	none	blat.proc4196.chain_155,c4795_f1p2_1776.path1	2	blat.proc4181.chain_81,c1902_f2p0_1865.path1	2
AmTr_v1.0_scaffold00006	retained_intron	1445753	1446892	-	asmbl_551	none	blat.proc4219.chain_108,c736_f3p1_2867.path1	2	blat.proc4179.chain_19,c1087_f3p3_1726.path1	2
AmTr_v1.0_scaffold00033	retained_intron	3802739	3803644	-	asmbl_2321	none	blat.proc4212.chain_244,c314_f5p2_2811.path1	2	blat.proc4209.chain_25,c7777_f1p1_1155.path1	2
AmTr_v1.0_scaffold00033	retained_intron	2391090	2391218	-	asmbl_2300	none	blat.proc4216.chain_249,blat.proc4229.chain_144,c3427_f1p7_2943.path1,c421_f5p3_2729.path1	4	blat.proc4221.chain_50,c1233_f2p2_2699.path1	2
AmTr_v1.0_scaffold00132	alt_acceptor	676629	676630	+	asmbl_5008	none	blat.proc4196.chain_200,c5970_f1p3_1659.path1	2	blat.proc4183.chain_104,blat.proc4190.chain_183,c14059_f1p1_2418.path1,c4084_f1p2_1802.path1	4
AmTr_v1.0_scaffold00067	spliced_intron	402691	402767	+	asmbl_3750	none	blat.proc4196.chain_141,blat.proc4209.chain_70,c4500_f1p0_1768.path1,c8850_f1p3_1637.path1	4	blat.proc4185.chain_79,c7045_f1p0_1790.path1	2
AmTr_v1.0_scaffold00013	ends_in_intron	6210757	6210757	+	asmbl_1167	none	blat.proc4141.chain_10,c249_f2p4_3342.path1	2	blat.proc4135.chain_33,blat.proc4205.chain_228,blat.proc4209.chain_229,blat.proc4221.chain_83,c12198_f1p1_2619.path1,c1256_f1p2_1784.path1,c1340_f2p2_2721.path1,c6436_f1p2_2220.path1	8
AmTr_v1.0_scaffold00004	alt_donor	89048	89049	-	asmbl_426	none	blat.proc4179.chain_156,blat.proc4194.chain_98,blat.proc4219.chain_160,blat.proc4223.chain_123,blat.proc4223.chain_214,blat.proc4225.chain_264,c1346_f2p1_2353.path1,c1390_f2p1_2080.path1,c6708_f1p8_2896.path1,c684_f3p7_3422.path1,c8542_f1p2_2823.path1,c872_f2p6_3093.path1	12	blat.proc4143.chain_31,c4363_f1p5_2795.path1	2
AmTr_v1.0_scaffold00040	alt_acceptor	1463978	1463979	-	asmbl_2553	none	blat.proc4190.chain_73,c12928_f1p1_1882.path1	2	blat.proc4183.chain_249,c5793_f1p1_1554.path1	2
AmTr_v1.0_scaffold00004	alternate_exon	2359492	2359819	+	asmbl_479	none	blat.proc4147.chain_66,c3476_f1p2_977.path1	2	blat.proc4188.chain_36,c9816_f1p3_1877.path1	2
AmTr_v1.0_scaffold00159	alt_acceptor	132675	132676	-	asmbl_5254	none	blat.proc4139.chain_73,c5398_f1p0_1437.path1	2	blat.proc4198.chain_105,c9915_f1p0_1753.path1	2
AmTr_v1.0_scaffold00099	alt_donor	2054820	2054821	-	asmbl_4537	none	blat.proc4202.chain_208,c1700_f2p1_1853.path1	2	blat.proc4202.chain_155,c1488_f2p1_2061.path1	2
AmTr_v1.0_scaffold00001	spliced_intron	2144016	2144123	+	asmbl_44,asmbl_45,asmbl_46	none	blat.proc4183.chain_52,blat.proc4200.chain_116,blat.proc4200.chain_243,c3572_f1p3_1885.path1,c630_f3p13_1851.path1,c947_f3p8_1805.path1	6	blat.proc4185.chain_75,c7009_f1p1_1808.path1	2
AmTr_v1.0_scaffold00001	spliced_intron	189959	190042	+	asmbl_12	none	blat.proc4190.chain_197,c14200_f1p1_1811.path1	2	blat.proc4221.chain_234,c3729_f1p0_2822.path1	2
AmTr_v1.0_scaffold00010	retained_intron	4045951	4046628	+	asmbl_897	none	blat.proc4214.chain_71,c592_f3p2_2958.path1	2	blat.proc4177.chain_237,blat.proc4198.chain_150,blat.proc4200.chain_4,c11202_f1p3_1942.path1,c14965_f1p2_2054.path1,c964_f4p1_2291.path1	6
AmTr_v1.0_scaffold00182	ends_in_intron	509310	509310	+	asmbl_5453	none	blat.proc4202.chain_115,c1355_f2p1_1761.path1	2	blat.proc4133.chain_35,c1835_f1p0_1772.path1	2
AmTr_v1.0_scaffold00017	retained_intron	4680767	4680920	+	asmbl_1358,asmbl_1365	none	blat.proc4185.chain_248,blat.proc4221.chain_43,c1218_f2p0_2941.path1,c9211_f1p6_2676.path1	4	blat.proc4137.chain_75,blat.proc4177.chain_126,blat.proc4177.chain_148,blat.proc4179.chain_176,blat.proc4183.chain_23,blat.proc4185.chain_24,blat.proc4192.chain_93,blat.proc4202.chain_245,blat.proc4219.chain_16,blat.proc4221.chain_196,blat.proc4227.chain_201,blat.proc4231.chain_143,c1251_f2p7_2652.path1,c12673_f1p15_4296.path1,c12870_f1p5_2283.path1,c1443_f2p10_2662.path1,c1830_f2p17_2423.path1,c3086_f1p14_4095.path1,c313_f14p20_2536.path1,c3271_f1p5_2273.path1,c3336_f1p1_1960.path1,c498_f6p12_2936.path1,c540_f5p10_3071.path1,c6361_f1p4_1556.path1,c650_f6p14_2013.path1,c710_f6p5_1896.path1	26
AmTr_v1.0_scaffold00130	ends_in_intron	1526917	1526917	+	asmbl_4974	none	blat.proc4198.chain_194,c12566_f1p0_2122.path1	2	blat.proc4139.chain_192,blat.proc4216.chain_268,blat.proc4225.chain_221,c4359_f1p0_2766.path1,c491_f5p2_2972.path1,c578_f4p7_3128.path1	6
AmTr_v1.0_scaffold00033	retained_intron	1505681	1505851	-	asmbl_2289	none	blat.proc4214.chain_219,c2543_f1p0_2954.path1	2	blat.proc4229.chain_219,c5860_f1p4_2747.path1	2
AmTr_v1.0_scaffold00019	retained_intron	6330392	6330634	-	asmbl_1519	none	blat.proc4219.chain_79,c680_f3p1_3046.path1	2	blat.proc4196.chain_50,c2617_f1p2_1996.path1,c622_f4p2_2832.path1	3
AmTr_v1.0_scaffold00057	retained_intron	2797404	2798844	-	asmbl_3240	none	blat.proc4141.chain_12,blat.proc4141.chain_250,c2463_f1p6_3325.path1,c263_f2p7_3117.path1	4	blat.proc4209.chain_4,c1097_f3p3_1847.path1,c7426_f1p2_1660.path1	3
AmTr_v1.0_scaffold00011	spliced_intron	4511860	4513357	+	asmbl_998	none	blat.proc4125.chain_124,blat.proc4127.chain_222,c1864_f1p4_1045.path1,c84_f4p1_1241.path1	4	blat.proc4212.chain_245,c315_f5p3_2891.path1	2
AmTr_v1.0_scaffold00004	retained_intron	1973165	1974337	+	asmbl_471	none	blat.proc4223.chain_38,c5026_f1p2_2899.path1	2	blat.proc4188.chain_76,c10247_f1p1_1815.path1	2
AmTr_v1.0_scaffold00002	retained_intron	7061399	7062234	-	asmbl_233	none	blat.proc4223.chain_198,c8194_f1p1_3089.path1	2	blat.proc4171.chain_32,c496_f11p2_990.path1	2
AmTr_v1.0_scaffold00095	alternate_exon	981193	981705	+	asmbl_4437	none	blat.proc4133.chain_152,blat.proc4209.chain_169,c11011_f1p3_1739.path1,c311_f1p0_1946.path1	4	blat.proc4179.chain_14,blat.proc4192.chain_219,c1077_f3p0_1731.path1,c838_f3p2_1789.path1	4
AmTr_v1.0_scaffold00024	retained_intron	6605892	6606055	+	asmbl_1856	none	blat.proc4221.chain_119,c1751_f1p1_3031.path1	2	blat.proc4139.chain_223,blat.proc4219.chain_158,blat.proc4223.chain_9,blat.proc4225.chain_231,blat.proc4231.chain_54,c4525_f1p2_2805.path1,c598_f3p6_2829.path1,c6884_f1p2_3332.path1,c868_f2p2_2930.path1,c9593_f1p7_2934.path1	10
AmTr_v1.0_scaffold00059	alt_donor	1266602	1266603	-	asmbl_3387	none	c10943_f1p1_1658.path1	1	blat.proc4229.chain_53,c1614_f1p1_2763.path1	2
AmTr_v1.0_scaffold00040	retained_intron	782367	782622	+	asmbl_2548	none	blat.proc4229.chain_75,c1897_f1p0_2871.path1	2	blat.proc4129.chain_67,c356_f2p2_1021.path1	2
AmTr_v1.0_scaffold00019	spliced_intron	1064764	1065961	-	asmbl_1439	none	blat.proc4125.chain_101,blat.proc4200.chain_130,c1421_f1p0_976.path1,c661_f4p3_1663.path1	4	blat.proc4229.chain_57,c1696_f1p0_2816.path1	2
AmTr_v1.0_scaffold00046	starts_in_intron	4934490	4934490	-	asmbl_2840	none	blat.proc4223.chain_237,c9098_f1p1_3076.path1	2	c1972_f1p1_1647.path1	1
AmTr_v1.0_scaffold00022	alt_acceptor	5436263	5436264	-	asmbl_1718	none	blat.proc4188.chain_228,blat.proc4196.chain_150,c11787_f1p1_1840.path1,c4680_f1p3_2220.path1	4	blat.proc4219.chain_40,c594_f4p2_2739.path1	2
AmTr_v1.0_scaffold00053	retained_intron	503870	504347	-	asmbl_3076	none	blat.proc4216.chain_127,c9764_f1p0_3088.path1	2	blat.proc4205.chain_9,c1906_f2p3_2148.path1	2
AmTr_v1.0_scaffold00066	alt_donor	2123104	2123105	+	asmbl_3713	none	blat.proc4231.chain_10,c7918_f1p3_3021.path1	2	blat.proc4227.chain_11,c720_f3p3_2814.path1	2
AmTr_v1.0_scaffold00046	alt_acceptor	583531	583532	-	asmbl_2807	none	c1060_f2p7_3018.path1	1	c1743_f1p12_2997.path1,c268_f11p13_2769.path1,c312_f6p7_2868.path1	3
AmTr_v1.0_scaffold00033	spliced_intron	1644284	1644516	-	asmbl_2291	none	blat.proc4205.chain_88,c3444_f1p0_1820.path1	2	blat.proc4133.chain_17,c866_f1p0_2059.path1	2
AmTr_v1.0_scaffold00006	skipped_exon	6072414	6079320	+	asmbl_569,asmbl_570	none	blat.proc4219.chain_13,blat.proc4225.chain_149,c308_f10p7_2853.path1,c372_f1p6_2834.path1,c452_f4p1_2705.path1,c531_f3p1_2715.path1,c677_f3p2_2794.path1	7	blat.proc4216.chain_7,c4885_f1p3_2870.path1	2
AmTr_v1.0_scaffold00033	retained_intron	2958751	2958829	-	asmbl_2309	none	blat.proc4129.chain_163,c1002_f1p1_1211.path1	2	blat.proc4147.chain_103,c4809_f3p0_1091.path1	2
AmTr_v1.0_scaffold00001	retained_intron	189959	190042	+	asmbl_13	none	blat.proc4221.chain_234,c3729_f1p0_2822.path1	2	blat.proc4190.chain_197,c14200_f1p1_1811.path1	2
AmTr_v1.0_scaffold00096	spliced_intron	1253358	1254313	-	asmbl_4484,asmbl_4485	none	blat.proc4135.chain_4,blat.proc4192.chain_101,blat.proc4196.chain_27,c149_f2p0_1716.path1,c2237_f1p3_1894.path1,c398_f10p4_1821.path1	6	blat.proc4227.chain_109,c966_f2p1_2774.path1	2
AmTr_v1.0_scaffold00088	alt_donor	871112	871113	-	asmbl_4297	none	blat.proc4125.chain_83,c797_f1p0_1306.path1	2	blat.proc4179.chain_262,blat.proc4181.chain_149,blat.proc4205.chain_95,c1663_f2p0_2240.path1,c2062_f2p1_1860.path1,c3491_f1p3_1713.path1	6
AmTr_v1.0_scaffold00083	starts_in_intron	1407266	1407266	+	asmbl_4214	none	blat.proc4174.chain_219,c10035_f1p6_964.path1	2	blat.proc4129.chain_258,blat.proc4171.chain_102,c2550_f1p5_1109.path1,c870_f4p5_1259.path1	4
AmTr_v1.0_scaffold00057	retained_intron	2797390	2797467	-	asmbl_3240	none	blat.proc4141.chain_12,blat.proc4141.chain_250,c2463_f1p6_3325.path1,c263_f2p7_3117.path1	4	blat.proc4141.chain_49,c3523_f1p5_3237.path1	2
AmTr_v1.0_scaffold00005	spliced_intron	4917436	4917565	-	asmbl_522,asmbl_523	none	blat.proc4137.chain_146,blat.proc4227.chain_255,c1394_f2p1_2669.path1,c5189_f1p2_2275.path1	4	blat.proc4219.chain_177,c928_f2p1_2748.path1	2
AmTr_v1.0_scaffold00061	starts_in_intron	2496088	2496088	+	asmbl_3516	none	blat.proc4174.chain_125,c4546_f1p1_957.path1	2	blat.proc4174.chain_126,blat.proc4174.chain_99,blat.proc4188.chain_155,blat.proc4202.chain_53,c11049_f1p1_2066.path1,c1124_f4p1_2168.path1,c3235_f1p1_916.path1,c4683_f1p1_1112.path1	8
AmTr_v1.0_scaffold00096	alt_acceptor	1709176	1709177	+	asmbl_4490	none	blat.proc4141.chain_34,blat.proc4179.chain_119,blat.proc4192.chain_14,c1288_f2p2_1807.path1,c15023_f1p2_1683.path1,c1612_f1p0_1911.path1	6	blat.proc4200.chain_195,c824_f4p3_2016.path1	2
AmTr_v1.0_scaffold00025	alt_acceptor	1191119	1191120	+	asmbl_1882	none	blat.proc4177.chain_203,blat.proc4188.chain_122,c10728_f1p1_1908.path1,c889_f4p9_2031.path1	4	blat.proc4135.chain_3,blat.proc4135.chain_76,blat.proc4181.chain_43,blat.proc4192.chain_26,c144_f2p4_2022.path1,c15148_f32p13_2134.path1,c1800_f2p2_1990.path1,c49_f1p6_2024.path1	8
AmTr_v1.0_scaffold00024	spliced_intron	3159499	3159831	-	asmbl_1811	none	blat.proc4139.chain_241,blat.proc4205.chain_157,c4796_f1p5_2429.path1,c8109_f1p0_1781.path1	4	blat.proc4221.chain_242,c3864_f1p1_2791.path1	2
AmTr_v1.0_scaffold00102	retained_intron	136603	136723	-	asmbl_4587	none	blat.proc4139.chain_147,c734_f1p0_1593.path1	2	blat.proc4141.chain_7,blat.proc4190.chain_136,blat.proc4194.chain_45,c1149_f2p2_1817.path1,c13624_f1p1_2208.path1,c240_f2p0_1658.path1	6
AmTr_v1.0_scaffold00022	skipped_exon	3864087	3865211	-	asmbl_1693,asmbl_1694,asmbl_1695	none	blat.proc4169.chain_174,blat.proc4177.chain_162,blat.proc4181.chain_160,blat.proc4181.chain_167,blat.proc4190.chain_48,blat.proc4192.chain_119,blat.proc4192.chain_12,blat.proc4192.chain_164,blat.proc4192.chain_35,blat.proc4192.chain_38,blat.proc4194.chain_239,blat.proc4200.chain_39,blat.proc4200.chain_68,blat.proc4205.chain_174,blat.proc4205.chain_181,blat.proc4205.chain_212,blat.proc4212.chain_48,blat.proc4216.chain_267,blat.proc4227.chain_115,blat.proc4227.chain_76,blat.proc4229.chain_131,blat.proc4231.chain_1,blat.proc4231.chain_133,blat.proc4231.chain_214,blat.proc4231.chain_232,blat.proc4231.chain_236,blat.proc4231.chain_5,c12515_f1p11_2795.path1,c12610_f1p11_2872.path1,c14026_f1p12_2494.path1,c14557_f2p88_3146.path1,c14709_f150p118_3032.path1,c14782_f7p38_2786.path1,c15001_f2p7_2497.path1,c15246_f6p6_1825.path1,c15264_f3p8_2091.path1,c15790_f8p8_1687.path1,c16066_f1p3_1221.path1,c1801_f2p9_2311.path1,c2088_f2p8_2630.path1,c2106_f2p6_2037.path1,c3063_f1p19_2677.path1,c403_f5p9_1956.path1,c479_f6p18_2233.path1,c490_f2p62_2916.path1,c5106_f1p0_1468.path1,c5387_f1p0_1682.path1,c6156_f1p10_2496.path1,c662_f2p17_2338.path1,c749_f5p4_1804.path1,c7572_f2p16_2715.path1,c7647_f1p10_2984.path1,c858_f3p43_2827.path1,c979_f1p7_2728.path1	54	blat.proc4183.chain_257,blat.proc4202.chain_56,c1138_f3p0_2005.path1,c5892_f1p1_1930.path1	4
AmTr_v1.0_scaffold00165	spliced_intron	428968	429358	+	asmbl_5309	none	blat.proc4219.chain_17,c541_f2p2_2651.path1	2	blat.proc4219.chain_33,c580_f4p5_3017.path1	2
AmTr_v1.0_scaffold00083	alt_acceptor	1796409	1796410	-	asmbl_4216	none	c1391_f2p0_2109.path1	1	blat.proc4131.chain_247,blat.proc4137.chain_110,blat.proc4196.chain_232,c126_f2p1_1975.path1,c4131_f1p1_1868.path1,c6752_f1p3_1581.path1	6
AmTr_v1.0_scaffold00007	alt_acceptor	3635767	3635768	-	asmbl_655	none	blat.proc4190.chain_18,c12308_f1p0_1816.path1	2	c12734_f1p1_2919.path1	1
AmTr_v1.0_scaffold00147	alt_donor	466605	466606	+	asmbl_5142	none	blat.proc4216.chain_24,c5308_f1p0_2686.path1	2	blat.proc4219.chain_95,c716_f3p1_2682.path1	2
AmTr_v1.0_scaffold00025	alt_acceptor	2552447	2552448	+	asmbl_1911	none	blat.proc4135.chain_57,c2591_f1p0_1792.path1	2	blat.proc4185.chain_114,blat.proc4192.chain_92,blat.proc4200.chain_62,blat.proc4214.chain_82,c295_f16p6_1847.path1,c321_f14p7_1774.path1,c630_f3p4_2917.path1,c7517_f1p5_2059.path1	8
AmTr_v1.0_scaffold00007	alt_donor	3433389	3433390	+	asmbl_653	none	blat.proc4214.chain_202,c1440_f1p3_2416.path1	2	blat.proc4200.chain_181,c794_f4p1_1747.path1	2
AmTr_v1.0_scaffold00017	retained_exon	4680433	4684915	+	asmbl_1361	none	blat.proc4179.chain_176,c1443_f2p10_2662.path1	2	blat.proc4194.chain_22,c1056_f2p1_1939.path1	2
AmTr_v1.0_scaffold00029	spliced_intron	5916818	5917037	-	asmbl_2136	none	blat.proc4181.chain_152,blat.proc4196.chain_181,c2067_f2p0_1817.path1,c5473_f1p0_1939.path1	4	blat.proc4212.chain_179,c16502_f1p1_2292.path1	2
AmTr_v1.0_scaffold00022	retained_intron	2529082	2529326	-	asmbl_1679	none	blat.proc4221.chain_12,c1163_f2p0_2888.path1	2	blat.proc4221.chain_128,c1854_f1p1_2636.path1	2
AmTr_v1.0_scaffold00162	alt_acceptor	498669	498670	+	asmbl_5274	none	blat.proc4194.chain_224,c1744_f2p0_1779.path1	2	blat.proc4183.chain_231,blat.proc4202.chain_16,c1051_f3p1_1930.path1,c5579_f1p1_1779.path1	4
AmTr_v1.0_scaffold00057	alt_donor	3308619	3308620	+	asmbl_3251	none	blat.proc4219.chain_187,c950_f2p0_2774.path1	2	blat.proc4221.chain_56,c1255_f2p0_2687.path1	2
AmTr_v1.0_scaffold00049	retained_intron	4139063	4139214	+	asmbl_3013	none	blat.proc4205.chain_260,c7247_f1p1_1889.path1	2	c1822_f2p2_2431.path1	1
AmTr_v1.0_scaffold00009	ends_in_intron	9243581	9243581	+	asmbl_850	none	blat.proc4229.chain_103,c2483_f1p0_2495.path1	2	blat.proc4219.chain_21,blat.proc4225.chain_245,c547_f4p5_2927.path1,c628_f4p1_2843.path1	4
AmTr_v1.0_scaffold00095	alternate_exon	979704	980003	+	asmbl_4438,asmbl_4439	none	blat.proc4179.chain_14,blat.proc4192.chain_219,c1077_f3p0_1731.path1,c838_f3p2_1789.path1	4	blat.proc4133.chain_152,blat.proc4209.chain_169,c11011_f1p3_1739.path1,c311_f1p0_1946.path1	4
AmTr_v1.0_scaffold00019	spliced_intron	2915771	2916159	+	asmbl_1463	none	blat.proc4179.chain_166,c1419_f2p4_1989.path1	2	blat.proc4183.chain_111,c4141_f1p0_1861.path1	2
AmTr_v1.0_scaffold00004	alt_acceptor	787862	787863	+	asmbl_442	none	blat.proc4223.chain_73,c5561_f1p11_2803.path1,c5971_f1p5_2836.path1	3	blat.proc4141.chain_173,blat.proc4183.chain_71,blat.proc4214.chain_179,blat.proc4219.chain_118,blat.proc4219.chain_216,blat.proc4225.chain_257,blat.proc4227.chain_21,blat.proc4229.chain_181,c1023_f2p16_2880.path1,c1061_f2p6_2659.path1,c350_f2p4_3096.path1,c3717_f1p5_2464.path1,c4425_f1p15_3288.path1,c6344_f1p10_2708.path1,c664_f3p7_2719.path1,c735_f3p14_2850.path1,c758_f2p5_3052.path1	17
AmTr_v1.0_scaffold00025	spliced_intron	1190613	1191120	+	asmbl_1882	none	blat.proc4177.chain_203,blat.proc4188.chain_122,c10728_f1p1_1908.path1,c889_f4p9_2031.path1	4	blat.proc4135.chain_251,c1310_f1p4_2536.path1	2
AmTr_v1.0_scaffold00329	ends_in_intron	15227	15227	+	asmbl_5517	none	blat.proc4145.chain_3,c1059_f3p0_1003.path1	2	c3557_f1p0_2860.path1	1
AmTr_v1.0_scaffold00011	retained_intron	4511860	4513357	+	asmbl_1000	none	blat.proc4212.chain_245,c315_f5p3_2891.path1	2	blat.proc4125.chain_124,blat.proc4127.chain_222,c1864_f1p4_1045.path1,c84_f4p1_1241.path1	4
AmTr_v1.0_scaffold00173	alternate_exon	90123	90338	+	asmbl_5368	none	blat.proc4223.chain_4,blat.proc4225.chain_268,c4407_f1p3_2877.path1,c696_f3p5_2739.path1	4	blat.proc4231.chain_152,blat.proc4231.chain_170,c13024_f1p4_2914.path1,c13697_f1p4_3330.path1	4
AmTr_v1.0_scaffold00044	alternate_exon	3477897	3482871	-	asmbl_2711	none	blat.proc4177.chain_180,c805_f5p4_1725.path1	2	blat.proc4183.chain_99,c4060_f1p5_1587.path1	2
AmTr_v1.0_scaffold00024	alternate_exon	4895537	4895585	-	asmbl_1825	none	blat.proc4214.chain_35,c497_f3p4_2784.path1	2	blat.proc4212.chain_218,c196_f8p5_2875.path1	2
AmTr_v1.0_scaffold00057	spliced_intron	2797404	2798844	-	asmbl_3241	none	blat.proc4209.chain_4,c1097_f3p3_1847.path1,c7426_f1p2_1660.path1	3	blat.proc4141.chain_12,blat.proc4141.chain_250,c2463_f1p6_3325.path1,c263_f2p7_3117.path1	4
AmTr_v1.0_scaffold00011	spliced_intron	4511513	4513357	+	asmbl_999	none	blat.proc4171.chain_153,c1138_f3p2_1037.path1	2	blat.proc4212.chain_245,c315_f5p3_2891.path1	2
AmTr_v1.0_scaffold00066	retained_intron	2519711	2519921	-	asmbl_3718	none	blat.proc4212.chain_102,c15120_f1p0_1896.path1	2	blat.proc4209.chain_61,c8620_f1p1_1781.path1	2
AmTr_v1.0_scaffold00010	ends_in_intron	796796	796796	+	asmbl_866	none	blat.proc4188.chain_108,c10590_f1p2_1708.path1	2	blat.proc4125.chain_172,blat.proc4133.chain_170,c2707_f1p0_1243.path1,c888_f1p1_1863.path1	4
AmTr_v1.0_scaffold00135	ends_in_intron	505417	505417	-	asmbl_5027	none	blat.proc4183.chain_170,c4833_f1p3_1599.path1	2	blat.proc4125.chain_85,blat.proc4141.chain_86,blat.proc4202.chain_106,c1302_f2p0_2293.path1,c7068_f1p0_1739.path1,c919_f1p0_1049.path1	6
AmTr_v1.0_scaffold00038	alt_acceptor	3633506	3633507	-	asmbl_2483	none	blat.proc4202.chain_69,c1174_f2p0_2113.path1	2	blat.proc4137.chain_238,c6478_f1p2_2187.path1	2
AmTr_v1.0_scaffold00058	alternate_exon	3373303	3373426	+	asmbl_3339	none	blat.proc4129.chain_60,c334_f2p3_1058.path1	2	blat.proc4129.chain_111,c488_f2p3_1168.path1	2
AmTr_v1.0_scaffold00210	skipped_exon	57478	67499	+	asmbl_5496	none	blat.proc4214.chain_158,c979_f2p1_2735.path1	2	blat.proc4219.chain_269,c1129_f2p0_2793.path1	2
AmTr_v1.0_scaffold00162	alternate_exon	497905	498081	+	asmbl_5275	none	blat.proc4202.chain_16,c1051_f3p1_1930.path1	2	blat.proc4183.chain_231,blat.proc4194.chain_224,c1744_f2p0_1779.path1,c5579_f1p1_1779.path1	4
AmTr_v1.0_scaffold00002	alt_acceptor	10938976	10938977	-	asmbl_307	none	blat.proc4169.chain_189,c16648_f1p0_1036.path1	2	c4652_f1p2_1287.path1	1
AmTr_v1.0_scaffold00003	spliced_intron	4139902	4140424	+	asmbl_382,asmbl_383	none	blat.proc4147.chain_89,blat.proc4194.chain_81,blat.proc4196.chain_31,c1289_f2p1_1500.path1,c2263_f1p1_1680.path1,c4355_f2p0_986.path1	6	blat.proc4231.chain_34,c8935_f1p1_2818.path1	2
AmTr_v1.0_scaffold00060	skipped_exon	2740314	2741132	+	asmbl_3468	none	c7948_f2p0_2164.path1	1	blat.proc4147.chain_77,c3978_f1p0_967.path1	2
AmTr_v1.0_scaffold00153	alt_acceptor	679565	679566	+	asmbl_5200	none	blat.proc4209.chain_95,c9257_f1p4_2189.path1	2	blat.proc4133.chain_265,blat.proc4139.chain_175,blat.proc4141.chain_185,blat.proc4190.chain_265,blat.proc4225.chain_227,blat.proc4227.chain_108,c14859_f1p2_2016.path1,c2887_f1p0_1674.path1,c461_f1p4_3040.path1,c592_f4p10_2796.path1,c76_f3p1_1779.path1,c965_f2p4_3546.path1	12
AmTr_v1.0_scaffold00059	alt_acceptor	1766405	1766406	-	asmbl_3395	none	blat.proc4221.chain_192,c2995_f1p0_2746.path1	2	blat.proc4177.chain_249,blat.proc4202.chain_117,c1361_f2p1_1991.path1,c995_f4p1_1905.path1	4
AmTr_v1.0_scaffold00058	ends_in_intron	3104751	3104751	+	asmbl_3327	none	blat.proc4127.chain_54,c430_f1p0_1189.path1	2	blat.proc4145.chain_138,c1848_f3p2_984.path1	2
AmTr_v1.0_scaffold00049	retained_exon	2928049	2928113	-	asmbl_2990	none	blat.proc4188.chain_10,c9469_f1p0_1829.path1	2	blat.proc4202.chain_168,c1542_f2p0_1750.path1	2
AmTr_v1.0_scaffold00033	retained_intron	5269205	5269850	-	asmbl_2346	none	blat.proc4196.chain_220,c6601_f1p0_1767.path1	2	blat.proc4209.chain_123,c9946_f1p0_1668.path1	2
AmTr_v1.0_scaffold00071	retained_intron	760002	760089	-	asmbl_3908	none	blat.proc4188.chain_175,c11305_f1p0_2208.path1	2	blat.proc4188.chain_105,blat.proc4194.chain_208,blat.proc4219.chain_56,c10556_f1p1_1833.path1,c1695_f2p4_2460.path1,c633_f3p3_2800.path1	6
AmTr_v1.0_scaffold00022	skipped_exon	5701872	5704404	-	asmbl_1725	none	blat.proc4219.chain_85,c696_f3p0_2956.path1	2	blat.proc4131.chain_95,blat.proc4137.chain_99,blat.proc4183.chain_34,blat.proc4185.chain_193,blat.proc4188.chain_202,blat.proc4192.chain_88,blat.proc4209.chain_82,blat.proc4219.chain_27,c11559_f1p6_2004.path1,c214_f20p17_1802.path1,c3398_f1p6_1936.path1,c3950_f1p0_1384.path1,c4001_f1p1_1774.path1,c562_f4p0_2688.path1,c8453_f1p0_1803.path1,c9020_f1p9_1574.path1	16
AmTr_v1.0_scaffold00056	retained_exon	2605633	2605751	-	asmbl_3179	none	blat.proc4216.chain_113,c9218_f1p1_2804.path1	2	blat.proc4139.chain_244,blat.proc4171.chain_105,blat.proc4171.chain_195,blat.proc4177.chain_163,blat.proc4200.chain_136,blat.proc4214.chain_30,blat.proc4216.chain_114,blat.proc4231.chain_98,c11451_f1p5_2511.path1,c1386_f2p4_1095.path1,c24_f7p6_3148.path1,c485_f2p4_2992.path1,c641_f4p1_1717.path1,c675_f5p3_1902.path1,c750_f5p4_2072.path1,c885_f4p3_989.path1,c9226_f1p6_2780.path1	17
AmTr_v1.0_scaffold00006	spliced_intron	8718184	8720012	-	asmbl_601	none	blat.proc4129.chain_87,c430_f2p0_1096.path1	2	blat.proc4227.chain_167,c1142_f2p0_2655.path1	2
AmTr_v1.0_scaffold00010	spliced_intron	561419	561642	-	asmbl_860	none	blat.proc4190.chain_131,c13551_f1p1_1878.path1	2	c2982_f1p0_2050.path1	1
AmTr_v1.0_scaffold00051	retained_intron	3983262	3983384	+	asmbl_3048	none	blat.proc4143.chain_83,c6259_f1p3_3096.path1	2	blat.proc4127.chain_247,blat.proc4129.chain_26,blat.proc4137.chain_207,blat.proc4145.chain_62,blat.proc4177.chain_151,blat.proc4183.chain_161,blat.proc4194.chain_55,blat.proc4196.chain_154,blat.proc4200.chain_72,blat.proc4205.chain_90,blat.proc4221.chain_151,c1191_f2p1_1624.path1,c1381_f3p2_1107.path1,c138_f2p3_1089.path1,c227_f1p2_1213.path1,c2293_f1p0_2960.path1,c3452_f1p8_1963.path1,c429_f8p7_1895.path1,c4715_f1p1_1904.path1,c4784_f1p10_1686.path1,c5976_f1p4_1970.path1,c720_f5p5_2005.path1,c9415_f1p3_1817.path1	23
AmTr_v1.0_scaffold00028	alt_acceptor	3363468	3363469	+	asmbl_2026	none	blat.proc4141.chain_82,c6975_f1p1_2632.path1	2	blat.proc4223.chain_110,c6366_f1p1_2643.path1	2
AmTr_v1.0_scaffold00025	alt_acceptor	6353379	6353380	-	asmbl_1993	none	blat.proc4185.chain_111,c7472_f1p3_1772.path1	2	blat.proc4209.chain_37,c8238_f1p2_1761.path1	2
AmTr_v1.0_scaffold00011	spliced_intron	4511513	4511666	+	asmbl_998	none	blat.proc4125.chain_124,blat.proc4127.chain_222,c1864_f1p4_1045.path1,c84_f4p1_1241.path1	4	blat.proc4212.chain_245,c315_f5p3_2891.path1	2
AmTr_v1.0_scaffold00117	alt_donor	1633084	1633085	+	asmbl_4852	none	blat.proc4133.chain_134,c167_f2p0_2221.path1	2	blat.proc4141.chain_264,blat.proc4143.chain_97,blat.proc4227.chain_1,blat.proc4229.chain_9,c1456_f2p3_3000.path1,c3062_f1p2_2831.path1,c6721_f1p2_3203.path1,c698_f3p3_3330.path1	8
AmTr_v1.0_scaffold00131	alt_donor	946152	946153	+	asmbl_4994	none	blat.proc4214.chain_189,c1095_f2p2_2743.path1	2	blat.proc4223.chain_115,blat.proc4225.chain_139,c227_f12p9_2854.path1,c6472_f1p5_2751.path1	4
AmTr_v1.0_scaffold00002	spliced_intron	7063706	7063806	-	asmbl_232	none	blat.proc4171.chain_32,c496_f11p2_990.path1	2	blat.proc4223.chain_198,c8194_f1p1_3089.path1	2
AmTr_v1.0_scaffold00025	alt_acceptor	654244	654245	+	asmbl_1871	none	blat.proc4216.chain_119,blat.proc4227.chain_51,c809_f3p8_2953.path1,c9340_f1p8_2915.path1	4	blat.proc4214.chain_116,blat.proc4214.chain_166,c1011_f2p10_2780.path1,c791_f2p8_2695.path1	4
AmTr_v1.0_scaffold00109	alternate_exon	834816	836141	-	asmbl_4730	none	blat.proc4137.chain_190,c5829_f1p0_1968.path1	2	blat.proc4181.chain_9,c1701_f2p0_1813.path1	2
AmTr_v1.0_scaffold00007	spliced_intron	2479054	2479211	-	asmbl_638	none	blat.proc4219.chain_186,c949_f2p2_2921.path1	2	blat.proc4190.chain_89,blat.proc4219.chain_232,c1059_f2p3_2839.path1,c13060_f1p0_1807.path1	4
AmTr_v1.0_scaffold00053	skipped_exon	2719187	2722014	+	asmbl_3091,asmbl_3093,asmbl_3095	none	blat.proc4212.chain_236,blat.proc4212.chain_249,blat.proc4223.chain_263,blat.proc4223.chain_96,c274_f5p7_2966.path1,c321_f5p5_2848.path1,c6041_f1p3_2727.path1,c9570_f1p0_2952.path1	8	blat.proc4216.chain_235,blat.proc4227.chain_131,blat.proc4227.chain_59,c1034_f2p0_2961.path1,c356_f7p7_3003.path1,c824_f3p7_3054.path1	6
AmTr_v1.0_scaffold00057	alt_acceptor	2797390	2797391	-	asmbl_3242	none	blat.proc4141.chain_49,c3523_f1p5_3237.path1	2	blat.proc4209.chain_4,c1097_f3p3_1847.path1,c7426_f1p2_1660.path1	3
AmTr_v1.0_scaffold00001	spliced_intron	122773	123052	+	asmbl_2,asmbl_3,asmbl_4,asmbl_5	none	blat.proc4231.chain_179,c13795_f1p1_2744.path1	2	blat.proc4229.chain_207,c5441_f1p3_2563.path1	2
AmTr_v1.0_scaffold00012	retained_intron	6980760	6980970	-	asmbl_1092,asmbl_1094	none	blat.proc4169.chain_109,blat.proc4177.chain_96,blat.proc4181.chain_137,blat.proc4196.chain_100,blat.proc4198.chain_265,blat.proc4212.chain_184,c14120_f3p0_1044.path1,c14728_f1p4_1842.path1,c16555_f3p5_1690.path1,c2038_f2p0_1937.path1,c3523_f1p5_1587.path1,c483_f11p8_1850.path1	12	blat.proc4171.chain_65,blat.proc4174.chain_110,blat.proc4177.chain_52,blat.proc4177.chain_68,blat.proc4177.chain_98,blat.proc4179.chain_183,blat.proc4190.chain_209,blat.proc4190.chain_99,blat.proc4192.chain_110,blat.proc4192.chain_99,blat.proc4194.chain_34,blat.proc4200.chain_87,c1104_f3p7_1898.path1,c13232_f1p6_2004.path1,c14288_f1p0_1517.path1,c14359_f1p3_1109.path1,c14473_f3p1_1002.path1,c1462_f2p2_1885.path1,c3808_f1p7_1197.path1,c393_f8p11_1772.path1,c450_f3p8_1761.path1,c492_f8p6_1652.path1,c526_f5p12_1651.path1,c666_f4p5_1087.path1	24
AmTr_v1.0_scaffold00025	retained_intron	2162139	2162480	+	asmbl_1908	none	blat.proc4231.chain_41,c9157_f1p1_2834.path1	2	blat.proc4205.chain_2,blat.proc4223.chain_154,blat.proc4223.chain_179,c1659_f2p0_1748.path1,c1892_f2p2_2115.path1,c7388_f1p6_3691.path1,c7804_f1p5_2801.path1	7
AmTr_v1.0_scaffold00058	alt_acceptor	564054	564055	+	asmbl_3280	none	blat.proc4205.chain_43,c2261_f1p3_1826.path1	2	blat.proc4131.chain_252,blat.proc4135.chain_48,blat.proc4188.chain_44,blat.proc4192.chain_220,blat.proc4212.chain_41,c13930_f1p2_1953.path1,c148_f2p0_1767.path1,c2111_f1p0_1772.path1,c844_f3p2_1828.path1,c9887_f1p0_1863.path1	10
AmTr_v1.0_scaffold00002	spliced_intron	7062804	7062932	-	asmbl_232	none	blat.proc4171.chain_32,c496_f11p2_990.path1	2	blat.proc4223.chain_198,c8194_f1p1_3089.path1	2
AmTr_v1.0_scaffold00025	retained_intron	1190613	1191068	+	asmbl_1883	none	blat.proc4135.chain_251,c1310_f1p4_2536.path1	2	blat.proc4135.chain_3,blat.proc4135.chain_76,blat.proc4181.chain_43,blat.proc4192.chain_26,c144_f2p4_2022.path1,c15148_f32p13_2134.path1,c1800_f2p2_1990.path1,c49_f1p6_2024.path1	8
AmTr_v1.0_scaffold00022	skipped_exon	6384810	6389079	-	asmbl_1732	none	blat.proc4198.chain_42,c8342_f1p4_1904.path1	2	blat.proc4194.chain_16,c1040_f4p4_2081.path1	2
AmTr_v1.0_scaffold00046	spliced_intron	1754076	1754201	+	asmbl_2817	none	blat.proc4216.chain_247,blat.proc4219.chain_154,c416_f5p4_2686.path1,c858_f2p4_2822.path1	4	blat.proc4223.chain_251,blat.proc4225.chain_176,blat.proc4225.chain_212,c447_f5p6_2894.path1,c537_f5p8_2759.path1,c9345_f1p5_2868.path1	6
AmTr_v1.0_scaffold00002	spliced_intron	2109518	2109839	-	asmbl_163,asmbl_164,asmbl_165	none	blat.proc4188.chain_245,blat.proc4194.chain_65,blat.proc4198.chain_100,c11939_f1p1_1769.path1,c1217_f2p0_1962.path1,c9814_f1p1_1872.path1	6	blat.proc4183.chain_126,c4276_f1p1_2028.path1	2
AmTr_v1.0_scaffold00042	retained_exon	2301379	2301436	-	asmbl_2651	none	blat.proc4129.chain_178,c1234_f1p0_1076.path1	2	blat.proc4125.chain_84,blat.proc4127.chain_17,c216_f2p3_1225.path1,c891_f1p3_1076.path1	4
AmTr_v1.0_scaffold00100	retained_exon	1592759	1592863	+	asmbl_4551	none	blat.proc4214.chain_244,c3402_f1p2_2730.path1	2	blat.proc4214.chain_141,blat.proc4225.chain_89,c11674_f1p2_2868.path1,c917_f2p5_2744.path1	4
AmTr_v1.0_scaffold00079	retained_intron	612273	613022	-	asmbl_4153	none	blat.proc4212.chain_24,c13500_f1p3_1658.path1	2	blat.proc4169.chain_151,blat.proc4171.chain_14,blat.proc4171.chain_19,blat.proc4171.chain_42,c15295_f1p14_1043.path1,c322_f1p2_892.path1,c396_f1p9_910.path1,c555_f9p57_1035.path1	8
AmTr_v1.0_scaffold00025	retained_exon	4158590	4158643	-	asmbl_1950	none	blat.proc4137.chain_239,blat.proc4181.chain_67,c15603_f2p2_1867.path1,c1858_f2p2_1978.path1,c6498_f1p5_1687.path1	5	blat.proc4181.chain_93,c1939_f2p1_1811.path1	2
AmTr_v1.0_scaffold00019	retained_intron	5912147	5912496	+	asmbl_1510	none	blat.proc4185.chain_12,c6174_f1p0_1761.path1	2	blat.proc4183.chain_215,blat.proc4188.chain_129,blat.proc4227.chain_212,c10810_f1p0_2062.path1,c1282_f2p3_3072.path1,c5442_f1p0_1815.path1	6
AmTr_v1.0_scaffold00095	retained_intron	1528063	1528379	-	asmbl_4452	none	blat.proc4229.chain_90,c2130_f1p1_2838.path1	2	blat.proc4139.chain_203,blat.proc4183.chain_53,blat.proc4209.chain_154,c1795_f2p1_1878.path1,c3579_f1p1_1672.path1,c5114_f1p0_1547.path1	6
AmTr_v1.0_scaffold00036	spliced_intron	4563149	4563772	-	asmbl_2415	none	blat.proc4133.chain_156,c522_f1p1_1986.path1	2	blat.proc4231.chain_159,c13254_f1p0_2695.path1	2
AmTr_v1.0_scaffold00009	retained_intron	9242404	9242471	+	asmbl_850	none	blat.proc4229.chain_103,c2483_f1p0_2495.path1	2	blat.proc4143.chain_35,c4476_f1p1_3467.path1	2
AmTr_v1.0_scaffold00062	alt_acceptor	3651667	3651668	-	asmbl_3584,asmbl_3587	none	blat.proc4183.chain_90,blat.proc4214.chain_118,blat.proc4229.chain_58,blat.proc4231.chain_75,c10540_f1p7_2748.path1,c1704_f1p6_2779.path1,c3937_f1p1_2667.path1,c802_f2p3_2640.path1	8	blat.proc4221.chain_155,c2374_f1p2_2932.path1	2
AmTr_v1.0_scaffold00053	alternate_exon	2740138	2740501	+	asmbl_3095	none	blat.proc4223.chain_96,c6041_f1p3_2727.path1	2	blat.proc4223.chain_263,c9570_f1p0_2952.path1	2
AmTr_v1.0_scaffold00003	starts_in_intron	2298438	2298438	-	asmbl_362	none	blat.proc4229.chain_233,c6390_f1p4_2845.path1	2	blat.proc4141.chain_85,c7042_f1p0_2393.path1	2
AmTr_v1.0_scaffold00052	alternate_exon	1622758	1635577	-	asmbl_3060	none	blat.proc4227.chain_149,c1079_f2p2_2982.path1	2	blat.proc4216.chain_44,c6300_f1p5_2833.path1	2
AmTr_v1.0_scaffold00058	alt_donor	3228150	3228151	+	asmbl_3331	none	blat.proc4225.chain_171,c435_f6p6_2754.path1	2	blat.proc4214.chain_148,blat.proc4219.chain_5,c501_f5p2_2878.path1,c945_f2p1_2754.path1	4
AmTr_v1.0_scaffold00058	alt_acceptor	547830	547831	+	asmbl_3276,asmbl_3277,asmbl_3278	none	blat.proc4131.chain_252,blat.proc4135.chain_48,blat.proc4192.chain_220,c148_f2p0_1767.path1,c2111_f1p0_1772.path1,c844_f3p2_1828.path1	6	blat.proc4188.chain_44,blat.proc4205.chain_43,blat.proc4212.chain_41,c13930_f1p2_1953.path1,c2261_f1p3_1826.path1,c9887_f1p0_1863.path1	6
AmTr_v1.0_scaffold00018	alt_acceptor	2859466	2859467	-	asmbl_1406	none	blat.proc4174.chain_21,c2086_f2p1_1044.path1	2	blat.proc4129.chain_197,blat.proc4129.chain_48,blat.proc4196.chain_259,c1536_f1p0_1070.path1,c293_f2p0_931.path1,c7201_f1p5_2320.path1	6
AmTr_v1.0_scaffold00017	alt_donor	4680767	4680768	+	asmbl_1357	none	blat.proc4177.chain_126,blat.proc4219.chain_16,c540_f5p10_3071.path1,c650_f6p14_2013.path1	4	blat.proc4194.chain_22,c1056_f2p1_1939.path1	2
AmTr_v1.0_scaffold00002	spliced_intron	9132449	9132537	+	asmbl_274	none	blat.proc4139.chain_15,c182_f2p0_2659.path1	2	blat.proc4229.chain_237,c6484_f1p2_2828.path1	2
AmTr_v1.0_scaffold00003	retained_intron	29133	29573	+	asmbl_317	none	blat.proc4227.chain_80,c869_f2p6_3026.path1	2	blat.proc4133.chain_242,blat.proc4177.chain_175,blat.proc4183.chain_138,blat.proc4194.chain_29,blat.proc4196.chain_191,blat.proc4200.chain_30,blat.proc4216.chain_203,blat.proc4216.chain_221,blat.proc4223.chain_80,c1090_f3p2_1707.path1,c139_f17p9_2614.path1,c15683_f1p4_1996.path1,c291_f7p9_2717.path1,c3816_f1p5_2239.path1,c4412_f1p14_2370.path1,c5718_f1p1_2810.path1,c5745_f1p7_2118.path1,c789_f4p4_1851.path1	18
AmTr_v1.0_scaffold00045	alt_acceptor	799224	799225	+	asmbl_2735	none	blat.proc4133.chain_16,c843_f1p0_2139.path1	2	blat.proc4125.chain_164,c2620_f1p0_1629.path1	2
AmTr_v1.0_scaffold00002	retained_intron	7062804	7062932	-	asmbl_233	none	blat.proc4223.chain_198,c8194_f1p1_3089.path1	2	blat.proc4171.chain_32,c496_f11p2_990.path1	2
AmTr_v1.0_scaffold00022	starts_in_intron	3864603	3864603	-	asmbl_1698	none	blat.proc4190.chain_191,c14159_f1p4_1773.path1	2	blat.proc4169.chain_174,blat.proc4177.chain_162,blat.proc4181.chain_160,blat.proc4181.chain_167,blat.proc4183.chain_257,blat.proc4190.chain_48,blat.proc4192.chain_119,blat.proc4192.chain_12,blat.proc4192.chain_164,blat.proc4192.chain_35,blat.proc4192.chain_38,blat.proc4194.chain_239,blat.proc4200.chain_39,blat.proc4200.chain_68,blat.proc4202.chain_56,blat.proc4205.chain_174,blat.proc4205.chain_181,blat.proc4205.chain_212,blat.proc4212.chain_48,blat.proc4216.chain_267,blat.proc4227.chain_115,blat.proc4227.chain_76,blat.proc4229.chain_131,blat.proc4231.chain_1,blat.proc4231.chain_133,blat.proc4231.chain_214,blat.proc4231.chain_232,blat.proc4231.chain_236,blat.proc4231.chain_5,c1138_f3p0_2005.path1,c12515_f1p11_2795.path1,c12610_f1p11_2872.path1,c14026_f1p12_2494.path1,c14557_f2p88_3146.path1,c14709_f150p118_3032.path1,c14782_f7p38_2786.path1,c15001_f2p7_2497.path1,c15246_f6p6_1825.path1,c15264_f3p8_2091.path1,c15790_f8p8_1687.path1,c16066_f1p3_1221.path1,c1801_f2p9_2311.path1,c2088_f2p8_2630.path1,c2106_f2p6_2037.path1,c3063_f1p19_2677.path1,c403_f5p9_1956.path1,c479_f6p18_2233.path1,c490_f2p62_2916.path1,c5106_f1p0_1468.path1,c5387_f1p0_1682.path1,c5892_f1p1_1930.path1,c6156_f1p10_2496.path1,c662_f2p17_2338.path1,c749_f5p4_1804.path1,c7572_f2p16_2715.path1,c7647_f1p10_2984.path1,c858_f3p43_2827.path1,c979_f1p7_2728.path1	58
AmTr_v1.0_scaffold00011	skipped_exon	4511513	4513357	+	asmbl_999	none	blat.proc4171.chain_153,c1138_f3p2_1037.path1	2	blat.proc4125.chain_124,blat.proc4127.chain_222,c1864_f1p4_1045.path1,c84_f4p1_1241.path1	4
AmTr_v1.0_scaffold00088	ends_in_intron	852709	852709	-	asmbl_4297	none	blat.proc4125.chain_83,c797_f1p0_1306.path1	2	blat.proc4205.chain_95,c3491_f1p3_1713.path1	2
AmTr_v1.0_scaffold00076	retained_intron	3343042	3343126	+	asmbl_4026	none	blat.proc4205.chain_210,c6137_f1p2_2056.path1	2	blat.proc4185.chain_249,c9230_f1p0_2110.path1	2
AmTr_v1.0_scaffold00002	retained_intron	7062325	7062728	-	asmbl_233	none	blat.proc4223.chain_198,c8194_f1p1_3089.path1	2	blat.proc4171.chain_32,c496_f11p2_990.path1	2
AmTr_v1.0_scaffold00040	alt_acceptor	4015917	4015918	+	asmbl_2577	none	blat.proc4190.chain_13,c12292_f1p1_2173.path1	2	blat.proc4139.chain_57,c3710_f1p4_3698.path1	2
AmTr_v1.0_scaffold00068	alt_donor	1901260	1901261	+	asmbl_3813	none	blat.proc4188.chain_199,c11542_f1p0_2017.path1	2	blat.proc4169.chain_200,blat.proc4169.chain_242,c17109_f2p2_898.path1,c17646_f2p2_1013.path1	4
AmTr_v1.0_scaffold00049	spliced_intron	1344816	1344896	+	asmbl_2968	none	blat.proc4192.chain_200,c789_f4p1_1991.path1	2	blat.proc4147.chain_176,blat.proc4147.chain_249,blat.proc4181.chain_44,c10428_f1p1_862.path1,c1805_f2p0_2070.path1,c7259_f2p1_1011.path1	6
AmTr_v1.0_scaffold00059	alt_acceptor	1988891	1988892	+	asmbl_3404	none	blat.proc4216.chain_205,c203_f14p3_2733.path1	2	blat.proc4219.chain_245,blat.proc4225.chain_199,c1088_f2p4_2765.path1,c512_f3p8_2901.path1	4
AmTr_v1.0_scaffold00107	retained_intron	46943	47062	+	asmbl_4691	none	blat.proc4216.chain_33,c5750_f1p0_2980.path1	2	blat.proc4209.chain_221,blat.proc4212.chain_30,c12045_f1p2_2050.path1,c13599_f1p2_1734.path1	4
AmTr_v1.0_scaffold00002	spliced_intron	3820348	3820450	+	asmbl_183	none	blat.proc4179.chain_256,c1648_f2p0_1797.path1	2	blat.proc4231.chain_202,c14463_f1p0_3130.path1	2
AmTr_v1.0_scaffold00022	retained_exon	5702336	5702417	-	asmbl_1723,asmbl_1724	none	blat.proc4131.chain_95,blat.proc4137.chain_99,blat.proc4183.chain_34,blat.proc4185.chain_193,blat.proc4188.chain_202,blat.proc4192.chain_88,blat.proc4209.chain_82,blat.proc4219.chain_27,c11559_f1p6_2004.path1,c214_f20p17_1802.path1,c3398_f1p6_1936.path1,c3950_f1p0_1384.path1,c4001_f1p1_1774.path1,c562_f4p0_2688.path1,c8453_f1p0_1803.path1,c9020_f1p9_1574.path1	16	blat.proc4219.chain_85,c696_f3p0_2956.path1	2
AmTr_v1.0_scaffold00019	retained_intron	6326143	6326272	-	asmbl_1517,asmbl_1518,asmbl_1519	none	blat.proc4196.chain_50,blat.proc4214.chain_20,blat.proc4219.chain_79,c2617_f1p2_1996.path1,c461_f3p1_2837.path1,c622_f4p2_2832.path1,c680_f3p1_3046.path1	7	blat.proc4174.chain_74,c2575_f2p0_989.path1	2
AmTr_v1.0_scaffold00006	spliced_intron	6051900	6052000	+	asmbl_570	none	blat.proc4219.chain_13,c452_f4p1_2705.path1,c531_f3p1_2715.path1	3	blat.proc4216.chain_7,blat.proc4225.chain_149,c308_f10p7_2853.path1,c372_f1p6_2834.path1,c4885_f1p3_2870.path1,c677_f3p2_2794.path1	6
AmTr_v1.0_scaffold00068	skipped_exon	1476039	1480195	+	asmbl_3804	none	blat.proc4169.chain_94,c13694_f1p1_966.path1	2	blat.proc4169.chain_168,c15755_f1p2_866.path1	2
AmTr_v1.0_scaffold00019	retained_exon	3454136	3454154	-	asmbl_1469	none	blat.proc4147.chain_9,c2579_f2p1_998.path1	2	blat.proc4147.chain_137,c5879_f1p1_1005.path1	2
AmTr_v1.0_scaffold00066	alt_donor	362350	362351	+	asmbl_3688	none	blat.proc4185.chain_239,c9125_f1p1_1891.path1	2	blat.proc4202.chain_29,c1077_f3p0_1941.path1,c7171_f1p1_1795.path1	3
AmTr_v1.0_scaffold00003	spliced_intron	2297936	2298376	-	asmbl_364	none	blat.proc4227.chain_95,c917_f2p4_2570.path1	2	blat.proc4229.chain_233,c6390_f1p4_2845.path1	2
AmTr_v1.0_scaffold00003	alt_acceptor	30525	30526	+	asmbl_318	none	blat.proc4223.chain_80,c5718_f1p1_2810.path1	2	blat.proc4133.chain_242,blat.proc4177.chain_175,blat.proc4183.chain_138,blat.proc4194.chain_29,blat.proc4196.chain_170,blat.proc4196.chain_191,blat.proc4200.chain_30,blat.proc4202.chain_229,blat.proc4216.chain_203,blat.proc4216.chain_221,blat.proc4227.chain_80,c1090_f3p2_1707.path1,c139_f17p9_2614.path1,c15683_f1p4_1996.path1,c1776_f2p0_1726.path1,c291_f7p9_2717.path1,c3816_f1p5_2239.path1,c4412_f1p14_2370.path1,c5215_f1p5_1587.path1,c5745_f1p7_2118.path1,c789_f4p4_1851.path1,c869_f2p6_3026.path1	22
AmTr_v1.0_scaffold00046	retained_intron	1754076	1754201	+	asmbl_2816	none	blat.proc4223.chain_251,blat.proc4225.chain_176,blat.proc4225.chain_212,c447_f5p6_2894.path1,c537_f5p8_2759.path1,c9345_f1p5_2868.path1	6	blat.proc4216.chain_247,blat.proc4219.chain_154,c416_f5p4_2686.path1,c858_f2p4_2822.path1	4
AmTr_v1.0_scaffold00003	alt_donor	5606977	5606978	+	asmbl_395	none	blat.proc4133.chain_61,c2659_f1p0_1718.path1	2	blat.proc4129.chain_191,c1481_f1p0_998.path1	2
AmTr_v1.0_scaffold00058	spliced_intron	1720109	1720613	+	asmbl_3301	none	blat.proc4192.chain_5,blat.proc4209.chain_237,c12386_f1p3_1906.path1,c14953_f2p1_1954.path1	4	blat.proc4229.chain_109,c2651_f1p0_2915.path1	2
AmTr_v1.0_scaffold00040	spliced_intron	1455222	1455396	-	asmbl_2554	none	blat.proc4183.chain_249,c5793_f1p1_1554.path1	2	blat.proc4190.chain_73,c12928_f1p1_1882.path1	2
AmTr_v1.0_scaffold00012	starts_in_intron	6983847	6983847	-	asmbl_1094	none	blat.proc4198.chain_265,c14728_f1p4_1842.path1	2	blat.proc4177.chain_96,blat.proc4177.chain_98,blat.proc4179.chain_183,blat.proc4181.chain_137,blat.proc4190.chain_209,blat.proc4190.chain_99,blat.proc4192.chain_110,blat.proc4192.chain_99,blat.proc4194.chain_30,blat.proc4194.chain_34,blat.proc4196.chain_100,blat.proc4200.chain_114,blat.proc4200.chain_87,blat.proc4212.chain_184,c1092_f3p4_1781.path1,c1104_f3p7_1898.path1,c13232_f1p6_2004.path1,c14288_f1p0_1517.path1,c1462_f2p2_1885.path1,c16555_f3p5_1690.path1,c2038_f2p0_1937.path1,c3523_f1p5_1587.path1,c393_f8p11_1772.path1,c450_f3p8_1761.path1,c483_f11p8_1850.path1,c492_f8p6_1652.path1,c526_f5p12_1651.path1,c619_f5p8_1728.path1	28
AmTr_v1.0_scaffold00087	alt_donor	582009	582010	+	asmbl_4274	none	blat.proc4229.chain_165,c3914_f1p3_2849.path1	2	blat.proc4125.chain_115,blat.proc4181.chain_172,blat.proc4216.chain_139,blat.proc4231.chain_37,c10089_f1p9_3016.path1,c1752_f1p0_1302.path1,c2124_f2p0_1939.path1,c9028_f1p4_3399.path1	8
AmTr_v1.0_scaffold00077	retained_intron	492449	492548	+	asmbl_4034	none	blat.proc4212.chain_216,blat.proc4221.chain_240,blat.proc4227.chain_171,c1153_f2p3_2965.path1,c181_f10p13_3080.path1,c3822_f1p5_2797.path1	6	blat.proc4216.chain_224,c311_f8p8_2961.path1	2
AmTr_v1.0_scaffold00001	retained_intron	120614	120967	+	asmbl_4,asmbl_5	none	blat.proc4192.chain_7,blat.proc4221.chain_159,c14969_f2p7_2079.path1,c2398_f1p2_2890.path1	4	blat.proc4125.chain_55,blat.proc4127.chain_150,blat.proc4127.chain_250,blat.proc4129.chain_222,blat.proc4129.chain_256,blat.proc4137.chain_255,blat.proc4143.chain_141,blat.proc4143.chain_200,blat.proc4143.chain_28,blat.proc4145.chain_153,blat.proc4169.chain_218,blat.proc4169.chain_244,blat.proc4171.chain_1,blat.proc4192.chain_90,blat.proc4194.chain_41,blat.proc4196.chain_197,blat.proc4200.chain_45,blat.proc4212.chain_191,blat.proc4212.chain_194,blat.proc4212.chain_202,c1139_f2p16_1908.path1,c143_f4p6_1498.path1,c15807_f4p109_1859.path1,c16654_f10p72_1753.path1,c16666_f100p87_1754.path1,c16714_f2p29_1622.path1,c17501_f16p15_998.path1,c17666_f11p16_1154.path1,c17781_f14p5_947.path1,c1917_f2p2_1166.path1,c2025_f1p3_1644.path1,c2507_f1p5_1316.path1,c265_f5p26_1652.path1,c2694_f1p2_1655.path1,c288_f4p12_1312.path1,c295_f2p3_1199.path1,c4289_f1p10_1621.path1,c5931_f1p11_1725.path1,c6681_f1p7_1722.path1,c760_f7p23_1141.path1	40
AmTr_v1.0_scaffold00061	alt_donor	3553314	3553315	+	asmbl_3533	none	blat.proc4216.chain_255,blat.proc4219.chain_180,c453_f5p6_2795.path1,c933_f2p5_3224.path1	4	blat.proc4216.chain_195,blat.proc4216.chain_213,c11801_f3p10_2996.path1,c251_f10p7_2912.path1	4
AmTr_v1.0_scaffold00002	skipped_exon	9249523	9249784	+	asmbl_280	none	blat.proc4229.chain_98,c2264_f1p0_2700.path1	2	blat.proc4135.chain_182	1
AmTr_v1.0_scaffold00021	alt_donor	4175444	4175445	+	asmbl_1603	none	blat.proc4177.chain_82,c327_f20p1_1715.path1	2	c1101_f3p3_2207.path1	1
AmTr_v1.0_scaffold00017	skipped_exon	4679895	4686558	+	asmbl_1360	none	blat.proc4194.chain_22,c1056_f2p1_1939.path1	2	blat.proc4137.chain_75,blat.proc4177.chain_126,blat.proc4177.chain_148,blat.proc4179.chain_176,blat.proc4183.chain_23,blat.proc4185.chain_24,blat.proc4185.chain_248,blat.proc4192.chain_93,blat.proc4200.chain_107,blat.proc4202.chain_245,blat.proc4202.chain_32,blat.proc4219.chain_16,blat.proc4221.chain_196,blat.proc4221.chain_43,blat.proc4227.chain_201,blat.proc4231.chain_143,blat.proc4231.chain_56,c1080_f3p11_1843.path1,c1218_f2p0_2941.path1,c1251_f2p7_2652.path1,c12673_f1p15_4296.path1,c12870_f1p5_2283.path1,c1443_f2p10_2662.path1,c1830_f2p17_2423.path1,c3086_f1p14_4095.path1,c313_f14p20_2536.path1,c3271_f1p5_2273.path1,c3336_f1p1_1960.path1,c498_f6p12_2936.path1,c540_f5p10_3071.path1,c589_f4p16_1721.path1,c6361_f1p4_1556.path1,c650_f6p14_2013.path1,c710_f6p5_1896.path1,c9211_f1p6_2676.path1,c9685_f1p6_3415.path1	36
AmTr_v1.0_scaffold00038	ends_in_intron	1393632	1393632	+	asmbl_2465	none	blat.proc4179.chain_164,c1411_f2p4_2008.path1	2	blat.proc4127.chain_266,blat.proc4129.chain_11,blat.proc4129.chain_36,blat.proc4133.chain_75,blat.proc4147.chain_100,blat.proc4179.chain_74,blat.proc4190.chain_59,blat.proc4192.chain_51,blat.proc4192.chain_87,blat.proc4200.chain_76,blat.proc4209.chain_17,blat.proc4209.chain_222,blat.proc4212.chain_167,c1205_f6p18_1616.path1,c12061_f1p35_1916.path1,c12704_f1p7_1541.path1,c15428_f1p35_2029.path1,c16247_f1p4_1627.path1,c172_f3p3_1262.path1,c192_f3p3_1135.path1,c260_f3p3_1509.path1,c3009_f1p1_1711.path1,c464_f7p56_1855.path1,c4707_f1p7_1010.path1,c50_f3p52_1747.path1,c7696_f1p48_1859.path1	26
AmTr_v1.0_scaffold00087	alt_acceptor	2089282	2089283	-	asmbl_4280	none	blat.proc4179.chain_141,c1344_f2p0_1898.path1	2	blat.proc4227.chain_69,c847_f3p0_2794.path1	2
AmTr_v1.0_scaffold00077	spliced_intron	2049244	2051274	-	asmbl_4061	none	blat.proc4143.chain_142,c398_f22p3_908.path1	2	blat.proc4214.chain_178,c1060_f2p3_2922.path1	2
AmTr_v1.0_scaffold00056	alt_acceptor	2849335	2849336	-	asmbl_3185	none	blat.proc4198.chain_267,c14860_f1p3_1733.path1	2	blat.proc4202.chain_222,c1753_f2p0_2017.path1	2
AmTr_v1.0_scaffold00007	retained_intron	6051824	6053167	+	asmbl_692	none	blat.proc4216.chain_55,c6695_f1p1_2809.path1	2	blat.proc4179.chain_117,c1283_f1p0_1688.path1	2
AmTr_v1.0_scaffold00017	skipped_exon	2036522	2037762	+	asmbl_1330,asmbl_1331	none	blat.proc4141.chain_71,blat.proc4190.chain_39,c12515_f1p0_1909.path1,c5580_f1p1_1683.path1	4	blat.proc4221.chain_236,c3745_f1p0_3171.path1	2
AmTr_v1.0_scaffold00016	retained_intron	2703012	2703305	+	asmbl_1253	none	blat.proc4139.chain_77,blat.proc4229.chain_41,c1544_f2p3_3401.path1,c5910_f1p6_3110.path1	4	blat.proc4229.chain_79,c1956_f1p3_3136.path1	2
AmTr_v1.0_scaffold00109	alt_acceptor	1175735	1175736	+	asmbl_4738	none	blat.proc4183.chain_132,blat.proc4185.chain_139,c4328_f1p2_1934.path1,c7844_f1p2_2075.path1	4	blat.proc4183.chain_68,blat.proc4198.chain_40,blat.proc4200.chain_189,c3685_f1p3_1686.path1,c815_f4p7_2036.path1,c8275_f1p4_1842.path1	6
AmTr_v1.0_scaffold00025	alt_acceptor	654241	654242	+	asmbl_1872,asmbl_1873	none	blat.proc4214.chain_116,blat.proc4214.chain_166,c1011_f2p10_2780.path1,c791_f2p8_2695.path1	4	blat.proc4216.chain_119,blat.proc4227.chain_51,c809_f3p8_2953.path1,c9340_f1p8_2915.path1	4
AmTr_v1.0_scaffold00009	retained_exon	3830164	3830285	-	asmbl_773	none	blat.proc4135.chain_203,c506_f2p1_1900.path1,c6043_f1p1_1664.path1	3	blat.proc4194.chain_3,c1007_f3p1_1778.path1	2
AmTr_v1.0_scaffold00070	spliced_intron	3605853	3606033	+	asmbl_3897	none	blat.proc4223.chain_188,c7930_f1p3_3025.path1	2	blat.proc4221.chain_255,blat.proc4225.chain_233,c4084_f1p5_2963.path1,c603_f4p4_2816.path1	4
AmTr_v1.0_scaffold00095	skipped_exon	963096	967455	+	asmbl_4437,asmbl_4438	none	blat.proc4133.chain_152,blat.proc4179.chain_14,c1077_f3p0_1731.path1,c311_f1p0_1946.path1	4	blat.proc4192.chain_219,c838_f3p2_1789.path1	2
AmTr_v1.0_scaffold00173	alt_donor	90339	90340	+	asmbl_5368	none	blat.proc4223.chain_4,blat.proc4225.chain_268,c4407_f1p3_2877.path1,c696_f3p5_2739.path1	4	blat.proc4231.chain_36,c8985_f1p1_2996.path1	2
AmTr_v1.0_scaffold00072	alt_acceptor	2773214	2773215	-	asmbl_3979	none	blat.proc4227.chain_151,c1083_f2p2_2643.path1	2	blat.proc4227.chain_238,c1347_f2p3_2719.path1	2
AmTr_v1.0_scaffold00101	retained_intron	1937207	1937603	-	asmbl_4578	none	blat.proc4225.chain_262,blat.proc4231.chain_122,c12179_f1p0_2642.path1,c680_f3p2_2806.path1	4	blat.proc4181.chain_210,c2405_f1p1_2155.path1	2
AmTr_v1.0_scaffold00175	spliced_intron	241435	241541	+	asmbl_5383	none	blat.proc4141.chain_169,blat.proc4143.chain_89,blat.proc4225.chain_167,blat.proc4225.chain_229,blat.proc4229.chain_128,c3003_f1p11_2679.path1,c338_f2p0_3184.path1,c420_f6p14_3022.path1,c596_f2p10_2896.path1,c6459_f1p5_3152.path1	10	blat.proc4221.chain_141,c2092_f1p1_2646.path1	2
AmTr_v1.0_scaffold00066	alternate_exon	1977872	1977907	+	asmbl_3711	none	blat.proc4129.chain_139,c759_f2p2_1086.path1	2	blat.proc4125.chain_239,blat.proc4125.chain_241,blat.proc4127.chain_192,blat.proc4129.chain_92,blat.proc4131.chain_160,c3528_f1p3_1274.path1,c4063_f3p5_1387.path1,c4073_f3p4_1356.path1,c453_f2p4_1256.path1,c4843_f1p3_1185.path1	10
AmTr_v1.0_scaffold00011	alt_acceptor	2865415	2865416	-	asmbl_987	none	blat.proc4219.chain_188,c951_f2p0_2799.path1	2	blat.proc4227.chain_216,c1290_f2p3_2793.path1	2
AmTr_v1.0_scaffold00106	alt_acceptor	758048	758049	-	asmbl_4667	none	blat.proc4200.chain_239,c935_f3p2_1716.path1	2	blat.proc4185.chain_56,c6686_f1p0_1689.path1	2
AmTr_v1.0_scaffold00060	alt_acceptor	2792885	2792886	-	asmbl_3472	none	blat.proc4216.chain_112,c9155_f1p1_2802.path1	2	blat.proc4196.chain_53,blat.proc4219.chain_78,blat.proc4221.chain_167,blat.proc4229.chain_38,blat.proc4229.chain_49,blat.proc4231.chain_210,c10504_f1p6_3107.path1,c14532_f2p3_2829.path1,c1538_f2p6_2916.path1,c1593_f2p4_2906.path1,c2600_f1p4_2677.path1,c2707_f1p8_1928.path1,c679_f3p2_2692.path1	13
AmTr_v1.0_scaffold00157	retained_intron	881146	881244	-	asmbl_5247	none	c8392_f1p3_1847.path1	1	blat.proc4147.chain_194,blat.proc4171.chain_64,blat.proc4174.chain_127,blat.proc4174.chain_199,blat.proc4177.chain_2,blat.proc4177.chain_46,blat.proc4177.chain_7,blat.proc4202.chain_162,blat.proc4202.chain_256,blat.proc4202.chain_263,blat.proc4212.chain_157,c12632_f1p4_1046.path1,c12833_f1p5_1118.path1,c14305_f1p5_1088.path1,c1508_f2p7_1816.path1,c16058_f1p1_1681.path1,c1855_f2p6_1917.path1,c1884_f2p3_1788.path1,c4720_f1p3_1181.path1,c663_f5p4_978.path1,c8229_f4p1_908.path1,c8822_f1p1_1147.path1	22
AmTr_v1.0_scaffold00095	ends_in_intron	1999076	1999076	+	asmbl_4464	none	blat.proc4188.chain_146,c10944_f1p1_1797.path1	2	blat.proc4183.chain_206,blat.proc4223.chain_259,c5280_f1p0_2074.path1,c9444_f1p2_2789.path1	4
AmTr_v1.0_scaffold00053	alternate_exon	2740138	2740590	+	asmbl_3092	none	blat.proc4216.chain_235,blat.proc4227.chain_59,c356_f7p7_3003.path1,c824_f3p7_3054.path1	4	blat.proc4223.chain_263,c9570_f1p0_2952.path1	2
AmTr_v1.0_scaffold00017	retained_exon	4682157	4682273	+	asmbl_1365	none	blat.proc4221.chain_43,c1218_f2p0_2941.path1	2	blat.proc4194.chain_22,c1056_f2p1_1939.path1	2
AmTr_v1.0_scaffold00016	spliced_intron	6763381	6764265	+	asmbl_1297	none	blat.proc4205.chain_31,blat.proc4225.chain_240,blat.proc4231.chain_176,c13775_f1p6_2760.path1,c2060_f1p2_2108.path1,c621_f4p7_2953.path1	6	blat.proc4188.chain_113,c10633_f1p1_1822.path1	2
AmTr_v1.0_scaffold00019	starts_in_intron	5911366	5911366	+	asmbl_1510	none	blat.proc4185.chain_12,c6174_f1p0_1761.path1	2	blat.proc4188.chain_129,blat.proc4227.chain_212,c10810_f1p0_2062.path1,c1282_f2p3_3072.path1	4
AmTr_v1.0_scaffold00001	starts_in_intron	129333	129333	+	asmbl_8	none	blat.proc4205.chain_224,c6385_f1p12_1789.path1	2	blat.proc4179.chain_116,blat.proc4192.chain_95,blat.proc4229.chain_207,blat.proc4231.chain_179,c1270_f3p7_1876.path1,c13795_f1p1_2744.path1,c321_f5p13_1759.path1,c5441_f1p3_2563.path1	8
AmTr_v1.0_scaffold00019	retained_exon	7034527	7034878	+	asmbl_1534	none	blat.proc4177.chain_100,blat.proc4192.chain_70,c15582_f5p1_1672.path1,c545_f4p1_1771.path1	4	c3236_f1p1_1254.path1	1
AmTr_v1.0_scaffold00002	alt_acceptor	7584928	7584929	+	asmbl_236,asmbl_237	none	blat.proc4137.chain_263,blat.proc4137.chain_265,blat.proc4139.chain_237,blat.proc4139.chain_93,blat.proc4141.chain_142,blat.proc4143.chain_136,blat.proc4143.chain_137,blat.proc4181.chain_101,blat.proc4181.chain_216,blat.proc4205.chain_149,blat.proc4209.chain_152,blat.proc4212.chain_57,blat.proc4214.chain_222,blat.proc4216.chain_56,blat.proc4221.chain_129,blat.proc4223.chain_184,blat.proc4225.chain_126,blat.proc4225.chain_5,blat.proc4229.chain_82,blat.proc4231.chain_204,c10731_f1p12_2042.path1,c11983_f1p2_2832.path1,c14109_f1p13_2097.path1,c14506_f3p13_2643.path1,c1887_f1p7_2642.path1,c1954_f2p2_2318.path1,c1992_f1p15_2744.path1,c218_f2p3_3067.path1,c2521_f1p1_2135.path1,c2597_f1p15_3123.path1,c27_f2p4_3296.path1,c4624_f1p8_2408.path1,c46_f2p6_3009.path1,c57_f3p6_3134.path1,c6751_f1p5_2764.path1,c7783_f1p6_3347.path1,c7834_f2p8_3497.path1,c7851_f1p10_3316.path1,c7869_f1p14_2952.path1,c9785_f1p14_2970.path1	40	blat.proc4188.chain_229,c11796_f1p3_2010.path1	2
AmTr_v1.0_scaffold00053	alt_acceptor	17678	17679	+	asmbl_3069	none	blat.proc4219.chain_122,blat.proc4219.chain_127,blat.proc4225.chain_160,c392_f6p3_2731.path1,c4400_f1p1_2821.path1,c768_f3p7_2922.path1,c777_f3p7_2689.path1	7	blat.proc4227.chain_2,blat.proc4229.chain_25,c1492_f2p0_2758.path1,c699_f3p1_2914.path1	4
AmTr_v1.0_scaffold00077	spliced_intron	1331910	1332343	-	asmbl_4047	none	blat.proc4171.chain_161,blat.proc4200.chain_49,blat.proc4205.chain_148,c1175_f3p2_920.path1,c15839_f5p4_1827.path1,c4621_f1p6_1931.path1	6	blat.proc4205.chain_65,c2879_f1p3_2244.path1	2
AmTr_v1.0_scaffold00049	skipped_exon	4108267	4108672	+	asmbl_3012	none	c2304_f1p0_2111.path1	1	blat.proc4214.chain_59,c10424_f1p3_2869.path1,c11759_f2p0_2883.path1,c552_f4p6_2878.path1,c775_f3p6_2885.path1	5
AmTr_v1.0_scaffold00095	alt_acceptor	1353920	1353921	-	asmbl_4444	none	blat.proc4183.chain_91,blat.proc4192.chain_60,c3953_f1p1_2329.path1	3	blat.proc4177.chain_166,blat.proc4185.chain_16,blat.proc4192.chain_213,c15507_f2p1_1693.path1,c6231_f1p1_1830.path1,c768_f5p2_1933.path1,c821_f4p1_1920.path1	7
AmTr_v1.0_scaffold00048	alt_donor	1560621	1560622	-	asmbl_2907	none	blat.proc4185.chain_263,blat.proc4229.chain_60,c1740_f1p2_3608.path1,c9396_f1p0_1897.path1	4	blat.proc4143.chain_241,blat.proc4190.chain_155,blat.proc4192.chain_236,blat.proc4200.chain_244,blat.proc4200.chain_33,c13737_f1p3_2387.path1,c15701_f1p4_2009.path1,c878_f2p4_1872.path1,c948_f6p0_1037.path1,c951_f4p3_2159.path1	10
AmTr_v1.0_scaffold00030	retained_exon	3707947	3708039	-	asmbl_2174	none	blat.proc4223.chain_164,c7566_f1p1_2772.path1	2	blat.proc4223.chain_172,c7691_f1p1_2860.path1	2
AmTr_v1.0_scaffold00019	alternate_exon	6330527	6330568	-	asmbl_1518	none	blat.proc4214.chain_20,c461_f3p1_2837.path1	2	blat.proc4196.chain_50,c2617_f1p2_1996.path1,c622_f4p2_2832.path1	3
AmTr_v1.0_scaffold00002	alt_acceptor	9253407	9253408	+	asmbl_280	none	blat.proc4229.chain_98,c2264_f1p0_2700.path1	2	blat.proc4135.chain_182	1
AmTr_v1.0_scaffold00001	skipped_exon	2144166	2146546	+	asmbl_44	none	blat.proc4200.chain_243,c947_f3p8_1805.path1	2	blat.proc4183.chain_52,blat.proc4185.chain_75,blat.proc4200.chain_116,c3572_f1p3_1885.path1,c630_f3p13_1851.path1,c7009_f1p1_1808.path1	6
AmTr_v1.0_scaffold00033	spliced_intron	2391090	2391218	-	asmbl_2301	none	blat.proc4221.chain_50,c1233_f2p2_2699.path1	2	blat.proc4216.chain_249,blat.proc4229.chain_144,c3427_f1p7_2943.path1,c421_f5p3_2729.path1	4
AmTr_v1.0_scaffold00021	alt_donor	1071687	1071688	-	asmbl_1570	none	blat.proc4200.chain_20,blat.proc4200.chain_227,c15604_f2p3_1896.path1,c906_f3p9_1853.path1	4	c15457_f2p1_1817.path1	1
AmTr_v1.0_scaffold00019	skipped_exon	750615	751651	-	asmbl_1434	none	blat.proc4205.chain_166,c4947_f1p0_1847.path1	2	blat.proc4137.chain_94,c3864_f1p0_1872.path1	2
AmTr_v1.0_scaffold00077	starts_in_intron	499833	499833	+	asmbl_4036	none	blat.proc4147.chain_191,c8044_f1p1_995.path1	2	blat.proc4169.chain_203,blat.proc4198.chain_209,blat.proc4198.chain_82,blat.proc4209.chain_99,blat.proc4212.chain_216,blat.proc4214.chain_146,blat.proc4216.chain_224,blat.proc4221.chain_240,blat.proc4223.chain_141,blat.proc4227.chain_171,c1153_f2p3_2965.path1,c12981_f1p4_2014.path1,c17199_f1p2_1364.path1,c181_f10p13_3080.path1,c311_f8p8_2961.path1,c3822_f1p5_2797.path1,c5110_f1p3_2136.path1,c7142_f1p6_2781.path1,c9333_f1p4_1890.path1,c9345_f1p5_2248.path1,c938_f2p9_2675.path1	21
AmTr_v1.0_scaffold00012	alt_donor	2350047	2350048	+	asmbl_1048,asmbl_1049,asmbl_1051	none	blat.proc4181.chain_50,blat.proc4185.chain_93,blat.proc4192.chain_36,blat.proc4192.chain_82,blat.proc4200.chain_80,c15250_f9p4_1755.path1,c15656_f2p1_1768.path1,c1820_f2p2_1821.path1,c489_f8p6_1903.path1,c7194_f1p3_1635.path1	10	blat.proc4196.chain_37,c2430_f1p9_1825.path1	2
AmTr_v1.0_scaffold00002	alt_acceptor	9253427	9253428	+	asmbl_281	none	blat.proc4135.chain_182	1	blat.proc4229.chain_98,c2264_f1p0_2700.path1	2
AmTr_v1.0_scaffold00101	alt_acceptor	711984	711985	-	asmbl_4563,asmbl_4564	none	blat.proc4137.chain_225,blat.proc4139.chain_246,blat.proc4209.chain_115,blat.proc4227.chain_158,c1111_f2p10_2780.path1,c37_f7p10_3023.path1,c6236_f1p3_2160.path1,c9758_f1p4_1950.path1	8	blat.proc4139.chain_112,blat.proc4223.chain_33,c128_f3p5_3084.path1,c4920_f1p4_2832.path1	4
AmTr_v1.0_scaffold00057	alt_acceptor	2320269	2320270	+	asmbl_3231	none	blat.proc4223.chain_206,blat.proc4225.chain_156,c369_f7p4_2874.path1,c8379_f1p2_2705.path1	4	blat.proc4190.chain_250,c14719_f1p0_1704.path1	2
AmTr_v1.0_scaffold00022	ends_in_intron	5697658	5697658	-	asmbl_1725	none	blat.proc4219.chain_85,c696_f3p0_2956.path1	2	blat.proc4131.chain_95,blat.proc4137.chain_99,blat.proc4147.chain_253,blat.proc4169.chain_210,blat.proc4183.chain_34,blat.proc4185.chain_193,blat.proc4188.chain_202,blat.proc4192.chain_88,blat.proc4209.chain_82,c10586_f1p5_1053.path1,c11559_f1p6_2004.path1,c17393_f2p5_1067.path1,c214_f20p17_1802.path1,c3398_f1p6_1936.path1,c3950_f1p0_1384.path1,c4001_f1p1_1774.path1,c8453_f1p0_1803.path1,c9020_f1p9_1574.path1	18
AmTr_v1.0_scaffold00102	retained_exon	270237	270287	+	asmbl_4588	none	blat.proc4214.chain_8,blat.proc4219.chain_63,blat.proc4227.chain_90,c410_f4p3_2848.path1,c650_f3p1_3007.path1,c902_f3p5_3047.path1	6	c5654_f1p1_2791.path1	1
AmTr_v1.0_scaffold00092	ends_in_intron	632982	632982	+	asmbl_4381	none	c1582_f1p2_2836.path1	1	blat.proc4212.chain_215,blat.proc4216.chain_34,blat.proc4225.chain_249,c178_f9p9_2870.path1,c5758_f1p9_2735.path1,c640_f3p5_2922.path1	6
AmTr_v1.0_scaffold00044	alternate_exon	3477897	3483100	-	asmbl_2710	none	blat.proc4200.chain_163,c743_f4p1_1713.path1	2	blat.proc4183.chain_99,c4060_f1p5_1587.path1	2
AmTr_v1.0_scaffold00019	starts_in_intron	6936472	6936472	+	asmbl_1531	none	blat.proc4216.chain_72,c7681_f1p0_2758.path1	2	blat.proc4202.chain_165,c1525_f2p1_1771.path1	2
AmTr_v1.0_scaffold00047	skipped_exon	1311519	1324046	-	asmbl_2858	none	c2290_f1p0_1589.path1	1	blat.proc4169.chain_162,c15591_f1p0_940.path1,c3333_f1p0_1879.path1	3
AmTr_v1.0_scaffold00044	starts_in_intron	1030824	1030824	-	asmbl_2675	none	blat.proc4125.chain_190,c3301_f1p1_1537.path1	2	blat.proc4169.chain_153,blat.proc4198.chain_227,blat.proc4229.chain_94,c1263_f2p1_2799.path1,c13473_f1p3_1927.path1,c15361_f2p1_884.path1,c2220_f1p2_2764.path1	7
AmTr_v1.0_scaffold00025	starts_in_intron	5688901	5688901	-	asmbl_1982	none	blat.proc4227.chain_165,c1132_f2p1_2908.path1	2	blat.proc4227.chain_34,c766_f3p4_2856.path1	2
AmTr_v1.0_scaffold00068	retained_exon	1480019	1480069	+	asmbl_3805	none	blat.proc4169.chain_168,c15755_f1p2_866.path1	2	blat.proc4169.chain_94,c13694_f1p1_966.path1	2
AmTr_v1.0_scaffold00077	alternate_exon	2324626	2325688	-	asmbl_4069	none	blat.proc4231.chain_62,c10075_f1p10_3141.path1,c336_f4p11_2946.path1,c3634_f1p2_3055.path1	4	c1758_f1p8_2885.path1	1
AmTr_v1.0_scaffold00071	spliced_intron	2787606	2787951	+	asmbl_3940	none	blat.proc4229.chain_148,c3542_f1p0_1355.path1	2	blat.proc4196.chain_172,c5355_f1p2_1787.path1	2
AmTr_v1.0_scaffold00109	retained_intron	2029847	2031006	+	asmbl_4747	none	blat.proc4133.chain_174,c1012_f1p0_2306.path1	2	blat.proc4190.chain_161,c13834_f1p2_2220.path1	2
AmTr_v1.0_scaffold00047	starts_in_intron	1323901	1323901	-	asmbl_2857	none	blat.proc4223.chain_28,c4860_f1p2_3031.path1	2	blat.proc4169.chain_162,c15591_f1p0_940.path1,c3333_f1p0_1879.path1	3
AmTr_v1.0_scaffold00166	alternate_exon	760622	760957	-	asmbl_5320	none	blat.proc4190.chain_248,blat.proc4198.chain_149,c11195_f1p1_2201.path1,c14677_f1p0_2093.path1	4	blat.proc4200.chain_218,c886_f3p1_2043.path1	2
AmTr_v1.0_scaffold00009	retained_intron	9243472	9243853	+	asmbl_847	none	blat.proc4143.chain_35,c4476_f1p1_3467.path1	2	blat.proc4225.chain_245,c628_f4p1_2843.path1	2
AmTr_v1.0_scaffold00066	ends_in_intron	314530	314530	+	asmbl_3684	none	blat.proc4212.chain_117,c15433_f1p0_1925.path1	2	blat.proc4202.chain_139,c1421_f2p0_1761.path1	2
AmTr_v1.0_scaffold00017	spliced_intron	2205798	2205965	-	asmbl_1333	none	blat.proc4192.chain_140,c569_f6p11_1716.path1	2	blat.proc4177.chain_87,blat.proc4181.chain_100,c1953_f2p0_1967.path1,c354_f15p10_1885.path1	4
AmTr_v1.0_scaffold00044	spliced_intron	1319266	1319533	+	asmbl_2684	none	blat.proc4219.chain_103,c727_f2p1_2934.path1	2	blat.proc4227.chain_177,c1170_f2p3_3259.path1	2
AmTr_v1.0_scaffold00019	spliced_intron	6330392	6330634	-	asmbl_1517	none	blat.proc4196.chain_50,c2617_f1p2_1996.path1,c622_f4p2_2832.path1	3	blat.proc4219.chain_79,c680_f3p1_3046.path1	2
AmTr_v1.0_scaffold00057	spliced_intron	2797390	2797467	-	asmbl_3242	none	blat.proc4141.chain_49,c3523_f1p5_3237.path1	2	blat.proc4141.chain_12,blat.proc4141.chain_250,c2463_f1p6_3325.path1,c263_f2p7_3117.path1	4
AmTr_v1.0_scaffold00027	alt_acceptor	5366145	5366146	+	asmbl_2018	none	blat.proc4185.chain_128,c7727_f1p5_1946.path1	2	blat.proc4135.chain_92,blat.proc4183.chain_51,blat.proc4194.chain_19,blat.proc4209.chain_198,c1045_f2p8_1996.path1,c11491_f1p7_1932.path1,c132_f4p5_2117.path1,c3566_f1p0_1878.path1	8
AmTr_v1.0_scaffold00045	spliced_intron	209355	209467	+	asmbl_2721	none	blat.proc4139.chain_200,blat.proc4200.chain_117,c4820_f1p1_1652.path1,c633_f5p5_1641.path1	4	blat.proc4196.chain_127,c4238_f2p2_1662.path1	2
AmTr_v1.0_scaffold00084	alt_acceptor	186062	186063	+	asmbl_4218	none	blat.proc4135.chain_110,c204_f3p1_1808.path1	2	blat.proc4205.chain_110,c3820_f1p1_1779.path1	2
AmTr_v1.0_scaffold00061	retained_intron	2569259	2569439	-	asmbl_3520	none	blat.proc4190.chain_1,c12161_f1p1_2095.path1	2	blat.proc4188.chain_17,blat.proc4202.chain_52,blat.proc4202.chain_79,blat.proc4212.chain_99,c1123_f1p2_1887.path1,c1202_f2p3_2009.path1,c15077_f1p2_1788.path1,c9526_f1p1_1711.path1	8
AmTr_v1.0_scaffold00058	retained_intron	1305561	1305632	+	asmbl_3292	none	blat.proc4181.chain_222,c2614_f1p1_1708.path1	2	blat.proc4135.chain_208,c579_f1p0_1673.path1	2
AmTr_v1.0_scaffold00010	starts_in_intron	3469880	3469880	+	asmbl_887	none	c4128_f1p2_1739.path1	1	blat.proc4209.chain_22,c7726_f1p1_2114.path1	2
AmTr_v1.0_scaffold00011	starts_in_intron	8789394	8789394	-	asmbl_1032	none	blat.proc4196.chain_176,c5404_f1p0_1936.path1	2	blat.proc4139.chain_12,c169_f2p0_1634.path1	2
AmTr_v1.0_scaffold00068	retained_exon	3570330	3570392	+	asmbl_3827	none	c15627_f1p1_2197.path1	1	blat.proc4190.chain_200,c14214_f1p2_2094.path1,c1802_f2p2_1915.path1	3
AmTr_v1.0_scaffold00165	alternate_exon	191769	191814	+	asmbl_5304	none	blat.proc4129.chain_138,c751_f1p2_1083.path1	2	blat.proc4177.chain_141,blat.proc4188.chain_39,blat.proc4196.chain_88,blat.proc4212.chain_188,c16645_f3p3_1804.path1,c3367_f1p7_1834.path1,c692_f5p4_1937.path1,c9829_f1p3_1686.path1	8
AmTr_v1.0_scaffold00078	retained_intron	2551727	2552490	+	asmbl_4133	none	blat.proc4231.chain_27,c8487_f1p2_2770.path1	2	blat.proc4179.chain_133,c1324_f3p2_2396.path1	2
AmTr_v1.0_scaffold00138	alt_acceptor	48546	48547	+	asmbl_5066	none	blat.proc4194.chain_266,c1902_f2p4_1932.path1	2	blat.proc4137.chain_28,blat.proc4179.chain_103,blat.proc4179.chain_247,blat.proc4200.chain_252,c1251_f3p5_2126.path1,c14034_f1p4_2010.path1,c1617_f2p3_1969.path1,c2262_f1p2_2097.path1,c969_f3p5_2226.path1	9
AmTr_v1.0_scaffold00017	spliced_intron	4684916	4686558	+	asmbl_1361	none	blat.proc4179.chain_176,c1443_f2p10_2662.path1	2	blat.proc4177.chain_148,blat.proc4181.chain_209,blat.proc4185.chain_24,blat.proc4190.chain_44,blat.proc4192.chain_113,blat.proc4192.chain_263,blat.proc4200.chain_148,blat.proc4212.chain_234,blat.proc4212.chain_256,blat.proc4212.chain_260,blat.proc4214.chain_87,blat.proc4219.chain_32,blat.proc4221.chain_196,blat.proc4225.chain_43,blat.proc4227.chain_201,blat.proc4231.chain_143,blat.proc4231.chain_56,blat.proc4231.chain_72,c10377_f1p9_3177.path1,c10618_f1p6_2801.path1,c1251_f2p7_2652.path1,c12583_f1p9_2368.path1,c12673_f1p15_4296.path1,c2373_f2p2_1919.path1,c271_f5p7_2808.path1,c3086_f1p14_4095.path1,c342_f3p7_3126.path1,c358_f2p11_3065.path1,c458_f7p5_1670.path1,c576_f5p11_2951.path1,c6361_f1p4_1556.path1,c660_f3p7_3005.path1,c706_f4p7_1810.path1,c710_f6p5_1896.path1,c9685_f1p6_3415.path1,c975_f3p12_2164.path1	36
AmTr_v1.0_scaffold00071	spliced_intron	760002	760089	-	asmbl_3907	none	blat.proc4188.chain_105,blat.proc4194.chain_208,blat.proc4219.chain_56,c10556_f1p1_1833.path1,c1695_f2p4_2460.path1,c633_f3p3_2800.path1	6	blat.proc4188.chain_175,c11305_f1p0_2208.path1	2
AmTr_v1.0_scaffold00003	retained_intron	1538603	1538723	+	asmbl_350	none	c7697_f1p0_2134.path1	1	blat.proc4177.chain_207,blat.proc4198.chain_232,blat.proc4200.chain_29,blat.proc4209.chain_74,c15662_f2p4_2149.path1,c5040_f1p5_2244.path1,c8923_f1p6_2217.path1,c896_f4p4_2361.path1	8
AmTr_v1.0_scaffold00053	spliced_intron	2722206	2722310	+	asmbl_3094,asmbl_3095	none	blat.proc4223.chain_96,blat.proc4227.chain_131,c1034_f2p0_2961.path1,c6041_f1p3_2727.path1	4	blat.proc4212.chain_236,blat.proc4212.chain_249,blat.proc4216.chain_235,blat.proc4223.chain_263,blat.proc4227.chain_59,c274_f5p7_2966.path1,c321_f5p5_2848.path1,c356_f7p7_3003.path1,c824_f3p7_3054.path1,c9570_f1p0_2952.path1	10
AmTr_v1.0_scaffold00058	spliced_intron	1719857	1720015	+	asmbl_3301	none	blat.proc4192.chain_5,blat.proc4209.chain_237,c12386_f1p3_1906.path1,c14953_f2p1_1954.path1	4	blat.proc4229.chain_109,c2651_f1p0_2915.path1	2
AmTr_v1.0_scaffold00024	spliced_intron	6606145	6606359	+	asmbl_1855	none	blat.proc4139.chain_223,blat.proc4219.chain_158,blat.proc4223.chain_9,blat.proc4225.chain_231,blat.proc4231.chain_54,c4525_f1p2_2805.path1,c598_f3p6_2829.path1,c6884_f1p2_3332.path1,c868_f2p2_2930.path1,c9593_f1p7_2934.path1	10	blat.proc4221.chain_119,c1751_f1p1_3031.path1	2
AmTr_v1.0_scaffold00062	alt_acceptor	3645984	3645985	-	asmbl_3585,asmbl_3586	none	blat.proc4188.chain_225,blat.proc4221.chain_155,c11762_f1p0_2183.path1,c2374_f1p2_2932.path1	4	blat.proc4183.chain_90,blat.proc4214.chain_118,blat.proc4229.chain_58,blat.proc4231.chain_75,c10540_f1p7_2748.path1,c1704_f1p6_2779.path1,c3937_f1p1_2667.path1,c802_f2p3_2640.path1	8
AmTr_v1.0_scaffold00021	alt_donor	1071846	1071847	-	asmbl_1569	none	blat.proc4177.chain_184,blat.proc4183.chain_219,c5463_f2p2_1793.path1,c810_f5p1_1840.path1	4	c15457_f2p1_1817.path1	1
AmTr_v1.0_scaffold00039	alt_acceptor	1497245	1497246	+	asmbl_2506	none	blat.proc4145.chain_99,c1624_f2p0_965.path1	2	blat.proc4143.chain_243,c955_f4p0_999.path1	2
AmTr_v1.0_scaffold00027	retained_exon	4416985	4417129	+	asmbl_2012	none	blat.proc4135.chain_74,blat.proc4179.chain_12,blat.proc4198.chain_219,blat.proc4209.chain_116,c1071_f3p3_2099.path1,c13243_f1p4_1876.path1,c3950_f1p0_1956.path1,c9761_f1p2_1676.path1	8	blat.proc4188.chain_227,c11777_f1p0_1959.path1	2
AmTr_v1.0_scaffold00076	alt_acceptor	3343125	3343126	+	asmbl_4025	none	blat.proc4185.chain_249,c9230_f1p0_2110.path1	2	blat.proc4135.chain_98,c157_f3p0_1935.path1	2
AmTr_v1.0_scaffold00062	retained_exon	2355525	2355894	+	asmbl_3569	none	blat.proc4131.chain_270,c236_f2p0_1970.path1	2	blat.proc4205.chain_220,c6317_f1p3_1689.path1	2
AmTr_v1.0_scaffold00057	alt_donor	2798843	2798844	-	asmbl_3241	none	blat.proc4209.chain_4,c1097_f3p3_1847.path1,c7426_f1p2_1660.path1	3	blat.proc4141.chain_49,c3523_f1p5_3237.path1	2
AmTr_v1.0_scaffold00049	retained_exon	3511878	3511971	-	asmbl_2995	none	blat.proc4209.chain_203,c11592_f1p0_1561.path1	2	blat.proc4129.chain_28,c232_f3p1_1264.path1	2
AmTr_v1.0_scaffold00106	skipped_exon	87985	89993	-	asmbl_4653	none	blat.proc4139.chain_69,blat.proc4212.chain_220,blat.proc4216.chain_186,blat.proc4216.chain_199,c11662_f2p12_2709.path1,c205_f7p26_2852.path1,c4742_f1p5_2955.path1,c52_f3p27_2961.path1	8	blat.proc4205.chain_190,c3511_f2p2_2700.path1,c5559_f1p6_2905.path1	3
AmTr_v1.0_scaffold00092	alt_donor	1161308	1161309	-	asmbl_4391	none	blat.proc4198.chain_64,blat.proc4216.chain_145,blat.proc4216.chain_97,blat.proc4223.chain_27,c10270_f1p9_2968.path1,c16172_f1p4_1775.path1,c4855_f1p3_2719.path1,c8745_f1p6_3165.path1,c8889_f1p2_2433.path1	9	blat.proc4214.chain_204,c1556_f1p6_2895.path1	2
AmTr_v1.0_scaffold00117	alt_donor	1633088	1633089	+	asmbl_4850	none	blat.proc4141.chain_264,blat.proc4143.chain_97,blat.proc4227.chain_1,blat.proc4229.chain_9,c1456_f2p3_3000.path1,c3062_f1p2_2831.path1,c6721_f1p2_3203.path1,c698_f3p3_3330.path1	8	blat.proc4133.chain_134,c167_f2p0_2221.path1	2
AmTr_v1.0_scaffold00104	retained_intron	1583849	1584031	-	asmbl_4636	none	blat.proc4209.chain_102,c9365_f1p4_1851.path1	2	blat.proc4179.chain_27,c1102_f3p2_1658.path1	2
AmTr_v1.0_scaffold00060	spliced_intron	532345	532435	+	asmbl_3451	none	blat.proc4196.chain_40,c2455_f1p2_1622.path1	2	blat.proc4139.chain_18,c190_f2p1_3142.path1	2
AmTr_v1.0_scaffold00024	alternate_exon	4895414	4895537	-	asmbl_1823	none	blat.proc4212.chain_218,c196_f8p5_2875.path1	2	blat.proc4214.chain_35,c497_f3p4_2784.path1	2
AmTr_v1.0_scaffold00132	alt_acceptor	675860	675861	+	asmbl_5006	none	blat.proc4183.chain_104,blat.proc4190.chain_183,c14059_f1p1_2418.path1,c4084_f1p2_1802.path1	4	blat.proc4196.chain_200,c5970_f1p3_1659.path1	2
AmTr_v1.0_scaffold00049	alt_acceptor	1344895	1344896	+	asmbl_2968	none	blat.proc4192.chain_200,c789_f4p1_1991.path1	2	blat.proc4171.chain_242,c1746_f2p0_1117.path1	2
AmTr_v1.0_scaffold00058	retained_intron	549219	549305	+	asmbl_3275	none	blat.proc4212.chain_41,c13930_f1p2_1953.path1	2	blat.proc4131.chain_252,blat.proc4135.chain_48,blat.proc4188.chain_44,blat.proc4192.chain_220,blat.proc4205.chain_43,c148_f2p0_1767.path1,c2111_f1p0_1772.path1,c2261_f1p3_1826.path1,c844_f3p2_1828.path1,c9887_f1p0_1863.path1	10
AmTr_v1.0_scaffold00009	starts_in_intron	6447524	6447524	-	asmbl_805	none	c2517_f1p0_3041.path1	1	blat.proc4219.chain_210,c1012_f2p4_2814.path1	2
AmTr_v1.0_scaffold00101	ends_in_intron	2547307	2547307	-	asmbl_4584	none	blat.proc4221.chain_40,c1214_f2p1_2879.path1	2	blat.proc4135.chain_232,blat.proc4194.chain_214,blat.proc4196.chain_208,blat.proc4196.chain_77,blat.proc4205.chain_118,blat.proc4209.chain_71,blat.proc4212.chain_226,blat.proc4214.chain_15,blat.proc4219.chain_199,blat.proc4219.chain_204,blat.proc4229.chain_166,c1073_f1p0_1928.path1,c1714_f2p7_2069.path1,c228_f8p8_2871.path1,c3195_f1p6_1715.path1,c3987_f1p3_2282.path1,c4000_f1p9_2977.path1,c443_f3p7_3001.path1,c6197_f1p6_2013.path1,c8861_f1p5_1760.path1,c973_f2p2_3026.path1,c985_f2p6_2824.path1	22
AmTr_v1.0_scaffold00033	spliced_intron	1438181	1438637	+	asmbl_2287	none	blat.proc4137.chain_63,blat.proc4141.chain_107,blat.proc4181.chain_63,blat.proc4183.chain_167,blat.proc4185.chain_122,blat.proc4200.chain_38,blat.proc4202.chain_190,c15781_f6p18_1719.path1,c1623_f2p8_1612.path1,c1852_f2p9_1870.path1,c3094_f1p3_1591.path1,c4816_f1p10_1725.path1,c55_f4p2_1709.path1,c7665_f1p7_1751.path1	14	blat.proc4229.chain_242,c6694_f1p0_2569.path1	2
AmTr_v1.0_scaffold00025	alt_donor	2869110	2869111	-	asmbl_1923	none	blat.proc4135.chain_80,blat.proc4177.chain_91,blat.proc4200.chain_102,c2685_f1p0_1353.path1,c422_f16p6_1809.path1,c575_f4p11_1681.path1,c84_f5p4_1783.path1	7	blat.proc4177.chain_119,blat.proc4179.chain_63,c1180_f3p5_1765.path1,c621_f7p5_1857.path1	4
AmTr_v1.0_scaffold00009	retained_intron	7252043	7252187	-	asmbl_814	none	blat.proc4181.chain_169,blat.proc4225.chain_213,blat.proc4227.chain_24,c2115_f2p0_1792.path1,c544_f3p2_2730.path1,c742_f2p2_2743.path1	6	blat.proc4196.chain_56,c2754_f1p1_1695.path1	2
AmTr_v1.0_scaffold00001	retained_intron	9781898	9781974	-	asmbl_117	none	blat.proc4125.chain_128,c1922_f1p0_1456.path1	2	blat.proc4214.chain_155,blat.proc4223.chain_104,c6266_f1p1_2675.path1,c962_f2p1_2670.path1	4
AmTr_v1.0_scaffold00109	alternate_exon	831987	832719	-	asmbl_4729	none	blat.proc4181.chain_9,c1701_f2p0_1813.path1	2	blat.proc4137.chain_190,c5829_f1p0_1968.path1	2
AmTr_v1.0_scaffold00010	alt_donor	4299473	4299474	-	asmbl_903	none	blat.proc4131.chain_54,c3333_f1p1_1046.path1	2	blat.proc4198.chain_143,c10968_f1p0_2760.path1	2
AmTr_v1.0_scaffold00131	retained_intron	617974	620086	+	asmbl_4988	none	blat.proc4223.chain_84,c5819_f1p2_3010.path1	2	blat.proc4185.chain_33,c6491_f1p3_2032.path1	2
AmTr_v1.0_scaffold00059	alt_donor	1266064	1266065	-	asmbl_3386	none	blat.proc4229.chain_53,c1614_f1p1_2763.path1	2	c10943_f1p1_1658.path1	1
AmTr_v1.0_scaffold00106	spliced_intron	87985	88136	-	asmbl_4656	none	blat.proc4231.chain_235,c14778_f9p7_2700.path1	2	blat.proc4225.chain_190,c489_f8p22_2847.path1	2
AmTr_v1.0_scaffold00103	retained_intron	1505615	1506773	-	asmbl_4613	none	blat.proc4229.chain_100,c2373_f1p1_2961.path1	2	blat.proc4133.chain_163,c623_f1p0_1807.path1	2
AmTr_v1.0_scaffold00140	retained_intron	1332177	1332290	+	asmbl_5084	none	blat.proc4133.chain_264,blat.proc4135.chain_166,blat.proc4205.chain_206,c394_f2p3_1829.path1,c5991_f1p6_1734.path1,c70_f3p2_1832.path1	6	blat.proc4183.chain_89,c3933_f1p5_1842.path1	2
AmTr_v1.0_scaffold00092	retained_intron	631243	631963	+	asmbl_4381	none	blat.proc4229.chain_47,c1582_f1p2_2836.path1	2	blat.proc4212.chain_215,blat.proc4216.chain_34,blat.proc4225.chain_249,c178_f9p9_2870.path1,c5758_f1p9_2735.path1,c640_f3p5_2922.path1	6
AmTr_v1.0_scaffold00183	retained_intron	471937	472828	+	asmbl_5459	none	blat.proc4131.chain_75,blat.proc4181.chain_253,c2915_f1p0_1790.path1,c3712_f1p0_1036.path1	4	blat.proc4171.chain_61,c646_f7p1_991.path1	2
AmTr_v1.0_scaffold00049	alt_donor	4108267	4108268	+	asmbl_3011,asmbl_3012	none	c2304_f1p0_2111.path1,c775_f3p6_2885.path1	2	blat.proc4137.chain_204,blat.proc4181.chain_237,blat.proc4183.chain_183,blat.proc4214.chain_59,blat.proc4225.chain_133,blat.proc4225.chain_136,c10424_f1p3_2869.path1,c10860_f1p2_1967.path1,c11759_f2p0_2883.path1,c11847_f3p5_2819.path1,c134_f12p19_2905.path1,c14656_f10p17_2928.path1,c174_f10p20_2886.path1,c2792_f1p3_2412.path2,c5031_f1p1_1936.path1,c552_f4p6_2878.path1,c5952_f1p0_1745.path1	17
AmTr_v1.0_scaffold00001	alternate_exon	352846	353128	+	asmbl_15,asmbl_16	none	blat.proc4219.chain_101,blat.proc4225.chain_174,blat.proc4227.chain_237,c1342_f2p2_2842.path1,c444_f6p5_2667.path1,c723_f3p2_2787.path1	6	blat.proc4214.chain_151,c954_f2p3_2838.path1	2
AmTr_v1.0_scaffold00011	alt_donor	8659531	8659532	-	asmbl_1027	none	blat.proc4179.chain_62,c1178_f3p0_1946.path1	2	blat.proc4200.chain_24,c15623_f1p2_2037.path1	2
AmTr_v1.0_scaffold00048	starts_in_intron	734335	734335	+	asmbl_2895	none	blat.proc4223.chain_91,c5935_f1p4_2934.path1	2	blat.proc4139.chain_254,blat.proc4216.chain_28,c1052_f2p4_2866.path1,c5631_f4p5_2982.path1,c80_f3p0_3113.path1	5
AmTr_v1.0_scaffold00077	alternate_exon	2324626	2324982	-	asmbl_4070	none	c1114_f2p9_2770.path1,c1190_f1p7_2878.path1	2	c1758_f1p8_2885.path1	1
AmTr_v1.0_scaffold00052	alt_acceptor	2841188	2841189	-	asmbl_3066,asmbl_3067	none	blat.proc4221.chain_185,blat.proc4229.chain_119,c2839_f1p3_2698.path1,c2890_f1p1_2820.path1	4	blat.proc4212.chain_231,blat.proc4214.chain_56,blat.proc4223.chain_247,c248_f6p7_2783.path1,c548_f2p0_2674.path1,c9197_f1p7_2761.path1	6
AmTr_v1.0_scaffold00016	alt_acceptor	2703337	2703338	+	asmbl_1255	none	blat.proc4231.chain_67,c10303_f1p3_3098.path1	2	blat.proc4229.chain_79,c1956_f1p3_3136.path1	2
AmTr_v1.0_scaffold00021	alternate_exon	1923568	1923741	+	asmbl_1581	none	c405_f4p0_2752.path1	1	blat.proc4196.chain_35,c2428_f1p0_2388.path1	2
AmTr_v1.0_scaffold00009	spliced_intron	9243472	9243769	+	asmbl_848	none	blat.proc4219.chain_21,c547_f4p5_2927.path1	2	blat.proc4143.chain_35,c4476_f1p1_3467.path1	2
AmTr_v1.0_scaffold00029	alt_acceptor	5464440	5464441	+	asmbl_2125	none	blat.proc4212.chain_247,c317_f5p3_2805.path1	2	blat.proc4214.chain_29,c484_f3p3_2750.path1	2
AmTr_v1.0_scaffold00095	starts_in_intron	1532520	1532520	-	asmbl_4452	none	blat.proc4229.chain_90,c2130_f1p1_2838.path1	2	blat.proc4139.chain_203,blat.proc4183.chain_53,blat.proc4209.chain_154,c1795_f2p1_1878.path1,c3579_f1p1_1672.path1,c5114_f1p0_1547.path1	6
AmTr_v1.0_scaffold00066	alt_donor	3570606	3570607	-	asmbl_3743	none	blat.proc4194.chain_259,c1872_f2p1_1917.path1	2	blat.proc4133.chain_266,blat.proc4133.chain_34,blat.proc4137.chain_66,blat.proc4188.chain_150,c10982_f1p2_1754.path1,c1806_f1p1_1945.path1,c3178_f1p1_1765.path1,c92_f3p0_1895.path1	8
AmTr_v1.0_scaffold00006	alternate_exon	7436844	7437136	-	asmbl_588	none	blat.proc4188.chain_181,c11371_f1p2_1841.path1	2	c1885_f2p2_1608.path1	1
AmTr_v1.0_scaffold00095	retained_intron	1998259	1998743	+	asmbl_4464	none	blat.proc4188.chain_146,c10944_f1p1_1797.path1	2	blat.proc4183.chain_206,blat.proc4223.chain_259,c5280_f1p0_2074.path1,c9444_f1p2_2789.path1	4
AmTr_v1.0_scaffold00016	alt_acceptor	1231024	1231025	+	asmbl_1236	none	blat.proc4223.chain_225,c8782_f1p2_2666.path1	2	c269_f2p1_3109.path1	1
AmTr_v1.0_scaffold00066	ends_in_intron	3569658	3569658	-	asmbl_3741	none	blat.proc4133.chain_266,blat.proc4137.chain_66,c3178_f1p1_1765.path1,c92_f3p0_1895.path1	4	blat.proc4133.chain_34,c1806_f1p1_1945.path1	2
AmTr_v1.0_scaffold00119	retained_intron	858635	858820	-	asmbl_4878	none	blat.proc4190.chain_119,blat.proc4212.chain_240,blat.proc4229.chain_122,c13418_f1p1_1810.path1,c2930_f2p1_2881.path1,c294_f5p3_2771.path1	6	blat.proc4227.chain_41,c783_f3p5_2770.path1	2
AmTr_v1.0_scaffold00058	spliced_intron	550412	550518	+	asmbl_3276	none	blat.proc4135.chain_48,c2111_f1p0_1772.path1	2	blat.proc4188.chain_44,c9887_f1p0_1863.path1	2
AmTr_v1.0_scaffold00052	spliced_intron	2819962	2820035	-	asmbl_3065,asmbl_3066	none	blat.proc4194.chain_181,blat.proc4212.chain_231,blat.proc4214.chain_56,blat.proc4223.chain_247,blat.proc4229.chain_119,c1612_f2p4_1917.path1,c248_f6p7_2783.path1,c2839_f1p3_2698.path1,c548_f2p0_2674.path1,c9197_f1p7_2761.path1	10	blat.proc4221.chain_185,c2890_f1p1_2820.path1	2
AmTr_v1.0_scaffold00056	retained_intron	3379908	3379983	+	asmbl_3189,asmbl_3191	none	blat.proc4216.chain_159,blat.proc4219.chain_255,blat.proc4229.chain_4,c10740_f1p2_2979.path1,c1103_f2p1_3102.path1,c1435_f2p1_2832.path1	6	blat.proc4219.chain_192,c961_f2p0_2761.path1	2
AmTr_v1.0_scaffold00025	retained_exon	652559	652600	+	asmbl_1873	none	blat.proc4214.chain_116,c791_f2p8_2695.path1	2	blat.proc4214.chain_166,blat.proc4216.chain_119,blat.proc4227.chain_51,c1011_f2p10_2780.path1,c809_f3p8_2953.path1,c9340_f1p8_2915.path1	6
AmTr_v1.0_scaffold00018	spliced_intron	770498	770760	-	asmbl_1393	none	blat.proc4196.chain_213,c6412_f1p2_1890.path1	2	blat.proc4185.chain_229,c9036_f1p0_2295.path1	2
AmTr_v1.0_scaffold00058	alternate_exon	3367287	3367489	+	asmbl_3338	none	blat.proc4129.chain_111,c488_f2p3_1168.path1	2	blat.proc4129.chain_60,c334_f2p3_1058.path1	2
AmTr_v1.0_scaffold00010	skipped_exon	8749662	8757259	+	asmbl_972	none	blat.proc4229.chain_194,c4864_f1p5_2839.path1	2	blat.proc4227.chain_91,c911_f3p4_2845.path1	2
AmTr_v1.0_scaffold00106	skipped_exon	1138963	1145481	+	asmbl_4672,asmbl_4673	none	blat.proc4137.chain_131,blat.proc4177.chain_209,blat.proc4179.chain_102,blat.proc4183.chain_120,blat.proc4200.chain_260,c1250_f3p6_2042.path1,c4252_f1p5_2151.path1,c4580_f1p1_1917.path1,c898_f4p3_1871.path1,c988_f3p6_1910.path1	10	blat.proc4196.chain_104,c3720_f1p4_1930.path1	2
AmTr_v1.0_scaffold00037	retained_exon	498811	499145	+	asmbl_2427	none	blat.proc4198.chain_110,c10005_f1p0_1653.path1	2	c4192_f1p0_1246.path1	1
AmTr_v1.0_scaffold00009	retained_intron	6436872	6437028	-	asmbl_805	none	c2517_f1p0_3041.path1	1	blat.proc4196.chain_210,blat.proc4198.chain_152,blat.proc4219.chain_210,c1012_f2p4_2814.path1,c11268_f1p2_1921.path1,c6293_f1p2_1719.path1	6
AmTr_v1.0_scaffold00010	alt_acceptor	664658	664659	-	asmbl_863	none	blat.proc4177.chain_127,blat.proc4200.chain_132,blat.proc4200.chain_184,c652_f8p2_2070.path1,c665_f4p2_1690.path1,c801_f1p2_1793.path1	6	blat.proc4194.chain_262,c1888_f2p2_1797.path1	2
AmTr_v1.0_scaffold00033	retained_intron	2236716	2236996	+	asmbl_2299	none	blat.proc4209.chain_66,c8751_f1p1_1699.path1	2	blat.proc4125.chain_265,c97_f3p2_1371.path1	2
AmTr_v1.0_scaffold00021	skipped_exon	5760244	5762874	+	asmbl_1623	none	blat.proc4185.chain_72,blat.proc4194.chain_73,c1250_f2p1_1737.path1,c6978_f1p0_1860.path1	4	blat.proc4181.chain_242,c2835_f1p0_1831.path1	2
AmTr_v1.0_scaffold00077	retained_exon	2496292	2496669	+	asmbl_4075	none	blat.proc4133.chain_270,blat.proc4133.chain_44,blat.proc4137.chain_14,blat.proc4200.chain_18,blat.proc4200.chain_211,c109_f3p0_2050.path1,c15568_f1p4_2233.path1,c1919_f1p1_1739.path1,c2223_f1p1_1901.path1,c870_f4p9_2175.path1	10	blat.proc4183.chain_76,c3755_f3p0_1687.path1	2
AmTr_v1.0_scaffold00010	alt_acceptor	8757258	8757259	+	asmbl_972	none	blat.proc4229.chain_194,c4864_f1p5_2839.path1	2	blat.proc4227.chain_91,c911_f3p4_2845.path1	2
AmTr_v1.0_scaffold00025	spliced_intron	2162139	2162480	+	asmbl_1907	none	blat.proc4205.chain_2,blat.proc4223.chain_154,blat.proc4223.chain_179,c1659_f2p0_1748.path1,c1892_f2p2_2115.path1,c7388_f1p6_3691.path1,c7804_f1p5_2801.path1	7	blat.proc4231.chain_41,c9157_f1p1_2834.path1	2
AmTr_v1.0_scaffold00029	alt_acceptor	5121995	5121996	+	asmbl_2119	none	c1213_f3p2_1813.path1	1	c1477_f2p1_1843.path1	1
AmTr_v1.0_scaffold00056	starts_in_intron	1527276	1527276	+	asmbl_3165	none	blat.proc4221.chain_227,c3627_f1p3_2641.path1	2	blat.proc4179.chain_202,blat.proc4219.chain_8,blat.proc4221.chain_106,c1496_f1p9_3662.path1,c1514_f2p4_2656.path1,c520_f4p8_2994.path1	6
AmTr_v1.0_scaffold00052	alt_acceptor	1620349	1620350	-	asmbl_3059	none	blat.proc4216.chain_44,c6300_f1p5_2833.path1	2	blat.proc4227.chain_149,c1079_f2p2_2982.path1	2
AmTr_v1.0_scaffold00019	spliced_intron	6326143	6326272	-	asmbl_1520	none	blat.proc4174.chain_74,c2575_f2p0_989.path1	2	blat.proc4196.chain_50,blat.proc4214.chain_20,blat.proc4219.chain_79,c2617_f1p2_1996.path1,c461_f3p1_2837.path1,c622_f4p2_2832.path1,c680_f3p1_3046.path1	7
AmTr_v1.0_scaffold00046	skipped_exon	4644167	4649096	+	asmbl_2834	none	blat.proc4141.chain_257,blat.proc4221.chain_98,c1375_f2p0_2538.path1,c2825_f1p1_1655.path1	4	blat.proc4190.chain_227,c14480_f1p0_1706.path1	2
AmTr_v1.0_scaffold00017	retained_exon	4680433	4682273	+	asmbl_1355,asmbl_1356,asmbl_1358,asmbl_1359,asmbl_1363,asmbl_1364	none	blat.proc4137.chain_75,blat.proc4177.chain_126,blat.proc4177.chain_148,blat.proc4183.chain_23,blat.proc4185.chain_24,blat.proc4185.chain_248,blat.proc4192.chain_93,blat.proc4200.chain_107,blat.proc4202.chain_245,blat.proc4202.chain_32,blat.proc4221.chain_196,blat.proc4227.chain_201,blat.proc4231.chain_143,blat.proc4231.chain_56,c1080_f3p11_1843.path1,c1251_f2p7_2652.path1,c12673_f1p15_4296.path1,c12870_f1p5_2283.path1,c1830_f2p17_2423.path1,c3086_f1p14_4095.path1,c313_f14p20_2536.path1,c3271_f1p5_2273.path1,c3336_f1p1_1960.path1,c498_f6p12_2936.path1,c589_f4p16_1721.path1,c6361_f1p4_1556.path1,c650_f6p14_2013.path1,c710_f6p5_1896.path1,c9211_f1p6_2676.path1,c9685_f1p6_3415.path1	30	blat.proc4194.chain_22,c1056_f2p1_1939.path1	2
AmTr_v1.0_scaffold00011	spliced_intron	8788086	8788430	-	asmbl_1033	none	blat.proc4139.chain_12,c169_f2p0_1634.path1	2	blat.proc4196.chain_176,c5404_f1p0_1936.path1	2
AmTr_v1.0_scaffold00121	retained_intron	1425637	1425737	+	asmbl_4907	none	blat.proc4221.chain_229,c3661_f1p3_3058.path1	2	blat.proc4225.chain_35,blat.proc4229.chain_259,c10505_f1p0_2964.path1,c7398_f1p7_2984.path1,c953_f2p6_2815.path1	5
AmTr_v1.0_scaffold00059	alt_acceptor	1119071	1119072	-	asmbl_3381	none	blat.proc4192.chain_216,c832_f4p4_1936.path1	2	blat.proc4133.chain_263,blat.proc4202.chain_221,c1751_f2p5_1817.path1,c62_f2p1_1769.path1	4
AmTr_v1.0_scaffold00003	retained_exon	1249968	1251504	+	asmbl_339	none	blat.proc4225.chain_91,blat.proc4231.chain_120,c11720_f1p5_2592.path1,c12163_f1p4_2832.path1	4	blat.proc4139.chain_9	1
AmTr_v1.0_scaffold00036	retained_intron	4563149	4563772	-	asmbl_2414	none	blat.proc4231.chain_159,c13254_f1p0_2695.path1	2	blat.proc4133.chain_156,c522_f1p1_1986.path1	2
AmTr_v1.0_scaffold00001	retained_intron	2143504	2143961	+	asmbl_47	none	blat.proc4185.chain_75,c7009_f1p1_1808.path1	2	blat.proc4183.chain_52,blat.proc4200.chain_116,blat.proc4200.chain_243,c3572_f1p3_1885.path1,c630_f3p13_1851.path1,c947_f3p8_1805.path1	6
AmTr_v1.0_scaffold00175	spliced_intron	241652	242420	+	asmbl_5383	none	blat.proc4141.chain_169,blat.proc4143.chain_89,blat.proc4225.chain_167,blat.proc4225.chain_229,blat.proc4229.chain_128,c3003_f1p11_2679.path1,c338_f2p0_3184.path1,c420_f6p14_3022.path1,c596_f2p10_2896.path1,c6459_f1p5_3152.path1	10	blat.proc4221.chain_141,c2092_f1p1_2646.path1	2
AmTr_v1.0_scaffold00029	spliced_intron	6011311	6011516	+	asmbl_2140	none	blat.proc4200.chain_247,c957_f3p3_2050.path1	2	blat.proc4181.chain_10,c1705_f2p2_2278.path1	2
AmTr_v1.0_scaffold00068	alt_donor	1900596	1900597	+	asmbl_3812	none	blat.proc4169.chain_200,blat.proc4169.chain_242,c17109_f2p2_898.path1,c17646_f2p2_1013.path1	4	blat.proc4188.chain_199,c11542_f1p0_2017.path1	2
AmTr_v1.0_scaffold00071	alt_donor	3228381	3228382	-	asmbl_3949,asmbl_3950	none	blat.proc4192.chain_128,blat.proc4192.chain_63,blat.proc4212.chain_139,c15541_f1p3_1944.path1,c15788_f2p2_1957.path1,c519_f6p8_1976.path1	6	blat.proc4198.chain_206,c12896_f1p6_1870.path1	2
AmTr_v1.0_scaffold00002	alternate_exon	5808965	5809215	+	asmbl_213	none	blat.proc4223.chain_99,blat.proc4227.chain_19,c6119_f2p7_2838.path1,c732_f3p1_2681.path1	4	blat.proc4188.chain_98,c10451_f1p0_2576.path1	2
AmTr_v1.0_scaffold00053	alternate_exon	2740138	2740602	+	asmbl_3094	none	blat.proc4227.chain_131,c1034_f2p0_2961.path1	2	blat.proc4223.chain_263,c9570_f1p0_2952.path1	2
AmTr_v1.0_scaffold00002	retained_intron	3820348	3820450	+	asmbl_184	none	blat.proc4231.chain_202,c14463_f1p0_3130.path1	2	blat.proc4179.chain_256,c1648_f2p0_1797.path1	2
AmTr_v1.0_scaffold00058	retained_exon	3229059	3229187	+	asmbl_3330	none	blat.proc4219.chain_5,c501_f5p2_2878.path1	2	blat.proc4214.chain_148,blat.proc4225.chain_171,c435_f6p6_2754.path1,c945_f2p1_2754.path1	4
AmTr_v1.0_scaffold00019	retained_intron	7174120	7174204	+	asmbl_1540	none	blat.proc4141.chain_22,c577_f1p3_3106.path1	2	blat.proc4216.chain_9,blat.proc4229.chain_187,c4637_f1p4_2830.path1,c4916_f1p3_2829.path1	4
AmTr_v1.0_scaffold00083	alt_acceptor	1796438	1796439	-	asmbl_4215	none	blat.proc4131.chain_247,blat.proc4137.chain_110,blat.proc4196.chain_232,c126_f2p1_1975.path1,c4131_f1p1_1868.path1,c6752_f1p3_1581.path1	6	c1391_f2p0_2109.path1	1
AmTr_v1.0_scaffold00177	retained_intron	715768	716099	+	asmbl_5426	none	blat.proc4212.chain_16,c13396_f1p0_1944.path1	2	blat.proc4205.chain_184,c5480_f1p2_1638.path1	2
AmTr_v1.0_scaffold00038	alt_donor	3303939	3303940	+	asmbl_2477	none	blat.proc4198.chain_130,c10491_f1p1_1775.path1	2	blat.proc4185.chain_106,c7387_f1p2_1746.path1	2
AmTr_v1.0_scaffold00021	skipped_exon	3347896	3372575	-	asmbl_1593	none	blat.proc4205.chain_183,c5477_f1p1_2414.path1	2	blat.proc4133.chain_162,c619_f1p0_2175.path1	2
AmTr_v1.0_scaffold00010	ends_in_intron	4056532	4056532	+	asmbl_896	none	blat.proc4198.chain_150,c11202_f1p3_1942.path1	2	blat.proc4177.chain_237,blat.proc4200.chain_4,blat.proc4214.chain_71,c14965_f1p2_2054.path1,c592_f3p2_2958.path1,c964_f4p1_2291.path1	6
AmTr_v1.0_scaffold00066	spliced_intron	161417	161525	+	asmbl_3680	none	blat.proc4147.chain_255,c10634_f1p0_968.path1	2	blat.proc4188.chain_72,c10177_f1p0_1932.path1	2
AmTr_v1.0_scaffold00010	alt_acceptor	8757187	8757188	+	asmbl_971	none	blat.proc4227.chain_91,c911_f3p4_2845.path1	2	blat.proc4229.chain_194,c4864_f1p5_2839.path1	2
AmTr_v1.0_scaffold00057	retained_intron	310864	310994	-	asmbl_3205	none	blat.proc4205.chain_51,c2408_f1p0_1734.path1	2	blat.proc4143.chain_59,blat.proc4185.chain_63,c5450_f1p0_1865.path1,c6813_f1p1_1638.path1	4
AmTr_v1.0_scaffold00008	alternate_exon	3784666	3784731	+	asmbl_741	none	blat.proc4214.chain_24,c473_f3p3_2898.path1	2	blat.proc4139.chain_255,c88_f3p5_3115.path1	2
AmTr_v1.0_scaffold00047	alternate_exon	1324047	1324901	-	asmbl_2858	none	c2290_f1p0_1589.path1	1	blat.proc4223.chain_28,c4860_f1p2_3031.path1	2
AmTr_v1.0_scaffold00131	ends_in_intron	621069	621069	+	asmbl_4988	none	blat.proc4223.chain_84,c5819_f1p2_3010.path1	2	blat.proc4129.chain_123,blat.proc4137.chain_249,blat.proc4185.chain_33,blat.proc4188.chain_197,blat.proc4190.chain_141,blat.proc4194.chain_243,c11523_f1p3_2127.path1,c13648_f1p3_2187.path1,c1818_f2p1_1976.path1,c598_f1p0_1526.path1,c6491_f1p3_2032.path1,c6546_f2p0_1747.path1	12
AmTr_v1.0_scaffold00047	starts_in_intron	636861	636861	+	asmbl_2848	none	blat.proc4174.chain_214,c9750_f1p1_1029.path1	2	blat.proc4227.chain_112,c970_f2p1_2714.path1	2
AmTr_v1.0_scaffold00040	retained_intron	1455222	1455396	-	asmbl_2553	none	blat.proc4190.chain_73,c12928_f1p1_1882.path1	2	blat.proc4183.chain_249,c5793_f1p1_1554.path1	2
AmTr_v1.0_scaffold00071	ends_in_intron	905593	905593	-	asmbl_3910	none	blat.proc4185.chain_141,c7861_f1p0_1935.path1	2	blat.proc4181.chain_69,blat.proc4188.chain_187,c11409_f1p1_2507.path1,c1865_f2p1_2370.path1	4
AmTr_v1.0_scaffold00001	alt_donor	4454332	4454333	-	asmbl_71	none	c9646_f1p0_2064.path1	1	blat.proc4198.chain_92,c9111_f1p1_1433.path1	2
AmTr_v1.0_scaffold00058	alternate_exon	2449150	2449415	-	asmbl_3316,asmbl_3317	none	blat.proc4131.chain_103,blat.proc4141.chain_255,c141_f2p0_1744.path1,c2662_f1p3_1767.path1,c4152_f1p4_1020.path1	5	blat.proc4135.chain_207,c578_f1p6_2203.path1	2
AmTr_v1.0_scaffold00001	spliced_intron	9781898	9781974	-	asmbl_116	none	blat.proc4214.chain_155,blat.proc4223.chain_104,c6266_f1p1_2675.path1,c962_f2p1_2670.path1	4	blat.proc4125.chain_128,c1922_f1p0_1456.path1	2
AmTr_v1.0_scaffold00001	spliced_intron	119814	120523	+	asmbl_2,asmbl_3,asmbl_5	none	blat.proc4125.chain_55,blat.proc4127.chain_150,blat.proc4127.chain_250,blat.proc4129.chain_222,blat.proc4129.chain_256,blat.proc4137.chain_255,blat.proc4143.chain_141,blat.proc4143.chain_200,blat.proc4143.chain_28,blat.proc4145.chain_153,blat.proc4169.chain_218,blat.proc4169.chain_244,blat.proc4171.chain_1,blat.proc4192.chain_7,blat.proc4192.chain_90,blat.proc4194.chain_41,blat.proc4196.chain_197,blat.proc4200.chain_45,blat.proc4212.chain_191,blat.proc4212.chain_194,blat.proc4212.chain_202,c1139_f2p16_1908.path1,c143_f4p6_1498.path1,c14969_f2p7_2079.path1,c15807_f4p109_1859.path1,c16654_f10p72_1753.path1,c16666_f100p87_1754.path1,c16714_f2p29_1622.path1,c17501_f16p15_998.path1,c17666_f11p16_1154.path1,c17781_f14p5_947.path1,c1917_f2p2_1166.path1,c2025_f1p3_1644.path1,c2507_f1p5_1316.path1,c265_f5p26_1652.path1,c2694_f1p2_1655.path1,c288_f4p12_1312.path1,c295_f2p3_1199.path1,c4289_f1p10_1621.path1,c5931_f1p11_1725.path1,c6681_f1p7_1722.path1,c760_f7p23_1141.path1	42	blat.proc4221.chain_159,c2398_f1p2_2890.path1	2
AmTr_v1.0_scaffold00048	ends_in_intron	434964	434964	+	asmbl_2887	none	blat.proc4229.chain_201,c5154_f1p0_2720.path1	2	blat.proc4188.chain_1,c9425_f1p1_2122.path1	2
AmTr_v1.0_scaffold00170	retained_intron	736334	736457	+	asmbl_5351	none	blat.proc4135.chain_111,c206_f3p1_2184.path1	2	blat.proc4125.chain_143,blat.proc4129.chain_97,blat.proc4169.chain_180,blat.proc4174.chain_69,blat.proc4179.chain_82,c1215_f3p0_2066.path1,c16233_f1p1_935.path1,c2251_f1p2_1093.path1,c2539_f2p0_931.path1,c462_f2p2_1154.path1	10
AmTr_v1.0_scaffold00121	retained_exon	1460318	1460473	+	asmbl_4907	none	blat.proc4221.chain_229,c3661_f1p3_3058.path1	2	blat.proc4225.chain_35,blat.proc4229.chain_259,c10505_f1p0_2964.path1,c7398_f1p7_2984.path1,c953_f2p6_2815.path1	5
AmTr_v1.0_scaffold00002	alt_acceptor	2110314	2110315	-	asmbl_164,asmbl_165	none	blat.proc4188.chain_245,blat.proc4198.chain_100,c11939_f1p1_1769.path1,c9814_f1p1_1872.path1	4	blat.proc4194.chain_65,c1217_f2p0_1962.path1	2
AmTr_v1.0_scaffold00104	alt_acceptor	1733618	1733619	+	asmbl_4640	none	blat.proc4214.chain_161,c998_f2p0_2688.path1	2	blat.proc4183.chain_196,blat.proc4196.chain_1,blat.proc4205.chain_134,c1908_f2p2_2017.path1,c4210_f1p2_2053.path1,c5113_f1p0_2038.path1	6
AmTr_v1.0_scaffold00002	retained_intron	3820680	3821459	+	asmbl_184	none	blat.proc4231.chain_202,c14463_f1p0_3130.path1	2	blat.proc4179.chain_256,c1648_f2p0_1797.path1	2
AmTr_v1.0_scaffold00085	alt_acceptor	1342951	1342952	-	asmbl_4242	none	blat.proc4219.chain_30,c569_f4p0_2756.path1	2	blat.proc4196.chain_209,blat.proc4212.chain_257,blat.proc4219.chain_161,c344_f4p0_2645.path1,c6209_f1p3_1777.path1,c873_f2p1_2628.path1	6
AmTr_v1.0_scaffold00083	retained_intron	1805515	1805625	-	asmbl_4216	none	c1391_f2p0_2109.path1	1	blat.proc4131.chain_247,blat.proc4137.chain_110,blat.proc4196.chain_232,c126_f2p1_1975.path1,c4131_f1p1_1868.path1,c6752_f1p3_1581.path1	6
AmTr_v1.0_scaffold00025	alt_acceptor	6172158	6172159	-	asmbl_1991	none	c11489_f1p0_1726.path1	1	blat.proc4141.chain_203,blat.proc4179.chain_152,blat.proc4188.chain_70,c10171_f1p0_2086.path1,c1379_f2p0_2200.path1,c807_f1p4_2618.path1	6
AmTr_v1.0_scaffold00025	alt_donor	4499727	4499728	-	asmbl_1958,asmbl_1959	none	blat.proc4141.chain_137,blat.proc4219.chain_208,c1004_f2p0_2623.path1,c181_f2p2_3245.path1	4	blat.proc4209.chain_105,c9399_f1p0_1776.path1	2
AmTr_v1.0_scaffold00029	spliced_intron	5917095	5917451	-	asmbl_2136	none	blat.proc4181.chain_152,blat.proc4196.chain_181,c2067_f2p0_1817.path1,c5473_f1p0_1939.path1	4	blat.proc4212.chain_179,c16502_f1p1_2292.path1	2
AmTr_v1.0_scaffold00106	ends_in_intron	1137219	1137219	+	asmbl_4674	none	blat.proc4192.chain_247,c916_f3p3_1913.path1	2	blat.proc4137.chain_131,blat.proc4177.chain_209,blat.proc4179.chain_102,blat.proc4183.chain_120,blat.proc4196.chain_104,blat.proc4200.chain_260,c1250_f3p6_2042.path1,c3720_f1p4_1930.path1,c4252_f1p5_2151.path1,c4580_f1p1_1917.path1,c898_f4p3_1871.path1,c988_f3p6_1910.path1	12
AmTr_v1.0_scaffold00085	alt_acceptor	1342866	1342867	-	asmbl_4240,asmbl_4241	none	blat.proc4196.chain_209,blat.proc4212.chain_257,blat.proc4219.chain_161,c344_f4p0_2645.path1,c6209_f1p3_1777.path1,c873_f2p1_2628.path1	6	blat.proc4219.chain_30,c569_f4p0_2756.path1	2
AmTr_v1.0_scaffold00002	spliced_intron	7062325	7062728	-	asmbl_232	none	blat.proc4171.chain_32,c496_f11p2_990.path1	2	blat.proc4223.chain_198,c8194_f1p1_3089.path1	2
AmTr_v1.0_scaffold00025	skipped_exon	4158489	4159084	-	asmbl_1951	none	blat.proc4181.chain_93,c1939_f2p1_1811.path1	2	blat.proc4137.chain_239,blat.proc4181.chain_67,c15603_f2p2_1867.path1,c1858_f2p2_1978.path1,c6498_f1p5_1687.path1	5
AmTr_v1.0_scaffold00048	alt_donor	1562077	1562078	-	asmbl_2906	none	blat.proc4143.chain_241,blat.proc4190.chain_155,blat.proc4192.chain_236,blat.proc4200.chain_244,blat.proc4200.chain_33,c13737_f1p3_2387.path1,c15701_f1p4_2009.path1,c878_f2p4_1872.path1,c948_f6p0_1037.path1,c951_f4p3_2159.path1	10	blat.proc4185.chain_263,blat.proc4229.chain_60,c1740_f1p2_3608.path1,c9396_f1p0_1897.path1	4
AmTr_v1.0_scaffold00012	alt_donor	6980969	6980970	-	asmbl_1090,asmbl_1091,asmbl_1095	none	blat.proc4171.chain_65,blat.proc4174.chain_110,blat.proc4177.chain_52,blat.proc4177.chain_68,blat.proc4177.chain_98,blat.proc4179.chain_183,blat.proc4190.chain_209,blat.proc4190.chain_99,blat.proc4192.chain_110,blat.proc4192.chain_99,blat.proc4194.chain_34,blat.proc4200.chain_87,c1104_f3p7_1898.path1,c13232_f1p6_2004.path1,c14288_f1p0_1517.path1,c14359_f1p3_1109.path1,c14473_f3p1_1002.path1,c1462_f2p2_1885.path1,c3808_f1p7_1197.path1,c393_f8p11_1772.path1,c450_f3p8_1761.path1,c492_f8p6_1652.path1,c526_f5p12_1651.path1,c666_f4p5_1087.path1	24	blat.proc4169.chain_208,blat.proc4174.chain_63,blat.proc4194.chain_30,blat.proc4200.chain_114,c1092_f3p4_1781.path1,c17326_f6p1_1111.path1,c2500_f2p0_1094.path1,c619_f5p8_1728.path1	8
AmTr_v1.0_scaffold00020	ends_in_intron	2967969	2967969	+	asmbl_1547	none	blat.proc4137.chain_164,c5495_f1p1_2093.path1	2	blat.proc4202.chain_148,c1459_f2p2_2175.path1	2
AmTr_v1.0_scaffold00002	alt_acceptor	3819045	3819046	+	asmbl_184	none	blat.proc4231.chain_202,c14463_f1p0_3130.path1	2	blat.proc4179.chain_256,c1648_f2p0_1797.path1	2
AmTr_v1.0_scaffold00132	starts_in_intron	675751	675751	+	asmbl_5007	none	blat.proc4209.chain_120,c9867_f1p2_2520.path1	2	blat.proc4190.chain_183,blat.proc4196.chain_200,c14059_f1p1_2418.path1,c5970_f1p3_1659.path1	4
AmTr_v1.0_scaffold00109	alt_donor	928686	928687	+	asmbl_4734	none	blat.proc4223.chain_40,c5063_f1p0_2621.path1	2	blat.proc4221.chain_24,c1185_f2p0_2845.path1	2
AmTr_v1.0_scaffold00049	retained_intron	1344816	1344896	+	asmbl_2967	none	blat.proc4147.chain_176,blat.proc4147.chain_249,blat.proc4181.chain_44,c10428_f1p1_862.path1,c1805_f2p0_2070.path1,c7259_f2p1_1011.path1	6	blat.proc4192.chain_200,c789_f4p1_1991.path1	2
AmTr_v1.0_scaffold00041	spliced_intron	2807406	2807484	-	asmbl_2628	none	blat.proc4133.chain_217,c2731_f1p0_2080.path1	2	blat.proc4190.chain_72,c12896_f1p1_2042.path1	2
AmTr_v1.0_scaffold00017	retained_intron	2057740	2057821	+	asmbl_1329,asmbl_1331	none	blat.proc4141.chain_71,blat.proc4221.chain_236,c3745_f1p0_3171.path1,c5580_f1p1_1683.path1	4	blat.proc4190.chain_39,c12515_f1p0_1909.path1	2
AmTr_v1.0_scaffold00033	retained_intron	1439009	1439401	+	asmbl_2288	none	blat.proc4229.chain_242,c6694_f1p0_2569.path1	2	blat.proc4131.chain_122,blat.proc4137.chain_63,blat.proc4141.chain_107,blat.proc4169.chain_101,blat.proc4177.chain_58,blat.proc4181.chain_63,blat.proc4183.chain_167,blat.proc4185.chain_122,blat.proc4200.chain_38,blat.proc4202.chain_190,c14032_f1p3_1093.path1,c14392_f6p0_1023.path1,c15781_f6p18_1719.path1,c1623_f2p8_1612.path1,c1852_f2p9_1870.path1,c3094_f1p3_1591.path1,c4412_f1p2_1148.path1,c4816_f1p10_1725.path1,c55_f4p2_1709.path1,c7665_f1p7_1751.path1	20
AmTr_v1.0_scaffold00006	retained_intron	9058867	9058939	-	asmbl_607	none	blat.proc4181.chain_106,c1964_f2p6_1894.path1	2	blat.proc4171.chain_8,blat.proc4174.chain_218,blat.proc4177.chain_77,blat.proc4179.chain_52,blat.proc4192.chain_24,blat.proc4194.chain_191,blat.proc4200.chain_13,blat.proc4205.chain_136,c1158_f3p7_1715.path1,c15139_f47p25_1871.path1,c15282_f1p12_1495.path1,c1649_f2p35_2040.path1,c17829_f3p3_963.path1,c4258_f1p21_1779.path1,c43_f34p29_1899.path1,c9944_f1p3_1066.path1	16
AmTr_v1.0_scaffold00088	alt_acceptor	2434130	2434131	+	asmbl_4313	none	blat.proc4131.chain_264,blat.proc4137.chain_97,c207_f2p2_2251.path1,c3943_f1p1_1846.path1	4	blat.proc4194.chain_163,blat.proc4227.chain_94,c1557_f2p1_2361.path1,c915_f2p0_3016.path1	4
AmTr_v1.0_scaffold00001	spliced_intron	457141	457235	+	asmbl_21	none	blat.proc4229.chain_87,c2100_f1p7_2845.path1	2	blat.proc4185.chain_131,blat.proc4196.chain_38,blat.proc4219.chain_102,c2435_f1p1_1757.path1,c724_f3p1_2818.path1,c7752_f2p2_1900.path1	6
AmTr_v1.0_scaffold00011	ends_in_intron	8445224	8445224	+	asmbl_1024	none	blat.proc4133.chain_190,c1455_f1p0_1804.path1	2	blat.proc4219.chain_98,blat.proc4221.chain_203,blat.proc4229.chain_247,c3274_f1p9_2932.path1,c6918_f1p14_3575.path1,c720_f3p7_2833.path1	6
AmTr_v1.0_scaffold00010	alternate_exon	8566734	8566900	-	asmbl_966	none	blat.proc4174.chain_27,c2124_f2p1_984.path1	2	blat.proc4133.chain_47,blat.proc4135.chain_178,blat.proc4174.chain_189,blat.proc4174.chain_205,c1167_f2p0_2118.path1,c2277_f1p3_1712.path1,c431_f2p0_1928.path1,c8436_f1p1_1176.path1,c8995_f1p1_865.path1	9
AmTr_v1.0_scaffold00029	retained_intron	4354975	4355183	-	asmbl_2105	none	blat.proc4133.chain_110,blat.proc4216.chain_3,c4220_f1p0_1976.path1,c4746_f1p5_2811.path1	4	blat.proc4216.chain_67,c7378_f1p8_2977.path1	2
AmTr_v1.0_scaffold00049	skipped_exon	1457025	1458255	+	asmbl_2973	none	blat.proc4133.chain_184,c1229_f1p0_2097.path1	2	blat.proc4214.chain_104,c728_f2p0_2818.path1	2
AmTr_v1.0_scaffold00044	alt_acceptor	1610888	1610889	+	asmbl_2691	none	blat.proc4216.chain_120,c9455_f1p0_2657.path1	2	blat.proc4221.chain_16,c1170_f2p0_2709.path1	2
AmTr_v1.0_scaffold00082	alt_acceptor	1533793	1533794	-	asmbl_4202	none	blat.proc4135.chain_109,c203_f3p1_1942.path1	2	blat.proc4177.chain_122,blat.proc4181.chain_111,c1970_f2p2_2217.path1,c636_f7p2_2083.path1	4
AmTr_v1.0_scaffold00135	alt_acceptor	368170	368171	-	asmbl_5022	none	blat.proc4137.chain_41,blat.proc4229.chain_107,c2607_f1p6_2904.path1,c2732_f1p0_2488.path1	4	blat.proc4143.chain_15,blat.proc4196.chain_264,blat.proc4231.chain_64,c10264_f1p8_2798.path1,c3717_f1p2_2957.path1,c7330_f1p2_1692.path1	6
AmTr_v1.0_scaffold00051	spliced_intron	3983262	3983384	+	asmbl_3045,asmbl_3046,asmbl_3047	none	blat.proc4127.chain_247,blat.proc4129.chain_26,blat.proc4137.chain_207,blat.proc4145.chain_62,blat.proc4177.chain_151,blat.proc4183.chain_161,blat.proc4194.chain_55,blat.proc4196.chain_154,blat.proc4200.chain_72,blat.proc4205.chain_90,blat.proc4221.chain_151,c1191_f2p1_1624.path1,c1381_f3p2_1107.path1,c138_f2p3_1089.path1,c227_f1p2_1213.path1,c2293_f1p0_2960.path1,c3452_f1p8_1963.path1,c429_f8p7_1895.path1,c4715_f1p1_1904.path1,c4784_f1p10_1686.path1,c5976_f1p4_1970.path1,c720_f5p5_2005.path1,c9415_f1p3_1817.path1	23	blat.proc4143.chain_83,c6259_f1p3_3096.path1	2
AmTr_v1.0_scaffold00002	retained_exon	7584632	7584751	+	asmbl_236,asmbl_237	none	blat.proc4137.chain_263,blat.proc4137.chain_265,blat.proc4139.chain_237,blat.proc4139.chain_93,blat.proc4141.chain_142,blat.proc4143.chain_136,blat.proc4143.chain_137,blat.proc4181.chain_101,blat.proc4181.chain_216,blat.proc4205.chain_149,blat.proc4209.chain_152,blat.proc4212.chain_57,blat.proc4214.chain_222,blat.proc4216.chain_56,blat.proc4221.chain_129,blat.proc4223.chain_184,blat.proc4225.chain_126,blat.proc4225.chain_5,blat.proc4229.chain_82,blat.proc4231.chain_204,c10731_f1p12_2042.path1,c11983_f1p2_2832.path1,c14506_f3p13_2643.path1,c1887_f1p7_2642.path1,c1954_f2p2_2318.path1,c1992_f1p15_2744.path1,c218_f2p3_3067.path1,c2521_f1p1_2135.path1,c2597_f1p15_3123.path1,c27_f2p4_3296.path1,c4624_f1p8_2408.path1,c46_f2p6_3009.path1,c57_f3p6_3134.path1,c6751_f1p5_2764.path1,c7783_f1p6_3347.path1,c7834_f2p8_3497.path1,c7851_f1p10_3316.path1,c7869_f1p14_2952.path1,c9785_f1p14_2970.path1	39	blat.proc4188.chain_229,c11796_f1p3_2010.path1	2
AmTr_v1.0_scaffold00025	alt_acceptor	4513892	4513893	-	asmbl_1958	none	blat.proc4141.chain_137	1	c181_f2p2_3245.path1	1
AmTr_v1.0_scaffold00054	alt_acceptor	2410613	2410614	+	asmbl_3109	none	blat.proc4145.chain_145,c1878_f2p0_1010.path1	2	blat.proc4179.chain_61,c1176_f3p0_1625.path1	2
AmTr_v1.0_scaffold00039	retained_intron	4760378	4761536	-	asmbl_2536	none	blat.proc4221.chain_1,c1131_f2p0_3036.path1	2	blat.proc4177.chain_95,blat.proc4185.chain_254,blat.proc4196.chain_157,c4801_f1p5_1797.path1,c480_f9p2_1922.path1,c9295_f1p2_1660.path1	6
AmTr_v1.0_scaffold00002	starts_in_intron	5809853	5809853	+	asmbl_215	none	blat.proc4221.chain_233,c3714_f1p5_2788.path1	2	blat.proc4188.chain_98,blat.proc4223.chain_99,blat.proc4227.chain_19,c10451_f1p0_2576.path1,c6119_f2p7_2838.path1,c732_f3p1_2681.path1	6
AmTr_v1.0_scaffold00012	retained_intron	6446526	6446679	+	asmbl_1084	none	blat.proc4190.chain_212,c14322_f1p0_1981.path1	2	blat.proc4214.chain_12,c435_f3p3_2994.path1	2
AmTr_v1.0_scaffold00001	starts_in_intron	188397	188397	+	asmbl_13	none	blat.proc4221.chain_234,c3729_f1p0_2822.path1	2	blat.proc4190.chain_197,c14200_f1p1_1811.path1	2
AmTr_v1.0_scaffold00012	spliced_intron	6983302	6983369	-	asmbl_1090,asmbl_1092,asmbl_1093,asmbl_1095	none	blat.proc4177.chain_96,blat.proc4177.chain_98,blat.proc4179.chain_183,blat.proc4181.chain_137,blat.proc4190.chain_99,blat.proc4192.chain_110,blat.proc4192.chain_99,blat.proc4194.chain_30,blat.proc4194.chain_34,blat.proc4196.chain_100,blat.proc4200.chain_114,blat.proc4200.chain_87,blat.proc4212.chain_184,c1092_f3p4_1781.path1,c1104_f3p7_1898.path1,c13232_f1p6_2004.path1,c1462_f2p2_1885.path1,c16555_f3p5_1690.path1,c2038_f2p0_1937.path1,c3523_f1p5_1587.path1,c393_f8p11_1772.path1,c450_f3p8_1761.path1,c483_f11p8_1850.path1,c492_f8p6_1652.path1,c526_f5p12_1651.path1,c619_f5p8_1728.path1	26	blat.proc4190.chain_209,blat.proc4198.chain_265,c14288_f1p0_1517.path1,c14728_f1p4_1842.path1	4
AmTr_v1.0_scaffold00106	alternate_exon	88137	88165	-	asmbl_4656	none	blat.proc4231.chain_235,c14778_f9p7_2700.path1	2	blat.proc4139.chain_69,blat.proc4205.chain_190,blat.proc4212.chain_220,blat.proc4216.chain_186,blat.proc4216.chain_199,c11662_f2p12_2709.path1,c205_f7p26_2852.path1,c3511_f2p2_2700.path1,c4742_f1p5_2955.path1,c52_f3p27_2961.path1,c5559_f1p6_2905.path1	11
AmTr_v1.0_scaffold00130	alt_acceptor	820007	820008	-	asmbl_4965	none	blat.proc4200.chain_190,c816_f4p0_1902.path1	2	blat.proc4185.chain_265,c9408_f1p0_1908.path1	2
AmTr_v1.0_scaffold00009	alt_donor	2577336	2577337	+	asmbl_764	none	blat.proc4194.chain_102,c1353_f2p2_2259.path1	2	blat.proc4137.chain_248,blat.proc4190.chain_81,blat.proc4231.chain_223,c12982_f1p2_2431.path1,c14609_f1p11_2938.path1,c52_f3p4_3104.path1,c6534_f1p1_2986.path1	7
AmTr_v1.0_scaffold00058	retained_intron	548215	548284	+	asmbl_3278,asmbl_3280	none	blat.proc4192.chain_220,blat.proc4205.chain_43,c2261_f1p3_1826.path1,c844_f3p2_1828.path1	4	blat.proc4131.chain_252,blat.proc4135.chain_48,blat.proc4188.chain_44,blat.proc4212.chain_41,c13930_f1p2_1953.path1,c148_f2p0_1767.path1,c2111_f1p0_1772.path1,c9887_f1p0_1863.path1	8
AmTr_v1.0_scaffold00156	skipped_exon	795711	808617	-	asmbl_5236	none	blat.proc4219.chain_61,c645_f3p1_2838.path1	2	blat.proc4219.chain_212,c1018_f2p5_2984.path1	2
AmTr_v1.0_scaffold00149	skipped_exon	179469	185768	+	asmbl_5173	none	blat.proc4198.chain_50,c8427_f1p0_1833.path1	2	blat.proc4141.chain_65,blat.proc4205.chain_192,c5246_f1p1_1585.path1,c5583_f1p4_2001.path1	4
AmTr_v1.0_scaffold00012	starts_in_intron	5353309	5353309	-	asmbl_1074	none	blat.proc4177.chain_226,c934_f4p1_1843.path1	2	blat.proc4200.chain_41,c15799_f2p1_1881.path1	2
AmTr_v1.0_scaffold00147	alt_donor	466590	466591	+	asmbl_5143	none	blat.proc4219.chain_95,c716_f3p1_2682.path1	2	blat.proc4216.chain_24,c5308_f1p0_2686.path1	2
AmTr_v1.0_scaffold00071	alt_donor	2414121	2414122	-	asmbl_3935	none	blat.proc4169.chain_233,blat.proc4192.chain_98,blat.proc4198.chain_51,c17611_f4p5_979.path1,c379_f9p7_1826.path1,c8434_f1p7_1708.path1	6	blat.proc4147.chain_47,c3083_f1p1_929.path1	2
AmTr_v1.0_scaffold00002	retained_intron	9132449	9132537	+	asmbl_275	none	blat.proc4229.chain_237,c6484_f1p2_2828.path1	2	blat.proc4139.chain_15,c182_f2p0_2659.path1	2
AmTr_v1.0_scaffold00010	spliced_intron	4045951	4046628	+	asmbl_895,asmbl_896	none	blat.proc4177.chain_237,blat.proc4198.chain_150,blat.proc4200.chain_4,c11202_f1p3_1942.path1,c14965_f1p2_2054.path1,c964_f4p1_2291.path1	6	blat.proc4214.chain_71,c592_f3p2_2958.path1	2
AmTr_v1.0_scaffold00001	alternate_exon	122431	123699	+	asmbl_6	none	blat.proc4179.chain_116,blat.proc4192.chain_95,blat.proc4229.chain_207,c1270_f3p7_1876.path1,c321_f5p13_1759.path1,c5441_f1p3_2563.path1	6	blat.proc4177.chain_89,blat.proc4192.chain_34,c15233_f24p19_1848.path1,c399_f14p18_1801.path1	4
AmTr_v1.0_scaffold00013	retained_exon	5121468	5121585	-	asmbl_1157	none	blat.proc4137.chain_137,blat.proc4190.chain_97,c13223_f1p0_2045.path1,c4795_f1p0_1898.path1	4	blat.proc4212.chain_165,c16209_f1p1_1884.path1	2
AmTr_v1.0_scaffold00034	retained_exon	1957748	1957901	+	asmbl_2356	none	blat.proc4139.chain_16,c184_f2p2_3041.path1	2	blat.proc4225.chain_25,c10229_f1p0_2923.path1	2
AmTr_v1.0_scaffold00019	skipped_exon	7033978	7034985	+	asmbl_1535	none	c3236_f1p1_1254.path1	1	blat.proc4177.chain_100,blat.proc4192.chain_70,c15582_f5p1_1672.path1,c545_f4p1_1771.path1	4
AmTr_v1.0_scaffold00059	ends_in_intron	624541	624541	+	asmbl_3370	none	blat.proc4125.chain_161,c2546_f1p1_1260.path1	2	blat.proc4137.chain_114,blat.proc4177.chain_176,blat.proc4202.chain_33,c1085_f3p1_1775.path1,c4255_f1p2_1766.path1,c790_f6p2_1710.path1	6
AmTr_v1.0_scaffold00052	spliced_intron	2426082	2426338	-	asmbl_3062	none	blat.proc4183.chain_127,c4312_f1p0_2488.path1	2	blat.proc4221.chain_177,c2743_f1p1_2784.path1	2
AmTr_v1.0_scaffold00044	alternate_exon	3468237	3468496	-	asmbl_2712	none	blat.proc4183.chain_99,c4060_f1p5_1587.path1	2	blat.proc4177.chain_180,blat.proc4200.chain_163,c743_f4p1_1713.path1,c805_f5p4_1725.path1	4
AmTr_v1.0_scaffold00017	ends_in_intron	4687934	4687934	+	asmbl_1359,asmbl_1364	none	blat.proc4183.chain_23,blat.proc4214.chain_87,c3271_f1p5_2273.path1,c660_f3p7_3005.path1	4	blat.proc4137.chain_75,blat.proc4177.chain_126,blat.proc4179.chain_176,blat.proc4181.chain_209,blat.proc4185.chain_248,blat.proc4190.chain_44,blat.proc4192.chain_113,blat.proc4192.chain_263,blat.proc4192.chain_93,blat.proc4194.chain_22,blat.proc4200.chain_107,blat.proc4200.chain_148,blat.proc4202.chain_245,blat.proc4202.chain_32,blat.proc4212.chain_234,blat.proc4212.chain_260,blat.proc4219.chain_16,blat.proc4219.chain_32,blat.proc4221.chain_196,blat.proc4231.chain_143,blat.proc4231.chain_56,blat.proc4231.chain_72,c10377_f1p9_3177.path1,c1056_f2p1_1939.path1,c1080_f3p11_1843.path1,c12583_f1p9_2368.path1,c12673_f1p15_4296.path1,c12870_f1p5_2283.path1,c1443_f2p10_2662.path1,c1830_f2p17_2423.path1,c2373_f2p2_1919.path1,c271_f5p7_2808.path1,c3086_f1p14_4095.path1,c313_f14p20_2536.path1,c3336_f1p1_1960.path1,c358_f2p11_3065.path1,c458_f7p5_1670.path1,c498_f6p12_2936.path1,c540_f5p10_3071.path1,c576_f5p11_2951.path1,c589_f4p16_1721.path1,c650_f6p14_2013.path1,c706_f4p7_1810.path1,c9211_f1p6_2676.path1,c9685_f1p6_3415.path1,c975_f3p12_2164.path1	46
AmTr_v1.0_scaffold00088	retained_intron	2430403	2430715	+	asmbl_4315	none	blat.proc4227.chain_94,c915_f2p0_3016.path1	2	blat.proc4131.chain_264,c207_f2p2_2251.path1	2
AmTr_v1.0_scaffold00022	alt_donor	3864187	3864188	-	asmbl_1696	none	blat.proc4202.chain_56,c1138_f3p0_2005.path1	2	blat.proc4183.chain_257,c5892_f1p1_1930.path1	2
AmTr_v1.0_scaffold00009	alt_acceptor	6444100	6444101	-	asmbl_804	none	blat.proc4196.chain_210,blat.proc4198.chain_152,blat.proc4219.chain_210,c1012_f2p4_2814.path1,c11268_f1p2_1921.path1,c6293_f1p2_1719.path1	6	c2517_f1p0_3041.path1	1
AmTr_v1.0_scaffold00044	retained_intron	1717021	1718191	+	asmbl_2695	none	blat.proc4137.chain_228,c6319_f1p0_2120.path1	2	blat.proc4139.chain_132,blat.proc4185.chain_176,c253_f2p0_1792.path1,c8284_f1p4_2041.path1	4
AmTr_v1.0_scaffold00077	spliced_intron	122726	123078	+	asmbl_4028	none	blat.proc4190.chain_63,c12808_f1p1_1805.path1	2	blat.proc4188.chain_46,c9924_f1p0_1814.path1	2
AmTr_v1.0_scaffold00022	alt_acceptor	5436266	5436267	-	asmbl_1719	none	blat.proc4219.chain_40,c594_f4p2_2739.path1	2	blat.proc4188.chain_228,blat.proc4196.chain_150,c11787_f1p1_1840.path1,c4680_f1p3_2220.path1	4
AmTr_v1.0_scaffold00066	ends_in_intron	3569660	3569660	-	asmbl_3743	none	blat.proc4194.chain_259,c1872_f2p1_1917.path1	2	blat.proc4133.chain_34,c1806_f1p1_1945.path1	2
AmTr_v1.0_scaffold00106	alternate_exon	89009	90096	-	asmbl_4654	none	blat.proc4205.chain_190,c3511_f2p2_2700.path1,c5559_f1p6_2905.path1	3	blat.proc4231.chain_235,c14778_f9p7_2700.path1	2
AmTr_v1.0_scaffold00049	spliced_intron	4139063	4139214	+	asmbl_3014	none	c1822_f2p2_2431.path1	1	blat.proc4205.chain_260,c7247_f1p1_1889.path1	2
AmTr_v1.0_scaffold00009	spliced_intron	6913052	6913177	+	asmbl_811	none	blat.proc4145.chain_219,c2357_f2p0_1006.path1	2	blat.proc4129.chain_237,c2223_f1p2_1258.path1	2
AmTr_v1.0_scaffold00168	retained_intron	242864	242947	-	asmbl_5325	none	blat.proc4135.chain_146,c327_f2p0_2162.path1	2	blat.proc4205.chain_167,c4984_f1p4_2091.path1	2
AmTr_v1.0_scaffold00092	starts_in_intron	493624	493624	+	asmbl_4379	none	blat.proc4198.chain_198,c12710_f1p3_2109.path1	2	blat.proc4131.chain_36,blat.proc4135.chain_60,blat.proc4135.chain_9,blat.proc4137.chain_165,blat.proc4205.chain_24,blat.proc4205.chain_83,blat.proc4216.chain_196,blat.proc4216.chain_259,blat.proc4231.chain_189,blat.proc4231.chain_229,c11820_f1p8_2685.path1,c14179_f1p9_2940.path1,c14695_f10p11_2771.path1,c172_f2p0_1892.path1,c2007_f1p1_1764.path1,c3147_f1p2_1258.path1,c3203_f1p0_1763.path1,c3355_f1p1_2203.path1,c473_f3p3_2896.path1,c5518_f1p1_2416.path1	20
AmTr_v1.0_scaffold00017	retained_intron	4684916	4686558	+	asmbl_1355,asmbl_1359	none	blat.proc4177.chain_148,blat.proc4181.chain_209,blat.proc4185.chain_24,blat.proc4190.chain_44,blat.proc4192.chain_113,blat.proc4192.chain_263,blat.proc4200.chain_148,blat.proc4212.chain_234,blat.proc4212.chain_256,blat.proc4212.chain_260,blat.proc4214.chain_87,blat.proc4219.chain_32,blat.proc4221.chain_196,blat.proc4225.chain_43,blat.proc4227.chain_201,blat.proc4231.chain_143,blat.proc4231.chain_56,blat.proc4231.chain_72,c10377_f1p9_3177.path1,c10618_f1p6_2801.path1,c1251_f2p7_2652.path1,c12583_f1p9_2368.path1,c12673_f1p15_4296.path1,c2373_f2p2_1919.path1,c271_f5p7_2808.path1,c3086_f1p14_4095.path1,c342_f3p7_3126.path1,c358_f2p11_3065.path1,c458_f7p5_1670.path1,c576_f5p11_2951.path1,c6361_f1p4_1556.path1,c660_f3p7_3005.path1,c706_f4p7_1810.path1,c710_f6p5_1896.path1,c9685_f1p6_3415.path1,c975_f3p12_2164.path1	36	blat.proc4179.chain_176,c1443_f2p10_2662.path1	2
AmTr_v1.0_scaffold00012	ends_in_intron	7964729	7964729	-	asmbl_1111	none	blat.proc4127.chain_165,c2926_f1p1_1230.path1	2	blat.proc4135.chain_87,c125_f4p2_1725.path1	2
AmTr_v1.0_scaffold00002	alt_acceptor	2113738	2113739	-	asmbl_163,asmbl_164,asmbl_166	none	blat.proc4183.chain_126,blat.proc4188.chain_245,blat.proc4194.chain_65,c11939_f1p1_1769.path1,c1217_f2p0_1962.path1,c4276_f1p1_2028.path1	6	blat.proc4198.chain_100,c9814_f1p1_1872.path1	2
AmTr_v1.0_scaffold00009	retained_intron	9193149	9193678	+	asmbl_845,asmbl_846	none	blat.proc4179.chain_139,blat.proc4181.chain_71,c1340_f4p2_2069.path1,c1870_f2p0_2149.path1	4	blat.proc4135.chain_85,blat.proc4139.chain_176,blat.proc4139.chain_224,blat.proc4179.chain_60,c112_f5p2_1565.path1,c1175_f3p3_1620.path1,c2983_f1p2_1454.path1,c6937_f1p2_1360.path1	8
AmTr_v1.0_scaffold00087	alt_acceptor	442249	442250	-	asmbl_4271	none	blat.proc4139.chain_129,c229_f2p0_1237.path1	2	blat.proc4131.chain_34,c3093_f1p2_1097.path1	2
AmTr_v1.0_scaffold00001	alt_acceptor	4454268	4454269	-	asmbl_70	none	blat.proc4198.chain_92	1	c9646_f1p0_2064.path1	1
AmTr_v1.0_scaffold00003	retained_exon	3566431	3566479	+	asmbl_377	none	blat.proc4137.chain_196,c5902_f1p1_1875.path1	2	blat.proc4131.chain_242,blat.proc4198.chain_159,blat.proc4200.chain_61,c11419_f1p4_1955.path1,c303_f17p8_1853.path1,c87_f3p3_1676.path1	6
AmTr_v1.0_scaffold00058	skipped_exon	1894904	1901112	+	asmbl_3305	none	blat.proc4135.chain_34	1	c1386_f1p0_2091.path1	1
AmTr_v1.0_scaffold00058	retained_exon	592442	592562	+	asmbl_3282	none	blat.proc4214.chain_66,c582_f3p3_2850.path1	2	blat.proc4216.chain_36,c5823_f1p3_2661.path1	2
AmTr_v1.0_scaffold00003	alt_donor	2213095	2213096	-	asmbl_360	none	blat.proc4190.chain_163,c13849_f1p0_1677.path1	2	blat.proc4137.chain_149,c5201_f1p0_1918.path1	2
AmTr_v1.0_scaffold00058	spliced_intron	548215	548284	+	asmbl_3275,asmbl_3276,asmbl_3277,asmbl_3279	none	blat.proc4131.chain_252,blat.proc4135.chain_48,blat.proc4188.chain_44,blat.proc4212.chain_41,c13930_f1p2_1953.path1,c148_f2p0_1767.path1,c2111_f1p0_1772.path1,c9887_f1p0_1863.path1	8	blat.proc4192.chain_220,blat.proc4205.chain_43,c2261_f1p3_1826.path1,c844_f3p2_1828.path1	4
AmTr_v1.0_scaffold00054	alt_acceptor	2410529	2410530	+	asmbl_3108	none	blat.proc4179.chain_61,c1176_f3p0_1625.path1	2	blat.proc4145.chain_145,c1878_f2p0_1010.path1	2
AmTr_v1.0_scaffold00042	spliced_intron	2301291	2301784	-	asmbl_2649	none	blat.proc4125.chain_84,blat.proc4127.chain_17,c216_f2p3_1225.path1,c891_f1p3_1076.path1	4	blat.proc4139.chain_64,c4393_f1p1_1716.path1	2
AmTr_v1.0_scaffold00039	alt_donor	3575425	3575426	-	asmbl_2524	none	blat.proc4192.chain_108,c436_f8p5_1763.path1	2	blat.proc4192.chain_72,blat.proc4198.chain_153,c11288_f2p8_1646.path1,c15602_f2p3_1801.path1	4
AmTr_v1.0_scaffold00085	retained_exon	1172829	1172916	+	asmbl_4236	none	blat.proc4137.chain_54,c2963_f1p1_1816.path1	2	blat.proc4183.chain_142,c4454_f1p0_2364.path1	2
AmTr_v1.0_scaffold00064	spliced_intron	575070	575188	-	asmbl_3613	none	blat.proc4216.chain_104,c8993_f1p2_2849.path1	2	blat.proc4216.chain_17,c5128_f1p2_3054.path1	2
AmTr_v1.0_scaffold00109	retained_intron	2058340	2058543	+	asmbl_4748	none	blat.proc4190.chain_268,blat.proc4229.chain_252,c14886_f1p1_1775.path1,c7074_f1p7_2953.path1	4	blat.proc4125.chain_77,c626_f1p0_1045.path1	2
AmTr_v1.0_scaffold00047	retained_exon	1321615	1321793	-	asmbl_2856	none	blat.proc4169.chain_162,c15591_f1p0_940.path1,c3333_f1p0_1879.path1	3	c2290_f1p0_1589.path1	1
AmTr_v1.0_scaffold00017	retained_intron	4691401	4691724	+	asmbl_1362	none	blat.proc4209.chain_217,c11931_f1p5_1972.path1	2	blat.proc4129.chain_33,blat.proc4131.chain_214,blat.proc4137.chain_75,blat.proc4147.chain_175,blat.proc4177.chain_126,blat.proc4179.chain_176,blat.proc4181.chain_209,blat.proc4185.chain_248,blat.proc4190.chain_44,blat.proc4192.chain_113,blat.proc4192.chain_263,blat.proc4192.chain_93,blat.proc4194.chain_22,blat.proc4200.chain_107,blat.proc4200.chain_148,blat.proc4202.chain_245,blat.proc4202.chain_32,blat.proc4212.chain_234,blat.proc4212.chain_260,blat.proc4219.chain_16,blat.proc4219.chain_32,blat.proc4221.chain_196,blat.proc4231.chain_143,blat.proc4231.chain_56,blat.proc4231.chain_72,c10377_f1p9_3177.path1,c1056_f2p1_1939.path1,c1080_f3p11_1843.path1,c12583_f1p9_2368.path1,c12673_f1p15_4296.path1,c12870_f1p5_2283.path1,c1443_f2p10_2662.path1,c1830_f2p17_2423.path1,c2373_f2p2_1919.path1,c254_f2p0_1216.path1,c271_f5p7_2808.path1,c3086_f1p14_4095.path1,c313_f14p20_2536.path1,c3336_f1p1_1960.path1,c358_f2p11_3065.path1,c458_f7p5_1670.path1,c498_f6p12_2936.path1,c540_f5p10_3071.path1,c5432_f1p0_1143.path1,c576_f5p11_2951.path1,c589_f4p16_1721.path1,c650_f6p14_2013.path1,c706_f4p7_1810.path1,c7244_f1p7_1076.path1,c9211_f1p6_2676.path1,c9685_f1p6_3415.path1,c975_f3p12_2164.path1	52
AmTr_v1.0_scaffold00030	spliced_intron	498661	499490	+	asmbl_2147	none	c2643_f2p0_1093.path1	1	c1017_f2p0_2818.path1	1
AmTr_v1.0_scaffold00039	spliced_intron	3575183	3575426	-	asmbl_2524	none	blat.proc4192.chain_108,c436_f8p5_1763.path1	2	blat.proc4179.chain_240,blat.proc4202.chain_42,blat.proc4205.chain_3,blat.proc4212.chain_140,blat.proc4212.chain_149,c1100_f2p7_2039.path1,c15799_f2p1_1803.path1,c15923_f1p8_1942.path1,c1604_f2p7_1770.path1,c1893_f3p5_1921.path1	10
AmTr_v1.0_scaffold00003	ends_in_intron	4141555	4141555	+	asmbl_383	none	blat.proc4196.chain_31,c2263_f1p1_1680.path1	2	blat.proc4147.chain_89,blat.proc4194.chain_81,c1289_f2p1_1500.path1,c4355_f2p0_986.path1	4
AmTr_v1.0_scaffold00038	spliced_intron	1391465	1391536	+	asmbl_2464	none	blat.proc4133.chain_75,blat.proc4190.chain_59,c12704_f1p7_1541.path1,c3009_f1p1_1711.path1	4	blat.proc4127.chain_266,blat.proc4129.chain_36,blat.proc4179.chain_164,blat.proc4179.chain_74,blat.proc4192.chain_51,blat.proc4192.chain_87,blat.proc4200.chain_76,blat.proc4209.chain_17,blat.proc4209.chain_222,blat.proc4212.chain_167,c1205_f6p18_1616.path1,c12061_f1p35_1916.path1,c1411_f2p4_2008.path1,c15428_f1p35_2029.path1,c16247_f1p4_1627.path1,c172_f3p3_1262.path1,c260_f3p3_1509.path1,c464_f7p56_1855.path1,c50_f3p52_1747.path1,c7696_f1p48_1859.path1	20
AmTr_v1.0_scaffold00019	retained_intron	5101370	5101540	+	asmbl_1491	none	blat.proc4196.chain_36,c2429_f1p0_2209.path1	2	blat.proc4143.chain_39,c1907_f2p1_1591.path1,c4712_f1p1_1427.path1	3
AmTr_v1.0_scaffold00013	skipped_exon	5121349	5122180	-	asmbl_1158	none	blat.proc4212.chain_165,c16209_f1p1_1884.path1	2	blat.proc4137.chain_137,blat.proc4190.chain_97,c13223_f1p0_2045.path1,c4795_f1p0_1898.path1	4
AmTr_v1.0_scaffold00017	spliced_intron	1672669	1673070	-	asmbl_1321	none	c5910_f1p2_3086.path1	1	blat.proc4190.chain_185,c14088_f1p1_2172.path1	2
AmTr_v1.0_scaffold00021	alt_acceptor	5914928	5914929	+	asmbl_1627	none	blat.proc4171.chain_168,c1198_f3p3_1123.path1	2	blat.proc4145.chain_171,blat.proc4169.chain_229,blat.proc4177.chain_23,c13664_f1p6_1011.path1,c17602_f27p6_1169.path1,c2076_f2p3_980.path1	6
AmTr_v1.0_scaffold00012	alt_donor	2350127	2350128	+	asmbl_1050	none	blat.proc4196.chain_37,c2430_f1p9_1825.path1	2	blat.proc4181.chain_50,blat.proc4185.chain_93,blat.proc4192.chain_36,blat.proc4192.chain_82,blat.proc4200.chain_80,c15250_f9p4_1755.path1,c15656_f2p1_1768.path1,c1820_f2p2_1821.path1,c489_f8p6_1903.path1,c7194_f1p3_1635.path1	10
AmTr_v1.0_scaffold00067	skipped_exon	398571	399135	+	asmbl_3748	none	blat.proc4169.chain_237,c17625_f8p1_933.path1	2	blat.proc4174.chain_131,c5062_f1p0_1047.path1	2
AmTr_v1.0_scaffold00001	alt_acceptor	11686887	11686888	+	asmbl_125	none	blat.proc4145.chain_29,blat.proc4196.chain_4,blat.proc4225.chain_220,c1189_f3p2_1048.path1,c1918_f2p1_1937.path1,c576_f6p4_2951.path1	6	blat.proc4188.chain_103,c10522_f1p0_2256.path1	2
AmTr_v1.0_scaffold00049	spliced_intron	1344816	1344893	+	asmbl_2969	none	blat.proc4171.chain_242,c1746_f2p0_1117.path1	2	blat.proc4147.chain_176,blat.proc4147.chain_249,blat.proc4181.chain_44,c10428_f1p1_862.path1,c1805_f2p0_2070.path1,c7259_f2p1_1011.path1	6
AmTr_v1.0_scaffold00099	retained_exon	1997374	1997458	-	asmbl_4534	none	blat.proc4125.chain_186,blat.proc4171.chain_88,blat.proc4177.chain_65,c14404_f27p52_1065.path1,c3120_f1p6_952.path1,c800_f4p76_1104.path1	6	blat.proc4169.chain_23,c11467_f2p14_950.path1	2
AmTr_v1.0_scaffold00076	alt_acceptor	3343160	3343161	+	asmbl_4024	none	blat.proc4135.chain_98,c157_f3p0_1935.path1	2	blat.proc4185.chain_249,c9230_f1p0_2110.path1	2
AmTr_v1.0_scaffold00007	alt_acceptor	2767655	2767656	-	asmbl_643	none	blat.proc4185.chain_175,c8273_f1p0_2148.path1	2	blat.proc4221.chain_199,c3185_f1p1_2862.path1	2
AmTr_v1.0_scaffold00001	retained_intron	2143351	2143470	+	asmbl_45,asmbl_47	none	blat.proc4183.chain_52,blat.proc4185.chain_75,c3572_f1p3_1885.path1,c7009_f1p1_1808.path1	4	blat.proc4200.chain_116,blat.proc4200.chain_243,c630_f3p13_1851.path1,c947_f3p8_1805.path1	4
AmTr_v1.0_scaffold00004	alternate_exon	1520285	1520366	+	asmbl_462	none	blat.proc4190.chain_142,blat.proc4225.chain_159,c13652_f1p3_2528.path1,c388_f7p5_2720.path1	4	blat.proc4216.chain_5,c4840_f1p4_2825.path1	2
AmTr_v1.0_scaffold00173	alt_acceptor	112892	112893	+	asmbl_5368,asmbl_5369	none	blat.proc4223.chain_4,blat.proc4225.chain_268,blat.proc4231.chain_152,blat.proc4231.chain_170,c13024_f1p4_2914.path1,c13697_f1p4_3330.path1,c4407_f1p3_2877.path1,c696_f3p5_2739.path1	8	blat.proc4231.chain_36,c8985_f1p1_2996.path1	2
AmTr_v1.0_scaffold00059	retained_intron	79396	79460	+	asmbl_3355	none	blat.proc4185.chain_221,blat.proc4198.chain_140,c10893_f1p2_2008.path1,c8939_f1p3_2223.path1	4	blat.proc4185.chain_255,c9304_f1p1_1862.path1	2
AmTr_v1.0_scaffold00061	alt_donor	3553309	3553310	+	asmbl_3532	none	blat.proc4216.chain_195,blat.proc4216.chain_213,c11801_f3p10_2996.path1,c251_f10p7_2912.path1	4	blat.proc4216.chain_255,blat.proc4219.chain_180,c453_f5p6_2795.path1,c933_f2p5_3224.path1	4
AmTr_v1.0_scaffold00052	retained_intron	2819962	2820035	-	asmbl_3067	none	blat.proc4221.chain_185,c2890_f1p1_2820.path1	2	blat.proc4194.chain_181,blat.proc4212.chain_231,blat.proc4214.chain_56,blat.proc4223.chain_247,blat.proc4229.chain_119,c1612_f2p4_1917.path1,c248_f6p7_2783.path1,c2839_f1p3_2698.path1,c548_f2p0_2674.path1,c9197_f1p7_2761.path1	10
AmTr_v1.0_scaffold00119	spliced_intron	377758	379767	+	asmbl_4868	none	blat.proc4125.chain_256,blat.proc4131.chain_139,blat.proc4147.chain_83,blat.proc4169.chain_225,c17594_f2p6_1113.path1,c4138_f4p5_1042.path1,c4552_f1p6_677.path1,c59_f5p3_1399.path1	8	blat.proc4221.chain_189,c2963_f1p4_3400.path1,c5825_f1p4_2994.path1	3
AmTr_v1.0_scaffold00106	alt_acceptor	166827	166828	-	asmbl_4659	none	blat.proc4190.chain_111,blat.proc4192.chain_193,blat.proc4227.chain_194,c13360_f1p1_1623.path1,c776_f4p0_1829.path1	5	blat.proc4188.chain_13,blat.proc4214.chain_14,blat.proc4214.chain_203,blat.proc4216.chain_239,blat.proc4223.chain_14,c1448_f1p13_3244.path1,c381_f6p8_2694.path1,c438_f4p13_2862.path1,c4654_f1p6_3574.path1,c9499_f1p1_2236.path1	10
AmTr_v1.0_scaffold00077	alternate_exon	2322559	2322805	-	asmbl_4072	none	c1758_f1p8_2885.path1	1	blat.proc4231.chain_62,c10075_f1p10_3141.path1,c1114_f2p9_2770.path1,c1190_f1p7_2878.path1,c336_f4p11_2946.path1,c3634_f1p2_3055.path1	6
AmTr_v1.0_scaffold00057	spliced_intron	310864	310994	-	asmbl_3204,asmbl_3206	none	blat.proc4143.chain_59,blat.proc4185.chain_63,c5450_f1p0_1865.path1,c6813_f1p1_1638.path1	4	blat.proc4205.chain_51,c2408_f1p0_1734.path1	2
AmTr_v1.0_scaffold00021	retained_intron	4181441	4181934	+	asmbl_1604	none	c1101_f3p3_2207.path1	1	blat.proc4177.chain_82,c327_f20p1_1715.path1	2
AmTr_v1.0_scaffold00095	retained_exon	1352074	1352114	-	asmbl_4446	none	blat.proc4185.chain_16,c6231_f1p1_1830.path1	2	blat.proc4177.chain_166,blat.proc4183.chain_91,blat.proc4192.chain_213,blat.proc4192.chain_60,c15507_f2p1_1693.path1,c3953_f1p1_2329.path1,c768_f5p2_1933.path1,c821_f4p1_1920.path1	8
AmTr_v1.0_scaffold00071	alt_acceptor	2809796	2809797	-	asmbl_3943	none	blat.proc4205.chain_177,c5172_f1p0_1790.path1	2	blat.proc4196.chain_254,c7159_f1p2_1717.path1	2
AmTr_v1.0_scaffold00057	spliced_intron	310350	310683	-	asmbl_3204,asmbl_3206	none	blat.proc4143.chain_59,blat.proc4185.chain_63,c5450_f1p0_1865.path1,c6813_f1p1_1638.path1	4	blat.proc4205.chain_51,c2408_f1p0_1734.path1	2
AmTr_v1.0_scaffold00157	spliced_intron	881146	881244	-	asmbl_5246	none	blat.proc4147.chain_194,blat.proc4171.chain_64,blat.proc4174.chain_127,blat.proc4174.chain_199,blat.proc4177.chain_2,blat.proc4177.chain_46,blat.proc4177.chain_7,blat.proc4202.chain_162,blat.proc4202.chain_256,blat.proc4202.chain_263,blat.proc4212.chain_157,c12632_f1p4_1046.path1,c12833_f1p5_1118.path1,c14305_f1p5_1088.path1,c1508_f2p7_1816.path1,c16058_f1p1_1681.path1,c1855_f2p6_1917.path1,c1884_f2p3_1788.path1,c4720_f1p3_1181.path1,c663_f5p4_978.path1,c8229_f4p1_908.path1,c8822_f1p1_1147.path1	22	c8392_f1p3_1847.path1	1
AmTr_v1.0_scaffold00058	retained_intron	1720109	1720613	+	asmbl_3302	none	blat.proc4229.chain_109,c2651_f1p0_2915.path1	2	blat.proc4192.chain_5,blat.proc4209.chain_237,c12386_f1p3_1906.path1,c14953_f2p1_1954.path1	4
AmTr_v1.0_scaffold00092	spliced_intron	631243	631963	+	asmbl_4380	none	blat.proc4212.chain_215,blat.proc4216.chain_34,blat.proc4225.chain_249,c178_f9p9_2870.path1,c5758_f1p9_2735.path1,c640_f3p5_2922.path1	6	blat.proc4229.chain_47,c1582_f1p2_2836.path1	2
AmTr_v1.0_scaffold00068	retained_intron	404333	404419	+	asmbl_3792	none	blat.proc4227.chain_226,c1316_f2p7_2941.path1	2	blat.proc4221.chain_105,c1493_f1p1_2763.path1	2
AmTr_v1.0_scaffold00032	alt_acceptor	2468699	2468700	+	asmbl_2244,asmbl_2245	none	blat.proc4133.chain_209,blat.proc4143.chain_138,blat.proc4143.chain_92,blat.proc4200.chain_109,blat.proc4209.chain_42,c2257_f1p6_1843.path1,c591_f7p78_2002.path1,c6667_f1p4_2099.path1,c7862_f4p4_1865.path1,c8287_f1p63_2112.path1	10	blat.proc4190.chain_51,c12629_f1p9_1891.path1	2
AmTr_v1.0_scaffold00001	alternate_exon	112817	123699	+	asmbl_5	none	blat.proc4179.chain_116,blat.proc4192.chain_7,blat.proc4192.chain_95,blat.proc4231.chain_179,c1270_f3p7_1876.path1,c13795_f1p1_2744.path1,c14969_f2p7_2079.path1,c321_f5p13_1759.path1	8	blat.proc4177.chain_89,blat.proc4192.chain_34,c15233_f24p19_1848.path1,c399_f14p18_1801.path1	4
AmTr_v1.0_scaffold00049	skipped_exon	1605837	1606125	-	asmbl_2977	none	blat.proc4190.chain_69,c12860_f1p0_1781.path1	2	blat.proc4143.chain_74,blat.proc4192.chain_235,c6027_f1p0_1919.path1,c875_f3p0_1806.path1	4
AmTr_v1.0_scaffold00072	retained_intron	3456726	3456919	+	asmbl_3984	none	blat.proc4188.chain_169,c11256_f1p0_1841.path1	2	c7163_f1p1_2004.path1	1
AmTr_v1.0_scaffold00182	alt_acceptor	314408	314409	-	asmbl_5450	none	blat.proc4139.chain_133,c255_f2p1_3052.path1	2	blat.proc4227.chain_130,c1024_f2p0_3049.path1	2
AmTr_v1.0_scaffold00062	retained_exon	706506	706579	-	asmbl_3551,asmbl_3552,asmbl_3554	none	blat.proc4137.chain_216,blat.proc4177.chain_195,blat.proc4183.chain_118,blat.proc4200.chain_47,blat.proc4225.chain_217,blat.proc4231.chain_139,c12571_f1p5_2874.path1,c15816_f23p22_1888.path1,c4229_f1p12_1723.path1,c572_f5p5_2999.path1,c6102_f1p6_1692.path1,c845_f5p18_1782.path1	12	blat.proc4209.chain_253,c12797_f1p9_1807.path1	2
AmTr_v1.0_scaffold00025	retained_intron	2547170	2548332	+	asmbl_1912	none	blat.proc4214.chain_82,c630_f3p4_2917.path1	2	blat.proc4135.chain_57,blat.proc4185.chain_114,blat.proc4192.chain_92,blat.proc4200.chain_62,c2591_f1p0_1792.path1,c295_f16p6_1847.path1,c321_f14p7_1774.path1,c7517_f1p5_2059.path1	8
AmTr_v1.0_scaffold00065	alt_acceptor	1777669	1777670	-	asmbl_3646	none	blat.proc4177.chain_197,c868_f4p0_1832.path1	2	blat.proc4190.chain_145,blat.proc4205.chain_106,c13680_f1p0_1533.path1,c3685_f1p4_1765.path1	4
AmTr_v1.0_scaffold00017	ends_in_intron	4687928	4687928	+	asmbl_1365	none	blat.proc4221.chain_43,c1218_f2p0_2941.path1	2	blat.proc4137.chain_75,blat.proc4177.chain_126,blat.proc4179.chain_176,blat.proc4181.chain_209,blat.proc4185.chain_248,blat.proc4190.chain_44,blat.proc4192.chain_113,blat.proc4192.chain_263,blat.proc4192.chain_93,blat.proc4194.chain_22,blat.proc4200.chain_107,blat.proc4200.chain_148,blat.proc4202.chain_245,blat.proc4202.chain_32,blat.proc4212.chain_234,blat.proc4212.chain_260,blat.proc4219.chain_16,blat.proc4219.chain_32,blat.proc4221.chain_196,blat.proc4231.chain_143,blat.proc4231.chain_56,blat.proc4231.chain_72,c10377_f1p9_3177.path1,c1056_f2p1_1939.path1,c1080_f3p11_1843.path1,c12583_f1p9_2368.path1,c12673_f1p15_4296.path1,c12870_f1p5_2283.path1,c1443_f2p10_2662.path1,c1830_f2p17_2423.path1,c2373_f2p2_1919.path1,c271_f5p7_2808.path1,c3086_f1p14_4095.path1,c313_f14p20_2536.path1,c3336_f1p1_1960.path1,c358_f2p11_3065.path1,c458_f7p5_1670.path1,c498_f6p12_2936.path1,c540_f5p10_3071.path1,c576_f5p11_2951.path1,c589_f4p16_1721.path1,c650_f6p14_2013.path1,c706_f4p7_1810.path1,c9211_f1p6_2676.path1,c9685_f1p6_3415.path1,c975_f3p12_2164.path1	46
AmTr_v1.0_scaffold00007	alt_acceptor	3635854	3635855	-	asmbl_656	none	c12734_f1p1_2919.path1	1	blat.proc4190.chain_18,c12308_f1p0_1816.path1	2
AmTr_v1.0_scaffold00024	alt_acceptor	3163555	3163556	-	asmbl_1812	none	blat.proc4221.chain_242,c3864_f1p1_2791.path1	2	blat.proc4139.chain_241,blat.proc4205.chain_157,c4796_f1p5_2429.path1,c8109_f1p0_1781.path1	4
AmTr_v1.0_scaffold00029	alternate_exon	3673456	3673474	-	asmbl_2096	none	c193_f2p1_1035.path1	1	c175_f2p0_1037.path1	1
AmTr_v1.0_scaffold00035	starts_in_intron	4005843	4005843	-	asmbl_2370	none	blat.proc4205.chain_172,c5065_f1p0_2217.path1	2	blat.proc4181.chain_96,c1944_f2p0_2018.path1	2
AmTr_v1.0_scaffold00001	alt_donor	1534108	1534109	+	asmbl_36	none	blat.proc4183.chain_79,c3529_f1p0_2078.path1,c3799_f1p0_1957.path1	3	blat.proc4169.chain_82,c13331_f1p1_1244.path1,c1355_f3p1_1037.path1	3
AmTr_v1.0_scaffold00048	starts_in_intron	3929786	3929786	-	asmbl_2935	none	c5608_f1p1_1816.path1	1	blat.proc4198.chain_62,c8686_f1p2_1733.path1	2
AmTr_v1.0_scaffold00013	alt_donor	5122179	5122180	-	asmbl_1158	none	blat.proc4212.chain_165,c16209_f1p1_1884.path1	2	blat.proc4137.chain_137,blat.proc4190.chain_97,c13223_f1p0_2045.path1,c4795_f1p0_1898.path1	4
AmTr_v1.0_scaffold00083	spliced_intron	1805260	1805376	-	asmbl_4215	none	blat.proc4131.chain_247,blat.proc4137.chain_110,blat.proc4196.chain_232,c126_f2p1_1975.path1,c4131_f1p1_1868.path1,c6752_f1p3_1581.path1	6	c1391_f2p0_2109.path1	1
AmTr_v1.0_scaffold00002	retained_intron	9132225	9132317	+	asmbl_275	none	blat.proc4229.chain_237,c6484_f1p2_2828.path1	2	blat.proc4139.chain_15,c182_f2p0_2659.path1	2
AmTr_v1.0_scaffold00036	retained_exon	3061151	3061328	+	asmbl_2401	none	blat.proc4209.chain_157,c10859_f1p3_1734.path1	2	blat.proc4185.chain_14,blat.proc4200.chain_94,c553_f7p3_1747.path1,c6188_f1p3_1588.path1	4
AmTr_v1.0_scaffold00048	retained_intron	3929655	3929820	-	asmbl_2933	none	blat.proc4181.chain_236,c2782_f1p2_1838.path1	2	blat.proc4198.chain_62,c8686_f1p2_1733.path1	2
AmTr_v1.0_scaffold00016	alt_acceptor	2573537	2573538	-	asmbl_1251	none	blat.proc4139.chain_21,blat.proc4216.chain_31,blat.proc4225.chain_155,c204_f2p4_3234.path1,c360_f8p16_3141.path1,c5681_f1p7_2998.path1	6	blat.proc4225.chain_48,c10771_f1p9_3099.path1	2
AmTr_v1.0_scaffold00057	alt_donor	2797466	2797467	-	asmbl_3242	none	blat.proc4141.chain_49,c3523_f1p5_3237.path1	2	blat.proc4209.chain_4,c1097_f3p3_1847.path1,c7426_f1p2_1660.path1	3
AmTr_v1.0_scaffold00020	retained_intron	5186136	5186211	-	asmbl_1555	none	blat.proc4143.chain_134,c7823_f2p6_3379.path1	2	blat.proc4137.chain_269,blat.proc4143.chain_125,blat.proc4214.chain_230,blat.proc4221.chain_58,blat.proc4223.chain_16,blat.proc4223.chain_87,blat.proc4229.chain_134,c1265_f2p6_2823.path1,c2783_f1p2_2706.path1,c3111_f1p5_3386.path1,c4699_f1p5_2762.path1,c53_f3p1_3282.path1,c5871_f1p7_2887.path1,c7462_f1p6_3174.path1	14
AmTr_v1.0_scaffold00077	retained_intron	2310109	2310279	-	asmbl_4069,asmbl_4072	none	blat.proc4231.chain_62,c10075_f1p10_3141.path1,c1758_f1p8_2885.path1,c336_f4p11_2946.path1,c3634_f1p2_3055.path1	5	c1114_f2p9_2770.path1,c1190_f1p7_2878.path1	2
AmTr_v1.0_scaffold00029	alt_acceptor	5121949	5121950	+	asmbl_2120	none	c1477_f2p1_1843.path1	1	c1213_f3p2_1813.path1	1
AmTr_v1.0_scaffold00019	retained_exon	751418	751519	-	asmbl_1435	none	blat.proc4137.chain_94,c3864_f1p0_1872.path1	2	blat.proc4205.chain_166,c4947_f1p0_1847.path1	2
AmTr_v1.0_scaffold00088	alternate_exon	2430326	2430402	+	asmbl_4313	none	blat.proc4131.chain_264,c207_f2p2_2251.path1	2	blat.proc4194.chain_163,c1557_f2p1_2361.path1	2
AmTr_v1.0_scaffold00001	spliced_intron	129343	129461	+	asmbl_7	none	blat.proc4177.chain_89,blat.proc4192.chain_34,c15233_f24p19_1848.path1,c399_f14p18_1801.path1	4	blat.proc4205.chain_224,c6385_f1p12_1789.path1	2
AmTr_v1.0_scaffold00018	alt_acceptor	2860778	2860779	-	asmbl_1404	none	blat.proc4129.chain_197,blat.proc4129.chain_48,blat.proc4196.chain_259,c1536_f1p0_1070.path1,c293_f2p0_931.path1,c7201_f1p5_2320.path1	6	blat.proc4174.chain_21,c2086_f2p1_1044.path1	2
AmTr_v1.0_scaffold00012	spliced_intron	7614072	7614944	-	asmbl_1103	none	blat.proc4171.chain_60,c644_f7p2_1036.path1	2	blat.proc4135.chain_124,c271_f2p3_1879.path1	2
AmTr_v1.0_scaffold00090	alt_acceptor	2484359	2484360	+	asmbl_4355	none	blat.proc4125.chain_126,blat.proc4125.chain_53,blat.proc4129.chain_58,c1913_f1p3_1108.path1,c291_f2p3_1305.path1,c330_f2p0_943.path1	6	blat.proc4127.chain_198,c3700_f1p1_1267.path1	2
AmTr_v1.0_scaffold00088	spliced_intron	145774	147716	-	asmbl_4283	none	blat.proc4131.chain_201,c5304_f1p1_1446.path1	2	blat.proc4223.chain_109,c6354_f1p0_3378.path1	2
AmTr_v1.0_scaffold00029	retained_intron	6011624	6011717	+	asmbl_2141	none	blat.proc4181.chain_10,c1705_f2p2_2278.path1	2	blat.proc4200.chain_247,c957_f3p3_2050.path1	2
AmTr_v1.0_scaffold00002	alt_acceptor	3933869	3933870	-	asmbl_189	none	blat.proc4190.chain_224,c14439_f1p0_1997.path1	2	blat.proc4185.chain_99,c7278_f1p0_1658.path1	2
AmTr_v1.0_scaffold00001	spliced_intron	121036	121249	+	asmbl_2,asmbl_3,asmbl_5	none	blat.proc4125.chain_55,blat.proc4127.chain_150,blat.proc4127.chain_250,blat.proc4129.chain_222,blat.proc4129.chain_256,blat.proc4137.chain_255,blat.proc4143.chain_141,blat.proc4143.chain_200,blat.proc4143.chain_28,blat.proc4145.chain_153,blat.proc4169.chain_218,blat.proc4169.chain_244,blat.proc4171.chain_1,blat.proc4192.chain_7,blat.proc4192.chain_90,blat.proc4194.chain_41,blat.proc4196.chain_197,blat.proc4200.chain_45,blat.proc4212.chain_191,blat.proc4212.chain_194,blat.proc4212.chain_202,c1139_f2p16_1908.path1,c143_f4p6_1498.path1,c14969_f2p7_2079.path1,c15807_f4p109_1859.path1,c16654_f10p72_1753.path1,c16666_f100p87_1754.path1,c16714_f2p29_1622.path1,c17501_f16p15_998.path1,c17666_f11p16_1154.path1,c17781_f14p5_947.path1,c1917_f2p2_1166.path1,c2025_f1p3_1644.path1,c2507_f1p5_1316.path1,c265_f5p26_1652.path1,c2694_f1p2_1655.path1,c288_f4p12_1312.path1,c295_f2p3_1199.path1,c4289_f1p10_1621.path1,c5931_f1p11_1725.path1,c6681_f1p7_1722.path1,c760_f7p23_1141.path1	42	blat.proc4221.chain_159,c2398_f1p2_2890.path1	2
AmTr_v1.0_scaffold00226	spliced_intron	1446	1471	-	asmbl_5505	none	blat.proc4147.chain_238,blat.proc4177.chain_170,blat.proc4198.chain_120,c10226_f1p7_1879.path1,c4312_f1p7_2153.path1,c774_f3p3_2033.path1,c9904_f1p1_1639.path1	7	blat.proc4194.chain_43,c1143_f2p1_2024.path1	2
AmTr_v1.0_scaffold00062	alt_acceptor	3646358	3646359	-	asmbl_3584,asmbl_3586,asmbl_3587	none	blat.proc4183.chain_90,blat.proc4188.chain_225,blat.proc4214.chain_118,blat.proc4229.chain_58,blat.proc4231.chain_75,c10540_f1p7_2748.path1,c11762_f1p0_2183.path1,c1704_f1p6_2779.path1,c3937_f1p1_2667.path1,c802_f2p3_2640.path1	10	blat.proc4221.chain_155,c2374_f1p2_2932.path1	2
AmTr_v1.0_scaffold00039	alt_acceptor	1497259	1497260	+	asmbl_2505	none	blat.proc4143.chain_243,c955_f4p0_999.path1	2	blat.proc4145.chain_99,c1624_f2p0_965.path1	2
AmTr_v1.0_scaffold00049	spliced_intron	843206	843395	-	asmbl_2956	none	blat.proc4174.chain_94,c3007_f1p1_947.path1	2	blat.proc4196.chain_195,c5912_f1p1_1821.path1	2
AmTr_v1.0_scaffold00019	skipped_exon	3444985	3459089	-	asmbl_1468	none	blat.proc4147.chain_137,c5879_f1p1_1005.path1	2	blat.proc4147.chain_9,c2579_f2p1_998.path1	2
AmTr_v1.0_scaffold00025	alt_donor	3554529	3554530	+	asmbl_1936	none	blat.proc4177.chain_147,c708_f6p0_1713.path1	2	blat.proc4179.chain_263,c1665_f2p0_1754.path1	2
AmTr_v1.0_scaffold00071	alt_acceptor	2315315	2315316	-	asmbl_3933	none	c6972_f1p3_1897.path1	1	blat.proc4212.chain_5,c13134_f1p5_1981.path1,c8509_f1p5_1807.path1	3
AmTr_v1.0_scaffold00060	alt_acceptor	2794223	2794224	-	asmbl_3471	none	c10504_f1p6_3107.path1	1	blat.proc4216.chain_112,blat.proc4229.chain_38,blat.proc4229.chain_49,blat.proc4231.chain_210,c14532_f2p3_2829.path1,c1538_f2p6_2916.path1,c1593_f2p4_2906.path1,c9155_f1p1_2802.path1	8
AmTr_v1.0_scaffold00044	alt_acceptor	1610859	1610860	+	asmbl_2692	none	blat.proc4221.chain_16,c1170_f2p0_2709.path1	2	blat.proc4216.chain_120,c9455_f1p0_2657.path1	2
AmTr_v1.0_scaffold00062	spliced_intron	3647392	3647566	-	asmbl_3584,asmbl_3586	none	blat.proc4188.chain_225,blat.proc4214.chain_118,blat.proc4229.chain_58,blat.proc4231.chain_75,c10540_f1p7_2748.path1,c11762_f1p0_2183.path1,c1704_f1p6_2779.path1,c802_f2p3_2640.path1	8	blat.proc4183.chain_90,blat.proc4221.chain_155,c2374_f1p2_2932.path1,c3937_f1p1_2667.path1	4
AmTr_v1.0_scaffold00009	spliced_intron	7266172	7266862	-	asmbl_815	none	blat.proc4196.chain_56,c2754_f1p1_1695.path1	2	blat.proc4181.chain_169,blat.proc4225.chain_213,blat.proc4227.chain_24,c2115_f2p0_1792.path1,c544_f3p2_2730.path1,c742_f2p2_2743.path1	6
AmTr_v1.0_scaffold00074	spliced_intron	354024	354175	+	asmbl_3995	none	blat.proc4229.chain_204,c5395_f1p2_2646.path1	2	blat.proc4227.chain_211,c1279_f2p2_2769.path1	2
AmTr_v1.0_scaffold00007	retained_intron	2479054	2479211	-	asmbl_636	none	blat.proc4190.chain_89,blat.proc4219.chain_232,c1059_f2p3_2839.path1,c13060_f1p0_1807.path1	4	blat.proc4219.chain_186,c949_f2p2_2921.path1	2
AmTr_v1.0_scaffold00058	alt_acceptor	550517	550518	+	asmbl_3276	none	blat.proc4135.chain_48,c2111_f1p0_1772.path1	2	blat.proc4131.chain_252,blat.proc4192.chain_220,blat.proc4205.chain_43,blat.proc4212.chain_41,c13930_f1p2_1953.path1,c148_f2p0_1767.path1,c2261_f1p3_1826.path1,c844_f3p2_1828.path1	8
AmTr_v1.0_scaffold00095	retained_exon	965230	965300	+	asmbl_4439	none	blat.proc4192.chain_219,c838_f3p2_1789.path1	2	blat.proc4133.chain_152,blat.proc4179.chain_14,c1077_f3p0_1731.path1,c311_f1p0_1946.path1	4
AmTr_v1.0_scaffold00020	spliced_intron	5982489	5983522	+	asmbl_1556	none	blat.proc4145.chain_84,blat.proc4169.chain_185,c1519_f4p3_1109.path1,c16416_f1p2_928.path1	4	blat.proc4188.chain_62,c10112_f1p0_2089.path1	2
AmTr_v1.0_scaffold00106	retained_intron	1146052	1146160	+	asmbl_4672	none	blat.proc4137.chain_131,blat.proc4179.chain_102,blat.proc4183.chain_120,blat.proc4200.chain_260,c1250_f3p6_2042.path1,c4252_f1p5_2151.path1,c4580_f1p1_1917.path1,c988_f3p6_1910.path1	8	blat.proc4177.chain_209,blat.proc4196.chain_104,c3720_f1p4_1930.path1,c898_f4p3_1871.path1	4
AmTr_v1.0_scaffold00009	retained_intron	9236485	9236709	+	asmbl_847,asmbl_850	none	blat.proc4143.chain_35,blat.proc4229.chain_103,c2483_f1p0_2495.path1,c4476_f1p1_3467.path1	4	blat.proc4219.chain_21,blat.proc4225.chain_245,c547_f4p5_2927.path1,c628_f4p1_2843.path1	4
AmTr_v1.0_scaffold00092	starts_in_intron	453629	453629	+	asmbl_4377	none	blat.proc4214.chain_214,c2347_f1p1_2844.path1	2	blat.proc4183.chain_102,c4082_f1p2_2534.path1	2
AmTr_v1.0_scaffold00024	alt_acceptor	5333646	5333647	-	asmbl_1832	none	blat.proc4139.chain_170,blat.proc4139.chain_207,blat.proc4141.chain_23,c2406_f1p1_1469.path1,c5486_f1p1_1667.path1,c834_f1p8_3374.path1	6	blat.proc4133.chain_33,c1794_f1p1_1724.path1	2
AmTr_v1.0_scaffold00032	spliced_intron	2212796	2212952	+	asmbl_2239	none	blat.proc4183.chain_218,c5456_f1p0_2173.path1	2	blat.proc4198.chain_73,c9191_f1p0_2167.path1	2
AmTr_v1.0_scaffold00078	alt_donor	3362381	3362382	+	asmbl_4144	none	blat.proc4139.chain_107,blat.proc4212.chain_232,blat.proc4219.chain_170,blat.proc4225.chain_110,c104_f3p8_3282.path1,c11854_f1p11_3111.path1,c260_f2p13_2990.path1,c8886_f2p10_2989.path1,c911_f2p4_2907.path1	9	blat.proc4231.chain_175,c13774_f1p18_3216.path1	2
AmTr_v1.0_scaffold00017	alt_donor	7183223	7183224	-	asmbl_1384	none	blat.proc4225.chain_234,c605_f4p2_3013.path1	2	blat.proc4185.chain_223,c8988_f1p0_2700.path1	2
AmTr_v1.0_scaffold00058	skipped_exon	3228115	3230957	+	asmbl_3332	none	blat.proc4214.chain_148,c945_f2p1_2754.path1	2	blat.proc4219.chain_5,c501_f5p2_2878.path1	2
AmTr_v1.0_scaffold00021	ends_in_intron	3446216	3446216	+	asmbl_1596	none	blat.proc4190.chain_214,c14364_f1p0_1757.path1	2	blat.proc4137.chain_251,c6565_f1p1_1856.path1	2
AmTr_v1.0_scaffold00009	alt_acceptor	9243852	9243853	+	asmbl_849	none	blat.proc4225.chain_245,c628_f4p1_2843.path1	2	blat.proc4219.chain_21,c547_f4p5_2927.path1	2
AmTr_v1.0_scaffold00066	alt_acceptor	363680	363681	+	asmbl_3688	none	blat.proc4185.chain_239,c9125_f1p1_1891.path1	2	blat.proc4139.chain_226,blat.proc4202.chain_29,c1077_f3p0_1941.path1,c7171_f1p1_1795.path1	4
AmTr_v1.0_scaffold00013	alternate_exon	5116731	5125937	-	asmbl_1158	none	blat.proc4212.chain_165,c16209_f1p1_1884.path1	2	c13651_f1p0_1094.path1	1
AmTr_v1.0_scaffold00021	skipped_exon	3365834	3373279	-	asmbl_1594	none	blat.proc4133.chain_162,c619_f1p0_2175.path1	2	blat.proc4205.chain_183,c5477_f1p1_2414.path1	2
AmTr_v1.0_scaffold00057	retained_exon	2284457	2284543	+	asmbl_3230	none	blat.proc4139.chain_227,c7193_f1p0_1834.path1	2	blat.proc4135.chain_7,blat.proc4209.chain_185,c11241_f1p1_1762.path1,c161_f2p1_1749.path1	4
AmTr_v1.0_scaffold00019	ends_in_intron	5913439	5913439	+	asmbl_1510	none	blat.proc4185.chain_12,c6174_f1p0_1761.path1	2	blat.proc4183.chain_215,blat.proc4188.chain_129,blat.proc4227.chain_212,c10810_f1p0_2062.path1,c1282_f2p3_3072.path1,c5442_f1p0_1815.path1	6
AmTr_v1.0_scaffold00004	alt_acceptor	787916	787917	+	asmbl_441	none	blat.proc4141.chain_173,blat.proc4183.chain_71,blat.proc4214.chain_179,blat.proc4219.chain_118,blat.proc4219.chain_216,blat.proc4225.chain_257,blat.proc4227.chain_21,blat.proc4229.chain_181,c1023_f2p16_2880.path1,c1061_f2p6_2659.path1,c350_f2p4_3096.path1,c3717_f1p5_2464.path1,c4425_f1p15_3288.path1,c6344_f1p10_2708.path1,c664_f3p7_2719.path1,c735_f3p14_2850.path1,c758_f2p5_3052.path1	17	blat.proc4223.chain_73,c5561_f1p11_2803.path1,c5971_f1p5_2836.path1	3
AmTr_v1.0_scaffold00051	starts_in_intron	3981268	3981268	+	asmbl_3047	none	blat.proc4221.chain_151,c2293_f1p0_2960.path1	2	blat.proc4137.chain_207,blat.proc4143.chain_83,blat.proc4177.chain_151,blat.proc4183.chain_161,blat.proc4194.chain_55,blat.proc4196.chain_154,blat.proc4200.chain_72,blat.proc4205.chain_90,c1191_f2p1_1624.path1,c3452_f1p8_1963.path1,c429_f8p7_1895.path1,c4715_f1p1_1904.path1,c4784_f1p10_1686.path1,c5976_f1p4_1970.path1,c6259_f1p3_3096.path1,c720_f5p5_2005.path1,c9415_f1p3_1817.path1	17
AmTr_v1.0_scaffold00009	alternate_exon	1856359	1856617	+	asmbl_758	none	blat.proc4198.chain_57,c8621_f1p4_2267.path1	2	c14533_f1p1_2167.path1	1
AmTr_v1.0_scaffold00109	retained_intron	718536	718944	-	asmbl_4727	none	blat.proc4205.chain_117,c3982_f1p0_1852.path1	2	blat.proc4143.chain_99,blat.proc4174.chain_114,c3981_f1p1_927.path1,c6733_f1p0_1354.path1	4
AmTr_v1.0_scaffold00003	skipped_exon	1250055	1252187	+	asmbl_341	none	c129_f2p2_3061.path1	1	blat.proc4139.chain_9,blat.proc4225.chain_91,blat.proc4231.chain_120,c11720_f1p5_2592.path1,c12163_f1p4_2832.path1	5
AmTr_v1.0_scaffold00173	alt_acceptor	112881	112882	+	asmbl_5370	none	blat.proc4231.chain_36,c8985_f1p1_2996.path1	2	blat.proc4223.chain_4,blat.proc4225.chain_268,blat.proc4231.chain_152,blat.proc4231.chain_170,c13024_f1p4_2914.path1,c13697_f1p4_3330.path1,c4407_f1p3_2877.path1,c696_f3p5_2739.path1	8
AmTr_v1.0_scaffold00065	starts_in_intron	892634	892634	-	asmbl_3639	none	blat.proc4174.chain_248,c11515_f1p3_982.path1	2	blat.proc4125.chain_237,blat.proc4174.chain_135,blat.proc4174.chain_244,c11298_f1p4_976.path1,c4036_f2p0_1124.path1,c5169_f1p3_1040.path1	6
AmTr_v1.0_scaffold00045	retained_intron	209355	209467	+	asmbl_2722	none	blat.proc4196.chain_127,c4238_f2p2_1662.path1	2	blat.proc4139.chain_200,blat.proc4200.chain_117,c4820_f1p1_1652.path1,c633_f5p5_1641.path1	4
AmTr_v1.0_scaffold00017	retained_exon	4684793	4684915	+	asmbl_1361	none	blat.proc4179.chain_176,c1443_f2p10_2662.path1	2	blat.proc4137.chain_75,blat.proc4177.chain_126,blat.proc4183.chain_23,blat.proc4185.chain_248,blat.proc4192.chain_93,blat.proc4200.chain_107,blat.proc4202.chain_245,blat.proc4202.chain_32,blat.proc4219.chain_16,blat.proc4221.chain_43,c1080_f3p11_1843.path1,c1218_f2p0_2941.path1,c12870_f1p5_2283.path1,c1830_f2p17_2423.path1,c313_f14p20_2536.path1,c3271_f1p5_2273.path1,c3336_f1p1_1960.path1,c498_f6p12_2936.path1,c540_f5p10_3071.path1,c589_f4p16_1721.path1,c650_f6p14_2013.path1,c9211_f1p6_2676.path1	22
AmTr_v1.0_scaffold00011	retained_intron	8788509	8788647	-	asmbl_1032	none	blat.proc4196.chain_176,c5404_f1p0_1936.path1	2	blat.proc4139.chain_12,c169_f2p0_1634.path1	2
AmTr_v1.0_scaffold00011	alt_acceptor	3969795	3969796	-	asmbl_995	none	blat.proc4198.chain_187,c12416_f1p0_2148.path1	2	blat.proc4133.chain_30,blat.proc4214.chain_260,blat.proc4216.chain_142,blat.proc4229.chain_222,blat.proc4231.chain_13,c10172_f1p8_3191.path1,c1465_f1p1_2410.path1,c2223_f1p2_3531.path1,c4087_f1p8_3008.path1,c5949_f1p4_2723.path1,c8020_f1p4_2547.path1	11
AmTr_v1.0_scaffold00021	spliced_intron	1436792	1437286	+	asmbl_1576,asmbl_1578	none	blat.proc4141.chain_116,blat.proc4192.chain_204,blat.proc4212.chain_158,c16059_f1p1_1633.path1,c801_f4p2_1758.path1,c84_f3p1_1534.path1	6	blat.proc4202.chain_20,c1057_f3p1_2030.path1	2
AmTr_v1.0_scaffold00010	spliced_intron	158663	159591	+	asmbl_853	none	blat.proc4177.chain_152,blat.proc4192.chain_211,c724_f6p0_2053.path1,c811_f4p2_1934.path1	4	blat.proc4221.chain_224,c3610_f1p0_2943.path1	2
AmTr_v1.0_scaffold00001	alt_acceptor	1533266	1533267	+	asmbl_37	none	blat.proc4169.chain_82,c13331_f1p1_1244.path1	2	blat.proc4183.chain_79,c3529_f1p0_2078.path1,c3799_f1p0_1957.path1	3
AmTr_v1.0_scaffold00017	retained_intron	1931969	1932077	-	asmbl_1328	none	blat.proc4196.chain_74,blat.proc4200.chain_241,c3180_f1p2_1960.path1,c940_f3p1_2022.path1	4	blat.proc4125.chain_146,blat.proc4129.chain_228,blat.proc4131.chain_180,blat.proc4139.chain_174,blat.proc4177.chain_94,blat.proc4188.chain_230,blat.proc4192.chain_143,blat.proc4192.chain_203,blat.proc4198.chain_32,c11815_f1p7_1777.path1,c2106_f1p3_1381.path1,c2356_f1p1_1085.path1,c2881_f1p1_1480.path1,c477_f6p5_1605.path1,c5052_f1p1_1228.path1,c586_f6p12_1504.path1,c799_f5p8_1915.path1,c8144_f1p4_1631.path1	18
AmTr_v1.0_scaffold00006	alternate_exon	7437210	7437271	-	asmbl_589	none	c1885_f2p2_1608.path1	1	blat.proc4188.chain_181,c11371_f1p2_1841.path1	2
AmTr_v1.0_scaffold00066	retained_intron	161417	161525	+	asmbl_3679	none	blat.proc4188.chain_72,c10177_f1p0_1932.path1	2	blat.proc4147.chain_255,c10634_f1p0_968.path1	2
AmTr_v1.0_scaffold00061	spliced_intron	2569259	2569439	-	asmbl_3519	none	blat.proc4188.chain_17,blat.proc4202.chain_52,blat.proc4202.chain_79,blat.proc4212.chain_99,c1123_f1p2_1887.path1,c1202_f2p3_2009.path1,c15077_f1p2_1788.path1,c9526_f1p1_1711.path1	8	blat.proc4190.chain_1,c12161_f1p1_2095.path1	2
AmTr_v1.0_scaffold00087	alt_acceptor	2089288	2089289	-	asmbl_4279	none	blat.proc4227.chain_69,c847_f3p0_2794.path1	2	blat.proc4179.chain_141,c1344_f2p0_1898.path1	2
AmTr_v1.0_scaffold00030	alt_acceptor	2672003	2672004	+	asmbl_2162	none	blat.proc4131.chain_184,c5126_f1p1_1411.path1	2	blat.proc4194.chain_238,blat.proc4202.chain_90,c1799_f2p1_1929.path1	3
AmTr_v1.0_scaffold00033	retained_intron	1644284	1644516	-	asmbl_2292	none	blat.proc4133.chain_17,c866_f1p0_2059.path1	2	blat.proc4205.chain_88,c3444_f1p0_1820.path1	2
AmTr_v1.0_scaffold00049	retained_intron	843206	843395	-	asmbl_2955	none	blat.proc4196.chain_195,c5912_f1p1_1821.path1	2	blat.proc4174.chain_94,c3007_f1p1_947.path1	2
AmTr_v1.0_scaffold00099	ends_in_intron	818377	818377	-	asmbl_4521	none	blat.proc4129.chain_157,c954_f1p0_1238.path1	2	blat.proc4227.chain_204,c1261_f2p4_2789.path1	2
AmTr_v1.0_scaffold00061	alt_acceptor	1057246	1057247	-	asmbl_3494	none	blat.proc4216.chain_237,c370_f6p5_2865.path1	2	blat.proc4229.chain_178,c4383_f1p2_2658.path1	2
AmTr_v1.0_scaffold00025	retained_intron	1922332	1922733	+	asmbl_1900,asmbl_1902	none	blat.proc4137.chain_213,blat.proc4212.chain_217,blat.proc4219.chain_134,blat.proc4219.chain_6,blat.proc4227.chain_97,c183_f8p12_2892.path1,c506_f4p0_2930.path1,c6068_f1p3_2842.path1,c793_f2p2_2791.path1,c920_f2p3_2788.path1	10	blat.proc4139.chain_150,blat.proc4139.chain_32,blat.proc4194.chain_156,blat.proc4202.chain_40,c1006_f1p2_1377.path1,c1095_f3p6_1994.path1,c1532_f2p6_1883.path1,c908_f1p2_1875.path1	8
AmTr_v1.0_scaffold00101	spliced_intron	711984	712161	-	asmbl_4563,asmbl_4564	none	blat.proc4137.chain_225,blat.proc4139.chain_246,blat.proc4209.chain_115,blat.proc4227.chain_158,c1111_f2p10_2780.path1,c37_f7p10_3023.path1,c6236_f1p3_2160.path1,c9758_f1p4_1950.path1	8	blat.proc4137.chain_113,blat.proc4143.chain_129,blat.proc4202.chain_92,blat.proc4225.chain_188,blat.proc4227.chain_241,c1241_f2p4_1896.path1,c1358_f2p12_2815.path1,c4203_f1p3_1795.path1,c487_f5p20_3215.path1,c7740_f1p12_2938.path1	10
AmTr_v1.0_scaffold00017	spliced_intron	4691401	4691724	+	asmbl_1355,asmbl_1356,asmbl_1357,asmbl_1358,asmbl_1360,asmbl_1361,asmbl_1363	none	blat.proc4129.chain_33,blat.proc4131.chain_214,blat.proc4137.chain_75,blat.proc4147.chain_175,blat.proc4177.chain_126,blat.proc4179.chain_176,blat.proc4181.chain_209,blat.proc4185.chain_248,blat.proc4190.chain_44,blat.proc4192.chain_113,blat.proc4192.chain_263,blat.proc4192.chain_93,blat.proc4194.chain_22,blat.proc4200.chain_107,blat.proc4200.chain_148,blat.proc4202.chain_245,blat.proc4202.chain_32,blat.proc4212.chain_234,blat.proc4212.chain_260,blat.proc4219.chain_16,blat.proc4219.chain_32,blat.proc4221.chain_196,blat.proc4231.chain_143,blat.proc4231.chain_56,blat.proc4231.chain_72,c10377_f1p9_3177.path1,c1056_f2p1_1939.path1,c1080_f3p11_1843.path1,c12583_f1p9_2368.path1,c12673_f1p15_4296.path1,c12870_f1p5_2283.path1,c1443_f2p10_2662.path1,c1830_f2p17_2423.path1,c2373_f2p2_1919.path1,c254_f2p0_1216.path1,c271_f5p7_2808.path1,c3086_f1p14_4095.path1,c313_f14p20_2536.path1,c3336_f1p1_1960.path1,c358_f2p11_3065.path1,c458_f7p5_1670.path1,c498_f6p12_2936.path1,c540_f5p10_3071.path1,c5432_f1p0_1143.path1,c576_f5p11_2951.path1,c589_f4p16_1721.path1,c650_f6p14_2013.path1,c706_f4p7_1810.path1,c7244_f1p7_1076.path1,c9211_f1p6_2676.path1,c9685_f1p6_3415.path1,c975_f3p12_2164.path1	52	blat.proc4209.chain_217,c11931_f1p5_1972.path1	2
AmTr_v1.0_scaffold00025	alt_acceptor	6172155	6172156	-	asmbl_1990	none	blat.proc4141.chain_203,blat.proc4179.chain_152,blat.proc4188.chain_70,c10171_f1p0_2086.path1,c1379_f2p0_2200.path1,c807_f1p4_2618.path1	6	c11489_f1p0_1726.path1	1
AmTr_v1.0_scaffold00036	alt_donor	3033150	3033151	+	asmbl_2398	none	blat.proc4188.chain_86,c10336_f1p1_1666.path1	2	blat.proc4139.chain_51,c3126_f1p0_1444.path1	2
AmTr_v1.0_scaffold00011	alt_acceptor	2865409	2865410	-	asmbl_988	none	blat.proc4227.chain_216,c1290_f2p3_2793.path1	2	blat.proc4219.chain_188,c951_f2p0_2799.path1	2
AmTr_v1.0_scaffold00016	alternate_exon	5249375	5249754	+	asmbl_1278	none	blat.proc4190.chain_186,c14091_f1p1_1948.path1	2	blat.proc4177.chain_232,c952_f5p1_1629.path1	2
AmTr_v1.0_scaffold00015	retained_intron	7288591	7288683	-	asmbl_1222	none	blat.proc4139.chain_79,blat.proc4214.chain_62,blat.proc4225.chain_20,c10085_f1p5_2950.path1,c562_f3p4_2849.path1,c6418_f1p1_3388.path1	6	blat.proc4219.chain_168,c902_f2p5_2914.path1	2
AmTr_v1.0_scaffold00009	alternate_exon	7320427	7320639	-	asmbl_816	none	blat.proc4225.chain_146,blat.proc4225.chain_98,c11748_f2p3_2761.path1,c14648_f2p1_2772.path1,c292_f9p1_2880.path1	5	blat.proc4221.chain_35,c1205_f2p0_2775.path1	2
AmTr_v1.0_scaffold00059	spliced_intron	1937995	1938369	-	asmbl_3401	none	blat.proc4135.chain_114,blat.proc4188.chain_6,blat.proc4200.chain_11,blat.proc4200.chain_238,blat.proc4209.chain_118,c15266_f1p4_1945.path1,c220_f3p2_2256.path1,c933_f3p4_2131.path1,c9441_f1p2_1749.path1,c9766_f1p5_2066.path1	10	blat.proc4216.chain_155,c10530_f1p0_2707.path1	2
AmTr_v1.0_scaffold00046	alt_acceptor	583489	583490	-	asmbl_2806	none	c1743_f1p12_2997.path1,c268_f11p13_2769.path1,c312_f6p7_2868.path1	3	c1060_f2p7_3018.path1	1
AmTr_v1.0_scaffold00044	alt_acceptor	462826	462827	-	asmbl_2667	none	blat.proc4141.chain_9,c248_f2p0_2998.path1	2	blat.proc4223.chain_244	1
AmTr_v1.0_scaffold00029	skipped_exon	5507214	5513435	-	asmbl_2129	none	blat.proc4143.chain_257,c1013_f4p1_941.path1	2	blat.proc4174.chain_78,c2616_f2p1_986.path1	2
AmTr_v1.0_scaffold00003	ends_in_intron	1392320	1392320	-	asmbl_345	none	blat.proc4139.chain_139,c294_f2p2_1655.path1	2	blat.proc4221.chain_42,c1217_f2p2_2786.path1	2
AmTr_v1.0_scaffold00001	retained_intron	457141	457235	+	asmbl_20	none	blat.proc4185.chain_131,blat.proc4196.chain_38,blat.proc4219.chain_102,c2435_f1p1_1757.path1,c724_f3p1_2818.path1,c7752_f2p2_1900.path1	6	blat.proc4229.chain_87,c2100_f1p7_2845.path1	2
AmTr_v1.0_scaffold00011	retained_exon	3970532	3970589	-	asmbl_995	none	blat.proc4198.chain_187,c12416_f1p0_2148.path1	2	c2223_f1p2_3531.path1	1
AmTr_v1.0_scaffold00048	retained_intron	337143	338342	+	asmbl_2883,asmbl_2884	none	blat.proc4127.chain_104,blat.proc4216.chain_266,blat.proc4225.chain_260,c1479_f1p0_1606.path1,c485_f5p1_2799.path1,c676_f3p4_2825.path1	6	blat.proc4192.chain_137,c559_f6p3_1611.path1	2
AmTr_v1.0_scaffold00003	alt_donor	1552189	1552190	+	asmbl_347,asmbl_348,asmbl_349	none	blat.proc4177.chain_207,blat.proc4198.chain_232,blat.proc4200.chain_29,blat.proc4209.chain_74,blat.proc4225.chain_31,c10361_f1p2_2721.path1,c13599_f1p3_1600.path1,c15662_f2p4_2149.path1,c5040_f1p5_2244.path1,c8923_f1p6_2217.path1,c896_f4p4_2361.path1	11	c7697_f1p0_2134.path1	1
AmTr_v1.0_scaffold00009	retained_exon	4387877	4387957	-	asmbl_779	none	c9982_f1p1_1846.path1	1	blat.proc4198.chain_108	1
AmTr_v1.0_scaffold00085	alt_acceptor	1347186	1347187	-	asmbl_4240	none	blat.proc4219.chain_161,c873_f2p1_2628.path1	2	blat.proc4212.chain_257,blat.proc4219.chain_30,c344_f4p0_2645.path1,c569_f4p0_2756.path1	4
AmTr_v1.0_scaffold00019	retained_intron	5101188	5101294	+	asmbl_1491	none	blat.proc4196.chain_36,c2429_f1p0_2209.path1	2	blat.proc4143.chain_39,c1907_f2p1_1591.path1,c4712_f1p1_1427.path1	3
AmTr_v1.0_scaffold00002	alternate_exon	5809344	5809418	+	asmbl_214	none	blat.proc4188.chain_98,c10451_f1p0_2576.path1	2	blat.proc4223.chain_99,blat.proc4227.chain_19,c6119_f2p7_2838.path1,c732_f3p1_2681.path1	4
AmTr_v1.0_scaffold00018	spliced_intron	2859466	2860704	-	asmbl_1405	none	blat.proc4131.chain_107,c4185_f1p0_1118.path1	2	blat.proc4129.chain_197,blat.proc4129.chain_48,blat.proc4196.chain_259,c1536_f1p0_1070.path1,c293_f2p0_931.path1,c7201_f1p5_2320.path1	6
AmTr_v1.0_scaffold00159	alt_acceptor	132696	132697	-	asmbl_5253	none	blat.proc4198.chain_105,c9915_f1p0_1753.path1	2	blat.proc4139.chain_73,c5398_f1p0_1437.path1	2
AmTr_v1.0_scaffold00088	spliced_intron	2430403	2430715	+	asmbl_4313	none	blat.proc4131.chain_264,c207_f2p2_2251.path1	2	blat.proc4227.chain_94,c915_f2p0_3016.path1	2
AmTr_v1.0_scaffold00056	alt_acceptor	1281905	1281906	+	asmbl_3162	none	blat.proc4139.chain_234,c7607_f1p0_1355.path1	2	blat.proc4196.chain_146,c4610_f1p1_1749.path1	2
AmTr_v1.0_scaffold00003	starts_in_intron	3568775	3568775	+	asmbl_378	none	c552_f1p0_2022.path1	1	blat.proc4129.chain_215,blat.proc4131.chain_242,blat.proc4137.chain_196,blat.proc4147.chain_184,blat.proc4198.chain_159,blat.proc4200.chain_61,c11419_f1p4_1955.path1,c1847_f1p1_1082.path1,c303_f17p8_1853.path1,c5902_f1p1_1875.path1,c7537_f1p2_974.path1,c87_f3p3_1676.path1	12
AmTr_v1.0_scaffold00049	alt_acceptor	1458254	1458255	+	asmbl_2973	none	blat.proc4133.chain_184,c1229_f1p0_2097.path1	2	blat.proc4214.chain_104,c728_f2p0_2818.path1	2
AmTr_v1.0_scaffold00057	alt_donor	3308535	3308536	+	asmbl_3250	none	blat.proc4221.chain_56,c1255_f2p0_2687.path1	2	blat.proc4219.chain_187,c950_f2p0_2774.path1	2
AmTr_v1.0_scaffold00077	retained_intron	1331910	1332343	-	asmbl_4048	none	blat.proc4205.chain_65,c2879_f1p3_2244.path1	2	blat.proc4171.chain_161,blat.proc4200.chain_49,blat.proc4205.chain_148,c1175_f3p2_920.path1,c15839_f5p4_1827.path1,c4621_f1p6_1931.path1	6
AmTr_v1.0_scaffold00002	starts_in_intron	7581824	7581824	+	asmbl_237	none	blat.proc4139.chain_93,blat.proc4143.chain_137,c57_f3p6_3134.path1,c7851_f1p10_3316.path1	4	blat.proc4137.chain_263,blat.proc4139.chain_237,blat.proc4143.chain_136,c27_f2p4_3296.path1,c7783_f1p6_3347.path1,c7834_f2p8_3497.path1	6
AmTr_v1.0_scaffold00030	spliced_intron	16313	17067	+	asmbl_2143	none	blat.proc4129.chain_42,blat.proc4209.chain_97,c282_f2p1_1153.path1,c9298_f1p2_2100.path1	4	blat.proc4183.chain_190,c5068_f1p0_2037.path1	2
AmTr_v1.0_scaffold00109	spliced_intron	2058612	2059070	+	asmbl_4749	none	blat.proc4125.chain_77,c626_f1p0_1045.path1	2	blat.proc4190.chain_268,blat.proc4229.chain_252,c14886_f1p1_1775.path1,c7074_f1p7_2953.path1	4
AmTr_v1.0_scaffold00049	spliced_intron	843505	843587	-	asmbl_2956	none	blat.proc4174.chain_94,c3007_f1p1_947.path1	2	blat.proc4196.chain_195,c5912_f1p1_1821.path1	2
AmTr_v1.0_scaffold00012	skipped_exon	7560968	7561327	-	asmbl_1102	none	blat.proc4174.chain_251,c11554_f1p1_1063.path1	2	blat.proc4125.chain_179,blat.proc4131.chain_23,blat.proc4143.chain_255,blat.proc4147.chain_130,blat.proc4171.chain_253,c1007_f4p5_1206.path1,c1866_f2p1_1038.path1,c2901_f1p2_947.path1,c2917_f1p2_1045.path1,c5602_f1p3_1060.path1	10
AmTr_v1.0_scaffold00103	spliced_intron	2094545	2095266	-	asmbl_4620	none	blat.proc4192.chain_83,blat.proc4202.chain_233,c15669_f2p1_1635.path1,c1795_f2p5_1739.path1	4	blat.proc4225.chain_250,c646_f4p2_2994.path1	2
AmTr_v1.0_scaffold00011	alt_donor	5785139	5785140	-	asmbl_1007	none	blat.proc4188.chain_205,c11582_f1p0_1981.path1	2	blat.proc4188.chain_66,c10140_f1p1_1867.path1	2
AmTr_v1.0_scaffold00036	retained_intron	2153506	2153589	-	asmbl_2390	none	blat.proc4190.chain_80,blat.proc4198.chain_44,c12968_f1p2_1527.path1,c1590_f2p1_1909.path1,c8359_f1p2_1729.path1	5	blat.proc4198.chain_167	1
AmTr_v1.0_scaffold00002	spliced_intron	9132225	9132317	+	asmbl_274	none	blat.proc4139.chain_15,c182_f2p0_2659.path1	2	blat.proc4229.chain_237,c6484_f1p2_2828.path1	2
AmTr_v1.0_scaffold00016	spliced_intron	2703012	2703338	+	asmbl_1255	none	blat.proc4231.chain_67,c10303_f1p3_3098.path1	2	blat.proc4139.chain_77,blat.proc4229.chain_41,c1544_f2p3_3401.path1,c5910_f1p6_3110.path1	4
AmTr_v1.0_scaffold00095	retained_exon	1354430	1354533	-	asmbl_4444,asmbl_4445	none	blat.proc4177.chain_166,blat.proc4183.chain_91,c3953_f1p1_2329.path1,c768_f5p2_1933.path1	4	blat.proc4185.chain_16,blat.proc4192.chain_213,c15507_f2p1_1693.path1,c6231_f1p1_1830.path1,c821_f4p1_1920.path1	5
AmTr_v1.0_scaffold00003	spliced_intron	2297687	2297845	-	asmbl_364	none	blat.proc4227.chain_95,c917_f2p4_2570.path1	2	blat.proc4229.chain_233,c6390_f1p4_2845.path1	2
AmTr_v1.0_scaffold00061	spliced_intron	3248889	3249022	-	asmbl_3529	none	blat.proc4127.chain_242,c131_f4p0_1004.path1	2	blat.proc4131.chain_2,c2647_f1p1_1124.path1	2
AmTr_v1.0_scaffold00032	alt_donor	2466412	2466413	+	asmbl_2245	none	blat.proc4143.chain_138,c7862_f4p4_1865.path1	2	blat.proc4133.chain_209,blat.proc4143.chain_92,blat.proc4190.chain_51,blat.proc4200.chain_109,blat.proc4209.chain_42,c12629_f1p9_1891.path1,c2257_f1p6_1843.path1,c591_f7p78_2002.path1,c6667_f1p4_2099.path1,c8287_f1p63_2112.path1	10
AmTr_v1.0_scaffold00109	starts_in_intron	2028955	2028955	+	asmbl_4747	none	blat.proc4133.chain_174,c1012_f1p0_2306.path1	2	blat.proc4190.chain_161,c13834_f1p2_2220.path1	2
AmTr_v1.0_scaffold00060	starts_in_intron	527546	527546	+	asmbl_3452	none	blat.proc4139.chain_18,c190_f2p1_3142.path1	2	blat.proc4196.chain_40,c2455_f1p2_1622.path1	2
AmTr_v1.0_scaffold00030	retained_intron	6055377	6055463	+	asmbl_2185	none	blat.proc4129.chain_227,blat.proc4181.chain_177,blat.proc4188.chain_51,blat.proc4192.chain_8,c14978_f1p2_2121.path1,c2063_f1p0_1310.path1,c2134_f2p2_1870.path1,c9964_f1p2_1787.path1	8	blat.proc4209.chain_43,c8289_f1p2_1834.path1	2
AmTr_v1.0_scaffold00104	skipped_exon	1743782	1749294	+	asmbl_4639	none	blat.proc4183.chain_196,c5113_f1p0_2038.path1	2	blat.proc4196.chain_1,blat.proc4205.chain_134,c1908_f2p2_2017.path1,c4210_f1p2_2053.path1	4
AmTr_v1.0_scaffold00017	spliced_intron	1931969	1932077	-	asmbl_1326,asmbl_1327	none	blat.proc4125.chain_146,blat.proc4129.chain_228,blat.proc4131.chain_180,blat.proc4139.chain_174,blat.proc4177.chain_94,blat.proc4188.chain_230,blat.proc4192.chain_143,blat.proc4192.chain_203,blat.proc4198.chain_32,c11815_f1p7_1777.path1,c2106_f1p3_1381.path1,c2356_f1p1_1085.path1,c2881_f1p1_1480.path1,c477_f6p5_1605.path1,c5052_f1p1_1228.path1,c586_f6p12_1504.path1,c799_f5p8_1915.path1,c8144_f1p4_1631.path1	18	blat.proc4196.chain_74,blat.proc4200.chain_241,c3180_f1p2_1960.path1,c940_f3p1_2022.path1	4
AmTr_v1.0_scaffold00078	ends_in_intron	2553644	2553644	+	asmbl_4133	none	blat.proc4231.chain_27,c8487_f1p2_2770.path1	2	blat.proc4179.chain_133,c1324_f3p2_2396.path1	2
AmTr_v1.0_scaffold00003	retained_exon	2297846	2298590	-	asmbl_364	none	blat.proc4227.chain_95,c917_f2p4_2570.path1	2	blat.proc4141.chain_85,c7042_f1p0_2393.path1	2
AmTr_v1.0_scaffold00182	ends_in_intron	509372	509372	+	asmbl_5451	none	blat.proc4179.chain_243,c1609_f2p1_1671.path1	2	blat.proc4133.chain_35,c1835_f1p0_1772.path1	2
AmTr_v1.0_scaffold00113	retained_intron	1711274	1711397	+	asmbl_4818	none	blat.proc4181.chain_81,c1902_f2p0_1865.path1	2	blat.proc4196.chain_155,c4795_f1p2_1776.path1	2
AmTr_v1.0_scaffold00078	starts_in_intron	2550780	2550780	+	asmbl_4133	none	blat.proc4231.chain_27,c8487_f1p2_2770.path1	2	blat.proc4179.chain_133,c1324_f3p2_2396.path1	2
AmTr_v1.0_scaffold00148	alt_donor	534793	534794	-	asmbl_5158	none	blat.proc4214.chain_111,c754_f2p0_2865.path1	2	blat.proc4198.chain_49,c8401_f1p0_2055.path1	2
AmTr_v1.0_scaffold00104	alt_acceptor	1733623	1733624	+	asmbl_4638,asmbl_4639	none	blat.proc4183.chain_196,blat.proc4196.chain_1,blat.proc4205.chain_134,c1908_f2p2_2017.path1,c4210_f1p2_2053.path1,c5113_f1p0_2038.path1	6	blat.proc4214.chain_161,c998_f2p0_2688.path1	2
AmTr_v1.0_scaffold00002	retained_intron	7062991	7063649	-	asmbl_233	none	blat.proc4223.chain_198,c8194_f1p1_3089.path1	2	blat.proc4171.chain_32,c496_f11p2_990.path1	2
AmTr_v1.0_scaffold00025	spliced_intron	1921811	1922261	+	asmbl_1901	none	blat.proc4139.chain_150,blat.proc4139.chain_32,blat.proc4194.chain_156,blat.proc4202.chain_40,c1006_f1p2_1377.path1,c1095_f3p6_1994.path1,c1532_f2p6_1883.path1,c908_f1p2_1875.path1	8	blat.proc4137.chain_213,blat.proc4212.chain_217,blat.proc4219.chain_134,blat.proc4219.chain_6,blat.proc4227.chain_97,c183_f8p12_2892.path1,c506_f4p0_2930.path1,c6068_f1p3_2842.path1,c793_f2p2_2791.path1,c920_f2p3_2788.path1	10
AmTr_v1.0_scaffold00058	retained_intron	1719857	1720015	+	asmbl_3302	none	blat.proc4229.chain_109,c2651_f1p0_2915.path1	2	blat.proc4192.chain_5,blat.proc4209.chain_237,c12386_f1p3_1906.path1,c14953_f2p1_1954.path1	4
AmTr_v1.0_scaffold00004	retained_intron	9776466	9776564	+	asmbl_508	none	blat.proc4133.chain_129,c142_f2p1_1957.path1	2	blat.proc4135.chain_5,c150_f2p2_1941.path1	2
AmTr_v1.0_scaffold00001	ends_in_intron	163125	163125	-	asmbl_10	none	blat.proc4200.chain_1,c14888_f1p4_1717.path1	2	c14834_f1p1_1790.path1	1
AmTr_v1.0_scaffold00058	skipped_exon	3228150	3230957	+	asmbl_3331	none	blat.proc4225.chain_171,c435_f6p6_2754.path1	2	blat.proc4219.chain_5,c501_f5p2_2878.path1	2
AmTr_v1.0_scaffold00052	spliced_intron	2639230	2639307	+	asmbl_3063	none	blat.proc4219.chain_138,c801_f2p1_3146.path1	2	c728_f1p1_3036.path1	1
AmTr_v1.0_scaffold00025	alt_acceptor	3125870	3125871	+	asmbl_1931	none	blat.proc4219.chain_259,c1110_f2p0_2809.path1	2	blat.proc4229.chain_85,c2049_f1p0_2813.path1	2
AmTr_v1.0_scaffold00088	alternate_exon	2429730	2429854	+	asmbl_4314	none	blat.proc4194.chain_163,c1557_f2p1_2361.path1	2	blat.proc4131.chain_264,c207_f2p2_2251.path1	2
AmTr_v1.0_scaffold00001	alt_acceptor	448816	448817	+	asmbl_21	none	blat.proc4229.chain_87,c2100_f1p7_2845.path1	2	blat.proc4219.chain_102,c724_f3p1_2818.path1	2
AmTr_v1.0_scaffold00003	skipped_exon	2297687	2299870	-	asmbl_363	none	blat.proc4141.chain_85,c7042_f1p0_2393.path1	2	blat.proc4227.chain_95,c917_f2p4_2570.path1	2
AmTr_v1.0_scaffold00095	alt_acceptor	1353926	1353927	-	asmbl_4443,asmbl_4445,asmbl_4446	none	blat.proc4177.chain_166,blat.proc4185.chain_16,blat.proc4192.chain_213,c15507_f2p1_1693.path1,c6231_f1p1_1830.path1,c768_f5p2_1933.path1,c821_f4p1_1920.path1	7	blat.proc4183.chain_91,blat.proc4192.chain_60,c3953_f1p1_2329.path1	3
AmTr_v1.0_scaffold00164	alt_donor	221581	221582	-	asmbl_5295	none	blat.proc4185.chain_169,c8214_f1p1_1712.path1	2	c4392_f1p1_1759.path1	1
AmTr_v1.0_scaffold00001	retained_intron	121036	121249	+	asmbl_4	none	blat.proc4221.chain_159,c2398_f1p2_2890.path1	2	blat.proc4125.chain_55,blat.proc4127.chain_150,blat.proc4127.chain_250,blat.proc4129.chain_222,blat.proc4129.chain_256,blat.proc4137.chain_255,blat.proc4143.chain_141,blat.proc4143.chain_200,blat.proc4143.chain_28,blat.proc4145.chain_153,blat.proc4169.chain_218,blat.proc4169.chain_244,blat.proc4171.chain_1,blat.proc4192.chain_7,blat.proc4192.chain_90,blat.proc4194.chain_41,blat.proc4196.chain_197,blat.proc4200.chain_45,blat.proc4212.chain_191,blat.proc4212.chain_194,blat.proc4212.chain_202,c1139_f2p16_1908.path1,c143_f4p6_1498.path1,c14969_f2p7_2079.path1,c15807_f4p109_1859.path1,c16654_f10p72_1753.path1,c16666_f100p87_1754.path1,c16714_f2p29_1622.path1,c17501_f16p15_998.path1,c17666_f11p16_1154.path1,c17781_f14p5_947.path1,c1917_f2p2_1166.path1,c2025_f1p3_1644.path1,c2507_f1p5_1316.path1,c265_f5p26_1652.path1,c2694_f1p2_1655.path1,c288_f4p12_1312.path1,c295_f2p3_1199.path1,c4289_f1p10_1621.path1,c5931_f1p11_1725.path1,c6681_f1p7_1722.path1,c760_f7p23_1141.path1	42
AmTr_v1.0_scaffold00009	retained_exon	4380010	4380090	-	asmbl_778	none	blat.proc4198.chain_108	1	c9982_f1p1_1846.path1	1
AmTr_v1.0_scaffold00179	starts_in_intron	251776	251776	-	asmbl_5433	none	blat.proc4229.chain_256,c7146_f1p1_2714.path1	2	blat.proc4229.chain_40,blat.proc4231.chain_187,blat.proc4231.chain_86,c10886_f1p1_3505.path1,c14175_f1p1_2886.path1,c1543_f2p1_3060.path1	6
AmTr_v1.0_scaffold00021	spliced_intron	3444920	3445152	+	asmbl_1597	none	blat.proc4137.chain_251,c6565_f1p1_1856.path1	2	blat.proc4190.chain_214,c14364_f1p0_1757.path1	2
AmTr_v1.0_scaffold00001	alt_acceptor	358013	358014	+	asmbl_18	none	blat.proc4214.chain_79,c619_f3p5_2782.path1	2	blat.proc4131.chain_17,blat.proc4214.chain_151,blat.proc4219.chain_101,blat.proc4225.chain_174,blat.proc4227.chain_237,blat.proc4229.chain_76,c1342_f2p2_2842.path1,c1901_f1p2_2779.path1,c2861_f1p0_1533.path1,c444_f6p5_2667.path1,c723_f3p2_2787.path1,c954_f2p3_2838.path1	12
AmTr_v1.0_scaffold00095	alt_acceptor	139143	139144	+	asmbl_4425	none	blat.proc4225.chain_92,c11733_f2p0_2837.path1	2	blat.proc4185.chain_150,c7972_f1p1_1912.path1	2
AmTr_v1.0_scaffold00046	retained_exon	4648724	4648878	+	asmbl_2835	none	blat.proc4190.chain_227,c14480_f1p0_1706.path1	2	blat.proc4141.chain_257,blat.proc4221.chain_98,c1375_f2p0_2538.path1,c2825_f1p1_1655.path1	4
AmTr_v1.0_scaffold00017	spliced_intron	2057740	2057821	+	asmbl_1330	none	blat.proc4190.chain_39,c12515_f1p0_1909.path1	2	blat.proc4141.chain_71,blat.proc4221.chain_236,c3745_f1p0_3171.path1,c5580_f1p1_1683.path1	4
AmTr_v1.0_scaffold00109	starts_in_intron	2056735	2056735	+	asmbl_4748	none	blat.proc4229.chain_252,c7074_f1p7_2953.path1	2	blat.proc4125.chain_77,c626_f1p0_1045.path1	2
AmTr_v1.0_scaffold00010	alt_acceptor	8569482	8569483	-	asmbl_967	none	blat.proc4174.chain_189,c8436_f1p1_1176.path1	2	blat.proc4133.chain_47,blat.proc4135.chain_178,blat.proc4174.chain_205,c1167_f2p0_2118.path1,c2277_f1p3_1712.path1,c431_f2p0_1928.path1,c8995_f1p1_865.path1	7
AmTr_v1.0_scaffold00109	spliced_intron	2029847	2031006	+	asmbl_4746	none	blat.proc4190.chain_161,c13834_f1p2_2220.path1	2	blat.proc4133.chain_174,c1012_f1p0_2306.path1	2
AmTr_v1.0_scaffold00077	starts_in_intron	2499010	2499010	+	asmbl_4077	none	blat.proc4205.chain_201,c5753_f1p6_1729.path1	2	blat.proc4133.chain_270,blat.proc4133.chain_44,blat.proc4137.chain_14,blat.proc4183.chain_76,blat.proc4200.chain_18,blat.proc4200.chain_211,c109_f3p0_2050.path1,c15568_f1p4_2233.path1,c1919_f1p1_1739.path1,c2223_f1p1_1901.path1,c3755_f3p0_1687.path1,c870_f4p9_2175.path1	12
AmTr_v1.0_scaffold00012	spliced_intron	6446526	6446679	+	asmbl_1083	none	blat.proc4214.chain_12,c435_f3p3_2994.path1	2	blat.proc4190.chain_212,c14322_f1p0_1981.path1	2
AmTr_v1.0_scaffold00045	spliced_intron	586106	586895	-	asmbl_2730	none	blat.proc4229.chain_248,c6964_f1p2_2767.path1	2	blat.proc4143.chain_101,blat.proc4179.chain_244,blat.proc4227.chain_262,blat.proc4231.chain_81,c10710_f1p4_2800.path1,c1415_f2p6_2808.path1,c1612_f2p4_2365.path1,c6811_f1p2_3412.path1	8
AmTr_v1.0_scaffold00048	ends_in_intron	1650424	1650424	+	asmbl_2911	none	blat.proc4129.chain_203,c1606_f1p1_1092.path1	2	blat.proc4223.chain_221,blat.proc4227.chain_240,c1356_f2p2_2714.path1,c8748_f1p3_2735.path1	4
AmTr_v1.0_scaffold00102	skipped_exon	260918	272633	+	asmbl_4589	none	c5654_f1p1_2791.path1	1	blat.proc4214.chain_8,blat.proc4219.chain_63,blat.proc4227.chain_90,c410_f4p3_2848.path1,c650_f3p1_3007.path1,c902_f3p5_3047.path1	6
AmTr_v1.0_scaffold00036	retained_exon	757803	757917	+	asmbl_2384	none	blat.proc4143.chain_96,blat.proc4179.chain_66,c1184_f3p0_1788.path1,c6716_f1p0_1676.path1	4	blat.proc4181.chain_64,c1853_f2p0_1646.path1	2
AmTr_v1.0_scaffold00062	alt_acceptor	3651706	3651707	-	asmbl_3585	none	blat.proc4221.chain_155,c2374_f1p2_2932.path1	2	blat.proc4183.chain_90,blat.proc4214.chain_118,blat.proc4229.chain_58,blat.proc4231.chain_75,c10540_f1p7_2748.path1,c1704_f1p6_2779.path1,c3937_f1p1_2667.path1,c802_f2p3_2640.path1	8
AmTr_v1.0_scaffold00058	alt_acceptor	2454215	2454216	-	asmbl_3315,asmbl_3317,asmbl_3318	none	blat.proc4125.chain_16,blat.proc4135.chain_207,blat.proc4135.chain_75,blat.proc4137.chain_260,blat.proc4137.chain_261,blat.proc4137.chain_76,blat.proc4139.chain_34,blat.proc4141.chain_11,blat.proc4141.chain_255,blat.proc4200.chain_77,c1195_f1p2_1738.path1,c120_f3p2_1200.path1,c259_f2p5_1619.path1,c2662_f1p3_1767.path1,c3360_f1p16_2033.path1,c34_f6p34_1948.path1,c465_f9p2_1827.path1,c578_f1p6_2203.path1,c6782_f4p13_1814.path1,c6804_f3p1_1695.path1	20	c141_f2p0_1744.path1	1
AmTr_v1.0_scaffold00003	skipped_exon	1542703	1547718	+	asmbl_349	none	c5040_f1p5_2244.path1	1	blat.proc4177.chain_207,blat.proc4198.chain_232,blat.proc4200.chain_29,blat.proc4209.chain_74,c13599_f1p3_1600.path1,c15662_f2p4_2149.path1,c7697_f1p0_2134.path1,c8923_f1p6_2217.path1,c896_f4p4_2361.path1	9
AmTr_v1.0_scaffold00092	ends_in_intron	990233	990233	+	asmbl_4390	none	c6140_f1p2_1571.path1	1	blat.proc4192.chain_107,c432_f8p4_1754.path1	2
AmTr_v1.0_scaffold00019	spliced_intron	2915430	2915632	+	asmbl_1463	none	blat.proc4179.chain_166,c1419_f2p4_1989.path1	2	blat.proc4183.chain_111,c4141_f1p0_1861.path1	2
AmTr_v1.0_scaffold00039	spliced_intron	4760378	4761536	-	asmbl_2535	none	blat.proc4177.chain_95,blat.proc4185.chain_254,blat.proc4196.chain_157,c4801_f1p5_1797.path1,c480_f9p2_1922.path1,c9295_f1p2_1660.path1	6	blat.proc4221.chain_1,c1131_f2p0_3036.path1	2
AmTr_v1.0_scaffold00064	alt_acceptor	1936828	1936829	+	asmbl_3623	none	blat.proc4192.chain_230,c866_f3p3_1889.path1	2	blat.proc4190.chain_46,blat.proc4202.chain_17,c1052_f3p0_2011.path1,c12594_f1p2_1743.path1	4
AmTr_v1.0_scaffold00053	skipped_exon	505899	507431	-	asmbl_3077	none	blat.proc4205.chain_9,c1906_f2p3_2148.path1	2	blat.proc4216.chain_127,c9764_f1p0_3088.path1	2
AmTr_v1.0_scaffold00025	retained_intron	1921811	1922261	+	asmbl_1900,asmbl_1902	none	blat.proc4137.chain_213,blat.proc4212.chain_217,blat.proc4219.chain_134,blat.proc4219.chain_6,blat.proc4227.chain_97,c183_f8p12_2892.path1,c506_f4p0_2930.path1,c6068_f1p3_2842.path1,c793_f2p2_2791.path1,c920_f2p3_2788.path1	10	blat.proc4139.chain_150,blat.proc4139.chain_32,blat.proc4194.chain_156,blat.proc4202.chain_40,c1006_f1p2_1377.path1,c1095_f3p6_1994.path1,c1532_f2p6_1883.path1,c908_f1p2_1875.path1	8
AmTr_v1.0_scaffold00006	spliced_intron	1445753	1446892	-	asmbl_552	none	blat.proc4179.chain_19,c1087_f3p3_1726.path1	2	blat.proc4219.chain_108,c736_f3p1_2867.path1	2
AmTr_v1.0_scaffold00021	spliced_intron	1437429	1437488	+	asmbl_1578	none	blat.proc4212.chain_158,c16059_f1p1_1633.path1	2	blat.proc4141.chain_116,blat.proc4192.chain_204,blat.proc4202.chain_20,c1057_f3p1_2030.path1,c801_f4p2_1758.path1,c84_f3p1_1534.path1	6
AmTr_v1.0_scaffold00017	alt_donor	4681056	4681057	+	asmbl_1365	none	blat.proc4221.chain_43,c1218_f2p0_2941.path1	2	blat.proc4194.chain_22,c1056_f2p1_1939.path1	2
AmTr_v1.0_scaffold00019	spliced_intron	6283826	6283906	+	asmbl_1516	none	blat.proc4133.chain_21,c1067_f1p2_1727.path1	2	blat.proc4177.chain_204,blat.proc4181.chain_194,c2295_f1p2_1800.path1,c890_f4p2_1790.path1	4
AmTr_v1.0_scaffold00003	spliced_intron	1553305	1554655	+	asmbl_347,asmbl_349,asmbl_350	none	blat.proc4177.chain_207,blat.proc4198.chain_232,blat.proc4200.chain_29,blat.proc4209.chain_74,c13599_f1p3_1600.path1,c15662_f2p4_2149.path1,c5040_f1p5_2244.path1,c7697_f1p0_2134.path1,c8923_f1p6_2217.path1,c896_f4p4_2361.path1	10	blat.proc4225.chain_31,c10361_f1p2_2721.path1	2
AmTr_v1.0_scaffold00033	spliced_intron	2236555	2236643	+	asmbl_2298	none	blat.proc4125.chain_265,c97_f3p2_1371.path1	2	blat.proc4209.chain_66,c8751_f1p1_1699.path1	2
AmTr_v1.0_scaffold00071	retained_exon	2822256	2822363	-	asmbl_3943	none	blat.proc4205.chain_177,c5172_f1p0_1790.path1	2	blat.proc4196.chain_254,c7159_f1p2_1717.path1	2
AmTr_v1.0_scaffold00003	retained_intron	4139902	4140424	+	asmbl_384	none	blat.proc4231.chain_34,c8935_f1p1_2818.path1	2	blat.proc4147.chain_89,blat.proc4194.chain_81,blat.proc4196.chain_31,c1289_f2p1_1500.path1,c2263_f1p1_1680.path1,c4355_f2p0_986.path1	6
AmTr_v1.0_scaffold00117	alt_acceptor	19302	19303	-	asmbl_4843	none	blat.proc4145.chain_141,c1860_f2p1_940.path1	2	blat.proc4127.chain_31,blat.proc4145.chain_158,c1983_f3p3_1057.path1,c289_f2p0_1028.path1	4
AmTr_v1.0_scaffold00058	alt_acceptor	564059	564060	+	asmbl_3275,asmbl_3276,asmbl_3277,asmbl_3278,asmbl_3279	none	blat.proc4131.chain_252,blat.proc4135.chain_48,blat.proc4188.chain_44,blat.proc4192.chain_220,blat.proc4212.chain_41,c13930_f1p2_1953.path1,c148_f2p0_1767.path1,c2111_f1p0_1772.path1,c844_f3p2_1828.path1,c9887_f1p0_1863.path1	10	blat.proc4205.chain_43,c2261_f1p3_1826.path1	2
AmTr_v1.0_scaffold00019	spliced_intron	5912147	5912496	+	asmbl_1509	none	blat.proc4183.chain_215,blat.proc4188.chain_129,blat.proc4227.chain_212,c10810_f1p0_2062.path1,c1282_f2p3_3072.path1,c5442_f1p0_1815.path1	6	blat.proc4185.chain_12,c6174_f1p0_1761.path1	2
AmTr_v1.0_scaffold00004	spliced_intron	1263190	1263760	-	asmbl_455	none	blat.proc4194.chain_4,blat.proc4200.chain_133,c1008_f3p2_1818.path1,c667_f5p3_2441.path1	4	blat.proc4190.chain_2,blat.proc4212.chain_268,c12174_f1p1_2642.path1,c379_f4p1_3009.path1	4
AmTr_v1.0_scaffold00072	spliced_intron	2773214	2773405	-	asmbl_3979	none	blat.proc4227.chain_151,c1083_f2p2_2643.path1	2	blat.proc4214.chain_67,blat.proc4216.chain_228,blat.proc4225.chain_140,c228_f14p5_2752.path1,c325_f6p7_2901.path1,c583_f2p5_2698.path1	6
AmTr_v1.0_scaffold00025	alt_donor	4499758	4499759	-	asmbl_1960	none	blat.proc4209.chain_105,c9399_f1p0_1776.path1	2	blat.proc4141.chain_137,blat.proc4219.chain_208,c1004_f2p0_2623.path1,c181_f2p2_3245.path1	4
AmTr_v1.0_scaffold00047	retained_intron	1324568	1324694	-	asmbl_2858	none	c2290_f1p0_1589.path1	1	c3333_f1p0_1879.path1	1
AmTr_v1.0_scaffold00012	alternate_exon	2356756	2357156	+	asmbl_1049	none	blat.proc4192.chain_82,blat.proc4200.chain_80,c15656_f2p1_1768.path1,c489_f8p6_1903.path1	4	blat.proc4181.chain_50,c1820_f2p2_1821.path1	2
AmTr_v1.0_scaffold00025	spliced_intron	1190613	1191068	+	asmbl_1881	none	blat.proc4135.chain_3,blat.proc4135.chain_76,blat.proc4181.chain_43,blat.proc4192.chain_26,c144_f2p4_2022.path1,c15148_f32p13_2134.path1,c1800_f2p2_1990.path1,c49_f1p6_2024.path1	8	blat.proc4135.chain_251,c1310_f1p4_2536.path1	2
AmTr_v1.0_scaffold00005	retained_intron	4917436	4917565	-	asmbl_524	none	blat.proc4219.chain_177,c928_f2p1_2748.path1	2	blat.proc4137.chain_146,blat.proc4227.chain_255,c1394_f2p1_2669.path1,c5189_f1p2_2275.path1	4
AmTr_v1.0_scaffold00002	retained_intron	2110730	2110818	-	asmbl_163,asmbl_165,asmbl_166	none	blat.proc4183.chain_126,blat.proc4194.chain_65,blat.proc4198.chain_100,c1217_f2p0_1962.path1,c4276_f1p1_2028.path1,c9814_f1p1_1872.path1	6	blat.proc4188.chain_245,c11939_f1p1_1769.path1	2
AmTr_v1.0_scaffold00012	skipped_exon	2836392	2843163	-	asmbl_1053	none	blat.proc4183.chain_25,c3284_f1p1_1987.path1	2	blat.proc4198.chain_30,c8097_f1p0_1693.path1	2
AmTr_v1.0_scaffold00268	retained_exon	45380	45433	+	asmbl_5511	none	blat.proc4183.chain_54,c3580_f1p0_2087.path1	2	blat.proc4229.chain_161,blat.proc4229.chain_70,c1846_f1p5_2861.path1,c3808_f1p5_3100.path1	4
AmTr_v1.0_scaffold00088	alt_acceptor	2433769	2433770	+	asmbl_4313,asmbl_4315	none	blat.proc4131.chain_264,blat.proc4137.chain_97,blat.proc4227.chain_94,c207_f2p2_2251.path1,c3943_f1p1_1846.path1,c915_f2p0_3016.path1	6	blat.proc4194.chain_163,c1557_f2p1_2361.path1	2
AmTr_v1.0_scaffold00057	skipped_exon	2284185	2286358	+	asmbl_3229	none	blat.proc4135.chain_7,blat.proc4209.chain_185,c11241_f1p1_1762.path1,c161_f2p1_1749.path1	4	blat.proc4139.chain_227,c7193_f1p0_1834.path1	2
AmTr_v1.0_scaffold00001	ends_in_intron	4454299	4454299	-	asmbl_72	none	blat.proc4225.chain_68,c11223_f1p4_2923.path1	2	blat.proc4198.chain_92,c9646_f1p0_2064.path1	2
AmTr_v1.0_scaffold00072	spliced_intron	3456726	3456919	+	asmbl_3985	none	c7163_f1p1_2004.path1	1	blat.proc4188.chain_169,c11256_f1p0_1841.path1	2
AmTr_v1.0_scaffold00135	alt_acceptor	368129	368130	-	asmbl_5024	none	blat.proc4231.chain_64,c10264_f1p8_2798.path1	2	blat.proc4137.chain_41,blat.proc4143.chain_15,blat.proc4196.chain_264,blat.proc4229.chain_107,c2607_f1p6_2904.path1,c2732_f1p0_2488.path1,c3717_f1p2_2957.path1,c7330_f1p2_1692.path1	8
AmTr_v1.0_scaffold00056	spliced_intron	3379908	3379983	+	asmbl_3190	none	blat.proc4219.chain_192,c961_f2p0_2761.path1	2	blat.proc4216.chain_159,blat.proc4219.chain_255,blat.proc4229.chain_4,c10740_f1p2_2979.path1,c1103_f2p1_3102.path1,c1435_f2p1_2832.path1	6
AmTr_v1.0_scaffold00079	alternate_exon	725901	726073	+	asmbl_4154	none	blat.proc4145.chain_162,c2012_f2p2_1016.path1	2	blat.proc4169.chain_15,c11086_f1p2_871.path1	2
AmTr_v1.0_scaffold00003	alternate_exon	500350	502425	-	asmbl_328	none	blat.proc4141.chain_252,c2552_f1p2_3137.path1	2	blat.proc4141.chain_162,c307_f2p3_3053.path1	2
AmTr_v1.0_scaffold00009	spliced_intron	9243472	9243853	+	asmbl_849	none	blat.proc4225.chain_245,c628_f4p1_2843.path1	2	blat.proc4143.chain_35,c4476_f1p1_3467.path1	2
AmTr_v1.0_scaffold00137	ends_in_intron	446769	446769	-	asmbl_5057	none	blat.proc4131.chain_142,c4597_f1p0_977.path1	2	blat.proc4141.chain_179,blat.proc4219.chain_171,blat.proc4221.chain_186,blat.proc4221.chain_228,c2916_f1p7_2802.path1,c3649_f1p7_2902.path1,c373_f1p7_3014.path1,c913_f2p7_2685.path1	8
AmTr_v1.0_scaffold00052	retained_intron	2426082	2426338	-	asmbl_3061	none	blat.proc4221.chain_177,c2743_f1p1_2784.path1	2	blat.proc4183.chain_127,c4312_f1p0_2488.path1	2
AmTr_v1.0_scaffold00028	alt_acceptor	3363463	3363464	+	asmbl_2025	none	blat.proc4223.chain_110,c6366_f1p1_2643.path1	2	blat.proc4141.chain_82,c6975_f1p1_2632.path1	2
AmTr_v1.0_scaffold00001	alternate_exon	353024	353128	+	asmbl_18	none	blat.proc4214.chain_79,c619_f3p5_2782.path1	2	blat.proc4214.chain_151,c954_f2p3_2838.path1	2
AmTr_v1.0_scaffold00130	alt_acceptor	820036	820037	-	asmbl_4966	none	blat.proc4185.chain_265,c9408_f1p0_1908.path1	2	blat.proc4200.chain_190,c816_f4p0_1902.path1	2
AmTr_v1.0_scaffold00025	alt_donor	4514416	4514417	-	asmbl_1958	none	blat.proc4141.chain_137	1	c181_f2p2_3245.path1	1
AmTr_v1.0_scaffold00021	skipped_exon	3342794	3347810	-	asmbl_1594	none	blat.proc4133.chain_162,c619_f1p0_2175.path1	2	blat.proc4205.chain_183,c5477_f1p1_2414.path1	2
AmTr_v1.0_scaffold00023	retained_intron	1028442	1028697	+	asmbl_1745,asmbl_1747	none	blat.proc4216.chain_64,blat.proc4221.chain_10,blat.proc4223.chain_24,blat.proc4227.chain_98,blat.proc4229.chain_93,blat.proc4231.chain_11,c1160_f2p3_2996.path1,c2176_f1p4_2795.path1,c4830_f1p6_3043.path1,c7309_f2p6_2931.path1,c7951_f1p5_2886.path1,c922_f3p12_3164.path1	12	blat.proc4231.chain_55,c9646_f1p8_2814.path1	2
AmTr_v1.0_scaffold00076	retained_intron	3343042	3343161	+	asmbl_4026	none	blat.proc4205.chain_210,c6137_f1p2_2056.path1	2	blat.proc4135.chain_98,c157_f3p0_1935.path1	2
AmTr_v1.0_scaffold00142	retained_intron	222668	222805	+	asmbl_5090,asmbl_5092	none	blat.proc4135.chain_90,blat.proc4202.chain_182,blat.proc4202.chain_7,blat.proc4214.chain_207,c1023_f4p8_1950.path1,c129_f4p7_1952.path1,c1601_f2p7_1785.path1,c1823_f1p0_2825.path1	8	blat.proc4192.chain_157,blat.proc4200.chain_157,c729_f4p5_1808.path1	3
AmTr_v1.0_scaffold00058	alt_donor	2452880	2452881	-	asmbl_3315,asmbl_3316,asmbl_3318	none	blat.proc4125.chain_16,blat.proc4131.chain_103,blat.proc4135.chain_207,blat.proc4135.chain_75,blat.proc4137.chain_260,blat.proc4137.chain_261,blat.proc4137.chain_76,blat.proc4139.chain_34,blat.proc4141.chain_11,blat.proc4200.chain_77,c1195_f1p2_1738.path1,c120_f3p2_1200.path1,c141_f2p0_1744.path1,c259_f2p5_1619.path1,c3360_f1p16_2033.path1,c34_f6p34_1948.path1,c4152_f1p4_1020.path1,c465_f9p2_1827.path1,c578_f1p6_2203.path1,c6782_f4p13_1814.path1,c6804_f3p1_1695.path1	21	blat.proc4141.chain_255,c2662_f1p3_1767.path1	2
AmTr_v1.0_scaffold00103	spliced_intron	1505615	1506773	-	asmbl_4614	none	blat.proc4133.chain_163,c623_f1p0_1807.path1	2	blat.proc4229.chain_100,c2373_f1p1_2961.path1	2
AmTr_v1.0_scaffold00021	retained_intron	1436792	1437286	+	asmbl_1577	none	blat.proc4202.chain_20,c1057_f3p1_2030.path1	2	blat.proc4141.chain_116,blat.proc4192.chain_204,blat.proc4212.chain_158,c16059_f1p1_1633.path1,c801_f4p2_1758.path1,c84_f3p1_1534.path1	6
AmTr_v1.0_scaffold00024	alt_acceptor	750134	750135	+	asmbl_1786	none	blat.proc4212.chain_210,blat.proc4227.chain_28,c161_f10p3_2835.path1,c753_f3p8_2901.path1	4	blat.proc4229.chain_177,c4321_f1p7_2721.path1	2
AmTr_v1.0_scaffold00119	spliced_intron	858635	858820	-	asmbl_4879	none	blat.proc4227.chain_41,c783_f3p5_2770.path1	2	blat.proc4190.chain_119,blat.proc4212.chain_240,blat.proc4229.chain_122,c13418_f1p1_1810.path1,c2930_f2p1_2881.path1,c294_f5p3_2771.path1	6
AmTr_v1.0_scaffold00020	ends_in_intron	6065624	6065624	-	asmbl_1559	none	blat.proc4188.chain_189,c11438_f1p0_1883.path1	2	blat.proc4214.chain_247,c3498_f1p1_3017.path1	2
AmTr_v1.0_scaffold00048	skipped_exon	1630970	1633331	+	asmbl_2909	none	blat.proc4223.chain_221,c8748_f1p3_2735.path1	2	blat.proc4227.chain_240,c1356_f2p2_2714.path1	2
AmTr_v1.0_scaffold00022	retained_intron	3864087	3864188	-	asmbl_1698	none	blat.proc4190.chain_191,c14159_f1p4_1773.path1	2	blat.proc4202.chain_56,c1138_f3p0_2005.path1	2
AmTr_v1.0_scaffold00066	alt_donor	3570627	3570628	-	asmbl_3741,asmbl_3742	none	blat.proc4133.chain_266,blat.proc4133.chain_34,blat.proc4137.chain_66,blat.proc4188.chain_150,c10982_f1p2_1754.path1,c1806_f1p1_1945.path1,c3178_f1p1_1765.path1,c92_f3p0_1895.path1	8	blat.proc4194.chain_259,c1872_f2p1_1917.path1	2
AmTr_v1.0_scaffold00009	spliced_intron	9193149	9193678	+	asmbl_843,asmbl_844	none	blat.proc4135.chain_85,blat.proc4139.chain_176,blat.proc4139.chain_224,blat.proc4179.chain_60,c112_f5p2_1565.path1,c1175_f3p3_1620.path1,c2983_f1p2_1454.path1,c6937_f1p2_1360.path1	8	blat.proc4179.chain_139,blat.proc4181.chain_71,c1340_f4p2_2069.path1,c1870_f2p0_2149.path1	4
AmTr_v1.0_scaffold00029	skipped_exon	3938135	3939364	-	asmbl_2100	none	c13193_f1p1_1836.path1	1	blat.proc4188.chain_83,c10299_f1p0_2110.path1	2
AmTr_v1.0_scaffold00030	spliced_intron	497705	498417	+	asmbl_2147	none	c2643_f2p0_1093.path1	1	c1017_f2p0_2818.path1	1
AmTr_v1.0_scaffold00024	alt_acceptor	4876250	4876251	-	asmbl_1824	none	blat.proc4231.chain_118,c12050_f1p3_2622.path1	2	blat.proc4212.chain_218,blat.proc4214.chain_35,c196_f8p5_2875.path1,c497_f3p4_2784.path1	4
AmTr_v1.0_scaffold00002	spliced_intron	3820680	3821459	+	asmbl_183	none	blat.proc4179.chain_256,c1648_f2p0_1797.path1	2	blat.proc4231.chain_202,c14463_f1p0_3130.path1	2
AmTr_v1.0_scaffold00017	spliced_intron	1673896	1675152	-	asmbl_1320	none	blat.proc4190.chain_185,c14088_f1p1_2172.path1	2	c5910_f1p2_3086.path1	1
AmTr_v1.0_scaffold00007	spliced_intron	6051824	6053167	+	asmbl_691	none	blat.proc4179.chain_117,c1283_f1p0_1688.path1	2	blat.proc4216.chain_55,c6695_f1p1_2809.path1	2
AmTr_v1.0_scaffold00042	spliced_intron	2301291	2301378	-	asmbl_2651	none	blat.proc4129.chain_178,c1234_f1p0_1076.path1	2	blat.proc4139.chain_64,c4393_f1p1_1716.path1	2
AmTr_v1.0_scaffold00058	spliced_intron	1305561	1305632	+	asmbl_3291	none	blat.proc4135.chain_208,c579_f1p0_1673.path1	2	blat.proc4181.chain_222,c2614_f1p1_1708.path1	2
AmTr_v1.0_scaffold00018	alt_acceptor	6872986	6872987	+	asmbl_1421	none	blat.proc4135.chain_143,c321_f2p0_1757.path1	2	blat.proc4135.chain_246,blat.proc4198.chain_78,c1260_f1p0_1835.path1,c9270_f1p1_1752.path1	4
AmTr_v1.0_scaffold00032	alt_donor	2466390	2466391	+	asmbl_2244,asmbl_2246	none	blat.proc4133.chain_209,blat.proc4143.chain_92,blat.proc4190.chain_51,blat.proc4200.chain_109,blat.proc4209.chain_42,c12629_f1p9_1891.path1,c2257_f1p6_1843.path1,c591_f7p78_2002.path1,c6667_f1p4_2099.path1,c8287_f1p63_2112.path1	10	blat.proc4143.chain_138,c7862_f4p4_1865.path1	2
AmTr_v1.0_scaffold00049	alt_donor	4108282	4108283	+	asmbl_3009,asmbl_3010	none	blat.proc4137.chain_204,blat.proc4181.chain_237,blat.proc4183.chain_183,blat.proc4214.chain_59,blat.proc4225.chain_133,blat.proc4225.chain_136,c10424_f1p3_2869.path1,c10860_f1p2_1967.path1,c11759_f2p0_2883.path1,c11847_f3p5_2819.path1,c134_f12p19_2905.path1,c14656_f10p17_2928.path1,c174_f10p20_2886.path1,c2792_f1p3_2412.path2,c5031_f1p1_1936.path1,c552_f4p6_2878.path1,c5952_f1p0_1745.path1	17	c2304_f1p0_2111.path1,c775_f3p6_2885.path1	2
AmTr_v1.0_scaffold00163	alternate_exon	488284	488507	+	asmbl_5285	none	blat.proc4216.chain_178,c11485_f1p5_2851.path1	2	blat.proc4214.chain_72,blat.proc4216.chain_81,c594_f3p4_2733.path1,c8039_f1p5_2902.path1	4
AmTr_v1.0_scaffold00025	skipped_exon	1499505	1500241	+	asmbl_1891	none	blat.proc4196.chain_97,c3516_f1p2_1788.path1	2	blat.proc4192.chain_160,c652_f5p4_1799.path1	2
AmTr_v1.0_scaffold00030	retained_intron	497705	498417	+	asmbl_2146	none	c1017_f2p0_2818.path1	1	c2643_f2p0_1093.path1	1
AmTr_v1.0_scaffold00059	retained_intron	1937560	1937719	-	asmbl_3402	none	blat.proc4216.chain_155,c10530_f1p0_2707.path1	2	blat.proc4135.chain_114,blat.proc4188.chain_6,blat.proc4200.chain_11,blat.proc4200.chain_238,blat.proc4209.chain_118,c15266_f1p4_1945.path1,c220_f3p2_2256.path1,c933_f3p4_2131.path1,c9441_f1p2_1749.path1,c9766_f1p5_2066.path1	10
AmTr_v1.0_scaffold00159	alternate_exon	450152	450218	+	asmbl_5257	none	blat.proc4190.chain_43,c12570_f1p0_2441.path1	2	blat.proc4219.chain_234,blat.proc4229.chain_189,c1061_f2p0_2874.path1,c2501_f1p5_2809.path1,c4693_f1p5_2989.path1	5
AmTr_v1.0_scaffold00165	alternate_exon	188534	189360	+	asmbl_5303	none	blat.proc4177.chain_141,blat.proc4188.chain_39,blat.proc4196.chain_88,blat.proc4212.chain_188,c16645_f3p3_1804.path1,c3367_f1p7_1834.path1,c692_f5p4_1937.path1,c9829_f1p3_1686.path1	8	blat.proc4129.chain_138,c751_f1p2_1083.path1	2
AmTr_v1.0_scaffold00102	starts_in_intron	657585	657585	+	asmbl_4593	none	blat.proc4139.chain_47,c2820_f1p0_1380.path1	2	blat.proc4192.chain_31,blat.proc4202.chain_97,c1256_f2p1_1803.path1,c15205_f4p1_1936.path1	4
AmTr_v1.0_scaffold00016	retained_intron	2707271	2707357	+	asmbl_1256	none	blat.proc4143.chain_9,c3504_f1p4_2662.path1	2	blat.proc4139.chain_77,blat.proc4229.chain_41,blat.proc4229.chain_79,blat.proc4231.chain_67,c10303_f1p3_3098.path1,c1544_f2p3_3401.path1,c1956_f1p3_3136.path1,c5910_f1p6_3110.path1	8
AmTr_v1.0_scaffold00136	retained_intron	219563	219685	-	asmbl_5042	none	blat.proc4135.chain_184,c447_f2p3_1792.path1	2	blat.proc4174.chain_263,c12418_f1p1_1029.path1	2
AmTr_v1.0_scaffold00001	alternate_exon	113051	123699	+	asmbl_4	none	blat.proc4179.chain_116,blat.proc4192.chain_95,blat.proc4221.chain_159,blat.proc4231.chain_179,c1270_f3p7_1876.path1,c13795_f1p1_2744.path1,c2398_f1p2_2890.path1,c321_f5p13_1759.path1	8	blat.proc4177.chain_89,blat.proc4192.chain_34,c15233_f24p19_1848.path1,c399_f14p18_1801.path1	4
AmTr_v1.0_scaffold00003	alt_acceptor	30515	30516	+	asmbl_316,asmbl_317	none	blat.proc4133.chain_242,blat.proc4177.chain_175,blat.proc4183.chain_138,blat.proc4194.chain_29,blat.proc4196.chain_170,blat.proc4196.chain_191,blat.proc4200.chain_30,blat.proc4202.chain_229,blat.proc4216.chain_203,blat.proc4216.chain_221,blat.proc4227.chain_80,c1090_f3p2_1707.path1,c139_f17p9_2614.path1,c15683_f1p4_1996.path1,c1776_f2p0_1726.path1,c291_f7p9_2717.path1,c3816_f1p5_2239.path1,c4412_f1p14_2370.path1,c5215_f1p5_1587.path1,c5745_f1p7_2118.path1,c789_f4p4_1851.path1,c869_f2p6_3026.path1	22	blat.proc4223.chain_80,c5718_f1p1_2810.path1	2
AmTr_v1.0_scaffold00049	retained_exon	1459892	1460043	+	asmbl_2972	none	blat.proc4214.chain_104,c728_f2p0_2818.path1	2	blat.proc4133.chain_184,c1229_f1p0_2097.path1	2
AmTr_v1.0_scaffold00226	retained_intron	1446	1471	-	asmbl_5506	none	blat.proc4194.chain_43,c1143_f2p1_2024.path1	2	blat.proc4147.chain_238,blat.proc4177.chain_170,blat.proc4198.chain_120,c10226_f1p7_1879.path1,c4312_f1p7_2153.path1,c774_f3p3_2033.path1,c9904_f1p1_1639.path1	7
AmTr_v1.0_scaffold00048	spliced_intron	337143	338342	+	asmbl_2885	none	blat.proc4192.chain_137,c559_f6p3_1611.path1	2	blat.proc4127.chain_104,blat.proc4216.chain_266,blat.proc4225.chain_260,c1479_f1p0_1606.path1,c485_f5p1_2799.path1,c676_f3p4_2825.path1	6
AmTr_v1.0_scaffold00003	retained_exon	1251941	1252027	+	asmbl_340	none	blat.proc4139.chain_9	1	c129_f2p2_3061.path1	1
AmTr_v1.0_scaffold00001	spliced_intron	188828	189848	+	asmbl_12	none	blat.proc4190.chain_197,c14200_f1p1_1811.path1	2	blat.proc4221.chain_234,c3729_f1p0_2822.path1	2
AmTr_v1.0_scaffold00109	retained_intron	2059109	2059457	+	asmbl_4748	none	blat.proc4190.chain_268,blat.proc4229.chain_252,c14886_f1p1_1775.path1,c7074_f1p7_2953.path1	4	blat.proc4125.chain_77,c626_f1p0_1045.path1	2
AmTr_v1.0_scaffold00076	spliced_intron	3343042	3343126	+	asmbl_4025	none	blat.proc4185.chain_249,c9230_f1p0_2110.path1	2	blat.proc4205.chain_210,c6137_f1p2_2056.path1	2
AmTr_v1.0_scaffold00010	alt_acceptor	8569479	8569480	-	asmbl_965	none	blat.proc4133.chain_47,blat.proc4135.chain_178,blat.proc4174.chain_205,c1167_f2p0_2118.path1,c2277_f1p3_1712.path1,c431_f2p0_1928.path1,c8995_f1p1_865.path1	7	blat.proc4174.chain_189,c8436_f1p1_1176.path1	2
AmTr_v1.0_scaffold00012	alt_acceptor	143988	143989	+	asmbl_1034	none	blat.proc4179.chain_182,c1458_f2p4_1817.path1	2	blat.proc4192.chain_141,c572_f6p3_1780.path1	2
AmTr_v1.0_scaffold00001	retained_intron	122773	123052	+	asmbl_6	none	blat.proc4229.chain_207,c5441_f1p3_2563.path1	2	blat.proc4231.chain_179,c13795_f1p1_2744.path1	2
AmTr_v1.0_scaffold00077	retained_intron	1626191	1627340	+	asmbl_4053	none	blat.proc4190.chain_30,blat.proc4227.chain_32,c12429_f1p2_1915.path1,c762_f3p1_2897.path1	4	blat.proc4177.chain_93,blat.proc4205.chain_203,c446_f17p2_1794.path1,c5849_f2p0_1782.path1	4
AmTr_v1.0_scaffold00016	spliced_intron	2703012	2703305	+	asmbl_1254	none	blat.proc4229.chain_79,c1956_f1p3_3136.path1	2	blat.proc4139.chain_77,blat.proc4229.chain_41,c1544_f2p3_3401.path1,c5910_f1p6_3110.path1	4
AmTr_v1.0_scaffold00088	alt_acceptor	2433760	2433761	+	asmbl_4314	none	blat.proc4194.chain_163,c1557_f2p1_2361.path1	2	blat.proc4131.chain_264,blat.proc4137.chain_97,blat.proc4227.chain_94,c207_f2p2_2251.path1,c3943_f1p1_1846.path1,c915_f2p0_3016.path1	6
AmTr_v1.0_scaffold00072	alt_acceptor	2773310	2773311	-	asmbl_3980	none	blat.proc4227.chain_238,c1347_f2p3_2719.path1	2	blat.proc4227.chain_151,c1083_f2p2_2643.path1	2
AmTr_v1.0_scaffold00040	alt_acceptor	4015914	4015915	+	asmbl_2576	none	blat.proc4139.chain_57,c3710_f1p4_3698.path1	2	blat.proc4190.chain_13,c12292_f1p1_2173.path1	2
AmTr_v1.0_scaffold00047	ends_in_intron	781106	781106	+	asmbl_2850	none	blat.proc4205.chain_76,c3137_f1p0_2005.path1	2	blat.proc4198.chain_202,c12750_f1p2_1891.path1	2
AmTr_v1.0_scaffold00033	alt_acceptor	2967235	2967236	-	asmbl_2309	none	blat.proc4129.chain_163,c1002_f1p1_1211.path1	2	blat.proc4147.chain_103,c4809_f3p0_1091.path1	2
AmTr_v1.0_scaffold00092	ends_in_intron	218846	218846	-	asmbl_4374	none	blat.proc4196.chain_129,c4251_f1p1_1537.path1	2	blat.proc4141.chain_29,blat.proc4200.chain_209,c1181_f1p0_1879.path1,c868_f3p3_1998.path1	4
AmTr_v1.0_scaffold00077	retained_intron	122726	123078	+	asmbl_4029	none	blat.proc4188.chain_46,c9924_f1p0_1814.path1	2	blat.proc4190.chain_63,c12808_f1p1_1805.path1	2
AmTr_v1.0_scaffold00032	starts_in_intron	2211801	2211801	+	asmbl_2240	none	blat.proc4198.chain_73,c9191_f1p0_2167.path1	2	blat.proc4183.chain_218,c5456_f1p0_2173.path1	2
AmTr_v1.0_scaffold00035	alt_acceptor	4004976	4004977	-	asmbl_2370	none	blat.proc4205.chain_172,c5065_f1p0_2217.path1	2	blat.proc4181.chain_96,c1944_f2p0_2018.path1	2
AmTr_v1.0_scaffold00102	spliced_intron	137010	137764	-	asmbl_4587	none	blat.proc4139.chain_147,c734_f1p0_1593.path1	2	blat.proc4141.chain_7,blat.proc4190.chain_136,blat.proc4194.chain_45,c1149_f2p2_1817.path1,c13624_f1p1_2208.path1,c240_f2p0_1658.path1	6
AmTr_v1.0_scaffold00072	retained_intron	2773310	2773405	-	asmbl_3978	none	blat.proc4214.chain_67,blat.proc4216.chain_228,blat.proc4225.chain_140,c228_f14p5_2752.path1,c325_f6p7_2901.path1,c583_f2p5_2698.path1	6	blat.proc4227.chain_238,c1347_f2p3_2719.path1	2
AmTr_v1.0_scaffold00003	retained_intron	2297936	2298376	-	asmbl_362	none	blat.proc4229.chain_233,c6390_f1p4_2845.path1	2	blat.proc4227.chain_95,c917_f2p4_2570.path1	2
AmTr_v1.0_scaffold00056	skipped_exon	3372967	3375374	+	asmbl_3189,asmbl_3190	none	blat.proc4216.chain_159,blat.proc4219.chain_192,blat.proc4229.chain_4,c10740_f1p2_2979.path1,c1435_f2p1_2832.path1,c961_f2p0_2761.path1	6	blat.proc4219.chain_255,c1103_f2p1_3102.path1	2
AmTr_v1.0_scaffold00022	retained_exon	3864260	3864437	-	asmbl_1697	none	blat.proc4183.chain_257,c5892_f1p1_1930.path1	2	blat.proc4169.chain_174,blat.proc4177.chain_162,blat.proc4181.chain_160,blat.proc4181.chain_167,blat.proc4190.chain_48,blat.proc4192.chain_119,blat.proc4192.chain_12,blat.proc4192.chain_164,blat.proc4192.chain_35,blat.proc4192.chain_38,blat.proc4194.chain_239,blat.proc4200.chain_39,blat.proc4200.chain_68,blat.proc4205.chain_174,blat.proc4205.chain_181,blat.proc4205.chain_212,blat.proc4212.chain_48,blat.proc4216.chain_267,blat.proc4227.chain_115,blat.proc4227.chain_76,blat.proc4229.chain_131,blat.proc4231.chain_1,blat.proc4231.chain_133,blat.proc4231.chain_214,blat.proc4231.chain_232,blat.proc4231.chain_236,blat.proc4231.chain_5,c12515_f1p11_2795.path1,c12610_f1p11_2872.path1,c14026_f1p12_2494.path1,c14557_f2p88_3146.path1,c14709_f150p118_3032.path1,c14782_f7p38_2786.path1,c15001_f2p7_2497.path1,c15246_f6p6_1825.path1,c15264_f3p8_2091.path1,c15790_f8p8_1687.path1,c16066_f1p3_1221.path1,c1801_f2p9_2311.path1,c2088_f2p8_2630.path1,c2106_f2p6_2037.path1,c3063_f1p19_2677.path1,c403_f5p9_1956.path1,c479_f6p18_2233.path1,c490_f2p62_2916.path1,c5106_f1p0_1468.path1,c5387_f1p0_1682.path1,c6156_f1p10_2496.path1,c662_f2p17_2338.path1,c749_f5p4_1804.path1,c7572_f2p16_2715.path1,c7647_f1p10_2984.path1,c858_f3p43_2827.path1,c979_f1p7_2728.path1	54
AmTr_v1.0_scaffold00130	spliced_intron	1524822	1525851	+	asmbl_4973,asmbl_4975	none	blat.proc4139.chain_192,blat.proc4216.chain_268,blat.proc4225.chain_221,c4359_f1p0_2766.path1,c491_f5p2_2972.path1,c578_f4p7_3128.path1	6	blat.proc4198.chain_194,c12566_f1p0_2122.path1	2
AmTr_v1.0_scaffold00131	retained_exon	618211	618326	+	asmbl_4987	none	blat.proc4190.chain_141,c13648_f1p3_2187.path1	2	blat.proc4188.chain_197,blat.proc4194.chain_243,c11523_f1p3_2127.path1,c1818_f2p1_1976.path1	4
AmTr_v1.0_scaffold00052	ends_in_intron	2639496	2639496	+	asmbl_3064	none	c728_f1p1_3036.path1	1	blat.proc4219.chain_138,c801_f2p1_3146.path1	2
AmTr_v1.0_scaffold00210	retained_exon	57710	57775	+	asmbl_5497	none	blat.proc4219.chain_269,c1129_f2p0_2793.path1	2	blat.proc4214.chain_158,c979_f2p1_2735.path1	2
AmTr_v1.0_scaffold00170	ends_in_intron	738236	738236	+	asmbl_5350,asmbl_5351	none	blat.proc4179.chain_82,blat.proc4209.chain_13,c1215_f3p0_2066.path1,c7592_f1p4_1766.path1	4	blat.proc4125.chain_143,blat.proc4129.chain_97,blat.proc4169.chain_180,blat.proc4174.chain_69,c16233_f1p1_935.path1,c2251_f1p2_1093.path1,c2539_f2p0_931.path1,c462_f2p2_1154.path1	8
AmTr_v1.0_scaffold00067	alt_acceptor	2558325	2558326	-	asmbl_3774	none	blat.proc4143.chain_67,c5722_f1p0_1252.path1	2	blat.proc4129.chain_82,c417_f2p0_1463.path1	2
AmTr_v1.0_scaffold00013	retained_intron	3031264	3031775	-	asmbl_1139	none	blat.proc4198.chain_163,blat.proc4202.chain_166,c11583_f1p1_1812.path1,c1527_f2p2_1631.path1	4	blat.proc4131.chain_72,blat.proc4169.chain_104,blat.proc4171.chain_2,c14081_f2p3_1142.path1,c17786_f20p16_1015.path1,c3651_f1p7_1131.path1	6
AmTr_v1.0_scaffold00106	alt_acceptor	758020	758021	-	asmbl_4666	none	blat.proc4185.chain_56,c6686_f1p0_1689.path1	2	blat.proc4200.chain_239,c935_f3p2_1716.path1	2
AmTr_v1.0_scaffold00076	alt_acceptor	740711	740712	+	asmbl_4018	none	blat.proc4147.chain_48,blat.proc4216.chain_78,c3116_f1p1_925.path1,c8020_f1p1_2624.path1	4	blat.proc4137.chain_102,c4047_f1p1_1834.path1	2
AmTr_v1.0_scaffold00022	retained_exon	3864189	3864437	-	asmbl_1696	none	blat.proc4202.chain_56,c1138_f3p0_2005.path1	2	blat.proc4169.chain_174,blat.proc4177.chain_162,blat.proc4181.chain_160,blat.proc4181.chain_167,blat.proc4190.chain_48,blat.proc4192.chain_119,blat.proc4192.chain_12,blat.proc4192.chain_164,blat.proc4192.chain_35,blat.proc4192.chain_38,blat.proc4194.chain_239,blat.proc4200.chain_39,blat.proc4200.chain_68,blat.proc4205.chain_174,blat.proc4205.chain_181,blat.proc4205.chain_212,blat.proc4212.chain_48,blat.proc4216.chain_267,blat.proc4227.chain_115,blat.proc4227.chain_76,blat.proc4229.chain_131,blat.proc4231.chain_1,blat.proc4231.chain_133,blat.proc4231.chain_214,blat.proc4231.chain_232,blat.proc4231.chain_236,blat.proc4231.chain_5,c12515_f1p11_2795.path1,c12610_f1p11_2872.path1,c14026_f1p12_2494.path1,c14557_f2p88_3146.path1,c14709_f150p118_3032.path1,c14782_f7p38_2786.path1,c15001_f2p7_2497.path1,c15246_f6p6_1825.path1,c15264_f3p8_2091.path1,c15790_f8p8_1687.path1,c16066_f1p3_1221.path1,c1801_f2p9_2311.path1,c2088_f2p8_2630.path1,c2106_f2p6_2037.path1,c3063_f1p19_2677.path1,c403_f5p9_1956.path1,c479_f6p18_2233.path1,c490_f2p62_2916.path1,c5106_f1p0_1468.path1,c5387_f1p0_1682.path1,c6156_f1p10_2496.path1,c662_f2p17_2338.path1,c749_f5p4_1804.path1,c7572_f2p16_2715.path1,c7647_f1p10_2984.path1,c858_f3p43_2827.path1,c979_f1p7_2728.path1	54
AmTr_v1.0_scaffold00059	spliced_intron	2144713	2145472	+	asmbl_3408	none	blat.proc4139.chain_114,blat.proc4194.chain_192,blat.proc4219.chain_221,c1036_f2p5_2608.path1,c135_f3p0_3180.path1,c1650_f2p0_1755.path1	6	blat.proc4216.chain_43,c6213_f1p6_3099.path1	2
AmTr_v1.0_scaffold00038	alt_donor	3303823	3303824	+	asmbl_2476	none	blat.proc4185.chain_106,c7387_f1p2_1746.path1	2	blat.proc4198.chain_130,c10491_f1p1_1775.path1	2
AmTr_v1.0_scaffold00003	spliced_intron	29133	29573	+	asmbl_316,asmbl_318	none	blat.proc4133.chain_242,blat.proc4177.chain_175,blat.proc4183.chain_138,blat.proc4194.chain_29,blat.proc4196.chain_191,blat.proc4200.chain_30,blat.proc4216.chain_203,blat.proc4216.chain_221,blat.proc4223.chain_80,c1090_f3p2_1707.path1,c139_f17p9_2614.path1,c15683_f1p4_1996.path1,c291_f7p9_2717.path1,c3816_f1p5_2239.path1,c4412_f1p14_2370.path1,c5718_f1p1_2810.path1,c5745_f1p7_2118.path1,c789_f4p4_1851.path1	18	blat.proc4227.chain_80,c869_f2p6_3026.path1	2
AmTr_v1.0_scaffold00117	starts_in_intron	1601826	1601826	+	asmbl_4851	none	blat.proc4225.chain_88,c11657_f1p5_2770.path1	2	blat.proc4141.chain_264,blat.proc4143.chain_97,blat.proc4227.chain_1,blat.proc4229.chain_9,c1456_f2p3_3000.path1,c3062_f1p2_2831.path1,c6721_f1p2_3203.path1,c698_f3p3_3330.path1	8
AmTr_v1.0_scaffold00017	retained_intron	1931374	1931858	-	asmbl_1327,asmbl_1328	none	blat.proc4192.chain_203,blat.proc4196.chain_74,blat.proc4198.chain_32,blat.proc4200.chain_241,c3180_f1p2_1960.path1,c799_f5p8_1915.path1,c8144_f1p4_1631.path1,c940_f3p1_2022.path1	8	blat.proc4125.chain_146,blat.proc4129.chain_228,blat.proc4131.chain_180,blat.proc4139.chain_174,blat.proc4177.chain_94,blat.proc4188.chain_230,blat.proc4192.chain_143,c11815_f1p7_1777.path1,c2106_f1p3_1381.path1,c2356_f1p1_1085.path1,c2503_f2p1_941.path1,c2881_f1p1_1480.path1,c477_f6p5_1605.path1,c5052_f1p1_1228.path1,c586_f6p12_1504.path1	15
AmTr_v1.0_scaffold00061	retained_intron	3248889	3249022	-	asmbl_3530	none	blat.proc4131.chain_2,c2647_f1p1_1124.path1	2	blat.proc4127.chain_242,c131_f4p0_1004.path1	2
AmTr_v1.0_scaffold00045	spliced_intron	2561249	2562509	+	asmbl_2767,asmbl_2768	none	blat.proc4183.chain_227,blat.proc4194.chain_66,c1218_f2p1_1726.path1,c5526_f1p1_1812.path1	4	blat.proc4202.chain_150,c1465_f2p0_1666.path1	2
AmTr_v1.0_scaffold00010	starts_in_intron	5682855	5682855	-	asmbl_929	none	blat.proc4179.chain_266,c1672_f2p6_1887.path1	2	blat.proc4192.chain_112,blat.proc4209.chain_163,c10943_f1p4_1978.path1,c457_f7p4_1870.path1	4
AmTr_v1.0_scaffold00102	spliced_intron	136603	136723	-	asmbl_4585	none	blat.proc4141.chain_7,blat.proc4190.chain_136,blat.proc4194.chain_45,c1149_f2p2_1817.path1,c13624_f1p1_2208.path1,c240_f2p0_1658.path1	6	blat.proc4139.chain_147,c734_f1p0_1593.path1	2
AmTr_v1.0_scaffold00002	spliced_intron	8883326	8883465	-	asmbl_267,asmbl_268	none	blat.proc4216.chain_150,blat.proc4216.chain_51,blat.proc4223.chain_79,c10375_f1p6_2955.path1,c6564_f1p3_2741.path1	5	blat.proc4221.chain_201,blat.proc4223.chain_55,blat.proc4225.chain_134,c140_f22p11_2812.path1,c3206_f1p3_2993.path1,c5311_f1p4_2860.path1	6
AmTr_v1.0_scaffold00001	retained_intron	188662	188781	+	asmbl_13	none	blat.proc4221.chain_234,c3729_f1p0_2822.path1	2	blat.proc4190.chain_197,c14200_f1p1_1811.path1	2
AmTr_v1.0_scaffold00068	retained_intron	1901892	1902090	+	asmbl_3813	none	blat.proc4188.chain_199,c11542_f1p0_2017.path1	2	blat.proc4169.chain_200,blat.proc4169.chain_242,c17109_f2p2_898.path1,c17646_f2p2_1013.path1	4
AmTr_v1.0_scaffold00018	alt_acceptor	6872967	6872968	+	asmbl_1423	none	blat.proc4198.chain_78,c9270_f1p1_1752.path1	2	blat.proc4135.chain_143,blat.proc4135.chain_246,c1260_f1p0_1835.path1,c321_f2p0_1757.path1	4
AmTr_v1.0_scaffold00088	retained_intron	853823	853905	-	asmbl_4297	none	blat.proc4125.chain_83,c797_f1p0_1306.path1	2	blat.proc4169.chain_173,blat.proc4179.chain_262,blat.proc4181.chain_149,blat.proc4205.chain_95,c16056_f1p1_945.path1,c1663_f2p0_2240.path1,c2062_f2p1_1860.path1,c3491_f1p3_1713.path1	8
AmTr_v1.0_scaffold00057	spliced_intron	311179	311329	-	asmbl_3205,asmbl_3206	none	blat.proc4185.chain_63,blat.proc4205.chain_51,c2408_f1p0_1734.path1,c6813_f1p1_1638.path1	4	blat.proc4143.chain_59,c5450_f1p0_1865.path1	2
AmTr_v1.0_scaffold00045	retained_intron	795636	795745	+	asmbl_2736	none	blat.proc4125.chain_164,c2620_f1p0_1629.path1	2	blat.proc4133.chain_16,c843_f1p0_2139.path1	2
AmTr_v1.0_scaffold00032	retained_intron	2213030	2213236	+	asmbl_2240	none	blat.proc4198.chain_73,c9191_f1p0_2167.path1	2	blat.proc4183.chain_218,c5456_f1p0_2173.path1	2
AmTr_v1.0_scaffold00011	alt_acceptor	3970555	3970556	-	asmbl_994	none	blat.proc4133.chain_30,blat.proc4214.chain_260,blat.proc4216.chain_142,blat.proc4229.chain_222,blat.proc4231.chain_13,c10172_f1p8_3191.path1,c1465_f1p1_2410.path1,c4087_f1p8_3008.path1,c5949_f1p4_2723.path1,c8020_f1p4_2547.path1	10	blat.proc4198.chain_187,c12416_f1p0_2148.path1	2
AmTr_v1.0_scaffold00176	spliced_intron	529475	529691	-	asmbl_5412	none	blat.proc4135.chain_27,c717_f1p0_1862.path1	2	blat.proc4205.chain_202,c5829_f1p2_1497.path1	2
AmTr_v1.0_scaffold00088	ends_in_intron	852567	852567	-	asmbl_4295	none	blat.proc4169.chain_173,c16056_f1p1_945.path1	2	blat.proc4205.chain_95,c3491_f1p3_1713.path1	2
AmTr_v1.0_scaffold00015	starts_in_intron	321249	321249	+	asmbl_1208	none	blat.proc4174.chain_24	1	c2101_f2p0_972.path1	1
AmTr_v1.0_scaffold00021	alternate_exon	1923896	1923981	+	asmbl_1580	none	blat.proc4196.chain_35,c2428_f1p0_2388.path1	2	c405_f4p0_2752.path1	1
AmTr_v1.0_scaffold00053	alternate_exon	2740138	2740591	+	asmbl_3091	none	blat.proc4212.chain_236,blat.proc4212.chain_249,c274_f5p7_2966.path1,c321_f5p5_2848.path1	4	blat.proc4223.chain_263,c9570_f1p0_2952.path1	2
AmTr_v1.0_scaffold00025	alt_acceptor	773338	773339	+	asmbl_1877	none	blat.proc4198.chain_238,c13689_f1p1_1660.path1	2	blat.proc4127.chain_133,blat.proc4135.chain_171,blat.proc4200.chain_100,c2427_f1p1_1055.path1,c406_f2p0_1765.path1,c572_f4p2_1773.path1	6
AmTr_v1.0_scaffold00001	retained_intron	4454276	4454333	-	asmbl_69	none	blat.proc4139.chain_162,blat.proc4214.chain_60,c1927_f1p2_2693.path1,c556_f3p7_2801.path1,c9111_f1p1_1433.path1	5	c9646_f1p0_2064.path1	1
AmTr_v1.0_scaffold00142	spliced_intron	225089	225501	+	asmbl_5090,asmbl_5091	none	blat.proc4127.chain_116,blat.proc4131.chain_138,blat.proc4135.chain_90,blat.proc4192.chain_157,blat.proc4200.chain_157,blat.proc4202.chain_182,blat.proc4202.chain_7,c1023_f4p8_1950.path1,c129_f4p7_1952.path1,c1601_f2p7_1785.path1,c1863_f1p1_1536.path1,c4534_f2p1_1060.path1,c729_f4p5_1808.path1	13	blat.proc4214.chain_207,c1823_f1p0_2825.path1	2
AmTr_v1.0_scaffold00018	retained_intron	770498	770760	-	asmbl_1392	none	blat.proc4185.chain_229,c9036_f1p0_2295.path1	2	blat.proc4196.chain_213,c6412_f1p2_1890.path1	2
AmTr_v1.0_scaffold00131	retained_intron	620609	620715	+	asmbl_4988	none	blat.proc4223.chain_84,c5819_f1p2_3010.path1	2	blat.proc4129.chain_123,blat.proc4137.chain_249,blat.proc4185.chain_33,blat.proc4188.chain_197,blat.proc4190.chain_141,blat.proc4194.chain_243,c11523_f1p3_2127.path1,c13648_f1p3_2187.path1,c1818_f2p1_1976.path1,c598_f1p0_1526.path1,c6491_f1p3_2032.path1,c6546_f2p0_1747.path1	12
AmTr_v1.0_scaffold00123	alt_acceptor	914727	914728	-	asmbl_4925	none	blat.proc4227.chain_82,c877_f2p2_3064.path1	2	blat.proc4227.chain_244,c1367_f2p2_2979.path1	2
AmTr_v1.0_scaffold00001	retained_intron	4454268	4454325	-	asmbl_69	none	blat.proc4139.chain_162,blat.proc4214.chain_60,c1927_f1p2_2693.path1,c556_f3p7_2801.path1	4	blat.proc4198.chain_92	1
AmTr_v1.0_scaffold00045	ends_in_intron	2562799	2562799	+	asmbl_2766	none	blat.proc4202.chain_150,c1465_f2p0_1666.path1	2	blat.proc4183.chain_227,blat.proc4194.chain_66,c1218_f2p1_1726.path1,c5526_f1p1_1812.path1	4
AmTr_v1.0_scaffold00024	alt_acceptor	4876253	4876254	-	asmbl_1823,asmbl_1825	none	blat.proc4212.chain_218,blat.proc4214.chain_35,c196_f8p5_2875.path1,c497_f3p4_2784.path1	4	blat.proc4231.chain_118,c12050_f1p3_2622.path1	2
AmTr_v1.0_scaffold00002	spliced_intron	5273596	5274096	+	asmbl_204	none	blat.proc4171.chain_151,c1132_f3p0_1040.path1	2	blat.proc4229.chain_263,c7510_f1p1_2764.path1	2
AmTr_v1.0_scaffold00017	retained_exon	2037178	2037279	+	asmbl_1329	none	blat.proc4221.chain_236,c3745_f1p0_3171.path1	2	blat.proc4141.chain_71,blat.proc4190.chain_39,c12515_f1p0_1909.path1,c5580_f1p1_1683.path1	4
AmTr_v1.0_scaffold00012	spliced_intron	6980760	6980970	-	asmbl_1090,asmbl_1091,asmbl_1095	none	blat.proc4171.chain_65,blat.proc4174.chain_110,blat.proc4177.chain_52,blat.proc4177.chain_68,blat.proc4177.chain_98,blat.proc4179.chain_183,blat.proc4190.chain_209,blat.proc4190.chain_99,blat.proc4192.chain_110,blat.proc4192.chain_99,blat.proc4194.chain_34,blat.proc4200.chain_87,c1104_f3p7_1898.path1,c13232_f1p6_2004.path1,c14288_f1p0_1517.path1,c14359_f1p3_1109.path1,c14473_f3p1_1002.path1,c1462_f2p2_1885.path1,c3808_f1p7_1197.path1,c393_f8p11_1772.path1,c450_f3p8_1761.path1,c492_f8p6_1652.path1,c526_f5p12_1651.path1,c666_f4p5_1087.path1	24	blat.proc4169.chain_109,blat.proc4177.chain_96,blat.proc4181.chain_137,blat.proc4196.chain_100,blat.proc4198.chain_265,blat.proc4212.chain_184,c14120_f3p0_1044.path1,c14728_f1p4_1842.path1,c16555_f3p5_1690.path1,c2038_f2p0_1937.path1,c3523_f1p5_1587.path1,c483_f11p8_1850.path1	12
AmTr_v1.0_scaffold00024	alt_acceptor	3163546	3163547	-	asmbl_1811	none	blat.proc4139.chain_241,blat.proc4205.chain_157,c4796_f1p5_2429.path1,c8109_f1p0_1781.path1	4	blat.proc4221.chain_242,c3864_f1p1_2791.path1	2
AmTr_v1.0_scaffold00045	alt_acceptor	799232	799233	+	asmbl_2736	none	blat.proc4125.chain_164,c2620_f1p0_1629.path1	2	blat.proc4133.chain_16,c843_f1p0_2139.path1	2
AmTr_v1.0_scaffold00067	alt_acceptor	2673680	2673681	-	asmbl_3778	none	c466_f4p3_2895.path1	1	blat.proc4216.chain_241,blat.proc4219.chain_89,blat.proc4227.chain_83,c387_f7p5_2825.path1,c706_f3p4_3004.path1,c880_f3p7_2688.path1	6
AmTr_v1.0_scaffold00012	spliced_intron	6980486	6980587	-	asmbl_1095	none	blat.proc4179.chain_183,c1462_f2p2_1885.path1	2	blat.proc4169.chain_109,blat.proc4169.chain_208,blat.proc4171.chain_65,blat.proc4174.chain_110,blat.proc4174.chain_63,blat.proc4177.chain_52,blat.proc4177.chain_68,blat.proc4177.chain_96,blat.proc4177.chain_98,blat.proc4181.chain_137,blat.proc4190.chain_209,blat.proc4190.chain_99,blat.proc4192.chain_110,blat.proc4192.chain_99,blat.proc4194.chain_30,blat.proc4194.chain_34,blat.proc4196.chain_100,blat.proc4200.chain_114,blat.proc4200.chain_87,blat.proc4212.chain_184,c1092_f3p4_1781.path1,c1104_f3p7_1898.path1,c13232_f1p6_2004.path1,c14120_f3p0_1044.path1,c14288_f1p0_1517.path1,c14359_f1p3_1109.path1,c14473_f3p1_1002.path1,c16555_f3p5_1690.path1,c17326_f6p1_1111.path1,c2038_f2p0_1937.path1,c2500_f2p0_1094.path1,c3523_f1p5_1587.path1,c3808_f1p7_1197.path1,c393_f8p11_1772.path1,c450_f3p8_1761.path1,c483_f11p8_1850.path1,c492_f8p6_1652.path1,c526_f5p12_1651.path1,c619_f5p8_1728.path1,c666_f4p5_1087.path1	40
AmTr_v1.0_scaffold00074	alt_acceptor	1913053	1913054	-	asmbl_4001	none	blat.proc4227.chain_206,c1264_f2p3_3027.path1	2	blat.proc4227.chain_196,c1236_f2p1_2816.path1	2
AmTr_v1.0_scaffold00002	alt_donor	8488342	8488343	+	asmbl_253	none	blat.proc4205.chain_120,c4015_f1p0_1855.path1	2	blat.proc4141.chain_223,blat.proc4202.chain_104,c1294_f2p1_1803.path1,c1609_f1p0_1944.path1	4
AmTr_v1.0_scaffold00167	alt_acceptor	311736	311737	+	asmbl_5323	none	blat.proc4219.chain_156,c865_f2p2_3058.path1	2	blat.proc4183.chain_31,c3377_f1p0_1877.path1	2
AmTr_v1.0_scaffold00002	alt_acceptor	8612955	8612956	-	asmbl_257	none	blat.proc4202.chain_251,c1846_f2p0_1872.path1	2	blat.proc4179.chain_159,c1401_f2p0_1891.path1	2
AmTr_v1.0_scaffold00022	ends_in_intron	3879178	3879178	-	asmbl_1699	none	c958_f1p0_1124.path1	1	blat.proc4181.chain_160,blat.proc4190.chain_48,blat.proc4192.chain_12,blat.proc4194.chain_239,blat.proc4212.chain_48,blat.proc4216.chain_267,blat.proc4227.chain_115,blat.proc4227.chain_76,blat.proc4229.chain_131,blat.proc4231.chain_1,blat.proc4231.chain_133,blat.proc4231.chain_214,blat.proc4231.chain_232,blat.proc4231.chain_236,blat.proc4231.chain_5,c12515_f1p11_2795.path1,c12610_f1p11_2872.path1,c14026_f1p12_2494.path1,c14557_f2p88_3146.path1,c14709_f150p118_3032.path1,c14782_f7p38_2786.path1,c15001_f2p7_2497.path1,c1801_f2p9_2311.path1,c2088_f2p8_2630.path1,c3063_f1p19_2677.path1,c490_f2p62_2916.path1,c7572_f2p16_2715.path1,c7647_f1p10_2984.path1,c858_f3p43_2827.path1,c979_f1p7_2728.path1	30
AmTr_v1.0_scaffold00131	spliced_intron	618327	619578	+	asmbl_4987	none	blat.proc4190.chain_141,c13648_f1p3_2187.path1	2	blat.proc4223.chain_84,c5819_f1p2_3010.path1	2
AmTr_v1.0_scaffold00025	alt_donor	2673714	2673715	-	asmbl_1916	none	c786_f7p3_1095.path1,c978_f4p0_1031.path1	2	c4611_f1p0_1133.path1	1
AmTr_v1.0_scaffold00009	retained_intron	7266172	7266862	-	asmbl_814	none	blat.proc4181.chain_169,blat.proc4225.chain_213,blat.proc4227.chain_24,c2115_f2p0_1792.path1,c544_f3p2_2730.path1,c742_f2p2_2743.path1	6	blat.proc4196.chain_56,c2754_f1p1_1695.path1	2
AmTr_v1.0_scaffold00067	alt_acceptor	2670924	2670925	-	asmbl_3776,asmbl_3778	none	blat.proc4216.chain_241,blat.proc4219.chain_89,blat.proc4227.chain_83,c387_f7p5_2825.path1,c466_f4p3_2895.path1,c706_f3p4_3004.path1,c880_f3p7_2688.path1	7	blat.proc4188.chain_263,c12122_f1p1_1991.path1	2
AmTr_v1.0_scaffold00003	spliced_intron	1538603	1538723	+	asmbl_347,asmbl_349	none	blat.proc4177.chain_207,blat.proc4198.chain_232,blat.proc4200.chain_29,blat.proc4209.chain_74,c15662_f2p4_2149.path1,c5040_f1p5_2244.path1,c8923_f1p6_2217.path1,c896_f4p4_2361.path1	8	c7697_f1p0_2134.path1	1
AmTr_v1.0_scaffold00100	skipped_exon	1592643	1593124	+	asmbl_4550	none	blat.proc4214.chain_141,blat.proc4225.chain_89,c11674_f1p2_2868.path1,c917_f2p5_2744.path1	4	blat.proc4214.chain_244,c3402_f1p2_2730.path1	2
AmTr_v1.0_scaffold00002	retained_intron	5273596	5274096	+	asmbl_203	none	blat.proc4229.chain_263,c7510_f1p1_2764.path1	2	blat.proc4171.chain_151,c1132_f3p0_1040.path1	2
AmTr_v1.0_scaffold00039	retained_intron	954629	954872	-	asmbl_2504	none	c3169_f1p0_2149.path1	1	blat.proc4181.chain_139,blat.proc4194.chain_161,blat.proc4198.chain_256,blat.proc4200.chain_142,c14377_f1p4_1555.path1,c1547_f2p3_1873.path1,c2043_f2p5_1855.path1,c687_f5p3_1990.path1	8
AmTr_v1.0_scaffold00061	alt_acceptor	1057130	1057131	-	asmbl_3495	none	blat.proc4229.chain_178,c4383_f1p2_2658.path1	2	blat.proc4216.chain_237,c370_f6p5_2865.path1	2
AmTr_v1.0_scaffold00095	spliced_intron	1528063	1528379	-	asmbl_4451,asmbl_4453	none	blat.proc4139.chain_203,blat.proc4183.chain_53,blat.proc4209.chain_154,c1795_f2p1_1878.path1,c3579_f1p1_1672.path1,c5114_f1p0_1547.path1	6	blat.proc4229.chain_90,c2130_f1p1_2838.path1	2
AmTr_v1.0_scaffold00027	retained_intron	5361616	5361937	+	asmbl_2019	none	blat.proc4183.chain_51,c3566_f1p0_1878.path1	2	blat.proc4135.chain_92,blat.proc4185.chain_128,blat.proc4194.chain_19,blat.proc4209.chain_198,c1045_f2p8_1996.path1,c11491_f1p7_1932.path1,c132_f4p5_2117.path1,c7727_f1p5_1946.path1	8
AmTr_v1.0_scaffold00003	spliced_intron	1231852	1232008	+	asmbl_339	none	blat.proc4231.chain_120,c12163_f1p4_2832.path1	2	blat.proc4139.chain_9,c129_f2p2_3061.path1	2
AmTr_v1.0_scaffold00019	retained_intron	6326280	6327925	-	asmbl_1517,asmbl_1518,asmbl_1519	none	blat.proc4196.chain_50,blat.proc4214.chain_20,blat.proc4219.chain_79,c2617_f1p2_1996.path1,c461_f3p1_2837.path1,c622_f4p2_2832.path1,c680_f3p1_3046.path1	7	blat.proc4174.chain_74,c2575_f2p0_989.path1	2
AmTr_v1.0_scaffold00130	starts_in_intron	486481	486481	-	asmbl_4963	none	blat.proc4209.chain_109,c9500_f1p0_1755.path1	2	blat.proc4147.chain_205,blat.proc4181.chain_157,blat.proc4202.chain_127,blat.proc4202.chain_141,blat.proc4202.chain_73,c1179_f2p1_2015.path1,c1384_f2p1_1860.path1,c1437_f2p1_2009.path1,c2082_f2p0_1848.path1,c8441_f2p0_1100.path1	10
AmTr_v1.0_scaffold00003	retained_intron	1231852	1232008	+	asmbl_340,asmbl_341	none	blat.proc4139.chain_9,c129_f2p2_3061.path1	2	blat.proc4231.chain_120,c12163_f1p4_2832.path1	2
AmTr_v1.0_scaffold00121	spliced_intron	1425637	1425737	+	asmbl_4905,asmbl_4906	none	blat.proc4225.chain_35,blat.proc4229.chain_259,c10505_f1p0_2964.path1,c7398_f1p7_2984.path1,c953_f2p6_2815.path1	5	blat.proc4221.chain_229,c3661_f1p3_3058.path1	2
AmTr_v1.0_scaffold00058	alt_donor	3228115	3228116	+	asmbl_3330,asmbl_3332	none	blat.proc4214.chain_148,blat.proc4219.chain_5,c501_f5p2_2878.path1,c945_f2p1_2754.path1	4	blat.proc4225.chain_171,c435_f6p6_2754.path1	2
AmTr_v1.0_scaffold00049	alt_donor	2927836	2927837	-	asmbl_2990	none	blat.proc4188.chain_10,c9469_f1p0_1829.path1	2	blat.proc4202.chain_168,c1542_f2p0_1750.path1	2
AmTr_v1.0_scaffold00010	alt_donor	162056	162057	+	asmbl_854	none	blat.proc4221.chain_224,c3610_f1p0_2943.path1	2	blat.proc4177.chain_152,blat.proc4192.chain_211,c724_f6p0_2053.path1,c811_f4p2_1934.path1	4
AmTr_v1.0_scaffold00131	retained_intron	617974	618210	+	asmbl_4988	none	blat.proc4223.chain_84,c5819_f1p2_3010.path1	2	blat.proc4190.chain_141,c13648_f1p3_2187.path1	2
AmTr_v1.0_scaffold00085	alt_acceptor	1153785	1153786	-	asmbl_4234	none	blat.proc4194.chain_78,c1282_f2p0_1636.path1	2	blat.proc4131.chain_193,c5239_f1p0_1570.path1	2
AmTr_v1.0_scaffold00163	starts_in_intron	147514	147514	-	asmbl_5282	none	blat.proc4190.chain_240,c14564_f1p4_1849.path1	2	blat.proc4135.chain_97,blat.proc4196.chain_180,c156_f3p0_1635.path1,c5447_f2p1_1504.path1	4
AmTr_v1.0_scaffold00001	alt_acceptor	4454276	4454277	-	asmbl_71	none	c9646_f1p0_2064.path1	1	blat.proc4198.chain_92	1
AmTr_v1.0_scaffold00011	alt_donor	8659429	8659430	-	asmbl_1028	none	blat.proc4200.chain_24,c15623_f1p2_2037.path1	2	blat.proc4179.chain_62,c1178_f3p0_1946.path1	2
AmTr_v1.0_scaffold00003	spliced_intron	3569224	3569402	+	asmbl_376,asmbl_377	none	blat.proc4129.chain_215,blat.proc4131.chain_242,blat.proc4137.chain_196,blat.proc4147.chain_184,blat.proc4198.chain_159,blat.proc4200.chain_61,c11419_f1p4_1955.path1,c1847_f1p1_1082.path1,c303_f17p8_1853.path1,c5902_f1p1_1875.path1,c7537_f1p2_974.path1,c87_f3p3_1676.path1	12	c552_f1p0_2022.path1	1
AmTr_v1.0_scaffold00025	alt_donor	2869040	2869041	-	asmbl_1924	none	blat.proc4177.chain_119,blat.proc4179.chain_63,c1180_f3p5_1765.path1,c621_f7p5_1857.path1	4	blat.proc4135.chain_80,blat.proc4177.chain_91,blat.proc4200.chain_102,c2685_f1p0_1353.path1,c422_f16p6_1809.path1,c575_f4p11_1681.path1,c84_f5p4_1783.path1	7
AmTr_v1.0_scaffold00001	spliced_intron	4454268	4454325	-	asmbl_70	none	blat.proc4198.chain_92	1	blat.proc4139.chain_162,blat.proc4214.chain_60,c1927_f1p2_2693.path1,c556_f3p7_2801.path1	4
AmTr_v1.0_scaffold00066	alternate_exon	1976449	1976756	+	asmbl_3710	none	blat.proc4125.chain_239,blat.proc4125.chain_241,blat.proc4127.chain_192,blat.proc4129.chain_92,blat.proc4131.chain_160,c3528_f1p3_1274.path1,c4063_f3p5_1387.path1,c4073_f3p4_1356.path1,c453_f2p4_1256.path1,c4843_f1p3_1185.path1	10	blat.proc4129.chain_139,c759_f2p2_1086.path1	2
AmTr_v1.0_scaffold00012	retained_intron	6980760	6980934	-	asmbl_1092,asmbl_1094	none	blat.proc4169.chain_109,blat.proc4177.chain_96,blat.proc4181.chain_137,blat.proc4196.chain_100,blat.proc4198.chain_265,blat.proc4212.chain_184,c14120_f3p0_1044.path1,c14728_f1p4_1842.path1,c16555_f3p5_1690.path1,c2038_f2p0_1937.path1,c3523_f1p5_1587.path1,c483_f11p8_1850.path1	12	blat.proc4169.chain_208,blat.proc4174.chain_63,blat.proc4194.chain_30,blat.proc4200.chain_114,c1092_f3p4_1781.path1,c17326_f6p1_1111.path1,c2500_f2p0_1094.path1,c619_f5p8_1728.path1	8
AmTr_v1.0_scaffold00021	retained_exon	3372576	3372629	-	asmbl_1593	none	blat.proc4205.chain_183,c5477_f1p1_2414.path1	2	blat.proc4133.chain_162,c619_f1p0_2175.path1	2
AmTr_v1.0_scaffold00042	retained_intron	2301437	2301784	-	asmbl_2650	none	blat.proc4139.chain_64,c4393_f1p1_1716.path1	2	blat.proc4129.chain_178,c1234_f1p0_1076.path1	2
AmTr_v1.0_scaffold00088	alt_acceptor	2434133	2434134	+	asmbl_4314,asmbl_4315	none	blat.proc4194.chain_163,blat.proc4227.chain_94,c1557_f2p1_2361.path1,c915_f2p0_3016.path1	4	blat.proc4131.chain_264,blat.proc4137.chain_97,c207_f2p2_2251.path1,c3943_f1p1_1846.path1	4
AmTr_v1.0_scaffold00019	retained_intron	7035170	7035309	+	asmbl_1535	none	c3236_f1p1_1254.path1	1	blat.proc4177.chain_100,blat.proc4192.chain_70,c15582_f5p1_1672.path1,c545_f4p1_1771.path1	4
AmTr_v1.0_scaffold00044	spliced_intron	1717021	1718191	+	asmbl_2694	none	blat.proc4139.chain_132,blat.proc4185.chain_176,c253_f2p0_1792.path1,c8284_f1p4_2041.path1	4	blat.proc4137.chain_228,c6319_f1p0_2120.path1	2
AmTr_v1.0_scaffold00061	alt_donor	1322935	1322936	-	asmbl_3502	none	blat.proc4229.chain_244,c6806_f1p3_2723.path1	2	blat.proc4219.chain_106,c732_f3p2_2903.path1	2
AmTr_v1.0_scaffold00131	spliced_intron	617974	620086	+	asmbl_4986	none	blat.proc4185.chain_33,c6491_f1p3_2032.path1	2	blat.proc4223.chain_84,c5819_f1p2_3010.path1	2
AmTr_v1.0_scaffold00012	retained_exon	7561061	7561167	-	asmbl_1101	none	blat.proc4125.chain_179,blat.proc4131.chain_23,blat.proc4143.chain_255,blat.proc4147.chain_130,blat.proc4171.chain_253,c1007_f4p5_1206.path1,c1866_f2p1_1038.path1,c2901_f1p2_947.path1,c2917_f1p2_1045.path1,c5602_f1p3_1060.path1	10	blat.proc4174.chain_251,c11554_f1p1_1063.path1	2
AmTr_v1.0_scaffold00163	spliced_intron	113612	113731	+	asmbl_5280	none	blat.proc4133.chain_214,c2596_f1p0_1654.path1	2	blat.proc4181.chain_223,c2615_f1p0_2418.path1	2
AmTr_v1.0_scaffold00021	retained_exon	3346073	3346367	-	asmbl_1593	none	blat.proc4205.chain_183,c5477_f1p1_2414.path1	2	blat.proc4133.chain_162,c619_f1p0_2175.path1	2
AmTr_v1.0_scaffold00009	spliced_intron	9242404	9242471	+	asmbl_847	none	blat.proc4143.chain_35,c4476_f1p1_3467.path1	2	blat.proc4229.chain_103,c2483_f1p0_2495.path1	2
AmTr_v1.0_scaffold00087	alt_donor	582004	582005	+	asmbl_4273	none	blat.proc4125.chain_115,blat.proc4181.chain_172,blat.proc4216.chain_139,blat.proc4231.chain_37,c10089_f1p9_3016.path1,c1752_f1p0_1302.path1,c2124_f2p0_1939.path1,c9028_f1p4_3399.path1	8	blat.proc4229.chain_165,c3914_f1p3_2849.path1	2
AmTr_v1.0_scaffold00084	alt_acceptor	186079	186080	+	asmbl_4219	none	blat.proc4205.chain_110,c3820_f1p1_1779.path1	2	blat.proc4135.chain_110,c204_f3p1_1808.path1	2
AmTr_v1.0_scaffold00059	alt_donor	2450947	2450948	-	asmbl_3416	none	blat.proc4135.chain_253,blat.proc4177.chain_253,blat.proc4194.chain_167,c1018_f3p7_2048.path1,c1323_f1p3_1862.path1,c1568_f2p6_2069.path1	6	blat.proc4137.chain_1,blat.proc4196.chain_142,blat.proc4209.chain_224,blat.proc4212.chain_159,c12102_f1p4_1841.path1,c16064_f3p4_2042.path1,c1707_f1p2_1928.path1,c4538_f1p3_1965.path1	8
AmTr_v1.0_scaffold00006	spliced_intron	9058867	9058939	-	asmbl_606	none	blat.proc4171.chain_8,blat.proc4174.chain_218,blat.proc4177.chain_77,blat.proc4179.chain_52,blat.proc4192.chain_24,blat.proc4194.chain_191,blat.proc4200.chain_13,blat.proc4205.chain_136,c1158_f3p7_1715.path1,c15139_f47p25_1871.path1,c15282_f1p12_1495.path1,c1649_f2p35_2040.path1,c17829_f3p3_963.path1,c4258_f1p21_1779.path1,c43_f34p29_1899.path1,c9944_f1p3_1066.path1	16	blat.proc4181.chain_106,c1964_f2p6_1894.path1	2
AmTr_v1.0_scaffold00001	alt_acceptor	448578	448579	+	asmbl_21	none	blat.proc4229.chain_87,c2100_f1p7_2845.path1	2	blat.proc4219.chain_102,c724_f3p1_2818.path1	2
AmTr_v1.0_scaffold00149	retained_exon	185181	185496	+	asmbl_5172	none	blat.proc4141.chain_65,blat.proc4205.chain_192,c5246_f1p1_1585.path1,c5583_f1p4_2001.path1	4	blat.proc4198.chain_50,c8427_f1p0_1833.path1	2
AmTr_v1.0_scaffold00131	spliced_intron	620609	620715	+	asmbl_4985,asmbl_4986,asmbl_4987	none	blat.proc4129.chain_123,blat.proc4137.chain_249,blat.proc4185.chain_33,blat.proc4188.chain_197,blat.proc4190.chain_141,blat.proc4194.chain_243,c11523_f1p3_2127.path1,c13648_f1p3_2187.path1,c1818_f2p1_1976.path1,c598_f1p0_1526.path1,c6491_f1p3_2032.path1,c6546_f2p0_1747.path1	12	blat.proc4223.chain_84,c5819_f1p2_3010.path1	2
AmTr_v1.0_scaffold00106	alt_acceptor	166824	166825	-	asmbl_4658	none	blat.proc4188.chain_13,blat.proc4214.chain_14,blat.proc4214.chain_203,blat.proc4216.chain_239,blat.proc4223.chain_14,c1448_f1p13_3244.path1,c381_f6p8_2694.path1,c438_f4p13_2862.path1,c4654_f1p6_3574.path1,c9499_f1p1_2236.path1	10	blat.proc4190.chain_111,blat.proc4192.chain_193,blat.proc4227.chain_194,c13360_f1p1_1623.path1,c776_f4p0_1829.path1	5
AmTr_v1.0_scaffold00101	spliced_intron	1937207	1937603	-	asmbl_4579	none	blat.proc4181.chain_210,c2405_f1p1_2155.path1	2	blat.proc4225.chain_262,blat.proc4231.chain_122,c12179_f1p0_2642.path1,c680_f3p2_2806.path1	4
AmTr_v1.0_scaffold00049	ends_in_intron	3722926	3722926	-	asmbl_3002	none	blat.proc4205.chain_156,c4768_f1p2_1956.path1	2	blat.proc4185.chain_36,blat.proc4198.chain_216,c13158_f1p7_2012.path1,c6545_f1p4_1649.path1	4
AmTr_v1.0_scaffold00109	retained_intron	2057069	2058248	+	asmbl_4748	none	blat.proc4190.chain_268,blat.proc4229.chain_252,c14886_f1p1_1775.path1,c7074_f1p7_2953.path1	4	blat.proc4125.chain_77,c626_f1p0_1045.path1	2
AmTr_v1.0_scaffold00022	spliced_intron	3864087	3864188	-	asmbl_1696	none	blat.proc4202.chain_56,c1138_f3p0_2005.path1	2	blat.proc4190.chain_191,c14159_f1p4_1773.path1	2
AmTr_v1.0_scaffold00025	alt_acceptor	773321	773322	+	asmbl_1876	none	blat.proc4135.chain_171,c406_f2p0_1765.path1	2	blat.proc4127.chain_133,blat.proc4198.chain_238,blat.proc4200.chain_100,c13689_f1p1_1660.path1,c2427_f1p1_1055.path1,c572_f4p2_1773.path1	6
AmTr_v1.0_scaffold00020	retained_intron	5982489	5983522	+	asmbl_1557	none	blat.proc4188.chain_62,c10112_f1p0_2089.path1	2	blat.proc4145.chain_84,blat.proc4169.chain_185,c1519_f4p3_1109.path1,c16416_f1p2_928.path1	4
AmTr_v1.0_scaffold00058	alt_donor	2456023	2456024	-	asmbl_3316	none	c141_f2p0_1744.path1	1	blat.proc4135.chain_207,blat.proc4135.chain_75,blat.proc4137.chain_260,blat.proc4137.chain_261,blat.proc4137.chain_76,blat.proc4139.chain_34,blat.proc4141.chain_11,blat.proc4141.chain_255,blat.proc4200.chain_77,c1195_f1p2_1738.path1,c259_f2p5_1619.path1,c2662_f1p3_1767.path1,c3360_f1p16_2033.path1,c34_f6p34_1948.path1,c465_f9p2_1827.path1,c578_f1p6_2203.path1,c6782_f4p13_1814.path1,c6804_f3p1_1695.path1	18
AmTr_v1.0_scaffold00067	ends_in_intron	567329	567329	-	asmbl_3755	none	blat.proc4225.chain_196,c501_f5p10_3057.path1	2	blat.proc4183.chain_5,blat.proc4209.chain_184,blat.proc4216.chain_94,blat.proc4229.chain_95,c11225_f1p2_1694.path1,c2226_f1p8_2840.path1,c3070_f1p2_2281.path1,c8705_f1p7_3636.path1	8
AmTr_v1.0_scaffold00162	alt_acceptor	498663	498664	+	asmbl_5273,asmbl_5275	none	blat.proc4183.chain_231,blat.proc4202.chain_16,c1051_f3p1_1930.path1,c5579_f1p1_1779.path1	4	blat.proc4194.chain_224,c1744_f2p0_1779.path1	2
AmTr_v1.0_scaffold00033	starts_in_intron	1513803	1513803	-	asmbl_2290	none	blat.proc4229.chain_219,c5860_f1p4_2747.path1	2	blat.proc4214.chain_219,c2543_f1p0_2954.path1	2
AmTr_v1.0_scaffold00036	alt_donor	3033133	3033134	+	asmbl_2399	none	blat.proc4139.chain_51,c3126_f1p0_1444.path1	2	blat.proc4188.chain_86,c10336_f1p1_1666.path1	2
AmTr_v1.0_scaffold00058	skipped_exon	4391250	4401909	+	asmbl_3350	none	blat.proc4188.chain_185,c11387_f1p1_2021.path1	2	blat.proc4198.chain_127,c10369_f1p4_1777.path1	2
AmTr_v1.0_scaffold00059	alt_acceptor	1943047	1943048	-	asmbl_3402	none	blat.proc4216.chain_155,c10530_f1p0_2707.path1	2	blat.proc4135.chain_114,blat.proc4188.chain_6,blat.proc4200.chain_11,blat.proc4200.chain_238,blat.proc4209.chain_118,c15266_f1p4_1945.path1,c220_f3p2_2256.path1,c933_f3p4_2131.path1,c9441_f1p2_1749.path1,c9766_f1p5_2066.path1	10
AmTr_v1.0_scaffold00017	alt_acceptor	4684791	4684792	+	asmbl_1355,asmbl_1359	none	blat.proc4177.chain_148,blat.proc4181.chain_209,blat.proc4185.chain_24,blat.proc4190.chain_44,blat.proc4192.chain_113,blat.proc4192.chain_263,blat.proc4200.chain_148,blat.proc4212.chain_234,blat.proc4212.chain_256,blat.proc4212.chain_260,blat.proc4214.chain_87,blat.proc4219.chain_32,blat.proc4221.chain_196,blat.proc4225.chain_43,blat.proc4227.chain_201,blat.proc4231.chain_143,blat.proc4231.chain_56,blat.proc4231.chain_72,c10377_f1p9_3177.path1,c10618_f1p6_2801.path1,c1251_f2p7_2652.path1,c12583_f1p9_2368.path1,c12673_f1p15_4296.path1,c2373_f2p2_1919.path1,c271_f5p7_2808.path1,c3086_f1p14_4095.path1,c342_f3p7_3126.path1,c358_f2p11_3065.path1,c458_f7p5_1670.path1,c576_f5p11_2951.path1,c6361_f1p4_1556.path1,c660_f3p7_3005.path1,c706_f4p7_1810.path1,c710_f6p5_1896.path1,c9685_f1p6_3415.path1,c975_f3p12_2164.path1	36	blat.proc4137.chain_75,blat.proc4177.chain_126,blat.proc4183.chain_23,blat.proc4185.chain_248,blat.proc4192.chain_93,blat.proc4194.chain_22,blat.proc4200.chain_107,blat.proc4202.chain_245,blat.proc4202.chain_32,blat.proc4219.chain_16,blat.proc4221.chain_43,c1056_f2p1_1939.path1,c1080_f3p11_1843.path1,c1218_f2p0_2941.path1,c12870_f1p5_2283.path1,c1830_f2p17_2423.path1,c313_f14p20_2536.path1,c3271_f1p5_2273.path1,c3336_f1p1_1960.path1,c498_f6p12_2936.path1,c540_f5p10_3071.path1,c589_f4p16_1721.path1,c650_f6p14_2013.path1,c9211_f1p6_2676.path1	24
AmTr_v1.0_scaffold00023	spliced_intron	1028442	1028697	+	asmbl_1746	none	blat.proc4231.chain_55,c9646_f1p8_2814.path1	2	blat.proc4216.chain_64,blat.proc4221.chain_10,blat.proc4223.chain_24,blat.proc4227.chain_98,blat.proc4229.chain_93,blat.proc4231.chain_11,c1160_f2p3_2996.path1,c2176_f1p4_2795.path1,c4830_f1p6_3043.path1,c7309_f2p6_2931.path1,c7951_f1p5_2886.path1,c922_f3p12_3164.path1	12
AmTr_v1.0_scaffold00025	skipped_exon	5684004	5685564	-	asmbl_1982	none	blat.proc4227.chain_165,c1132_f2p1_2908.path1	2	blat.proc4227.chain_34,c766_f3p4_2856.path1	2
AmTr_v1.0_scaffold00010	retained_intron	561419	561642	-	asmbl_861	none	c2982_f1p0_2050.path1	1	blat.proc4190.chain_131,c13551_f1p1_1878.path1	2
AmTr_v1.0_scaffold00030	skipped_exon	3697020	3708135	-	asmbl_2173	none	blat.proc4223.chain_172,c7691_f1p1_2860.path1	2	blat.proc4223.chain_164,c7566_f1p1_2772.path1	2
AmTr_v1.0_scaffold00135	starts_in_intron	13101	13101	+	asmbl_5020	none	blat.proc4198.chain_170,c11829_f1p1_1802.path1	2	blat.proc4190.chain_32,c12442_f1p2_1926.path2	2
AmTr_v1.0_scaffold00041	spliced_intron	634481	634568	+	asmbl_2601	none	blat.proc4131.chain_233,blat.proc4190.chain_210,blat.proc4192.chain_121,blat.proc4200.chain_9,c14307_f1p9_1551.path1,c15224_f1p9_1420.path1,c37_f6p5_1657.path1,c492_f7p17_1782.path1	8	blat.proc4202.chain_248,c1839_f2p7_1740.path1	2
AmTr_v1.0_scaffold00022	retained_intron	3864087	3864259	-	asmbl_1698	none	blat.proc4190.chain_191,c14159_f1p4_1773.path1	2	blat.proc4183.chain_257,c5892_f1p1_1930.path1	2
AmTr_v1.0_scaffold00018	retained_intron	2859466	2860704	-	asmbl_1404	none	blat.proc4129.chain_197,blat.proc4129.chain_48,blat.proc4196.chain_259,c1536_f1p0_1070.path1,c293_f2p0_931.path1,c7201_f1p5_2320.path1	6	blat.proc4131.chain_107,c4185_f1p0_1118.path1	2
AmTr_v1.0_scaffold00002	retained_intron	5590780	5590918	-	asmbl_208	none	blat.proc4133.chain_103,c4015_f1p1_1754.path1	2	blat.proc4179.chain_239,c1602_f2p0_1873.path1	2
AmTr_v1.0_scaffold00024	ends_in_intron	6235777	6235777	+	asmbl_1845	none	blat.proc4137.chain_223,c6161_f1p0_2046.path1	2	blat.proc4223.chain_19,c4759_f1p1_2801.path1	2
AmTr_v1.0_scaffold00049	skipped_exon	4108282	4108672	+	asmbl_3009	none	blat.proc4137.chain_204,blat.proc4181.chain_237,blat.proc4183.chain_183,blat.proc4225.chain_133,blat.proc4225.chain_136,c10860_f1p2_1967.path1,c11847_f3p5_2819.path1,c134_f12p19_2905.path1,c14656_f10p17_2928.path1,c174_f10p20_2886.path1,c2792_f1p3_2412.path2,c5031_f1p1_1936.path1,c5952_f1p0_1745.path1	13	blat.proc4214.chain_59,c10424_f1p3_2869.path1,c11759_f2p0_2883.path1,c552_f4p6_2878.path1,c775_f3p6_2885.path1	5
AmTr_v1.0_scaffold00069	alt_donor	87308	87309	-	asmbl_3831	none	blat.proc4177.chain_70,blat.proc4192.chain_260,blat.proc4194.chain_111	3	c1384_f2p2_1724.path1,c14536_f7p2_1011.path1,c966_f3p4_2316.path1	3
AmTr_v1.0_scaffold00058	alt_acceptor	550495	550496	+	asmbl_3275,asmbl_3277,asmbl_3278,asmbl_3280	none	blat.proc4131.chain_252,blat.proc4192.chain_220,blat.proc4205.chain_43,blat.proc4212.chain_41,c13930_f1p2_1953.path1,c148_f2p0_1767.path1,c2261_f1p3_1826.path1,c844_f3p2_1828.path1	8	blat.proc4135.chain_48,c2111_f1p0_1772.path1	2
AmTr_v1.0_scaffold00009	alternate_exon	1857615	1857935	+	asmbl_759	none	c14533_f1p1_2167.path1	1	blat.proc4198.chain_57,c8621_f1p4_2267.path1	2
AmTr_v1.0_scaffold00088	alt_donor	871044	871045	-	asmbl_4295,asmbl_4296	none	blat.proc4179.chain_262,blat.proc4181.chain_149,blat.proc4205.chain_95,c1663_f2p0_2240.path1,c2062_f2p1_1860.path1,c3491_f1p3_1713.path1	6	blat.proc4125.chain_83,c797_f1p0_1306.path1	2
AmTr_v1.0_scaffold00007	alt_donor	3432560	3432561	+	asmbl_652	none	blat.proc4200.chain_181,c794_f4p1_1747.path1	2	blat.proc4214.chain_202,c1440_f1p3_2416.path1	2
AmTr_v1.0_scaffold00001	alt_acceptor	358130	358131	+	asmbl_15,asmbl_16,asmbl_17	none	blat.proc4131.chain_17,blat.proc4214.chain_151,blat.proc4219.chain_101,blat.proc4225.chain_174,blat.proc4227.chain_237,blat.proc4229.chain_76,c1342_f2p2_2842.path1,c1901_f1p2_2779.path1,c2861_f1p0_1533.path1,c444_f6p5_2667.path1,c723_f3p2_2787.path1,c954_f2p3_2838.path1	12	blat.proc4214.chain_79,c619_f3p5_2782.path1	2
AmTr_v1.0_scaffold00103	ends_in_intron	2092930	2092930	-	asmbl_4621	none	blat.proc4225.chain_250,c646_f4p2_2994.path1	2	blat.proc4192.chain_83,blat.proc4202.chain_233,c15669_f2p1_1635.path1,c1795_f2p5_1739.path1	4
AmTr_v1.0_scaffold00088	alt_acceptor	794876	794877	+	asmbl_4292	none	blat.proc4179.chain_100,blat.proc4212.chain_38,c1247_f3p2_2002.path1,c13835_f1p2_2004.path1	4	blat.proc4223.chain_218,c8694_f1p1_2773.path1	2
AmTr_v1.0_scaffold00001	alt_acceptor	448819	448820	+	asmbl_20	none	blat.proc4219.chain_102,c724_f3p1_2818.path1	2	blat.proc4229.chain_87,c2100_f1p7_2845.path1	2
AmTr_v1.0_scaffold00119	starts_in_intron	376649	376649	+	asmbl_4870	none	c5825_f1p4_2994.path1	1	blat.proc4125.chain_256,blat.proc4147.chain_83,blat.proc4169.chain_225,blat.proc4221.chain_189,c17594_f2p6_1113.path1,c2963_f1p4_3400.path1,c4138_f4p5_1042.path1,c59_f5p3_1399.path1	8
AmTr_v1.0_scaffold00009	retained_intron	6913052	6913177	+	asmbl_810	none	blat.proc4129.chain_237,c2223_f1p2_1258.path1	2	blat.proc4145.chain_219,c2357_f2p0_1006.path1	2
AmTr_v1.0_scaffold00019	ends_in_intron	4006180	4006180	+	asmbl_1478	none	blat.proc4196.chain_5,c1921_f2p2_1797.path1	2	blat.proc4181.chain_37,c1783_f2p1_1708.path1	2
AmTr_v1.0_scaffold00021	alt_donor	4175449	4175450	+	asmbl_1604	none	c1101_f3p3_2207.path1	1	blat.proc4177.chain_82,c327_f20p1_1715.path1	2
AmTr_v1.0_scaffold00056	retained_exon	3368939	3369033	+	asmbl_3191	none	blat.proc4219.chain_255,c1103_f2p1_3102.path1	2	blat.proc4216.chain_159,blat.proc4219.chain_192,blat.proc4229.chain_4,c10740_f1p2_2979.path1,c1435_f2p1_2832.path1,c961_f2p0_2761.path1	6
AmTr_v1.0_scaffold00101	spliced_intron	712047	712161	-	asmbl_4562	none	blat.proc4139.chain_112,blat.proc4223.chain_33,c128_f3p5_3084.path1,c4920_f1p4_2832.path1	4	blat.proc4137.chain_113,blat.proc4143.chain_129,blat.proc4202.chain_92,blat.proc4225.chain_188,blat.proc4227.chain_241,c1241_f2p4_1896.path1,c1358_f2p12_2815.path1,c4203_f1p3_1795.path1,c487_f5p20_3215.path1,c7740_f1p12_2938.path1	10
AmTr_v1.0_scaffold00175	skipped_exon	390720	392932	-	asmbl_5390	none	blat.proc4181.chain_57,blat.proc4202.chain_94,c1247_f2p1_1972.path1,c1843_f2p2_1816.path1	4	blat.proc4190.chain_213,c14323_f1p0_2045.path1	2
AmTr_v1.0_scaffold00017	retained_exon	4680921	4682273	+	asmbl_1357	none	blat.proc4177.chain_126,blat.proc4200.chain_107,blat.proc4202.chain_32,blat.proc4219.chain_16,c1080_f3p11_1843.path1,c540_f5p10_3071.path1,c589_f4p16_1721.path1,c650_f6p14_2013.path1	8	blat.proc4194.chain_22,c1056_f2p1_1939.path1	2
AmTr_v1.0_scaffold00002	ends_in_intron	8483697	8483697	+	asmbl_252	none	blat.proc4133.chain_216,c2659_f1p0_1793.path1	2	blat.proc4141.chain_223,blat.proc4202.chain_104,blat.proc4205.chain_120,c1294_f2p1_1803.path1,c1609_f1p0_1944.path1,c4015_f1p0_1855.path1	6
AmTr_v1.0_scaffold00064	alt_acceptor	1936831	1936832	+	asmbl_3622	none	blat.proc4190.chain_46,blat.proc4202.chain_17,c1052_f3p0_2011.path1,c12594_f1p2_1743.path1	4	blat.proc4192.chain_230,c866_f3p3_1889.path1	2
AmTr_v1.0_scaffold00130	alt_acceptor	1529514	1529515	+	asmbl_4973	none	blat.proc4216.chain_268,blat.proc4225.chain_221,c491_f5p2_2972.path1,c578_f4p7_3128.path1	4	blat.proc4139.chain_192,c4359_f1p0_2766.path1	2
AmTr_v1.0_scaffold00147	ends_in_intron	1129192	1129192	-	asmbl_5150	none	blat.proc4139.chain_26,c440_f1p0_1059.path1	2	blat.proc4127.chain_238,blat.proc4139.chain_210,c122_f4p1_1372.path1,c5816_f1p0_1419.path1	4
AmTr_v1.0_scaffold00003	retained_intron	3569224	3569402	+	asmbl_378	none	c552_f1p0_2022.path1	1	blat.proc4129.chain_215,blat.proc4131.chain_242,blat.proc4137.chain_196,blat.proc4147.chain_184,blat.proc4198.chain_159,blat.proc4200.chain_61,c11419_f1p4_1955.path1,c1847_f1p1_1082.path1,c303_f17p8_1853.path1,c5902_f1p1_1875.path1,c7537_f1p2_974.path1,c87_f3p3_1676.path1	12
AmTr_v1.0_scaffold00069	starts_in_intron	1572620	1572620	-	asmbl_3852	none	blat.proc4196.chain_44,c2486_f1p2_1799.path1	2	blat.proc4139.chain_253,blat.proc4196.chain_21,blat.proc4198.chain_228,blat.proc4219.chain_43,blat.proc4225.chain_18,blat.proc4231.chain_18,c10071_f1p5_2763.path1,c13491_f1p2_1818.path1,c2079_f1p2_1905.path1,c601_f3p5_3036.path1,c76_f3p6_3217.path1,c8160_f1p7_2993.path1	12
AmTr_v1.0_scaffold00002	retained_intron	7063706	7063806	-	asmbl_233	none	blat.proc4223.chain_198,c8194_f1p1_3089.path1	2	blat.proc4171.chain_32,c496_f11p2_990.path1	2
AmTr_v1.0_scaffold00010	retained_intron	223262	223397	-	asmbl_855	none	blat.proc4194.chain_39,blat.proc4196.chain_201,c1131_f3p8_1963.path1,c5981_f1p8_1909.path1	4	blat.proc4212.chain_134,c15726_f1p6_1776.path1	2
AmTr_v1.0_scaffold00059	spliced_intron	3628657	3628894	-	asmbl_3435	none	c1058_f2p1_2850.path1	1	blat.proc4212.chain_248,c320_f5p1_2899.path1	2
AmTr_v1.0_scaffold00004	retained_intron	1263190	1263760	-	asmbl_456,asmbl_457	none	blat.proc4190.chain_2,blat.proc4212.chain_268,c12174_f1p1_2642.path1,c379_f4p1_3009.path1	4	blat.proc4194.chain_4,blat.proc4200.chain_133,c1008_f3p2_1818.path1,c667_f5p3_2441.path1	4
AmTr_v1.0_scaffold00001	spliced_intron	120614	120967	+	asmbl_2,asmbl_3	none	blat.proc4125.chain_55,blat.proc4127.chain_150,blat.proc4127.chain_250,blat.proc4129.chain_222,blat.proc4129.chain_256,blat.proc4137.chain_255,blat.proc4143.chain_141,blat.proc4143.chain_200,blat.proc4143.chain_28,blat.proc4145.chain_153,blat.proc4169.chain_218,blat.proc4169.chain_244,blat.proc4171.chain_1,blat.proc4192.chain_90,blat.proc4194.chain_41,blat.proc4196.chain_197,blat.proc4200.chain_45,blat.proc4212.chain_191,blat.proc4212.chain_194,blat.proc4212.chain_202,c1139_f2p16_1908.path1,c143_f4p6_1498.path1,c15807_f4p109_1859.path1,c16654_f10p72_1753.path1,c16666_f100p87_1754.path1,c16714_f2p29_1622.path1,c17501_f16p15_998.path1,c17666_f11p16_1154.path1,c17781_f14p5_947.path1,c1917_f2p2_1166.path1,c2025_f1p3_1644.path1,c2507_f1p5_1316.path1,c265_f5p26_1652.path1,c2694_f1p2_1655.path1,c288_f4p12_1312.path1,c295_f2p3_1199.path1,c4289_f1p10_1621.path1,c5931_f1p11_1725.path1,c6681_f1p7_1722.path1,c760_f7p23_1141.path1	40	blat.proc4192.chain_7,blat.proc4221.chain_159,c14969_f2p7_2079.path1,c2398_f1p2_2890.path1	4
AmTr_v1.0_scaffold00058	retained_intron	1049340	1049446	-	asmbl_3286	none	blat.proc4209.chain_52,c8425_f1p1_1559.path1	2	blat.proc4198.chain_162,c11489_f1p0_1789.path1	2
AmTr_v1.0_scaffold00009	skipped_exon	4380091	4389719	-	asmbl_778	none	blat.proc4198.chain_108	1	c9982_f1p1_1846.path1	1
AmTr_v1.0_scaffold00007	alternate_exon	3927937	3928087	-	asmbl_663	none	blat.proc4137.chain_27,c2257_f1p0_1783.path1	2	blat.proc4177.chain_256,c1022_f3p0_1863.path1	2
AmTr_v1.0_scaffold00048	alt_donor	3929573	3929574	-	asmbl_2933,asmbl_2934	none	blat.proc4181.chain_236,blat.proc4198.chain_62,c2782_f1p2_1838.path1,c8686_f1p2_1733.path1	4	c5608_f1p1_1816.path1	1
AmTr_v1.0_scaffold00031	alt_acceptor	1480692	1480693	-	asmbl_2197	none	blat.proc4125.chain_150,c2394_f1p0_1089.path1	2	blat.proc4131.chain_159,c4834_f1p1_1183.path1	2
AmTr_v1.0_scaffold00002	skipped_exon	3007884	3018234	-	asmbl_174	none	blat.proc4214.chain_77,blat.proc4225.chain_187,c486_f4p1_2790.path1,c615_f3p2_2800.path1	4	blat.proc4219.chain_266,c1124_f2p2_2946.path1	2
AmTr_v1.0_scaffold00059	retained_intron	3628657	3628894	-	asmbl_3434	none	blat.proc4212.chain_248,c320_f5p1_2899.path1	2	c1058_f2p1_2850.path1	1
AmTr_v1.0_scaffold00068	alt_donor	2539543	2539544	+	asmbl_3817	none	blat.proc4198.chain_131,blat.proc4200.chain_141,c10510_f1p4_1911.path1,c685_f5p8_1801.path1	4	blat.proc4133.chain_42,blat.proc4174.chain_156,blat.proc4205.chain_188,c2205_f1p2_1968.path1,c5553_f26p16_1851.path1,c6268_f1p0_978.path1	6
AmTr_v1.0_scaffold00066	alt_donor	2122947	2122948	+	asmbl_3714	none	blat.proc4227.chain_11,c720_f3p3_2814.path1	2	blat.proc4231.chain_10,c7918_f1p3_3021.path1	2
AmTr_v1.0_scaffold00005	alternate_exon	4924999	4925087	-	asmbl_522	none	blat.proc4137.chain_146,c5189_f1p2_2275.path1	2	blat.proc4219.chain_177,blat.proc4227.chain_255,c1394_f2p1_2669.path1,c928_f2p1_2748.path1	4
AmTr_v1.0_scaffold00109	spliced_intron	718536	718944	-	asmbl_4726	none	blat.proc4143.chain_99,blat.proc4174.chain_114,c3981_f1p1_927.path1,c6733_f1p0_1354.path1	4	blat.proc4205.chain_117,c3982_f1p0_1852.path1	2
AmTr_v1.0_scaffold00018	spliced_intron	766646	766813	-	asmbl_1393	none	blat.proc4196.chain_213,c6412_f1p2_1890.path1	2	blat.proc4174.chain_192,blat.proc4185.chain_229,blat.proc4196.chain_168,blat.proc4198.chain_197,c12686_f1p6_1502.path1,c5208_f1p6_1665.path1,c8574_f1p1_1150.path1,c9036_f1p0_2295.path1	8
AmTr_v1.0_scaffold00052	alternate_exon	1635956	1636106	-	asmbl_3059	none	blat.proc4216.chain_44,c6300_f1p5_2833.path1	2	blat.proc4227.chain_149,c1079_f2p2_2982.path1	2
AmTr_v1.0_scaffold00095	ends_in_intron	1865473	1865473	+	asmbl_4458	none	blat.proc4221.chain_219,c3527_f1p3_2994.path1	2	blat.proc4225.chain_255,c660_f3p4_2926.path1	2
AmTr_v1.0_scaffold00071	alternate_exon	2891688	2892096	-	asmbl_3944	none	blat.proc4145.chain_126,blat.proc4202.chain_163,c1511_f2p1_1771.path1,c1742_f2p2_975.path1	4	blat.proc4141.chain_225,c1642_f1p1_2977.path1	2
AmTr_v1.0_scaffold00069	alternate_exon	1674190	1678125	+	asmbl_3853	none	blat.proc4137.chain_170,blat.proc4198.chain_90,blat.proc4205.chain_92,c3481_f1p2_1591.path1,c5563_f1p2_1745.path1,c9620_f1p5_1543.path1	6	blat.proc4147.chain_190,c8006_f2p0_1139.path1	2
AmTr_v1.0_scaffold00135	alt_acceptor	368160	368161	-	asmbl_5023	none	blat.proc4143.chain_15,blat.proc4196.chain_264,c3717_f1p2_2957.path1,c7330_f1p2_1692.path1	4	blat.proc4137.chain_41,blat.proc4229.chain_107,blat.proc4231.chain_64,c10264_f1p8_2798.path1,c2607_f1p6_2904.path1,c2732_f1p0_2488.path1	6
AmTr_v1.0_scaffold00062	skipped_exon	2355441	2374185	+	asmbl_3570	none	blat.proc4205.chain_220,c6317_f1p3_1689.path1	2	blat.proc4131.chain_270,c236_f2p0_1970.path1	2
AmTr_v1.0_scaffold00011	retained_intron	4511513	4513357	+	asmbl_1000	none	blat.proc4212.chain_245,c315_f5p3_2891.path1	2	blat.proc4171.chain_153,c1138_f3p2_1037.path1	2
AmTr_v1.0_scaffold00036	retained_intron	5468557	5468590	+	asmbl_2424	none	c10552_f1p0_2032.path1	1	blat.proc4188.chain_104	1
AmTr_v1.0_scaffold00057	retained_intron	1382929	1383120	-	asmbl_3215	none	blat.proc4194.chain_108,c1371_f2p0_1744.path1	2	blat.proc4185.chain_209,c8796_f1p0_1623.path1	2
AmTr_v1.0_scaffold00059	alt_donor	1788798	1788799	-	asmbl_3396	none	blat.proc4202.chain_117,c1361_f2p1_1991.path1	2	blat.proc4177.chain_249,c995_f4p1_1905.path1	2
AmTr_v1.0_scaffold00016	spliced_intron	5485720	5485866	+	asmbl_1281	none	blat.proc4194.chain_85,c1304_f2p4_1954.path1	2	blat.proc4196.chain_139,blat.proc4214.chain_186,c1088_f2p2_2853.path1,c4441_f1p2_1808.path1	4
AmTr_v1.0_scaffold00085	ends_in_intron	1174594	1174594	+	asmbl_4236	none	blat.proc4137.chain_54,c2963_f1p1_1816.path1	2	blat.proc4183.chain_142,c4454_f1p0_2364.path1	2
AmTr_v1.0_scaffold00062	retained_exon	1946664	1946909	+	asmbl_3563	none	blat.proc4147.chain_123,blat.proc4174.chain_230,blat.proc4212.chain_193,c10635_f1p1_1102.path1,c16662_f3p4_2055.path1,c5403_f2p2_991.path1	6	blat.proc4209.chain_223,c12077_f1p1_1850.path1	2
AmTr_v1.0_scaffold00088	retained_intron	145774	147716	-	asmbl_4282	none	blat.proc4223.chain_109,c6354_f1p0_3378.path1	2	blat.proc4131.chain_201,c5304_f1p1_1446.path1	2
AmTr_v1.0_scaffold00005	alternate_exon	4923938	4924452	-	asmbl_524	none	blat.proc4219.chain_177,c928_f2p1_2748.path1	2	blat.proc4137.chain_146,c5189_f1p2_2275.path1	2
AmTr_v1.0_scaffold00078	spliced_intron	2829533	2830313	+	asmbl_4137	none	blat.proc4125.chain_65,blat.proc4135.chain_209,blat.proc4174.chain_262,blat.proc4183.chain_133,blat.proc4185.chain_10,blat.proc4223.chain_220,blat.proc4227.chain_265,blat.proc4231.chain_185,c12405_f1p3_983.path1,c14145_f1p11_3113.path1,c1424_f2p13_2688.path1,c352_f1p1_1028.path1,c4332_f1p2_2508.path1,c604_f1p1_1812.path1,c6163_f1p2_1635.path1,c8728_f1p9_2804.path1	16	blat.proc4171.chain_103,blat.proc4179.chain_226,blat.proc4181.chain_52,blat.proc4190.chain_34,blat.proc4205.chain_99,blat.proc4225.chain_12,blat.proc4225.chain_252,blat.proc4229.chain_205,c12450_f1p2_2241.path1,c1564_f2p1_1972.path1,c1832_f2p2_1663.path1,c3570_f1p2_1794.path1,c5399_f1p7_2780.path1,c650_f4p10_2875.path1,c880_f5p1_1027.path1,c9958_f1p7_2667.path1	16
AmTr_v1.0_scaffold00071	skipped_exon	2817891	2823276	-	asmbl_3942	none	blat.proc4196.chain_254,c7159_f1p2_1717.path1	2	blat.proc4205.chain_177,c5172_f1p0_1790.path1	2
AmTr_v1.0_scaffold00021	retained_intron	5939249	5939339	-	asmbl_1630	none	blat.proc4212.chain_35,blat.proc4221.chain_32,c1202_f2p2_2786.path1,c13748_f1p3_1695.path1	4	blat.proc4202.chain_179,blat.proc4216.chain_32,blat.proc4229.chain_102,c1594_f2p0_1750.path1,c2466_f1p5_2805.path1,c5705_f1p8_3001.path1	6
AmTr_v1.0_scaffold00003	skipped_exon	3566097	3566896	+	asmbl_376	none	blat.proc4131.chain_242,blat.proc4198.chain_159,blat.proc4200.chain_61,c11419_f1p4_1955.path1,c303_f17p8_1853.path1,c87_f3p3_1676.path1	6	blat.proc4137.chain_196,c5902_f1p1_1875.path1	2
AmTr_v1.0_scaffold00058	skipped_exon	589589	592774	+	asmbl_3283	none	blat.proc4216.chain_36,c5823_f1p3_2661.path1	2	blat.proc4214.chain_66,c582_f3p3_2850.path1	2
AmTr_v1.0_scaffold00062	ends_in_intron	704072	704072	-	asmbl_3552	none	blat.proc4225.chain_217,c572_f5p5_2999.path1	2	blat.proc4137.chain_216,blat.proc4177.chain_195,blat.proc4183.chain_118,blat.proc4200.chain_47,blat.proc4209.chain_253,c12797_f1p9_1807.path1,c15816_f23p22_1888.path1,c4229_f1p12_1723.path1,c6102_f1p6_1692.path1,c845_f5p18_1782.path1	10
AmTr_v1.0_scaffold00106	alternate_exon	89994	90262	-	asmbl_4653	none	blat.proc4139.chain_69,blat.proc4212.chain_220,blat.proc4216.chain_186,blat.proc4216.chain_199,c11662_f2p12_2709.path1,c205_f7p26_2852.path1,c4742_f1p5_2955.path1,c52_f3p27_2961.path1	8	blat.proc4231.chain_235,c14778_f9p7_2700.path1	2
AmTr_v1.0_scaffold00095	skipped_exon	1352612	1353766	-	asmbl_4446	none	blat.proc4185.chain_16,c6231_f1p1_1830.path1	2	blat.proc4177.chain_166,blat.proc4183.chain_91,blat.proc4192.chain_213,blat.proc4192.chain_60,c15507_f2p1_1693.path1,c3953_f1p1_2329.path1,c768_f5p2_1933.path1,c821_f4p1_1920.path1	8
AmTr_v1.0_scaffold00056	skipped_exon	3368472	3369598	+	asmbl_3189,asmbl_3190	none	blat.proc4216.chain_159,blat.proc4219.chain_192,blat.proc4229.chain_4,c10740_f1p2_2979.path1,c1435_f2p1_2832.path1,c961_f2p0_2761.path1	6	blat.proc4219.chain_255,c1103_f2p1_3102.path1	2
AmTr_v1.0_scaffold00049	starts_in_intron	4213166	4213166	+	asmbl_3016	none	blat.proc4196.chain_66,c2930_f1p3_1832.path1	2	blat.proc4209.chain_40,c8259_f1p0_1909.path1	2
AmTr_v1.0_scaffold00109	alt_acceptor	1175771	1175772	+	asmbl_4739,asmbl_4740	none	blat.proc4183.chain_68,blat.proc4198.chain_40,blat.proc4200.chain_189,c3685_f1p3_1686.path1,c815_f4p7_2036.path1,c8275_f1p4_1842.path1	6	blat.proc4183.chain_132,blat.proc4185.chain_139,c4328_f1p2_1934.path1,c7844_f1p2_2075.path1	4
AmTr_v1.0_scaffold00019	spliced_intron	6330392	6330526	-	asmbl_1518	none	blat.proc4214.chain_20,c461_f3p1_2837.path1	2	blat.proc4219.chain_79,c680_f3p1_3046.path1	2
AmTr_v1.0_scaffold00042	skipped_exon	2301291	2301784	-	asmbl_2649	none	blat.proc4125.chain_84,blat.proc4127.chain_17,c216_f2p3_1225.path1,c891_f1p3_1076.path1	4	blat.proc4129.chain_178,c1234_f1p0_1076.path1	2
AmTr_v1.0_scaffold00045	starts_in_intron	2910290	2910290	+	asmbl_2775	none	c1948_f1p4_3041.path1	1	blat.proc4221.chain_147,blat.proc4225.chain_169,c2225_f1p6_3049.path1,c429_f5p15_3033.path1	4
AmTr_v1.0_scaffold00052	alt_acceptor	2841110	2841111	-	asmbl_3065	none	blat.proc4212.chain_231,blat.proc4214.chain_56,blat.proc4223.chain_247,c248_f6p7_2783.path1,c548_f2p0_2674.path1,c9197_f1p7_2761.path1	6	blat.proc4221.chain_185,blat.proc4229.chain_119,c2839_f1p3_2698.path1,c2890_f1p1_2820.path1	4
AmTr_v1.0_scaffold00051	retained_intron	3979625	3979735	+	asmbl_3046	none	blat.proc4177.chain_151,blat.proc4183.chain_161,c4715_f1p1_1904.path1,c720_f5p5_2005.path1,c9415_f1p3_1817.path1	5	blat.proc4137.chain_207,blat.proc4200.chain_72,blat.proc4205.chain_90,c3452_f1p8_1963.path1,c429_f8p7_1895.path1,c5976_f1p4_1970.path1	6
AmTr_v1.0_scaffold00062	alt_acceptor	3645971	3645972	-	asmbl_3584,asmbl_3587	none	blat.proc4183.chain_90,blat.proc4214.chain_118,blat.proc4229.chain_58,blat.proc4231.chain_75,c10540_f1p7_2748.path1,c1704_f1p6_2779.path1,c3937_f1p1_2667.path1,c802_f2p3_2640.path1	8	blat.proc4188.chain_225,blat.proc4221.chain_155,c11762_f1p0_2183.path1,c2374_f1p2_2932.path1	4
AmTr_v1.0_scaffold00083	spliced_intron	1805515	1805625	-	asmbl_4215	none	blat.proc4131.chain_247,blat.proc4137.chain_110,blat.proc4196.chain_232,c126_f2p1_1975.path1,c4131_f1p1_1868.path1,c6752_f1p3_1581.path1	6	c1391_f2p0_2109.path1	1
AmTr_v1.0_scaffold00024	alt_acceptor	6029551	6029552	+	asmbl_1841	none	blat.proc4141.chain_4,c208_f2p1_2064.path1	2	blat.proc4177.chain_246,c989_f1p1_1907.path1	2
AmTr_v1.0_scaffold00078	spliced_intron	2551727	2552490	+	asmbl_4132	none	blat.proc4179.chain_133,c1324_f3p2_2396.path1	2	blat.proc4231.chain_27,c8487_f1p2_2770.path1	2
AmTr_v1.0_scaffold00024	retained_intron	578725	578812	-	asmbl_1783	none	blat.proc4214.chain_94,c681_f2p0_2686.path1	2	blat.proc4205.chain_229,c6451_f1p1_1818.path1	2
AmTr_v1.0_scaffold00006	retained_intron	1576011	1576793	-	asmbl_555	none	c9909_f1p0_2775.path1	1	blat.proc4169.chain_46,c12330_f1p1_1119.path1	2
AmTr_v1.0_scaffold00175	retained_intron	241652	242420	+	asmbl_5384	none	blat.proc4221.chain_141,c2092_f1p1_2646.path1	2	blat.proc4141.chain_169,blat.proc4143.chain_89,blat.proc4225.chain_167,blat.proc4225.chain_229,blat.proc4229.chain_128,c3003_f1p11_2679.path1,c338_f2p0_3184.path1,c420_f6p14_3022.path1,c596_f2p10_2896.path1,c6459_f1p5_3152.path1	10
AmTr_v1.0_scaffold00159	alt_acceptor	141615	141616	-	asmbl_5253	none	blat.proc4198.chain_105,c9915_f1p0_1753.path1	2	blat.proc4139.chain_73,c5398_f1p0_1437.path1	2
AmTr_v1.0_scaffold00025	alt_acceptor	3125837	3125838	+	asmbl_1932	none	blat.proc4229.chain_85,c2049_f1p0_2813.path1	2	blat.proc4219.chain_259,c1110_f2p0_2809.path1	2
AmTr_v1.0_scaffold00109	spliced_intron	2057069	2058248	+	asmbl_4749	none	blat.proc4125.chain_77,c626_f1p0_1045.path1	2	blat.proc4190.chain_268,blat.proc4229.chain_252,c14886_f1p1_1775.path1,c7074_f1p7_2953.path1	4
AmTr_v1.0_scaffold00028	ends_in_intron	4320908	4320908	+	asmbl_2029	none	blat.proc4131.chain_245,c113_f3p0_1680.path1	2	blat.proc4125.chain_5,blat.proc4131.chain_203,blat.proc4171.chain_108,c5319_f1p2_1029.path1,c58_f5p5_1220.path1,c900_f4p4_1108.path1	6
AmTr_v1.0_scaffold00058	spliced_intron	3373427	3374542	+	asmbl_3339	none	blat.proc4129.chain_60,c334_f2p3_1058.path1	2	blat.proc4198.chain_226,blat.proc4219.chain_181,blat.proc4225.chain_22,c10207_f1p4_2705.path1,c13471_f1p0_1744.path1,c935_f2p5_2778.path1	6
AmTr_v1.0_scaffold00012	retained_intron	6980486	6980587	-	asmbl_1090,asmbl_1091,asmbl_1092,asmbl_1093	none	blat.proc4169.chain_109,blat.proc4169.chain_208,blat.proc4171.chain_65,blat.proc4174.chain_110,blat.proc4174.chain_63,blat.proc4177.chain_52,blat.proc4177.chain_68,blat.proc4177.chain_96,blat.proc4177.chain_98,blat.proc4181.chain_137,blat.proc4190.chain_209,blat.proc4190.chain_99,blat.proc4192.chain_110,blat.proc4192.chain_99,blat.proc4194.chain_30,blat.proc4194.chain_34,blat.proc4196.chain_100,blat.proc4200.chain_114,blat.proc4200.chain_87,blat.proc4212.chain_184,c1092_f3p4_1781.path1,c1104_f3p7_1898.path1,c13232_f1p6_2004.path1,c14120_f3p0_1044.path1,c14288_f1p0_1517.path1,c14359_f1p3_1109.path1,c14473_f3p1_1002.path1,c16555_f3p5_1690.path1,c17326_f6p1_1111.path1,c2038_f2p0_1937.path1,c2500_f2p0_1094.path1,c3523_f1p5_1587.path1,c3808_f1p7_1197.path1,c393_f8p11_1772.path1,c450_f3p8_1761.path1,c483_f11p8_1850.path1,c492_f8p6_1652.path1,c526_f5p12_1651.path1,c619_f5p8_1728.path1,c666_f4p5_1087.path1	40	blat.proc4179.chain_183,c1462_f2p2_1885.path1	2
AmTr_v1.0_scaffold00138	ends_in_intron	62795	62795	+	asmbl_5067	none	blat.proc4137.chain_28,c2262_f1p2_2097.path1	2	blat.proc4179.chain_103,blat.proc4179.chain_247,blat.proc4183.chain_242,blat.proc4194.chain_266,blat.proc4198.chain_211,blat.proc4200.chain_252,c1251_f3p5_2126.path1,c13005_f1p4_1858.path1,c14034_f1p4_2010.path1,c1617_f2p3_1969.path1,c1902_f2p4_1932.path1,c5729_f1p1_1725.path1,c969_f3p5_2226.path1	13
AmTr_v1.0_scaffold00034	skipped_exon	1956805	1957996	+	asmbl_2357	none	blat.proc4225.chain_25,c10229_f1p0_2923.path1	2	blat.proc4139.chain_16,c184_f2p2_3041.path1	2
AmTr_v1.0_scaffold00012	retained_intron	6983302	6983369	-	asmbl_1091,asmbl_1094	none	blat.proc4190.chain_209,blat.proc4198.chain_265,c14288_f1p0_1517.path1,c14728_f1p4_1842.path1	4	blat.proc4177.chain_96,blat.proc4177.chain_98,blat.proc4179.chain_183,blat.proc4181.chain_137,blat.proc4190.chain_99,blat.proc4192.chain_110,blat.proc4192.chain_99,blat.proc4194.chain_30,blat.proc4194.chain_34,blat.proc4196.chain_100,blat.proc4200.chain_114,blat.proc4200.chain_87,blat.proc4212.chain_184,c1092_f3p4_1781.path1,c1104_f3p7_1898.path1,c13232_f1p6_2004.path1,c1462_f2p2_1885.path1,c16555_f3p5_1690.path1,c2038_f2p0_1937.path1,c3523_f1p5_1587.path1,c393_f8p11_1772.path1,c450_f3p8_1761.path1,c483_f11p8_1850.path1,c492_f8p6_1652.path1,c526_f5p12_1651.path1,c619_f5p8_1728.path1	26
AmTr_v1.0_scaffold00071	alt_donor	2413963	2413964	-	asmbl_3936	none	blat.proc4147.chain_47,c3083_f1p1_929.path1	2	blat.proc4169.chain_233,blat.proc4192.chain_98,blat.proc4198.chain_51,c17611_f4p5_979.path1,c379_f9p7_1826.path1,c8434_f1p7_1708.path1	6
AmTr_v1.0_scaffold00182	retained_intron	509009	509159	+	asmbl_5453	none	blat.proc4202.chain_115,c1355_f2p1_1761.path1	2	blat.proc4133.chain_35,blat.proc4179.chain_243,c1609_f2p1_1671.path1,c1835_f1p0_1772.path1	4
AmTr_v1.0_scaffold00016	alt_acceptor	1231045	1231046	+	asmbl_1237	none	c269_f2p1_3109.path1	1	blat.proc4223.chain_225,c8782_f1p2_2666.path1	2
AmTr_v1.0_scaffold00138	alt_acceptor	48407	48408	+	asmbl_5065,asmbl_5067,asmbl_5068	none	blat.proc4137.chain_28,blat.proc4179.chain_103,blat.proc4179.chain_247,blat.proc4200.chain_252,c1251_f3p5_2126.path1,c14034_f1p4_2010.path1,c1617_f2p3_1969.path1,c2262_f1p2_2097.path1,c969_f3p5_2226.path1	9	blat.proc4194.chain_266,c1902_f2p4_1932.path1	2
AmTr_v1.0_scaffold00045	spliced_intron	795636	795745	+	asmbl_2735	none	blat.proc4133.chain_16,c843_f1p0_2139.path1	2	blat.proc4125.chain_164,c2620_f1p0_1629.path1	2
AmTr_v1.0_scaffold00006	retained_intron	6051900	6052000	+	asmbl_569,asmbl_571	none	blat.proc4216.chain_7,blat.proc4225.chain_149,c308_f10p7_2853.path1,c372_f1p6_2834.path1,c4885_f1p3_2870.path1,c677_f3p2_2794.path1	6	blat.proc4219.chain_13,c452_f4p1_2705.path1,c531_f3p1_2715.path1	3
AmTr_v1.0_scaffold00088	alternate_exon	2384464	2384528	+	asmbl_4311	none	blat.proc4125.chain_104,blat.proc4131.chain_206,blat.proc4171.chain_239,c1467_f1p2_1160.path1,c1719_f2p2_940.path1,c5392_f1p2_1138.path1	6	blat.proc4129.chain_88,blat.proc4137.chain_155,c433_f2p2_1097.path1,c5315_f1p0_1792.path1	4
AmTr_v1.0_scaffold00040	alt_acceptor	1463981	1463982	-	asmbl_2554	none	blat.proc4183.chain_249,c5793_f1p1_1554.path1	2	blat.proc4190.chain_73,c12928_f1p1_1882.path1	2
AmTr_v1.0_scaffold00019	spliced_intron	5100724	5101103	+	asmbl_1490	none	blat.proc4143.chain_39,c1907_f2p1_1591.path1,c4712_f1p1_1427.path1	3	blat.proc4196.chain_36,c2429_f1p0_2209.path1	2
AmTr_v1.0_scaffold00023	retained_intron	1028843	1029050	+	asmbl_1745,asmbl_1746	none	blat.proc4216.chain_64,blat.proc4223.chain_24,blat.proc4227.chain_98,blat.proc4229.chain_93,blat.proc4231.chain_11,blat.proc4231.chain_55,c2176_f1p4_2795.path1,c4830_f1p6_3043.path1,c7309_f2p6_2931.path1,c7951_f1p5_2886.path1,c922_f3p12_3164.path1,c9646_f1p8_2814.path1	12	blat.proc4221.chain_10,c1160_f2p3_2996.path1	2
AmTr_v1.0_scaffold00060	alt_acceptor	2792864	2792865	-	asmbl_3469,asmbl_3470,asmbl_3471	none	blat.proc4196.chain_53,blat.proc4219.chain_78,blat.proc4221.chain_167,blat.proc4229.chain_38,blat.proc4229.chain_49,blat.proc4231.chain_210,c10504_f1p6_3107.path1,c14532_f2p3_2829.path1,c1538_f2p6_2916.path1,c1593_f2p4_2906.path1,c2600_f1p4_2677.path1,c2707_f1p8_1928.path1,c679_f3p2_2692.path1	13	blat.proc4216.chain_112,c9155_f1p1_2802.path1	2
AmTr_v1.0_scaffold00017	alt_donor	7183656	7183657	-	asmbl_1385	none	blat.proc4185.chain_223,c8988_f1p0_2700.path1	2	blat.proc4225.chain_234,c605_f4p2_3013.path1	2
AmTr_v1.0_scaffold00024	spliced_intron	578725	578812	-	asmbl_1782	none	blat.proc4205.chain_229,c6451_f1p1_1818.path1	2	blat.proc4214.chain_94,c681_f2p0_2686.path1	2
AmTr_v1.0_scaffold00029	alt_acceptor	5464497	5464498	+	asmbl_2126	none	blat.proc4214.chain_29,c484_f3p3_2750.path1	2	blat.proc4212.chain_247,c317_f5p3_2805.path1	2
AmTr_v1.0_scaffold00017	retained_intron	4692076	4692480	+	asmbl_1363	none	blat.proc4137.chain_75,c3336_f1p1_1960.path1,c498_f6p12_2936.path1	3	blat.proc4129.chain_33,blat.proc4131.chain_214,blat.proc4147.chain_175,blat.proc4147.chain_28,blat.proc4177.chain_126,blat.proc4179.chain_176,blat.proc4181.chain_209,blat.proc4185.chain_248,blat.proc4190.chain_44,blat.proc4192.chain_113,blat.proc4192.chain_263,blat.proc4192.chain_93,blat.proc4194.chain_22,blat.proc4200.chain_107,blat.proc4200.chain_148,blat.proc4202.chain_245,blat.proc4202.chain_32,blat.proc4209.chain_217,blat.proc4212.chain_234,blat.proc4212.chain_260,blat.proc4219.chain_16,blat.proc4219.chain_32,blat.proc4221.chain_196,blat.proc4231.chain_143,blat.proc4231.chain_56,blat.proc4231.chain_72,c10377_f1p9_3177.path1,c1056_f2p1_1939.path1,c1080_f3p11_1843.path1,c11931_f1p5_1972.path1,c12583_f1p9_2368.path1,c12673_f1p15_4296.path1,c12870_f1p5_2283.path1,c1443_f2p10_2662.path1,c1830_f2p17_2423.path1,c2373_f2p2_1919.path1,c254_f2p0_1216.path1,c2698_f3p5_945.path1,c271_f5p7_2808.path1,c3086_f1p14_4095.path1,c313_f14p20_2536.path1,c358_f2p11_3065.path1,c458_f7p5_1670.path1,c540_f5p10_3071.path1,c5432_f1p0_1143.path1,c576_f5p11_2951.path1,c589_f4p16_1721.path1,c650_f6p14_2013.path1,c706_f4p7_1810.path1,c7244_f1p7_1076.path1,c9211_f1p6_2676.path1,c9685_f1p6_3415.path1,c975_f3p12_2164.path1	53
AmTr_v1.0_scaffold00038	alt_acceptor	63087	63088	-	asmbl_2450	none	blat.proc4181.chain_79,c1889_f2p1_1696.path1	2	blat.proc4181.chain_24,c1743_f2p2_2146.path1	2
AmTr_v1.0_scaffold00048	spliced_intron	3929655	3929820	-	asmbl_2934	none	blat.proc4198.chain_62,c8686_f1p2_1733.path1	2	blat.proc4181.chain_236,c2782_f1p2_1838.path1	2
AmTr_v1.0_scaffold00109	skipped_exon	2236105	2240821	-	asmbl_4753	none	blat.proc4137.chain_171,c5569_f1p1_2072.path1	2	blat.proc4181.chain_261,blat.proc4202.chain_154,c1486_f2p3_1955.path1,c2956_f1p0_2103.path1	4
AmTr_v1.0_scaffold00003	ends_in_intron	4141557	4141557	+	asmbl_384	none	blat.proc4231.chain_34,c8935_f1p1_2818.path1	2	blat.proc4147.chain_89,blat.proc4194.chain_81,c1289_f2p1_1500.path1,c4355_f2p0_986.path1	4
AmTr_v1.0_scaffold00069	alt_donor	87312	87313	-	asmbl_3832	none	c1384_f2p2_1724.path1,c14536_f7p2_1011.path1,c966_f3p4_2316.path1	3	blat.proc4177.chain_70,blat.proc4192.chain_260,blat.proc4194.chain_111	3
AmTr_v1.0_scaffold00095	alt_acceptor	139152	139153	+	asmbl_4426	none	blat.proc4185.chain_150,c7972_f1p1_1912.path1	2	blat.proc4225.chain_92,c11733_f2p0_2837.path1	2
AmTr_v1.0_scaffold00001	retained_intron	188828	189848	+	asmbl_13	none	blat.proc4221.chain_234,c3729_f1p0_2822.path1	2	blat.proc4190.chain_197,c14200_f1p1_1811.path1	2
AmTr_v1.0_scaffold00031	alt_acceptor	1480744	1480745	-	asmbl_2196	none	blat.proc4131.chain_159,c4834_f1p1_1183.path1	2	blat.proc4125.chain_150,c2394_f1p0_1089.path1	2
AmTr_v1.0_scaffold00067	alt_acceptor	2558330	2558331	-	asmbl_3775	none	blat.proc4129.chain_82,c417_f2p0_1463.path1	2	blat.proc4143.chain_67,c5722_f1p0_1252.path1	2
AmTr_v1.0_scaffold00017	starts_in_intron	4690843	4690843	+	asmbl_1362	none	blat.proc4209.chain_217,c11931_f1p5_1972.path1	2	blat.proc4137.chain_75,blat.proc4177.chain_126,blat.proc4179.chain_176,blat.proc4181.chain_209,blat.proc4185.chain_248,blat.proc4190.chain_44,blat.proc4192.chain_113,blat.proc4192.chain_263,blat.proc4192.chain_93,blat.proc4194.chain_22,blat.proc4200.chain_107,blat.proc4200.chain_148,blat.proc4202.chain_245,blat.proc4202.chain_32,blat.proc4212.chain_234,blat.proc4212.chain_260,blat.proc4219.chain_16,blat.proc4219.chain_32,blat.proc4221.chain_196,blat.proc4231.chain_143,blat.proc4231.chain_56,blat.proc4231.chain_72,c10377_f1p9_3177.path1,c1056_f2p1_1939.path1,c1080_f3p11_1843.path1,c12583_f1p9_2368.path1,c12673_f1p15_4296.path1,c12870_f1p5_2283.path1,c1443_f2p10_2662.path1,c1830_f2p17_2423.path1,c2373_f2p2_1919.path1,c271_f5p7_2808.path1,c3086_f1p14_4095.path1,c313_f14p20_2536.path1,c3336_f1p1_1960.path1,c358_f2p11_3065.path1,c458_f7p5_1670.path1,c498_f6p12_2936.path1,c540_f5p10_3071.path1,c576_f5p11_2951.path1,c589_f4p16_1721.path1,c650_f6p14_2013.path1,c706_f4p7_1810.path1,c9211_f1p6_2676.path1,c9685_f1p6_3415.path1,c975_f3p12_2164.path1	46
AmTr_v1.0_scaffold00002	retained_intron	2109518	2109839	-	asmbl_166	none	blat.proc4183.chain_126,c4276_f1p1_2028.path1	2	blat.proc4188.chain_245,blat.proc4194.chain_65,blat.proc4198.chain_100,c11939_f1p1_1769.path1,c1217_f2p0_1962.path1,c9814_f1p1_1872.path1	6
AmTr_v1.0_scaffold00156	spliced_intron	844615	845311	-	asmbl_5238	none	blat.proc4171.chain_91,c820_f5p0_1024.path1	2	blat.proc4181.chain_13,c1711_f2p0_1680.path1	2
AmTr_v1.0_scaffold00140	spliced_intron	1332177	1332290	+	asmbl_5085	none	blat.proc4183.chain_89,c3933_f1p5_1842.path1	2	blat.proc4133.chain_264,blat.proc4135.chain_166,blat.proc4205.chain_206,c394_f2p3_1829.path1,c5991_f1p6_1734.path1,c70_f3p2_1832.path1	6
AmTr_v1.0_scaffold00077	spliced_intron	492449	492548	+	asmbl_4035	none	blat.proc4216.chain_224,c311_f8p8_2961.path1	2	blat.proc4212.chain_216,blat.proc4221.chain_240,blat.proc4227.chain_171,c1153_f2p3_2965.path1,c181_f10p13_3080.path1,c3822_f1p5_2797.path1	6
AmTr_v1.0_scaffold00013	spliced_intron	3031264	3031775	-	asmbl_1138	none	blat.proc4131.chain_72,blat.proc4169.chain_104,blat.proc4171.chain_2,c14081_f2p3_1142.path1,c17786_f20p16_1015.path1,c3651_f1p7_1131.path1	6	blat.proc4198.chain_163,blat.proc4202.chain_166,c11583_f1p1_1812.path1,c1527_f2p2_1631.path1	4
AmTr_v1.0_scaffold00007	spliced_intron	3931423	3931500	-	asmbl_664	none	blat.proc4177.chain_256,c1022_f3p0_1863.path1	2	blat.proc4137.chain_27,c2257_f1p0_1783.path1	2
AmTr_v1.0_scaffold00010	alt_donor	162063	162064	+	asmbl_853	none	blat.proc4177.chain_152,blat.proc4192.chain_211,c724_f6p0_2053.path1,c811_f4p2_1934.path1	4	blat.proc4221.chain_224,c3610_f1p0_2943.path1	2
AmTr_v1.0_scaffold00067	retained_exon	398660	398819	+	asmbl_3749	none	blat.proc4174.chain_131,c5062_f1p0_1047.path1	2	blat.proc4169.chain_237,c17625_f8p1_933.path1	2
AmTr_v1.0_scaffold00131	skipped_exon	617974	620086	+	asmbl_4986	none	blat.proc4185.chain_33,c6491_f1p3_2032.path1	2	blat.proc4188.chain_197,blat.proc4190.chain_141,blat.proc4194.chain_243,c11523_f1p3_2127.path1,c13648_f1p3_2187.path1,c1818_f2p1_1976.path1	6
AmTr_v1.0_scaffold00121	alt_acceptor	1425955	1425956	+	asmbl_4905,asmbl_4907	none	blat.proc4221.chain_229,blat.proc4229.chain_259,c3661_f1p3_3058.path1,c7398_f1p7_2984.path1,c953_f2p6_2815.path1	5	blat.proc4225.chain_35,c10505_f1p0_2964.path1	2
AmTr_v1.0_scaffold00003	spliced_intron	2697108	2697337	-	asmbl_368,asmbl_369	none	blat.proc4137.chain_47,blat.proc4139.chain_146,blat.proc4139.chain_164,blat.proc4143.chain_16,blat.proc4202.chain_84,blat.proc4212.chain_54,blat.proc4214.chain_85,blat.proc4214.chain_9,blat.proc4216.chain_233,blat.proc4216.chain_256,blat.proc4216.chain_37,c1217_f2p7_2138.path1,c14057_f1p8_1609.path1,c2004_f1p4_3242.path1,c2858_f1p2_1811.path1,c349_f5p10_2822.path1,c3813_f1p6_2717.path1,c412_f4p30_2969.path1,c456_f5p14_3131.path1,c5927_f1p23_2985.path1,c644_f3p20_3123.path1,c680_f1p2_3007.path1	22	blat.proc4231.chain_19,c8198_f1p4_2892.path1	2
AmTr_v1.0_scaffold00159	alt_acceptor	141570	141571	-	asmbl_5254	none	blat.proc4139.chain_73,c5398_f1p0_1437.path1	2	blat.proc4198.chain_105,c9915_f1p0_1753.path1	2
AmTr_v1.0_scaffold00174	starts_in_intron	263089	263089	-	asmbl_5377	none	blat.proc4127.chain_168,c2951_f1p0_1083.path1	2	blat.proc4190.chain_108,blat.proc4202.chain_95,c1250_f2p4_1930.path1,c13337_f1p0_2295.path1	4
AmTr_v1.0_scaffold00012	spliced_intron	6980760	6980934	-	asmbl_1093	none	blat.proc4169.chain_208,blat.proc4174.chain_63,blat.proc4194.chain_30,blat.proc4200.chain_114,c1092_f3p4_1781.path1,c17326_f6p1_1111.path1,c2500_f2p0_1094.path1,c619_f5p8_1728.path1	8	blat.proc4169.chain_109,blat.proc4177.chain_96,blat.proc4181.chain_137,blat.proc4196.chain_100,blat.proc4198.chain_265,blat.proc4212.chain_184,c14120_f3p0_1044.path1,c14728_f1p4_1842.path1,c16555_f3p5_1690.path1,c2038_f2p0_1937.path1,c3523_f1p5_1587.path1,c483_f11p8_1850.path1	12
AmTr_v1.0_scaffold00001	alt_acceptor	448546	448547	+	asmbl_20	none	blat.proc4219.chain_102,c724_f3p1_2818.path1	2	blat.proc4229.chain_87,c2100_f1p7_2845.path1	2
AmTr_v1.0_scaffold00012	alt_acceptor	8456014	8456015	+	asmbl_1118	none	blat.proc4135.chain_204,c509_f2p1_1893.path1	2	blat.proc4135.chain_43,c1907_f1p2_1888.path1	2
AmTr_v1.0_scaffold00022	alternate_exon	3862412	3870495	-	asmbl_1695	none	blat.proc4143.chain_197,blat.proc4169.chain_115,blat.proc4169.chain_174,blat.proc4177.chain_162,blat.proc4192.chain_35,blat.proc4192.chain_38,blat.proc4200.chain_39,blat.proc4200.chain_68,blat.proc4205.chain_174,blat.proc4205.chain_181,blat.proc4205.chain_212,c14352_f9p4_1060.path1,c15246_f6p6_1825.path1,c15264_f3p8_2091.path1,c15790_f8p8_1687.path1,c16066_f1p3_1221.path1,c403_f5p9_1956.path1,c5106_f1p0_1468.path1,c5387_f1p0_1682.path1,c6156_f1p10_2496.path1,c746_f7p3_1019.path1,c749_f5p4_1804.path1	22	c958_f1p0_1124.path1	1
AmTr_v1.0_scaffold00020	retained_intron	4548303	4550595	-	asmbl_1551	none	blat.proc4143.chain_53,blat.proc4227.chain_142,c1059_f2p1_2965.path1,c5160_f1p1_1918.path1	4	blat.proc4202.chain_253,c1851_f2p1_1650.path1	2
AmTr_v1.0_scaffold00011	retained_exon	3970532	3970554	-	asmbl_994	none	blat.proc4133.chain_30,blat.proc4214.chain_260,blat.proc4216.chain_142,blat.proc4229.chain_222,blat.proc4231.chain_13,c10172_f1p8_3191.path1,c1465_f1p1_2410.path1,c4087_f1p8_3008.path1,c5949_f1p4_2723.path1,c8020_f1p4_2547.path1	10	c2223_f1p2_3531.path1	1
AmTr_v1.0_scaffold00021	alt_donor	1071822	1071823	-	asmbl_1571	none	c15457_f2p1_1817.path1	1	blat.proc4177.chain_184,blat.proc4183.chain_219,blat.proc4200.chain_20,blat.proc4200.chain_227,c15604_f2p3_1896.path1,c5463_f2p2_1793.path1,c810_f5p1_1840.path1,c906_f3p9_1853.path1	8
AmTr_v1.0_scaffold00004	spliced_intron	9450954	9451067	+	asmbl_504	none	blat.proc4177.chain_167,c771_f5p0_1800.path1	2	blat.proc4198.chain_144,c10977_f1p1_1868.path1	2
AmTr_v1.0_scaffold00002	retained_intron	1522771	1523386	+	asmbl_156	none	blat.proc4219.chain_92,c712_f3p1_2795.path1	2	blat.proc4135.chain_40,c1851_f1p0_1782.path1	2
AmTr_v1.0_scaffold00045	skipped_exon	798659	799233	+	asmbl_2736	none	blat.proc4125.chain_164,c2620_f1p0_1629.path1	2	blat.proc4133.chain_16,c843_f1p0_2139.path1	2
AmTr_v1.0_scaffold00030	spliced_intron	6055377	6055463	+	asmbl_2186	none	blat.proc4209.chain_43,c8289_f1p2_1834.path1	2	blat.proc4129.chain_227,blat.proc4181.chain_177,blat.proc4188.chain_51,blat.proc4192.chain_8,c14978_f1p2_2121.path1,c2063_f1p0_1310.path1,c2134_f2p2_1870.path1,c9964_f1p2_1787.path1	8
AmTr_v1.0_scaffold00017	retained_intron	2205798	2205965	-	asmbl_1332	none	blat.proc4177.chain_87,blat.proc4181.chain_100,c1953_f2p0_1967.path1,c354_f15p10_1885.path1	4	blat.proc4192.chain_140,c569_f6p11_1716.path1	2
AmTr_v1.0_scaffold00070	retained_intron	3605853	3606033	+	asmbl_3896	none	blat.proc4221.chain_255,blat.proc4225.chain_233,c4084_f1p5_2963.path1,c603_f4p4_2816.path1	4	blat.proc4223.chain_188,c7930_f1p3_3025.path1	2
AmTr_v1.0_scaffold00001	retained_intron	2144016	2144123	+	asmbl_47	none	blat.proc4185.chain_75,c7009_f1p1_1808.path1	2	blat.proc4183.chain_52,blat.proc4200.chain_116,blat.proc4200.chain_243,c3572_f1p3_1885.path1,c630_f3p13_1851.path1,c947_f3p8_1805.path1	6
AmTr_v1.0_scaffold00109	ends_in_intron	1186729	1186729	+	asmbl_4740	none	blat.proc4183.chain_68,c3685_f1p3_1686.path1	2	blat.proc4169.chain_74,blat.proc4174.chain_51,blat.proc4183.chain_132,blat.proc4185.chain_139,blat.proc4198.chain_40,blat.proc4200.chain_189,blat.proc4205.chain_6,c13024_f2p3_1088.path1,c1898_f2p6_1771.path1,c2427_f2p2_1004.path1,c4328_f1p2_1934.path1,c7844_f1p2_2075.path1,c815_f4p7_2036.path1,c8275_f1p4_1842.path1	14
AmTr_v1.0_scaffold00003	skipped_exon	1251505	1258613	+	asmbl_339	none	blat.proc4225.chain_91,blat.proc4231.chain_120,c11720_f1p5_2592.path1,c12163_f1p4_2832.path1	4	blat.proc4139.chain_9,c129_f2p2_3061.path1	2
AmTr_v1.0_scaffold00131	alt_donor	946236	946237	+	asmbl_4993	none	blat.proc4223.chain_115,blat.proc4225.chain_139,c227_f12p9_2854.path1,c6472_f1p5_2751.path1	4	blat.proc4214.chain_189,c1095_f2p2_2743.path1	2
AmTr_v1.0_scaffold00059	retained_intron	2144713	2145472	+	asmbl_3409	none	blat.proc4216.chain_43,c6213_f1p6_3099.path1	2	blat.proc4139.chain_114,blat.proc4194.chain_192,blat.proc4219.chain_221,c1036_f2p5_2608.path1,c135_f3p0_3180.path1,c1650_f2p0_1755.path1	6
AmTr_v1.0_scaffold00069	alt_donor	1466101	1466102	+	asmbl_3847	none	blat.proc4181.chain_25,blat.proc4185.chain_156,c1746_f2p0_1838.path1,c8060_f1p0_1831.path1	4	blat.proc4185.chain_234,c9060_f1p0_1939.path1	2
AmTr_v1.0_scaffold00021	retained_exon	5762195	5762343	+	asmbl_1624	none	blat.proc4181.chain_242,c2835_f1p0_1831.path1	2	blat.proc4185.chain_72,blat.proc4194.chain_73,c1250_f2p1_1737.path1,c6978_f1p0_1860.path1	4
AmTr_v1.0_scaffold00062	skipped_exon	1941087	1950714	+	asmbl_3564	none	blat.proc4209.chain_223,c12077_f1p1_1850.path1	2	blat.proc4147.chain_123,blat.proc4174.chain_230,blat.proc4212.chain_193,c10635_f1p1_1102.path1,c16662_f3p4_2055.path1,c5403_f2p2_991.path1	6
AmTr_v1.0_scaffold00057	retained_intron	310350	310683	-	asmbl_3205	none	blat.proc4205.chain_51,c2408_f1p0_1734.path1	2	blat.proc4143.chain_59,blat.proc4185.chain_63,c5450_f1p0_1865.path1,c6813_f1p1_1638.path1	4
AmTr_v1.0_scaffold00065	alt_acceptor	1777666	1777667	-	asmbl_3645	none	blat.proc4190.chain_145,blat.proc4205.chain_106,c13680_f1p0_1533.path1,c3685_f1p4_1765.path1	4	blat.proc4177.chain_197,c868_f4p0_1832.path1	2
AmTr_v1.0_scaffold00001	starts_in_intron	15680533	15680533	+	asmbl_138	none	blat.proc4229.chain_172,c4102_f1p2_2723.path1	2	blat.proc4209.chain_238,c12427_f1p1_2049.path1	2
AmTr_v1.0_scaffold00027	skipped_exon	4416076	4418298	+	asmbl_2013	none	blat.proc4188.chain_227,c11777_f1p0_1959.path1	2	blat.proc4135.chain_74,blat.proc4179.chain_12,blat.proc4198.chain_219,blat.proc4209.chain_116,c1071_f3p3_2099.path1,c13243_f1p4_1876.path1,c3950_f1p0_1956.path1,c9761_f1p2_1676.path1	8
AmTr_v1.0_scaffold00004	retained_intron	1263870	1264393	-	asmbl_457	none	blat.proc4190.chain_2,c12174_f1p1_2642.path1	2	blat.proc4194.chain_4,blat.proc4200.chain_133,blat.proc4212.chain_268,c1008_f3p2_1818.path1,c379_f4p1_3009.path1,c667_f5p3_2441.path1	6
AmTr_v1.0_scaffold00088	starts_in_intron	2379919	2379919	-	asmbl_4309	none	blat.proc4194.chain_7,c1016_f3p0_1739.path1	2	blat.proc4143.chain_11,c3577_f1p0_1730.path1	2
AmTr_v1.0_scaffold00016	ends_in_intron	5688949	5688949	-	asmbl_1283	none	blat.proc4223.chain_249,c9276_f1p2_3029.path1	2	blat.proc4225.chain_26,c10283_f1p3_3027.path1	2
AmTr_v1.0_scaffold00030	alt_acceptor	2671946	2671947	+	asmbl_2161	none	blat.proc4194.chain_238,blat.proc4202.chain_90,c1799_f2p1_1929.path1	3	blat.proc4131.chain_184,c5126_f1p1_1411.path1	2
AmTr_v1.0_scaffold00049	retained_exon	1457130	1457416	+	asmbl_2972	none	blat.proc4214.chain_104,c728_f2p0_2818.path1	2	blat.proc4133.chain_184,c1229_f1p0_2097.path1	2
AmTr_v1.0_scaffold00058	alt_acceptor	2454060	2454061	-	asmbl_3316	none	c141_f2p0_1744.path1	1	blat.proc4125.chain_16,blat.proc4135.chain_207,blat.proc4135.chain_75,blat.proc4137.chain_260,blat.proc4137.chain_261,blat.proc4137.chain_76,blat.proc4139.chain_34,blat.proc4141.chain_11,blat.proc4141.chain_255,blat.proc4200.chain_77,c1195_f1p2_1738.path1,c120_f3p2_1200.path1,c259_f2p5_1619.path1,c2662_f1p3_1767.path1,c3360_f1p16_2033.path1,c34_f6p34_1948.path1,c465_f9p2_1827.path1,c578_f1p6_2203.path1,c6782_f4p13_1814.path1,c6804_f3p1_1695.path1	20
AmTr_v1.0_scaffold00049	retained_exon	3499793	3499996	-	asmbl_2995	none	blat.proc4209.chain_203,c11592_f1p0_1561.path1	2	blat.proc4129.chain_28,c232_f3p1_1264.path1	2
AmTr_v1.0_scaffold00012	alt_donor	8455583	8455584	+	asmbl_1119	none	blat.proc4135.chain_43,c1907_f1p2_1888.path1	2	blat.proc4135.chain_204,c509_f2p1_1893.path1	2
AmTr_v1.0_scaffold00121	skipped_exon	1459132	1460572	+	asmbl_4905,asmbl_4906	none	blat.proc4225.chain_35,blat.proc4229.chain_259,c10505_f1p0_2964.path1,c7398_f1p7_2984.path1,c953_f2p6_2815.path1	5	blat.proc4221.chain_229,c3661_f1p3_3058.path1	2
AmTr_v1.0_scaffold00130	alt_acceptor	803951	803952	-	asmbl_4965	none	blat.proc4200.chain_190,c816_f4p0_1902.path1	2	blat.proc4185.chain_265,c9408_f1p0_1908.path1	2
AmTr_v1.0_scaffold00095	spliced_intron	1998259	1998743	+	asmbl_4463	none	blat.proc4183.chain_206,blat.proc4223.chain_259,c5280_f1p0_2074.path1,c9444_f1p2_2789.path1	4	blat.proc4188.chain_146,c10944_f1p1_1797.path1	2
AmTr_v1.0_scaffold00033	spliced_intron	1439009	1439401	+	asmbl_2287	none	blat.proc4131.chain_122,blat.proc4137.chain_63,blat.proc4141.chain_107,blat.proc4169.chain_101,blat.proc4177.chain_58,blat.proc4181.chain_63,blat.proc4183.chain_167,blat.proc4185.chain_122,blat.proc4200.chain_38,blat.proc4202.chain_190,c14032_f1p3_1093.path1,c14392_f6p0_1023.path1,c15781_f6p18_1719.path1,c1623_f2p8_1612.path1,c1852_f2p9_1870.path1,c3094_f1p3_1591.path1,c4412_f1p2_1148.path1,c4816_f1p10_1725.path1,c55_f4p2_1709.path1,c7665_f1p7_1751.path1	20	blat.proc4229.chain_242,c6694_f1p0_2569.path1	2
AmTr_v1.0_scaffold00002	skipped_exon	8895978	8899291	-	asmbl_268	none	blat.proc4216.chain_51,c6564_f1p3_2741.path1	2	blat.proc4216.chain_150,blat.proc4221.chain_201,blat.proc4223.chain_55,blat.proc4223.chain_79,blat.proc4225.chain_134,c10375_f1p6_2955.path1,c140_f22p11_2812.path1,c3206_f1p3_2993.path1,c5311_f1p4_2860.path1,c9871_f1p1_2799.path1	10
AmTr_v1.0_scaffold00056	retained_exon	3374892	3375021	+	asmbl_3191	none	blat.proc4219.chain_255,c1103_f2p1_3102.path1	2	blat.proc4216.chain_159,blat.proc4219.chain_192,blat.proc4229.chain_4,c10740_f1p2_2979.path1,c1435_f2p1_2832.path1,c961_f2p0_2761.path1	6
AmTr_v1.0_scaffold00025	alt_donor	3554570	3554571	+	asmbl_1937	none	blat.proc4179.chain_263,c1665_f2p0_1754.path1	2	blat.proc4177.chain_147,c708_f6p0_1713.path1	2
AmTr_v1.0_scaffold00018	retained_exon	2860705	2860777	-	asmbl_1405	none	blat.proc4131.chain_107,c4185_f1p0_1118.path1	2	blat.proc4174.chain_21,c2086_f2p1_1044.path1	2
AmTr_v1.0_scaffold00002	alt_donor	8488392	8488393	+	asmbl_251	none	blat.proc4141.chain_223,blat.proc4202.chain_104,c1294_f2p1_1803.path1,c1609_f1p0_1944.path1	4	blat.proc4205.chain_120,c4015_f1p0_1855.path1	2
AmTr_v1.0_scaffold00057	alt_acceptor	2319973	2319974	+	asmbl_3232	none	blat.proc4190.chain_250,c14719_f1p0_1704.path1	2	blat.proc4223.chain_206,blat.proc4225.chain_156,c369_f7p4_2874.path1,c8379_f1p2_2705.path1	4
AmTr_v1.0_scaffold00013	alternate_exon	5116582	5125937	-	asmbl_1157	none	blat.proc4137.chain_137,blat.proc4190.chain_97,c13223_f1p0_2045.path1,c4795_f1p0_1898.path1	4	c13651_f1p0_1094.path1	1
AmTr_v1.0_scaffold00032	alt_acceptor	2951062	2951063	-	asmbl_2252	none	blat.proc4209.chain_246,c12600_f1p0_1871.path1	2	blat.proc4202.chain_192,c1627_f2p0_2012.path1	2
AmTr_v1.0_scaffold00066	alt_donor	362244	362245	+	asmbl_3687	none	c7171_f1p1_1795.path1	1	blat.proc4185.chain_239,blat.proc4202.chain_29,c1077_f3p0_1941.path1,c9125_f1p1_1891.path1	4
AmTr_v1.0_scaffold00096	retained_exon	1263524	1263602	-	asmbl_4485	none	blat.proc4196.chain_27,c2237_f1p3_1894.path1	2	blat.proc4135.chain_4,blat.proc4192.chain_101,blat.proc4227.chain_109,c149_f2p0_1716.path1,c398_f10p4_1821.path1,c966_f2p1_2774.path1	6
AmTr_v1.0_scaffold00069	alt_acceptor	87158	87159	-	asmbl_3832	none	c1384_f2p2_1724.path1,c14536_f7p2_1011.path1,c966_f3p4_2316.path1	3	blat.proc4177.chain_70,blat.proc4192.chain_260,blat.proc4194.chain_111	3
AmTr_v1.0_scaffold00003	retained_intron	2705707	2705866	-	asmbl_368	none	blat.proc4139.chain_164,blat.proc4143.chain_16,blat.proc4214.chain_85,blat.proc4214.chain_9,blat.proc4216.chain_233,blat.proc4216.chain_256,blat.proc4216.chain_37,c2004_f1p4_3242.path1,c349_f5p10_2822.path1,c3813_f1p6_2717.path1,c412_f4p30_2969.path1,c456_f5p14_3131.path1,c5927_f1p23_2985.path1,c644_f3p20_3123.path1	14	blat.proc4139.chain_146,c680_f1p2_3007.path1	2
AmTr_v1.0_scaffold00109	spliced_intron	2058340	2058543	+	asmbl_4749	none	blat.proc4125.chain_77,c626_f1p0_1045.path1	2	blat.proc4190.chain_268,blat.proc4229.chain_252,c14886_f1p1_1775.path1,c7074_f1p7_2953.path1	4
AmTr_v1.0_scaffold00156	retained_intron	844615	845311	-	asmbl_5239	none	blat.proc4181.chain_13,c1711_f2p0_1680.path1	2	blat.proc4171.chain_91,c820_f5p0_1024.path1	2
AmTr_v1.0_scaffold00002	alt_acceptor	8612974	8612975	-	asmbl_256	none	blat.proc4179.chain_159,c1401_f2p0_1891.path1	2	blat.proc4202.chain_251,c1846_f2p0_1872.path1	2
AmTr_v1.0_scaffold00014	alt_acceptor	5780570	5780571	+	asmbl_1200	none	blat.proc4209.chain_75,c8942_f1p5_2095.path1	2	blat.proc4192.chain_201,blat.proc4200.chain_92,blat.proc4202.chain_47,c1114_f2p6_1855.path1,c542_f5p7_2012.path1,c790_f4p3_1899.path1	6
AmTr_v1.0_scaffold00182	spliced_intron	509009	509159	+	asmbl_5451,asmbl_5452	none	blat.proc4133.chain_35,blat.proc4179.chain_243,c1609_f2p1_1671.path1,c1835_f1p0_1772.path1	4	blat.proc4202.chain_115,c1355_f2p1_1761.path1	2
AmTr_v1.0_scaffold00095	alt_donor	1528550	1528551	-	asmbl_4451,asmbl_4453	none	blat.proc4139.chain_203,blat.proc4183.chain_53,blat.proc4209.chain_154,c1795_f2p1_1878.path1,c3579_f1p1_1672.path1,c5114_f1p0_1547.path1	6	blat.proc4229.chain_90,c2130_f1p1_2838.path1	2
AmTr_v1.0_scaffold00007	alt_acceptor	2479071	2479072	-	asmbl_637	none	blat.proc4221.chain_262,c4180_f1p2_3197.path1	2	blat.proc4219.chain_186,c949_f2p2_2921.path1	2
AmTr_v1.0_scaffold00004	alternate_exon	2359906	2359939	+	asmbl_478	none	blat.proc4188.chain_36,c9816_f1p3_1877.path1	2	blat.proc4147.chain_66,c3476_f1p2_977.path1	2
AmTr_v1.0_scaffold00029	alt_acceptor	1618056	1618057	+	asmbl_2067	none	blat.proc4137.chain_95,c13624_f2p2_2612.path1,c3868_f1p2_1670.path1	3	blat.proc4223.chain_126,c6764_f1p0_2746.path1	2
AmTr_v1.0_scaffold00001	retained_intron	9781751	9781839	-	asmbl_117	none	blat.proc4125.chain_128,c1922_f1p0_1456.path1	2	blat.proc4214.chain_155,blat.proc4223.chain_104,c6266_f1p1_2675.path1,c962_f2p1_2670.path1	4
AmTr_v1.0_scaffold00038	alt_acceptor	3633578	3633579	-	asmbl_2482	none	blat.proc4137.chain_238,c6478_f1p2_2187.path1	2	blat.proc4202.chain_69,c1174_f2p0_2113.path1	2
AmTr_v1.0_scaffold00011	retained_exon	4511667	4511859	+	asmbl_998	none	blat.proc4125.chain_124,blat.proc4127.chain_222,c1864_f1p4_1045.path1,c84_f4p1_1241.path1	4	blat.proc4171.chain_153,c1138_f3p2_1037.path1	2
AmTr_v1.0_scaffold00025	alt_acceptor	5320698	5320699	-	asmbl_1973	none	blat.proc4141.chain_216,c1296_f1p0_1707.path1	2	blat.proc4137.chain_220,c6143_f1p0_1783.path1	2
AmTr_v1.0_scaffold00176	retained_intron	529475	529691	-	asmbl_5413	none	blat.proc4205.chain_202,c5829_f1p2_1497.path1	2	blat.proc4135.chain_27,c717_f1p0_1862.path1	2
AmTr_v1.0_scaffold00013	ends_in_intron	7629210	7629210	-	asmbl_1175	none	blat.proc4209.chain_103,c9396_f1p3_2355.path1	2	blat.proc4185.chain_84,c7097_f1p1_1655.path1	2
AmTr_v1.0_scaffold00033	spliced_intron	1505681	1505851	-	asmbl_2290	none	blat.proc4229.chain_219,c5860_f1p4_2747.path1	2	blat.proc4214.chain_219,c2543_f1p0_2954.path1	2
AmTr_v1.0_scaffold00174	spliced_intron	265590	266011	-	asmbl_5376	none	blat.proc4202.chain_95,c1250_f2p4_1930.path1	2	blat.proc4190.chain_108,c13337_f1p0_2295.path1	2
AmTr_v1.0_scaffold00017	spliced_intron	4692076	4692480	+	asmbl_1355,asmbl_1356,asmbl_1357,asmbl_1358,asmbl_1360,asmbl_1361,asmbl_1362	none	blat.proc4129.chain_33,blat.proc4131.chain_214,blat.proc4147.chain_175,blat.proc4147.chain_28,blat.proc4177.chain_126,blat.proc4179.chain_176,blat.proc4181.chain_209,blat.proc4185.chain_248,blat.proc4190.chain_44,blat.proc4192.chain_113,blat.proc4192.chain_263,blat.proc4192.chain_93,blat.proc4194.chain_22,blat.proc4200.chain_107,blat.proc4200.chain_148,blat.proc4202.chain_245,blat.proc4202.chain_32,blat.proc4209.chain_217,blat.proc4212.chain_234,blat.proc4212.chain_260,blat.proc4219.chain_16,blat.proc4219.chain_32,blat.proc4221.chain_196,blat.proc4231.chain_143,blat.proc4231.chain_56,blat.proc4231.chain_72,c10377_f1p9_3177.path1,c1056_f2p1_1939.path1,c1080_f3p11_1843.path1,c11931_f1p5_1972.path1,c12583_f1p9_2368.path1,c12673_f1p15_4296.path1,c12870_f1p5_2283.path1,c1443_f2p10_2662.path1,c1830_f2p17_2423.path1,c2373_f2p2_1919.path1,c254_f2p0_1216.path1,c2698_f3p5_945.path1,c271_f5p7_2808.path1,c3086_f1p14_4095.path1,c313_f14p20_2536.path1,c358_f2p11_3065.path1,c458_f7p5_1670.path1,c540_f5p10_3071.path1,c5432_f1p0_1143.path1,c576_f5p11_2951.path1,c589_f4p16_1721.path1,c650_f6p14_2013.path1,c706_f4p7_1810.path1,c7244_f1p7_1076.path1,c9211_f1p6_2676.path1,c9685_f1p6_3415.path1,c975_f3p12_2164.path1	53	blat.proc4137.chain_75,c3336_f1p1_1960.path1,c498_f6p12_2936.path1	3
AmTr_v1.0_scaffold00059	alt_acceptor	1766411	1766412	-	asmbl_3396,asmbl_3397	none	blat.proc4177.chain_249,blat.proc4202.chain_117,c1361_f2p1_1991.path1,c995_f4p1_1905.path1	4	blat.proc4221.chain_192,c2995_f1p0_2746.path1	2
AmTr_v1.0_scaffold00060	retained_intron	532345	532435	+	asmbl_3452	none	blat.proc4139.chain_18,c190_f2p1_3142.path1	2	blat.proc4196.chain_40,c2455_f1p2_1622.path1	2
AmTr_v1.0_scaffold00039	alt_donor	3575395	3575396	-	asmbl_2523	none	blat.proc4192.chain_72,blat.proc4198.chain_153,c11288_f2p8_1646.path1,c15602_f2p3_1801.path1	4	blat.proc4192.chain_108,c436_f8p5_1763.path1	2
AmTr_v1.0_scaffold00019	spliced_intron	6326280	6327925	-	asmbl_1520	none	blat.proc4174.chain_74,c2575_f2p0_989.path1	2	blat.proc4196.chain_50,blat.proc4214.chain_20,blat.proc4219.chain_79,c2617_f1p2_1996.path1,c461_f3p1_2837.path1,c622_f4p2_2832.path1,c680_f3p1_3046.path1	7
AmTr_v1.0_scaffold00088	alternate_exon	2385843	2386511	+	asmbl_4312	none	blat.proc4129.chain_88,blat.proc4137.chain_155,c433_f2p2_1097.path1,c5315_f1p0_1792.path1	4	blat.proc4125.chain_104,blat.proc4131.chain_206,blat.proc4171.chain_239,c1467_f1p2_1160.path1,c1719_f2p2_940.path1,c5392_f1p2_1138.path1	6
AmTr_v1.0_scaffold00002	alt_acceptor	2110402	2110403	-	asmbl_163	none	blat.proc4194.chain_65,c1217_f2p0_1962.path1	2	blat.proc4188.chain_245,blat.proc4198.chain_100,c11939_f1p1_1769.path1,c9814_f1p1_1872.path1	4
AmTr_v1.0_scaffold00059	starts_in_intron	2143728	2143728	+	asmbl_3409	none	blat.proc4216.chain_43,c6213_f1p6_3099.path1	2	blat.proc4139.chain_114,blat.proc4194.chain_192,blat.proc4219.chain_221,c1036_f2p5_2608.path1,c135_f3p0_3180.path1,c1650_f2p0_1755.path1	6
AmTr_v1.0_scaffold00025	alt_donor	4514420	4514421	-	asmbl_1959	none	c181_f2p2_3245.path1	1	blat.proc4141.chain_137	1
AmTr_v1.0_scaffold00170	spliced_intron	736334	736457	+	asmbl_5349,asmbl_5350,asmbl_5352	none	blat.proc4125.chain_143,blat.proc4129.chain_97,blat.proc4169.chain_180,blat.proc4174.chain_69,blat.proc4179.chain_82,c1215_f3p0_2066.path1,c16233_f1p1_935.path1,c2251_f1p2_1093.path1,c2539_f2p0_931.path1,c462_f2p2_1154.path1	10	blat.proc4135.chain_111,c206_f3p1_2184.path1	2
AmTr_v1.0_scaffold00047	spliced_intron	1324568	1324694	-	asmbl_2856	none	c3333_f1p0_1879.path1	1	c2290_f1p0_1589.path1	1
AmTr_v1.0_scaffold00058	alt_acceptor	547812	547813	+	asmbl_3275,asmbl_3279,asmbl_3280	none	blat.proc4188.chain_44,blat.proc4205.chain_43,blat.proc4212.chain_41,c13930_f1p2_1953.path1,c2261_f1p3_1826.path1,c9887_f1p0_1863.path1	6	blat.proc4131.chain_252,blat.proc4135.chain_48,blat.proc4192.chain_220,c148_f2p0_1767.path1,c2111_f1p0_1772.path1,c844_f3p2_1828.path1	6
AmTr_v1.0_scaffold00061	alt_donor	3053944	3053945	-	asmbl_3524	none	blat.proc4181.chain_202,blat.proc4223.chain_246,c2327_f1p1_2434.path1,c9187_f1p1_2913.path1	4	c3234_f1p3_2455.path1	1
AmTr_v1.0_scaffold00007	alternate_exon	3930844	3931085	-	asmbl_664	none	blat.proc4177.chain_256,c1022_f3p0_1863.path1	2	blat.proc4137.chain_27,c2257_f1p0_1783.path1	2
AmTr_v1.0_scaffold00030	spliced_intron	16089	16175	+	asmbl_2143	none	blat.proc4129.chain_42,blat.proc4209.chain_97,c282_f2p1_1153.path1,c9298_f1p2_2100.path1	4	blat.proc4183.chain_190,c5068_f1p0_2037.path1	2
AmTr_v1.0_scaffold00020	spliced_intron	4548303	4550595	-	asmbl_1552	none	blat.proc4202.chain_253,c1851_f2p1_1650.path1	2	blat.proc4143.chain_53,blat.proc4227.chain_142,c1059_f2p1_2965.path1,c5160_f1p1_1918.path1	4
AmTr_v1.0_scaffold00034	skipped_exon	3904597	3916213	-	asmbl_2359	none	blat.proc4209.chain_127,blat.proc4216.chain_248,blat.proc4227.chain_186,c10095_f1p3_2209.path1,c1203_f2p3_2807.path1,c417_f4p4_2901.path1	6	blat.proc4231.chain_165,c13590_f1p2_2784.path1	2
AmTr_v1.0_scaffold00024	spliced_intron	6605892	6606055	+	asmbl_1855	none	blat.proc4139.chain_223,blat.proc4219.chain_158,blat.proc4223.chain_9,blat.proc4225.chain_231,blat.proc4231.chain_54,c4525_f1p2_2805.path1,c598_f3p6_2829.path1,c6884_f1p2_3332.path1,c868_f2p2_2930.path1,c9593_f1p7_2934.path1	10	blat.proc4221.chain_119,c1751_f1p1_3031.path1	2
AmTr_v1.0_scaffold00025	retained_intron	1921616	1921729	+	asmbl_1900	none	blat.proc4137.chain_213,blat.proc4212.chain_217,blat.proc4219.chain_134,blat.proc4219.chain_6,c183_f8p12_2892.path1,c506_f4p0_2930.path1,c6068_f1p3_2842.path1,c793_f2p2_2791.path1	8	blat.proc4139.chain_150,blat.proc4139.chain_32,blat.proc4194.chain_156,blat.proc4202.chain_40,blat.proc4227.chain_97,c1006_f1p2_1377.path1,c1095_f3p6_1994.path1,c1532_f2p6_1883.path1,c908_f1p2_1875.path1,c920_f2p3_2788.path1	10
AmTr_v1.0_scaffold00009	spliced_intron	9242404	9242485	+	asmbl_848,asmbl_849	none	blat.proc4219.chain_21,blat.proc4225.chain_245,c547_f4p5_2927.path1,c628_f4p1_2843.path1	4	blat.proc4229.chain_103,c2483_f1p0_2495.path1	2
AmTr_v1.0_scaffold00018	retained_intron	766646	766813	-	asmbl_1392	none	blat.proc4174.chain_192,blat.proc4185.chain_229,blat.proc4196.chain_168,blat.proc4198.chain_197,c12686_f1p6_1502.path1,c5208_f1p6_1665.path1,c8574_f1p1_1150.path1,c9036_f1p0_2295.path1	8	blat.proc4196.chain_213,c6412_f1p2_1890.path1	2
AmTr_v1.0_scaffold00071	starts_in_intron	3228603	3228603	-	asmbl_3949	none	blat.proc4192.chain_63,c15541_f1p3_1944.path1	2	blat.proc4192.chain_128,blat.proc4198.chain_206,c12896_f1p6_1870.path1,c519_f6p8_1976.path1	4
AmTr_v1.0_scaffold00106	retained_exon	89009	89125	-	asmbl_4654	none	blat.proc4205.chain_190,c3511_f2p2_2700.path1,c5559_f1p6_2905.path1	3	blat.proc4139.chain_69,blat.proc4212.chain_220,blat.proc4216.chain_186,blat.proc4216.chain_199,c11662_f2p12_2709.path1,c205_f7p26_2852.path1,c4742_f1p5_2955.path1,c52_f3p27_2961.path1	8
AmTr_v1.0_scaffold00022	alt_donor	3864258	3864259	-	asmbl_1697	none	blat.proc4183.chain_257,c5892_f1p1_1930.path1	2	blat.proc4202.chain_56,c1138_f3p0_2005.path1	2
AmTr_v1.0_scaffold00033	alt_acceptor	2967238	2967239	-	asmbl_2308	none	blat.proc4147.chain_103,c4809_f3p0_1091.path1	2	blat.proc4129.chain_163,c1002_f1p1_1211.path1	2
AmTr_v1.0_scaffold00009	alt_acceptor	9243768	9243769	+	asmbl_848	none	blat.proc4219.chain_21,c547_f4p5_2927.path1	2	blat.proc4225.chain_245,c628_f4p1_2843.path1	2
AmTr_v1.0_scaffold00044	retained_intron	1319266	1319533	+	asmbl_2683	none	blat.proc4227.chain_177,c1170_f2p3_3259.path1	2	blat.proc4219.chain_103,c727_f2p1_2934.path1	2
AmTr_v1.0_scaffold00078	starts_in_intron	2828114	2828114	+	asmbl_4139	none	blat.proc4229.chain_205,c5399_f1p7_2780.path1	2	blat.proc4135.chain_209,blat.proc4174.chain_262,blat.proc4179.chain_226,blat.proc4183.chain_133,blat.proc4185.chain_10,blat.proc4190.chain_34,blat.proc4223.chain_220,blat.proc4225.chain_12,blat.proc4225.chain_252,blat.proc4227.chain_265,blat.proc4231.chain_185,c12405_f1p3_983.path1,c12450_f1p2_2241.path1,c14145_f1p11_3113.path1,c1424_f2p13_2688.path1,c1564_f2p1_1972.path1,c4332_f1p2_2508.path1,c604_f1p1_1812.path1,c6163_f1p2_1635.path1,c650_f4p10_2875.path1,c8728_f1p9_2804.path1,c9958_f1p7_2667.path1	22
AmTr_v1.0_scaffold00056	skipped_exon	2600964	2609968	-	asmbl_3178	none	blat.proc4139.chain_244,blat.proc4171.chain_105,blat.proc4171.chain_195,blat.proc4177.chain_163,blat.proc4200.chain_136,blat.proc4214.chain_30,blat.proc4216.chain_114,blat.proc4231.chain_98,c11451_f1p5_2511.path1,c1386_f2p4_1095.path1,c24_f7p6_3148.path1,c485_f2p4_2992.path1,c641_f4p1_1717.path1,c675_f5p3_1902.path1,c750_f5p4_2072.path1,c885_f4p3_989.path1,c9226_f1p6_2780.path1	17	blat.proc4216.chain_113,c9218_f1p1_2804.path1	2
AmTr_v1.0_scaffold00022	spliced_intron	5699571	5699930	-	asmbl_1723,asmbl_1724	none	blat.proc4131.chain_95,blat.proc4137.chain_99,blat.proc4147.chain_253,blat.proc4169.chain_210,blat.proc4183.chain_34,blat.proc4185.chain_193,blat.proc4188.chain_202,blat.proc4192.chain_88,blat.proc4209.chain_82,blat.proc4219.chain_27,c10586_f1p5_1053.path1,c11559_f1p6_2004.path1,c17393_f2p5_1067.path1,c214_f20p17_1802.path1,c3398_f1p6_1936.path1,c3950_f1p0_1384.path1,c4001_f1p1_1774.path1,c562_f4p0_2688.path1,c8453_f1p0_1803.path1,c9020_f1p9_1574.path1	20	blat.proc4219.chain_85,c696_f3p0_2956.path1	2
AmTr_v1.0_scaffold00017	spliced_intron	1931374	1931858	-	asmbl_1326	none	blat.proc4125.chain_146,blat.proc4129.chain_228,blat.proc4131.chain_180,blat.proc4139.chain_174,blat.proc4177.chain_94,blat.proc4188.chain_230,blat.proc4192.chain_143,c11815_f1p7_1777.path1,c2106_f1p3_1381.path1,c2356_f1p1_1085.path1,c2503_f2p1_941.path1,c2881_f1p1_1480.path1,c477_f6p5_1605.path1,c5052_f1p1_1228.path1,c586_f6p12_1504.path1	15	blat.proc4192.chain_203,blat.proc4196.chain_74,blat.proc4198.chain_32,blat.proc4200.chain_241,c3180_f1p2_1960.path1,c799_f5p8_1915.path1,c8144_f1p4_1631.path1,c940_f3p1_2022.path1	8
AmTr_v1.0_scaffold00067	alt_acceptor	2673622	2673623	-	asmbl_3776	none	blat.proc4216.chain_241,blat.proc4219.chain_89,blat.proc4227.chain_83,c387_f7p5_2825.path1,c706_f3p4_3004.path1,c880_f3p7_2688.path1	6	c466_f4p3_2895.path1	1
AmTr_v1.0_scaffold00049	alt_acceptor	1458066	1458067	+	asmbl_2972	none	blat.proc4214.chain_104,c728_f2p0_2818.path1	2	blat.proc4133.chain_184,c1229_f1p0_2097.path1	2
AmTr_v1.0_scaffold00101	alt_acceptor	704301	704302	-	asmbl_4560,asmbl_4562,asmbl_4563	none	blat.proc4139.chain_112,blat.proc4139.chain_246,blat.proc4202.chain_92,blat.proc4209.chain_115,blat.proc4209.chain_55,blat.proc4223.chain_33,blat.proc4225.chain_188,blat.proc4227.chain_241,c1241_f2p4_1896.path1,c128_f3p5_3084.path1,c1358_f2p12_2815.path1,c37_f7p10_3023.path1,c487_f5p20_3215.path1,c4920_f1p4_2832.path1,c8485_f1p2_1679.path1,c9758_f1p4_1950.path1	16	blat.proc4137.chain_113,blat.proc4137.chain_225,blat.proc4143.chain_129,blat.proc4143.chain_202,blat.proc4227.chain_158,c1111_f2p10_2780.path1,c4203_f1p3_1795.path1,c6236_f1p3_2160.path1,c7740_f1p12_2938.path1,c780_f5p1_974.path1	10
AmTr_v1.0_scaffold00131	retained_intron	619690	620086	+	asmbl_4988	none	blat.proc4223.chain_84,c5819_f1p2_3010.path1	2	blat.proc4188.chain_197,blat.proc4190.chain_141,blat.proc4194.chain_243,c11523_f1p3_2127.path1,c13648_f1p3_2187.path1,c1818_f2p1_1976.path1	6
AmTr_v1.0_scaffold00049	alt_acceptor	3590600	3590601	-	asmbl_2998	none	blat.proc4139.chain_197,c4782_f1p1_1919.path1	2	blat.proc4198.chain_129,c10458_f1p2_2076.path1	2
AmTr_v1.0_scaffold00040	alt_donor	4622464	4622465	-	asmbl_2585	none	blat.proc4188.chain_114,c10654_f1p0_1792.path1	2	blat.proc4183.chain_186,c5045_f1p0_1708.path1	2
AmTr_v1.0_scaffold00001	spliced_intron	362773	362922	+	asmbl_16,asmbl_17	none	blat.proc4229.chain_76,c1901_f1p2_2779.path1	2	blat.proc4216.chain_147,c10322_f1p1_2871.path1	2
AmTr_v1.0_scaffold00003	starts_in_intron	1549791	1549791	+	asmbl_348	none	blat.proc4225.chain_31,c10361_f1p2_2721.path1	2	blat.proc4177.chain_207,blat.proc4198.chain_232,blat.proc4200.chain_29,blat.proc4209.chain_74,c13599_f1p3_1600.path1,c15662_f2p4_2149.path1,c5040_f1p5_2244.path1,c7697_f1p0_2134.path1,c8923_f1p6_2217.path1,c896_f4p4_2361.path1	10
AmTr_v1.0_scaffold00024	alt_acceptor	5333714	5333715	-	asmbl_1833	none	blat.proc4133.chain_33,c1794_f1p1_1724.path1	2	blat.proc4139.chain_170,blat.proc4139.chain_207,blat.proc4141.chain_23,c2406_f1p1_1469.path1,c5486_f1p1_1667.path1,c834_f1p8_3374.path1	6
AmTr_v1.0_scaffold00002	alt_donor	11121466	11121467	+	asmbl_312	none	blat.proc4209.chain_165,c10951_f1p4_1797.path1	2	blat.proc4135.chain_156,blat.proc4202.chain_171,c1560_f2p4_2039.path1,c368_f2p1_1917.path1	4
AmTr_v1.0_scaffold00109	spliced_intron	2059109	2059457	+	asmbl_4749	none	blat.proc4125.chain_77,c626_f1p0_1045.path1	2	blat.proc4190.chain_268,blat.proc4229.chain_252,c14886_f1p1_1775.path1,c7074_f1p7_2953.path1	4
AmTr_v1.0_scaffold00058	alt_acceptor	1104808	1104809	-	asmbl_3287	none	blat.proc4190.chain_251,c14720_f1p0_1749.path1	2	blat.proc4205.chain_75,c3085_f1p0_1693.path1	2
AmTr_v1.0_scaffold00168	spliced_intron	242864	242947	-	asmbl_5326	none	blat.proc4205.chain_167,c4984_f1p4_2091.path1	2	blat.proc4135.chain_146,c327_f2p0_2162.path1	2
AmTr_v1.0_scaffold00122	alt_acceptor	114907	114908	-	asmbl_4910	none	blat.proc4181.chain_217,blat.proc4194.chain_52,c1171_f2p3_2494.path2	3	blat.proc4190.chain_17,c12303_f1p1_1747.path2	2
AmTr_v1.0_scaffold00109	retained_intron	254675	255482	+	asmbl_4716	none	blat.proc4190.chain_152,c13722_f1p3_1790.path1	2	blat.proc4139.chain_90,blat.proc4212.chain_214,blat.proc4212.chain_230,blat.proc4212.chain_243,blat.proc4214.chain_110,blat.proc4214.chain_145,blat.proc4227.chain_20,c177_f10p10_2896.path1,c242_f6p9_3130.path1,c26_f6p3_3028.path1,c310_f4p7_2881.path1,c734_f3p22_3017.path1,c750_f2p4_2864.path1,c928_f2p3_2761.path1	14
AmTr_v1.0_scaffold00106	spliced_intron	1146052	1146160	+	asmbl_4673,asmbl_4675	none	blat.proc4177.chain_209,blat.proc4196.chain_104,c3720_f1p4_1930.path1,c898_f4p3_1871.path1	4	blat.proc4137.chain_131,blat.proc4179.chain_102,blat.proc4183.chain_120,blat.proc4200.chain_260,c1250_f3p6_2042.path1,c4252_f1p5_2151.path1,c4580_f1p1_1917.path1,c988_f3p6_1910.path1	8
AmTr_v1.0_scaffold00022	retained_exon	6387837	6388107	-	asmbl_1733	none	blat.proc4194.chain_16,c1040_f4p4_2081.path1	2	blat.proc4198.chain_42,c8342_f1p4_1904.path1	2
AmTr_v1.0_scaffold00002	retained_intron	8883326	8883465	-	asmbl_266	none	blat.proc4221.chain_201,blat.proc4223.chain_55,blat.proc4225.chain_134,c140_f22p11_2812.path1,c3206_f1p3_2993.path1,c5311_f1p4_2860.path1	6	blat.proc4216.chain_150,blat.proc4216.chain_51,blat.proc4223.chain_79,c10375_f1p6_2955.path1,c6564_f1p3_2741.path1	5
AmTr_v1.0_scaffold00002	alt_acceptor	3933845	3933846	-	asmbl_188	none	blat.proc4185.chain_99,c7278_f1p0_1658.path1	2	blat.proc4190.chain_224,c14439_f1p0_1997.path1	2
AmTr_v1.0_scaffold00062	skipped_exon	706373	706884	-	asmbl_3553	none	blat.proc4209.chain_253,c12797_f1p9_1807.path1	2	blat.proc4137.chain_216,blat.proc4177.chain_195,blat.proc4183.chain_118,blat.proc4200.chain_47,blat.proc4225.chain_217,blat.proc4231.chain_139,c12571_f1p5_2874.path1,c15816_f23p22_1888.path1,c4229_f1p12_1723.path1,c572_f5p5_2999.path1,c6102_f1p6_1692.path1,c845_f5p18_1782.path1	12
AmTr_v1.0_scaffold00048	ends_in_intron	1179717	1179717	+	asmbl_2901	none	blat.proc4127.chain_248,c139_f4p0_1069.path1	2	blat.proc4200.chain_261,c990_f3p2_1572.path1	2
AmTr_v1.0_scaffold00003	retained_exon	1252188	1253428	+	asmbl_341	none	c129_f2p2_3061.path1	1	blat.proc4225.chain_91,blat.proc4231.chain_120,c11720_f1p5_2592.path1,c12163_f1p4_2832.path1	4
AmTr_v1.0_scaffold00004	alt_donor	89644	89645	-	asmbl_428	none	blat.proc4143.chain_31,c4363_f1p5_2795.path1	2	blat.proc4179.chain_156,blat.proc4194.chain_98,blat.proc4219.chain_160,blat.proc4223.chain_123,blat.proc4223.chain_214,blat.proc4225.chain_264,c1346_f2p1_2353.path1,c1390_f2p1_2080.path1,c6708_f1p8_2896.path1,c684_f3p7_3422.path1,c8542_f1p2_2823.path1,c872_f2p6_3093.path1	12
AmTr_v1.0_scaffold00078	alternate_exon	1213373	1213469	+	asmbl_4117	none	blat.proc4169.chain_214,c17463_f3p2_1172.path1	2	blat.proc4171.chain_6,c17805_f6p3_1121.path1	2
AmTr_v1.0_scaffold00009	retained_intron	9242404	9242485	+	asmbl_850	none	blat.proc4229.chain_103,c2483_f1p0_2495.path1	2	blat.proc4219.chain_21,blat.proc4225.chain_245,c547_f4p5_2927.path1,c628_f4p1_2843.path1	4
AmTr_v1.0_scaffold00012	ends_in_intron	2355214	2355214	+	asmbl_1050	none	blat.proc4196.chain_37,c2430_f1p9_1825.path1	2	blat.proc4181.chain_50,blat.proc4192.chain_82,blat.proc4200.chain_80,c15656_f2p1_1768.path1,c1820_f2p2_1821.path1,c489_f8p6_1903.path1	6
AmTr_v1.0_scaffold00033	retained_intron	2958897	2959032	-	asmbl_2309	none	blat.proc4129.chain_163,c1002_f1p1_1211.path1	2	blat.proc4147.chain_103,c4809_f3p0_1091.path1	2
AmTr_v1.0_scaffold00058	skipped_exon	1898720	1902476	+	asmbl_3306	none	c1386_f1p0_2091.path1	1	blat.proc4135.chain_34	1
AmTr_v1.0_scaffold00029	retained_intron	5916818	5917037	-	asmbl_2137	none	blat.proc4212.chain_179,c16502_f1p1_2292.path1	2	blat.proc4181.chain_152,blat.proc4196.chain_181,c2067_f2p0_1817.path1,c5473_f1p0_1939.path1	4
AmTr_v1.0_scaffold00095	skipped_exon	1351931	1352287	-	asmbl_4443,asmbl_4444,asmbl_4445	none	blat.proc4177.chain_166,blat.proc4183.chain_91,blat.proc4192.chain_213,blat.proc4192.chain_60,c15507_f2p1_1693.path1,c3953_f1p1_2329.path1,c768_f5p2_1933.path1,c821_f4p1_1920.path1	8	blat.proc4185.chain_16,c6231_f1p1_1830.path1	2
AmTr_v1.0_scaffold00025	alt_acceptor	4570519	4570520	-	asmbl_1964	none	blat.proc4205.chain_100,c3601_f1p2_1851.path1	2	blat.proc4183.chain_202,c5198_f1p1_2023.path1	2
AmTr_v1.0_scaffold00058	retained_exon	1901113	1901175	+	asmbl_3305	none	blat.proc4135.chain_34	1	c1386_f1p0_2091.path1	1
AmTr_v1.0_scaffold00029	alt_acceptor	292735	292736	+	asmbl_2047	none	blat.proc4229.chain_111,c2655_f1p7_2760.path1	2	blat.proc4216.chain_168,blat.proc4221.chain_237,blat.proc4225.chain_203,blat.proc4231.chain_126,blat.proc4231.chain_211,c11021_f1p5_2871.path1,c12296_f1p10_2996.path1,c14538_f1p15_2978.path1,c3774_f1p6_2821.path1,c517_f4p16_3110.path1	10
AmTr_v1.0_scaffold00021	alternate_exon	603434	603466	-	asmbl_1565	none	blat.proc4216.chain_30,c5655_f1p9_3399.path1	2	blat.proc4141.chain_105,blat.proc4219.chain_15,c40_f5p7_3262.path1,c539_f4p10_3363.path1	4
AmTr_v1.0_scaffold00099	alt_donor	2054826	2054827	-	asmbl_4536	none	blat.proc4202.chain_155,c1488_f2p1_2061.path1	2	blat.proc4202.chain_208,c1700_f2p1_1853.path1	2
AmTr_v1.0_scaffold00033	spliced_intron	2236716	2236996	+	asmbl_2298	none	blat.proc4125.chain_265,c97_f3p2_1371.path1	2	blat.proc4209.chain_66,c8751_f1p1_1699.path1	2
AmTr_v1.0_scaffold00019	spliced_intron	7174120	7174204	+	asmbl_1539	none	blat.proc4216.chain_9,blat.proc4229.chain_187,c4637_f1p4_2830.path1,c4916_f1p3_2829.path1	4	blat.proc4141.chain_22,c577_f1p3_3106.path1	2
AmTr_v1.0_scaffold00044	spliced_intron	460775	460876	-	asmbl_2669	none	blat.proc4143.chain_60	1	blat.proc4137.chain_230,blat.proc4141.chain_9,blat.proc4223.chain_244,c248_f2p0_2998.path1,c6347_f1p3_2268.path1	5
AmTr_v1.0_scaffold00131	spliced_intron	617974	619578	+	asmbl_4985	none	blat.proc4188.chain_197,blat.proc4194.chain_243,c11523_f1p3_2127.path1,c1818_f2p1_1976.path1	4	blat.proc4223.chain_84,c5819_f1p2_3010.path1	2
AmTr_v1.0_scaffold00024	retained_intron	3159499	3159831	-	asmbl_1812	none	blat.proc4221.chain_242,c3864_f1p1_2791.path1	2	blat.proc4139.chain_241,blat.proc4205.chain_157,c4796_f1p5_2429.path1,c8109_f1p0_1781.path1	4
AmTr_v1.0_scaffold00027	spliced_intron	5361616	5361937	+	asmbl_2016,asmbl_2018	none	blat.proc4135.chain_92,blat.proc4185.chain_128,blat.proc4194.chain_19,blat.proc4209.chain_198,c1045_f2p8_1996.path1,c11491_f1p7_1932.path1,c132_f4p5_2117.path1,c7727_f1p5_1946.path1	8	blat.proc4183.chain_51,c3566_f1p0_1878.path1	2
AmTr_v1.0_scaffold00048	spliced_intron	336230	336302	+	asmbl_2883,asmbl_2885	none	blat.proc4192.chain_137,blat.proc4216.chain_266,c485_f5p1_2799.path1,c559_f6p3_1611.path1	4	blat.proc4225.chain_260,c676_f3p4_2825.path1	2
AmTr_v1.0_scaffold00001	alternate_exon	118631	123699	+	asmbl_3	none	blat.proc4125.chain_55,blat.proc4129.chain_256,blat.proc4137.chain_255,blat.proc4143.chain_200,blat.proc4145.chain_153,blat.proc4169.chain_218,blat.proc4169.chain_244,blat.proc4171.chain_1,blat.proc4179.chain_116,blat.proc4192.chain_95,blat.proc4231.chain_179,c1270_f3p7_1876.path1,c13795_f1p1_2744.path1,c17501_f16p15_998.path1,c17666_f11p16_1154.path1,c17781_f14p5_947.path1,c1917_f2p2_1166.path1,c2507_f1p5_1316.path1,c295_f2p3_1199.path1,c321_f5p13_1759.path1,c6681_f1p7_1722.path1,c760_f7p23_1141.path1	22	blat.proc4177.chain_89,blat.proc4192.chain_34,c15233_f24p19_1848.path1,c399_f14p18_1801.path1	4
AmTr_v1.0_scaffold00077	alt_acceptor	1394656	1394657	+	asmbl_4049	none	blat.proc4183.chain_213,blat.proc4223.chain_171,c5433_f1p0_2353.path1,c7672_f1p0_2835.path1	4	blat.proc4183.chain_107,c4118_f1p0_2110.path1	2
AmTr_v1.0_scaffold00130	alt_donor	1254838	1254839	+	asmbl_4972	none	blat.proc4179.chain_246,c1616_f2p1_2091.path1	2	blat.proc4137.chain_180,c5717_f1p0_2161.path1	2
AmTr_v1.0_scaffold00049	skipped_exon	3498984	3500296	-	asmbl_2996	none	blat.proc4129.chain_28,c232_f3p1_1264.path1	2	blat.proc4209.chain_203,c11592_f1p0_1561.path1	2
AmTr_v1.0_scaffold00059	spliced_intron	79396	79460	+	asmbl_3356	none	blat.proc4185.chain_255,c9304_f1p1_1862.path1	2	blat.proc4185.chain_221,blat.proc4198.chain_140,c10893_f1p2_2008.path1,c8939_f1p3_2223.path1	4
AmTr_v1.0_scaffold00071	alt_donor	3228483	3228484	-	asmbl_3951	none	blat.proc4198.chain_206,c12896_f1p6_1870.path1	2	blat.proc4192.chain_128,blat.proc4192.chain_63,blat.proc4212.chain_139,c15541_f1p3_1944.path1,c15788_f2p2_1957.path1,c519_f6p8_1976.path1	6
AmTr_v1.0_scaffold00078	retained_intron	973975	974349	+	asmbl_4112	none	blat.proc4196.chain_13,c1986_f1p1_1699.path1	2	blat.proc4143.chain_104,c2735_f1p3_1234.path1,c6864_f1p2_1335.path1	3
AmTr_v1.0_scaffold00042	spliced_intron	2301437	2301784	-	asmbl_2651	none	blat.proc4129.chain_178,c1234_f1p0_1076.path1	2	blat.proc4139.chain_64,c4393_f1p1_1716.path1	2
AmTr_v1.0_scaffold00002	alt_acceptor	10938946	10938947	-	asmbl_308	none	c4652_f1p2_1287.path1	1	blat.proc4169.chain_189,c16648_f1p0_1036.path1	2
AmTr_v1.0_scaffold00116	alt_acceptor	1139815	1139816	-	asmbl_4835	none	blat.proc4143.chain_57,c5422_f1p1_1779.path1	2	blat.proc4205.chain_13,c1917_f2p0_1811.path1	2
AmTr_v1.0_scaffold00017	skipped_exon	4682274	4686558	+	asmbl_1356,asmbl_1357,asmbl_1358,asmbl_1363,asmbl_1364,asmbl_1365	none	blat.proc4137.chain_75,blat.proc4177.chain_126,blat.proc4183.chain_23,blat.proc4185.chain_248,blat.proc4192.chain_93,blat.proc4200.chain_107,blat.proc4202.chain_245,blat.proc4202.chain_32,blat.proc4219.chain_16,blat.proc4221.chain_43,c1080_f3p11_1843.path1,c1218_f2p0_2941.path1,c12870_f1p5_2283.path1,c1830_f2p17_2423.path1,c313_f14p20_2536.path1,c3271_f1p5_2273.path1,c3336_f1p1_1960.path1,c498_f6p12_2936.path1,c540_f5p10_3071.path1,c589_f4p16_1721.path1,c650_f6p14_2013.path1,c9211_f1p6_2676.path1	22	blat.proc4179.chain_176,c1443_f2p10_2662.path1	2
AmTr_v1.0_scaffold00083	alt_donor	214261	214262	+	asmbl_4207	none	blat.proc4137.chain_161,blat.proc4192.chain_81,blat.proc4192.chain_86,blat.proc4200.chain_55,c15652_f2p14_1685.path1,c48_f31p17_1790.path1,c5398_f1p4_1774.path1,c99_f2p21_1880.path1	8	blat.proc4190.chain_241	1
AmTr_v1.0_scaffold00001	alt_acceptor	1533269	1533270	+	asmbl_36	none	blat.proc4183.chain_79,c3529_f1p0_2078.path1,c3799_f1p0_1957.path1	3	blat.proc4169.chain_82,c13331_f1p1_1244.path1	2
AmTr_v1.0_scaffold00104	retained_intron	1743782	1743866	+	asmbl_4640	none	blat.proc4214.chain_161,c998_f2p0_2688.path1	2	blat.proc4196.chain_1,blat.proc4205.chain_134,c1908_f2p2_2017.path1,c4210_f1p2_2053.path1	4
AmTr_v1.0_scaffold00095	skipped_exon	1353926	1358544	-	asmbl_4443,asmbl_4446	none	blat.proc4185.chain_16,blat.proc4192.chain_213,c15507_f2p1_1693.path1,c6231_f1p1_1830.path1,c821_f4p1_1920.path1	5	blat.proc4177.chain_166,blat.proc4183.chain_91,c3953_f1p1_2329.path1,c768_f5p2_1933.path1	4
AmTr_v1.0_scaffold00032	alt_acceptor	2951058	2951059	-	asmbl_2253	none	blat.proc4202.chain_192,c1627_f2p0_2012.path1	2	blat.proc4209.chain_246,c12600_f1p0_1871.path1	2
AmTr_v1.0_scaffold00001	spliced_intron	188662	188781	+	asmbl_12	none	blat.proc4190.chain_197,c14200_f1p1_1811.path1	2	blat.proc4221.chain_234,c3729_f1p0_2822.path1	2
AmTr_v1.0_scaffold00025	retained_exon	5684495	5684742	-	asmbl_1981	none	blat.proc4227.chain_34,c766_f3p4_2856.path1	2	blat.proc4227.chain_165,c1132_f2p1_2908.path1	2
AmTr_v1.0_scaffold00002	ends_in_intron	8883399	8883399	-	asmbl_269	none	c9871_f1p1_2799.path1	1	blat.proc4216.chain_150,blat.proc4216.chain_51,blat.proc4223.chain_79,c10375_f1p6_2955.path1,c6564_f1p3_2741.path1	5
AmTr_v1.0_scaffold00049	retained_exon	4108439	4108480	+	asmbl_3010,asmbl_3011	none	blat.proc4214.chain_59,c10424_f1p3_2869.path1,c11759_f2p0_2883.path1,c552_f4p6_2878.path1,c775_f3p6_2885.path1	5	blat.proc4137.chain_204,blat.proc4181.chain_237,blat.proc4183.chain_183,blat.proc4225.chain_133,blat.proc4225.chain_136,c10860_f1p2_1967.path1,c11847_f3p5_2819.path1,c134_f12p19_2905.path1,c14656_f10p17_2928.path1,c174_f10p20_2886.path1,c2304_f1p0_2111.path1,c2792_f1p3_2412.path2,c5031_f1p1_1936.path1,c5952_f1p0_1745.path1	14
AmTr_v1.0_scaffold00018	skipped_exon	2859466	2862905	-	asmbl_1406	none	blat.proc4174.chain_21,c2086_f2p1_1044.path1	2	blat.proc4131.chain_107,c4185_f1p0_1118.path1	2
AmTr_v1.0_scaffold00083	alt_donor	214339	214340	+	asmbl_4209	none	blat.proc4190.chain_241	1	blat.proc4137.chain_161,blat.proc4192.chain_81,blat.proc4192.chain_86,blat.proc4200.chain_55,c15652_f2p14_1685.path1,c48_f31p17_1790.path1,c5398_f1p4_1774.path1,c99_f2p21_1880.path1	8
AmTr_v1.0_scaffold00109	ends_in_intron	839815	839815	-	asmbl_4731	none	blat.proc4137.chain_256,c6698_f1p0_1973.path1	2	blat.proc4137.chain_190,blat.proc4181.chain_9,c1701_f2p0_1813.path1,c5829_f1p0_1968.path1	4
AmTr_v1.0_scaffold00095	retained_exon	1353332	1353372	-	asmbl_4443,asmbl_4444,asmbl_4445	none	blat.proc4177.chain_166,blat.proc4183.chain_91,blat.proc4192.chain_213,blat.proc4192.chain_60,c15507_f2p1_1693.path1,c3953_f1p1_2329.path1,c768_f5p2_1933.path1,c821_f4p1_1920.path1	8	blat.proc4185.chain_16,c6231_f1p1_1830.path1	2
AmTr_v1.0_scaffold00003	skipped_exon	2213209	2221615	-	asmbl_360	none	blat.proc4190.chain_163,c13849_f1p0_1677.path1	2	blat.proc4137.chain_149,c5201_f1p0_1918.path1	2
AmTr_v1.0_scaffold00002	retained_exon	9249679	9249685	+	asmbl_281	none	blat.proc4135.chain_182	1	blat.proc4229.chain_98,c2264_f1p0_2700.path1	2
AmTr_v1.0_scaffold00003	alt_donor	1552193	1552194	+	asmbl_350	none	c7697_f1p0_2134.path1	1	blat.proc4177.chain_207,blat.proc4198.chain_232,blat.proc4200.chain_29,blat.proc4209.chain_74,blat.proc4225.chain_31,c10361_f1p2_2721.path1,c13599_f1p3_1600.path1,c15662_f2p4_2149.path1,c5040_f1p5_2244.path1,c8923_f1p6_2217.path1,c896_f4p4_2361.path1	11
AmTr_v1.0_scaffold00057	starts_in_intron	311812	311812	-	asmbl_3205	none	blat.proc4205.chain_51,c2408_f1p0_1734.path1	2	blat.proc4143.chain_59,blat.proc4185.chain_63,c5450_f1p0_1865.path1,c6813_f1p1_1638.path1	4
AmTr_v1.0_scaffold00101	retained_intron	712047	712161	-	asmbl_4560,asmbl_4561	none	blat.proc4137.chain_113,blat.proc4143.chain_129,blat.proc4202.chain_92,blat.proc4225.chain_188,blat.proc4227.chain_241,c1241_f2p4_1896.path1,c1358_f2p12_2815.path1,c4203_f1p3_1795.path1,c487_f5p20_3215.path1,c7740_f1p12_2938.path1	10	blat.proc4139.chain_112,blat.proc4223.chain_33,c128_f3p5_3084.path1,c4920_f1p4_2832.path1	4
AmTr_v1.0_scaffold00019	spliced_intron	5101370	5101540	+	asmbl_1490	none	blat.proc4143.chain_39,c1907_f2p1_1591.path1,c4712_f1p1_1427.path1	3	blat.proc4196.chain_36,c2429_f1p0_2209.path1	2
AmTr_v1.0_scaffold00021	alt_acceptor	5914964	5914965	+	asmbl_1626	none	blat.proc4145.chain_171,blat.proc4169.chain_229,blat.proc4177.chain_23,c13664_f1p6_1011.path1,c17602_f27p6_1169.path1,c2076_f2p3_980.path1	6	blat.proc4171.chain_168,c1198_f3p3_1123.path1	2
AmTr_v1.0_scaffold00085	alt_acceptor	1153795	1153796	-	asmbl_4235	none	blat.proc4131.chain_193,c5239_f1p0_1570.path1	2	blat.proc4194.chain_78,c1282_f2p0_1636.path1	2
AmTr_v1.0_scaffold00001	spliced_intron	9781751	9781839	-	asmbl_116	none	blat.proc4214.chain_155,blat.proc4223.chain_104,c6266_f1p1_2675.path1,c962_f2p1_2670.path1	4	blat.proc4125.chain_128,c1922_f1p0_1456.path1	2
AmTr_v1.0_scaffold00058	alt_acceptor	1104832	1104833	-	asmbl_3288	none	blat.proc4205.chain_75,c3085_f1p0_1693.path1	2	blat.proc4190.chain_251,c14720_f1p0_1749.path1	2
AmTr_v1.0_scaffold00013	spliced_intron	3031814	3031933	-	asmbl_1138	none	blat.proc4131.chain_72,blat.proc4169.chain_104,blat.proc4171.chain_2,c14081_f2p3_1142.path1,c17786_f20p16_1015.path1,c3651_f1p7_1131.path1	6	blat.proc4198.chain_163,blat.proc4202.chain_166,c11583_f1p1_1812.path1,c1527_f2p2_1631.path1	4
AmTr_v1.0_scaffold00059	alt_acceptor	1118957	1118958	-	asmbl_3382,asmbl_3383	none	blat.proc4133.chain_263,blat.proc4202.chain_221,c1751_f2p5_1817.path1,c62_f2p1_1769.path1	4	blat.proc4192.chain_216,c832_f4p4_1936.path1	2
AmTr_v1.0_scaffold00062	retained_intron	3653038	3653134	-	asmbl_3587	none	blat.proc4183.chain_90,c3937_f1p1_2667.path1	2	blat.proc4214.chain_118,blat.proc4229.chain_58,c1704_f1p6_2779.path1,c802_f2p3_2640.path1	4
AmTr_v1.0_scaffold00163	alternate_exon	488595	488814	+	asmbl_5284	none	blat.proc4214.chain_72,blat.proc4216.chain_81,c594_f3p4_2733.path1,c8039_f1p5_2902.path1	4	blat.proc4216.chain_178,c11485_f1p5_2851.path1	2
AmTr_v1.0_scaffold00036	spliced_intron	5468557	5468590	+	asmbl_2423	none	blat.proc4188.chain_104	1	c10552_f1p0_2032.path1	1
AmTr_v1.0_scaffold00007	alt_acceptor	4454275	4454276	+	asmbl_675	none	blat.proc4177.chain_185,blat.proc4177.chain_264,blat.proc4200.chain_201,c1040_f3p10_2188.path1,c812_f3p9_2064.path1,c841_f3p11_2304.path1	6	blat.proc4200.chain_231,blat.proc4205.chain_116,c3958_f1p3_2311.path1,c916_f3p7_2137.path1	4
AmTr_v1.0_scaffold00071	starts_in_intron	2910225	2910225	-	asmbl_3945	none	blat.proc4141.chain_225,c1642_f1p1_2977.path1	2	blat.proc4202.chain_163,c1511_f2p1_1771.path1	2
AmTr_v1.0_scaffold00058	retained_intron	3373427	3374542	+	asmbl_3337	none	blat.proc4198.chain_226,blat.proc4219.chain_181,blat.proc4225.chain_22,c10207_f1p4_2705.path1,c13471_f1p0_1744.path1,c935_f2p5_2778.path1	6	blat.proc4129.chain_60,c334_f2p3_1058.path1	2
AmTr_v1.0_scaffold00146	spliced_intron	1137570	1137688	-	asmbl_5135	none	blat.proc4185.chain_60,c6769_f1p0_2321.path1	2	blat.proc4190.chain_50,c12623_f1p0_2243.path1	2
AmTr_v1.0_scaffold00104	spliced_intron	1583849	1584031	-	asmbl_4637	none	blat.proc4179.chain_27,c1102_f3p2_1658.path1	2	blat.proc4209.chain_102,c9365_f1p4_1851.path1	2
AmTr_v1.0_scaffold00029	alt_acceptor	1618041	1618042	+	asmbl_2068	none	blat.proc4223.chain_126,c6764_f1p0_2746.path1	2	blat.proc4137.chain_95,c13624_f2p2_2612.path1,c3868_f1p2_1670.path1	3
AmTr_v1.0_scaffold00057	retained_intron	311179	311329	-	asmbl_3204	none	blat.proc4143.chain_59,c5450_f1p0_1865.path1	2	blat.proc4185.chain_63,blat.proc4205.chain_51,c2408_f1p0_1734.path1,c6813_f1p1_1638.path1	4
AmTr_v1.0_scaffold00078	ends_in_intron	653707	653707	+	asmbl_4102	none	blat.proc4127.chain_105,c1552_f1p3_996.path1	2	blat.proc4127.chain_219,c77_f6p3_1151.path1	2
AmTr_v1.0_scaffold00002	ends_in_intron	4753739	4753739	-	asmbl_196	none	blat.proc4141.chain_8,c245_f2p1_1608.path1	2	blat.proc4133.chain_269,c99_f3p0_1926.path1	2
AmTr_v1.0_scaffold00092	ends_in_intron	1319617	1319617	+	asmbl_4395	none	blat.proc4183.chain_252,c5833_f1p0_1992.path1	2	blat.proc4127.chain_85,c950_f1p1_1377.path1	2
AmTr_v1.0_scaffold00165	retained_intron	428968	429358	+	asmbl_5310	none	blat.proc4219.chain_33,c580_f4p5_3017.path1	2	blat.proc4219.chain_17,c541_f2p2_2651.path1	2
AmTr_v1.0_scaffold00017	retained_intron	1673896	1675152	-	asmbl_1321	none	c5910_f1p2_3086.path1	1	blat.proc4190.chain_185,c14088_f1p1_2172.path1	2
AmTr_v1.0_scaffold00017	retained_intron	1672669	1673070	-	asmbl_1320	none	blat.proc4190.chain_185,c14088_f1p1_2172.path1	2	c5910_f1p2_3086.path1	1
AmTr_v1.0_scaffold00058	spliced_intron	550412	550496	+	asmbl_3275,asmbl_3277,asmbl_3278,asmbl_3280	none	blat.proc4131.chain_252,blat.proc4192.chain_220,blat.proc4205.chain_43,blat.proc4212.chain_41,c13930_f1p2_1953.path1,c148_f2p0_1767.path1,c2261_f1p3_1826.path1,c844_f3p2_1828.path1	8	blat.proc4188.chain_44,c9887_f1p0_1863.path1	2
AmTr_v1.0_scaffold00017	spliced_intron	4679895	4680432	+	asmbl_1355,asmbl_1356,asmbl_1358,asmbl_1359,asmbl_1361,asmbl_1363,asmbl_1364	none	blat.proc4137.chain_75,blat.proc4177.chain_148,blat.proc4179.chain_176,blat.proc4183.chain_23,blat.proc4185.chain_24,blat.proc4185.chain_248,blat.proc4192.chain_93,blat.proc4202.chain_245,blat.proc4221.chain_196,blat.proc4227.chain_201,blat.proc4231.chain_143,c1251_f2p7_2652.path1,c12673_f1p15_4296.path1,c12870_f1p5_2283.path1,c1443_f2p10_2662.path1,c1830_f2p17_2423.path1,c3086_f1p14_4095.path1,c313_f14p20_2536.path1,c3271_f1p5_2273.path1,c3336_f1p1_1960.path1,c498_f6p12_2936.path1,c6361_f1p4_1556.path1,c710_f6p5_1896.path1,c9211_f1p6_2676.path1	24	blat.proc4219.chain_16,blat.proc4221.chain_43,c1218_f2p0_2941.path1,c540_f5p10_3071.path1	4
AmTr_v1.0_scaffold00068	skipped_exon	3569498	3570530	+	asmbl_3825	none	blat.proc4190.chain_200,c14214_f1p2_2094.path1,c1802_f2p2_1915.path1	3	c15627_f1p1_2197.path1	1
AmTr_v1.0_scaffold00116	alt_acceptor	1139835	1139836	-	asmbl_4836	none	blat.proc4205.chain_13,c1917_f2p0_1811.path1	2	blat.proc4143.chain_57,c5422_f1p1_1779.path1	2
AmTr_v1.0_scaffold00016	spliced_intron	2237725	2239563	+	asmbl_1246	none	blat.proc4141.chain_141,c199_f2p1_1607.path1	2	blat.proc4143.chain_20,c3876_f1p1_3430.path1	2
AmTr_v1.0_scaffold00016	retained_intron	5485720	5485866	+	asmbl_1279	none	blat.proc4196.chain_139,blat.proc4214.chain_186,c1088_f2p2_2853.path1,c4441_f1p2_1808.path1	4	blat.proc4194.chain_85,c1304_f2p4_1954.path1	2
AmTr_v1.0_scaffold00059	ends_in_intron	1752537	1752537	+	asmbl_3393	none	blat.proc4177.chain_212,c902_f4p2_1674.path1	2	blat.proc4185.chain_42,c6565_f1p4_1773.path1	2
AmTr_v1.0_scaffold00131	spliced_intron	617974	618210	+	asmbl_4987	none	blat.proc4190.chain_141,c13648_f1p3_2187.path1	2	blat.proc4223.chain_84,c5819_f1p2_3010.path1	2
AmTr_v1.0_scaffold00022	retained_exon	3873762	3879923	-	asmbl_1693	none	blat.proc4181.chain_160,blat.proc4181.chain_167,blat.proc4190.chain_48,blat.proc4192.chain_119,blat.proc4192.chain_12,blat.proc4192.chain_164,blat.proc4194.chain_239,blat.proc4212.chain_48,blat.proc4216.chain_267,blat.proc4227.chain_115,blat.proc4227.chain_76,blat.proc4229.chain_131,blat.proc4231.chain_1,blat.proc4231.chain_214,blat.proc4231.chain_232,blat.proc4231.chain_236,blat.proc4231.chain_5,c12610_f1p11_2872.path1,c14026_f1p12_2494.path1,c14557_f2p88_3146.path1,c14709_f150p118_3032.path1,c14782_f7p38_2786.path1,c15001_f2p7_2497.path1,c1801_f2p9_2311.path1,c2088_f2p8_2630.path1,c2106_f2p6_2037.path1,c3063_f1p19_2677.path1,c479_f6p18_2233.path1,c490_f2p62_2916.path1,c662_f2p17_2338.path1,c7572_f2p16_2715.path1,c7647_f1p10_2984.path1,c858_f3p43_2827.path1,c979_f1p7_2728.path1	34	blat.proc4205.chain_212,c6156_f1p10_2496.path1	2
AmTr_v1.0_scaffold00019	starts_in_intron	5097529	5097529	+	asmbl_1491	none	blat.proc4196.chain_36,c2429_f1p0_2209.path1	2	blat.proc4143.chain_39,c1907_f2p1_1591.path1,c4712_f1p1_1427.path1	3
AmTr_v1.0_scaffold00013	alt_acceptor	394400	394401	+	asmbl_1121	none	blat.proc4135.chain_1,c110_f3p1_1668.path1	2	blat.proc4135.chain_229,c1020_f1p0_1625.path1	2
AmTr_v1.0_scaffold00038	retained_intron	1391465	1391536	+	asmbl_2463,asmbl_2465	none	blat.proc4127.chain_266,blat.proc4129.chain_36,blat.proc4179.chain_164,blat.proc4179.chain_74,blat.proc4192.chain_51,blat.proc4192.chain_87,blat.proc4200.chain_76,blat.proc4209.chain_17,blat.proc4209.chain_222,blat.proc4212.chain_167,c1205_f6p18_1616.path1,c12061_f1p35_1916.path1,c1411_f2p4_2008.path1,c15428_f1p35_2029.path1,c16247_f1p4_1627.path1,c172_f3p3_1262.path1,c260_f3p3_1509.path1,c464_f7p56_1855.path1,c50_f3p52_1747.path1,c7696_f1p48_1859.path1	20	blat.proc4133.chain_75,blat.proc4190.chain_59,c12704_f1p7_1541.path1,c3009_f1p1_1711.path1	4
AmTr_v1.0_scaffold00004	spliced_intron	9776466	9776564	+	asmbl_507	none	blat.proc4135.chain_5,c150_f2p2_1941.path1	2	blat.proc4133.chain_129,c142_f2p1_1957.path1	2
AmTr_v1.0_scaffold00016	alternate_exon	5248554	5248613	+	asmbl_1277	none	blat.proc4177.chain_232,c952_f5p1_1629.path1	2	blat.proc4190.chain_186,c14091_f1p1_1948.path1	2
AmTr_v1.0_scaffold00012	ends_in_intron	6980515	6980515	-	asmbl_1094	none	blat.proc4198.chain_265,c14728_f1p4_1842.path1	2	blat.proc4179.chain_183,c1462_f2p2_1885.path1	2
AmTr_v1.0_scaffold00042	retained_intron	2301291	2301378	-	asmbl_2650	none	blat.proc4139.chain_64,c4393_f1p1_1716.path1	2	blat.proc4129.chain_178,c1234_f1p0_1076.path1	2
AmTr_v1.0_scaffold00007	spliced_intron	8463790	8464295	-	asmbl_711	none	blat.proc4205.chain_205,blat.proc4209.chain_245,c12586_f1p3_2361.path1,c5989_f1p3_1731.path1	4	blat.proc4219.chain_83,c690_f3p1_2922.path1	2
AmTr_v1.0_scaffold00011	skipped_exon	3969787	3970753	-	asmbl_996	none	c2223_f1p2_3531.path1	1	blat.proc4133.chain_30,blat.proc4198.chain_187,blat.proc4214.chain_260,blat.proc4216.chain_142,blat.proc4229.chain_222,blat.proc4231.chain_13,c10172_f1p8_3191.path1,c12416_f1p0_2148.path1,c1465_f1p1_2410.path1,c4087_f1p8_3008.path1,c5949_f1p4_2723.path1,c8020_f1p4_2547.path1	12
AmTr_v1.0_scaffold00176	alt_acceptor	531824	531825	-	asmbl_5413	none	blat.proc4205.chain_202,c5829_f1p2_1497.path1	2	blat.proc4135.chain_27,c717_f1p0_1862.path1	2
AmTr_v1.0_scaffold00104	spliced_intron	1716358	1716447	+	asmbl_4638	none	blat.proc4196.chain_1,blat.proc4205.chain_134,c1908_f2p2_2017.path1,c4210_f1p2_2053.path1	4	blat.proc4183.chain_196,blat.proc4214.chain_161,c5113_f1p0_2038.path1,c998_f2p0_2688.path1	4
AmTr_v1.0_scaffold00095	alt_donor	1527938	1527939	-	asmbl_4451	none	blat.proc4183.chain_53,blat.proc4209.chain_154,c1795_f2p1_1878.path1,c3579_f1p1_1672.path1	4	blat.proc4139.chain_203,c5114_f1p0_1547.path1	2
AmTr_v1.0_scaffold00001	spliced_intron	2143504	2143961	+	asmbl_44,asmbl_45,asmbl_46	none	blat.proc4183.chain_52,blat.proc4200.chain_116,blat.proc4200.chain_243,c3572_f1p3_1885.path1,c630_f3p13_1851.path1,c947_f3p8_1805.path1	6	blat.proc4185.chain_75,c7009_f1p1_1808.path1	2
AmTr_v1.0_scaffold00167	alt_acceptor	311739	311740	+	asmbl_5324	none	blat.proc4183.chain_31,c3377_f1p0_1877.path1	2	blat.proc4219.chain_156,c865_f2p2_3058.path1	2
AmTr_v1.0_scaffold00001	spliced_intron	4454276	4454333	-	asmbl_71	none	c9646_f1p0_2064.path1	1	blat.proc4139.chain_162,blat.proc4214.chain_60,c1927_f1p2_2693.path1,c556_f3p7_2801.path1,c9111_f1p1_1433.path1	5
AmTr_v1.0_scaffold00002	alt_donor	3938239	3938240	-	asmbl_189	none	blat.proc4190.chain_224,c14439_f1p0_1997.path1	2	blat.proc4185.chain_99,c7278_f1p0_1658.path1	2
AmTr_v1.0_scaffold00138	retained_exon	57803	57901	+	asmbl_5065,asmbl_5066,asmbl_5067	none	blat.proc4137.chain_28,blat.proc4179.chain_103,blat.proc4183.chain_242,blat.proc4194.chain_266,blat.proc4198.chain_211,blat.proc4200.chain_252,c1251_f3p5_2126.path1,c13005_f1p4_1858.path1,c14034_f1p4_2010.path1,c1902_f2p4_1932.path1,c2262_f1p2_2097.path1,c5729_f1p1_1725.path1,c969_f3p5_2226.path1	13	blat.proc4179.chain_247,c1617_f2p3_1969.path1	2
AmTr_v1.0_scaffold00052	alt_acceptor	2427443	2427444	-	asmbl_3062	none	blat.proc4183.chain_127,c4312_f1p0_2488.path1	2	blat.proc4221.chain_177,c2743_f1p1_2784.path1	2
AmTr_v1.0_scaffold00013	alt_acceptor	394420	394421	+	asmbl_1122	none	blat.proc4135.chain_229,c1020_f1p0_1625.path1	2	blat.proc4135.chain_1,c110_f3p1_1668.path1	2
AmTr_v1.0_scaffold00033	starts_in_intron	977219	977219	-	asmbl_2284	none	blat.proc4229.chain_126,c2991_f1p0_2787.path1	2	blat.proc4169.chain_145,c14967_f1p1_958.path1	2
AmTr_v1.0_scaffold00003	retained_exon	1251941	1253428	+	asmbl_340	none	blat.proc4139.chain_9	1	blat.proc4225.chain_91,blat.proc4231.chain_120,c11720_f1p5_2592.path1,c12163_f1p4_2832.path1	4
AmTr_v1.0_scaffold00059	alt_acceptor	1942995	1942996	-	asmbl_3401	none	blat.proc4135.chain_114,blat.proc4188.chain_6,blat.proc4200.chain_11,blat.proc4200.chain_238,blat.proc4209.chain_118,c15266_f1p4_1945.path1,c220_f3p2_2256.path1,c933_f3p4_2131.path1,c9441_f1p2_1749.path1,c9766_f1p5_2066.path1	10	blat.proc4216.chain_155,c10530_f1p0_2707.path1	2
AmTr_v1.0_scaffold00104	retained_intron	1716358	1716447	+	asmbl_4639,asmbl_4640	none	blat.proc4183.chain_196,blat.proc4214.chain_161,c5113_f1p0_2038.path1,c998_f2p0_2688.path1	4	blat.proc4196.chain_1,blat.proc4205.chain_134,c1908_f2p2_2017.path1,c4210_f1p2_2053.path1	4
AmTr_v1.0_scaffold00088	spliced_intron	853823	853905	-	asmbl_4295,asmbl_4296	none	blat.proc4169.chain_173,blat.proc4179.chain_262,blat.proc4181.chain_149,blat.proc4205.chain_95,c16056_f1p1_945.path1,c1663_f2p0_2240.path1,c2062_f2p1_1860.path1,c3491_f1p3_1713.path1	8	blat.proc4125.chain_83,c797_f1p0_1306.path1	2
AmTr_v1.0_scaffold00037	skipped_exon	484507	502555	+	asmbl_2428	none	c4192_f1p0_1246.path1	1	blat.proc4198.chain_110,c10005_f1p0_1653.path1	2
AmTr_v1.0_scaffold00033	spliced_intron	5269205	5269850	-	asmbl_2347	none	blat.proc4209.chain_123,c9946_f1p0_1668.path1	2	blat.proc4196.chain_220,c6601_f1p0_1767.path1	2
AmTr_v1.0_scaffold00025	retained_intron	5687129	5687316	-	asmbl_1982	none	blat.proc4227.chain_165,c1132_f2p1_2908.path1	2	blat.proc4227.chain_34,c766_f3p4_2856.path1	2
AmTr_v1.0_scaffold00001	spliced_intron	2143351	2143470	+	asmbl_44,asmbl_46	none	blat.proc4200.chain_116,blat.proc4200.chain_243,c630_f3p13_1851.path1,c947_f3p8_1805.path1	4	blat.proc4183.chain_52,blat.proc4185.chain_75,c3572_f1p3_1885.path1,c7009_f1p1_1808.path1	4
AmTr_v1.0_scaffold00049	starts_in_intron	1611394	1611394	-	asmbl_2976	none	blat.proc4143.chain_74,c6027_f1p0_1919.path1	2	blat.proc4190.chain_69,c12860_f1p0_1781.path1	2
AmTr_v1.0_scaffold00148	alt_donor	534788	534789	-	asmbl_5157	none	blat.proc4198.chain_49,c8401_f1p0_2055.path1	2	blat.proc4214.chain_111,c754_f2p0_2865.path1	2
AmTr_v1.0_scaffold00025	skipped_exon	652493	652726	+	asmbl_1871,asmbl_1872	none	blat.proc4214.chain_166,blat.proc4216.chain_119,blat.proc4227.chain_51,c1011_f2p10_2780.path1,c809_f3p8_2953.path1,c9340_f1p8_2915.path1	6	blat.proc4214.chain_116,c791_f2p8_2695.path1	2
AmTr_v1.0_scaffold00016	ends_in_intron	6743545	6743545	+	asmbl_1298	none	blat.proc4229.chain_62,c1755_f1p1_2788.path1	2	blat.proc4205.chain_31,blat.proc4225.chain_240,blat.proc4231.chain_176,c13775_f1p6_2760.path1,c2060_f1p2_2108.path1,c621_f4p7_2953.path1	6
AmTr_v1.0_scaffold00011	alt_acceptor	3969787	3969788	-	asmbl_994,asmbl_996	none	blat.proc4133.chain_30,blat.proc4214.chain_260,blat.proc4216.chain_142,blat.proc4229.chain_222,blat.proc4231.chain_13,c10172_f1p8_3191.path1,c1465_f1p1_2410.path1,c2223_f1p2_3531.path1,c4087_f1p8_3008.path1,c5949_f1p4_2723.path1,c8020_f1p4_2547.path1	11	blat.proc4198.chain_187,c12416_f1p0_2148.path1	2
AmTr_v1.0_scaffold00130	retained_intron	1524822	1525851	+	asmbl_4974	none	blat.proc4198.chain_194,c12566_f1p0_2122.path1	2	blat.proc4139.chain_192,blat.proc4216.chain_268,blat.proc4225.chain_221,c4359_f1p0_2766.path1,c491_f5p2_2972.path1,c578_f4p7_3128.path1	6
AmTr_v1.0_scaffold00069	retained_intron	189492	190971	-	asmbl_3835	none	blat.proc4183.chain_188,c5065_f1p1_2379.path1	2	blat.proc4145.chain_83,c1516_f4p1_827.path1	2
AmTr_v1.0_scaffold00049	retained_intron	1344816	1344893	+	asmbl_2967	none	blat.proc4147.chain_176,blat.proc4147.chain_249,blat.proc4181.chain_44,c10428_f1p1_862.path1,c1805_f2p0_2070.path1,c7259_f2p1_1011.path1	6	blat.proc4171.chain_242,c1746_f2p0_1117.path1	2
AmTr_v1.0_scaffold00177	ends_in_intron	14700	14700	+	asmbl_5418	none	blat.proc4216.chain_174,c11243_f1p0_2910.path1	2	blat.proc4137.chain_221,blat.proc4139.chain_11,c6148_f1p1_1948.path1	3
AmTr_v1.0_scaffold00019	retained_intron	2915430	2915632	+	asmbl_1464	none	blat.proc4183.chain_111,c4141_f1p0_1861.path1	2	blat.proc4179.chain_166,c1419_f2p4_1989.path1	2
AmTr_v1.0_scaffold00049	skipped_exon	2927880	2928519	-	asmbl_2991	none	blat.proc4202.chain_168,c1542_f2p0_1750.path1	2	blat.proc4188.chain_10,c9469_f1p0_1829.path1	2
AmTr_v1.0_scaffold00002	alt_acceptor	7584949	7584950	+	asmbl_238	none	blat.proc4188.chain_229,c11796_f1p3_2010.path1	2	blat.proc4137.chain_263,blat.proc4137.chain_265,blat.proc4139.chain_237,blat.proc4139.chain_93,blat.proc4141.chain_142,blat.proc4143.chain_136,blat.proc4143.chain_137,blat.proc4181.chain_101,blat.proc4181.chain_216,blat.proc4205.chain_149,blat.proc4209.chain_152,blat.proc4212.chain_57,blat.proc4214.chain_222,blat.proc4216.chain_56,blat.proc4221.chain_129,blat.proc4223.chain_184,blat.proc4225.chain_126,blat.proc4225.chain_5,blat.proc4229.chain_82,blat.proc4231.chain_204,c10731_f1p12_2042.path1,c11983_f1p2_2832.path1,c14109_f1p13_2097.path1,c14506_f3p13_2643.path1,c1887_f1p7_2642.path1,c1954_f2p2_2318.path1,c1992_f1p15_2744.path1,c218_f2p3_3067.path1,c2521_f1p1_2135.path1,c2597_f1p15_3123.path1,c27_f2p4_3296.path1,c4624_f1p8_2408.path1,c46_f2p6_3009.path1,c57_f3p6_3134.path1,c6751_f1p5_2764.path1,c7783_f1p6_3347.path1,c7834_f2p8_3497.path1,c7851_f1p10_3316.path1,c7869_f1p14_2952.path1,c9785_f1p14_2970.path1	40
AmTr_v1.0_scaffold00041	retained_exon	1174451	1174755	+	asmbl_2610	none	blat.proc4205.chain_79,c3309_f1p0_1460.path1	2	blat.proc4147.chain_118,c5212_f1p0_1134.path1	2
AmTr_v1.0_scaffold00003	skipped_exon	1245995	1251940	+	asmbl_340	none	blat.proc4139.chain_9	1	blat.proc4225.chain_91,blat.proc4231.chain_120,c11720_f1p5_2592.path1,c12163_f1p4_2832.path1,c129_f2p2_3061.path1	5
AmTr_v1.0_scaffold00062	alt_acceptor	3646429	3646430	-	asmbl_3585	none	blat.proc4221.chain_155,c2374_f1p2_2932.path1	2	blat.proc4183.chain_90,blat.proc4188.chain_225,blat.proc4214.chain_118,blat.proc4229.chain_58,blat.proc4231.chain_75,c10540_f1p7_2748.path1,c11762_f1p0_2183.path1,c1704_f1p6_2779.path1,c3937_f1p1_2667.path1,c802_f2p3_2640.path1	10
AmTr_v1.0_scaffold00088	alt_acceptor	794541	794542	+	asmbl_4293	none	blat.proc4223.chain_218,c8694_f1p1_2773.path1	2	blat.proc4179.chain_100,blat.proc4212.chain_38,c1247_f3p2_2002.path1,c13835_f1p2_2004.path1	4
AmTr_v1.0_scaffold00024	retained_intron	6600572	6600644	+	asmbl_1856	none	blat.proc4221.chain_119,c1751_f1p1_3031.path1	2	blat.proc4139.chain_223,blat.proc4219.chain_158,blat.proc4223.chain_9,blat.proc4225.chain_231,blat.proc4231.chain_54,c4525_f1p2_2805.path1,c598_f3p6_2829.path1,c6884_f1p2_3332.path1,c868_f2p2_2930.path1,c9593_f1p7_2934.path1	10
AmTr_v1.0_scaffold00069	alt_acceptor	87154	87155	-	asmbl_3831	none	blat.proc4177.chain_70,blat.proc4192.chain_260,blat.proc4194.chain_111	3	c1384_f2p2_1724.path1,c14536_f7p2_1011.path1,c966_f3p4_2316.path1	3
AmTr_v1.0_scaffold00002	retained_exon	8897945	8898138	-	asmbl_266,asmbl_267,asmbl_269	none	blat.proc4216.chain_150,blat.proc4221.chain_201,blat.proc4223.chain_55,blat.proc4223.chain_79,blat.proc4225.chain_134,c10375_f1p6_2955.path1,c140_f22p11_2812.path1,c3206_f1p3_2993.path1,c5311_f1p4_2860.path1,c9871_f1p1_2799.path1	10	blat.proc4216.chain_51,c6564_f1p3_2741.path1	2
AmTr_v1.0_scaffold00079	alternate_exon	736330	736596	+	asmbl_4155	none	blat.proc4169.chain_15,c11086_f1p2_871.path1	2	blat.proc4145.chain_162,c2012_f2p2_1016.path1	2
AmTr_v1.0_scaffold00009	alternate_exon	7320278	7320398	-	asmbl_817	none	blat.proc4221.chain_35,c1205_f2p0_2775.path1	2	blat.proc4225.chain_146,blat.proc4225.chain_98,c11748_f2p3_2761.path1,c14648_f2p1_2772.path1,c292_f9p1_2880.path1	5
AmTr_v1.0_scaffold00024	alt_acceptor	6231110	6231111	+	asmbl_1845	none	blat.proc4137.chain_223,c6161_f1p0_2046.path1	2	blat.proc4223.chain_19,c4759_f1p1_2801.path1	2
AmTr_v1.0_scaffold00010	alternate_exon	8568899	8569478	-	asmbl_965	none	blat.proc4133.chain_47,blat.proc4135.chain_178,blat.proc4174.chain_205,c1167_f2p0_2118.path1,c2277_f1p3_1712.path1,c431_f2p0_1928.path1,c8995_f1p1_865.path1	7	blat.proc4174.chain_27,c2124_f2p1_984.path1	2
AmTr_v1.0_scaffold00010	spliced_intron	223262	223397	-	asmbl_856	none	blat.proc4212.chain_134,c15726_f1p6_1776.path1	2	blat.proc4194.chain_39,blat.proc4196.chain_201,c1131_f3p8_1963.path1,c5981_f1p8_1909.path1	4
AmTr_v1.0_scaffold00040	alt_donor	4622454	4622455	-	asmbl_2586	none	blat.proc4183.chain_186,c5045_f1p0_1708.path1	2	blat.proc4188.chain_114,c10654_f1p0_1792.path1	2
AmTr_v1.0_scaffold00065	retained_intron	1977053	1979119	-	asmbl_3651	none	blat.proc4133.chain_130,blat.proc4214.chain_205,c147_f2p2_2005.path1,c1566_f1p1_2744.path1	4	blat.proc4181.chain_7,blat.proc4192.chain_130,c1695_f2p1_1818.path1,c530_f7p2_1974.path1	4
AmTr_v1.0_scaffold00017	alt_donor	4679895	4679896	+	asmbl_1360	none	blat.proc4194.chain_22,c1056_f2p1_1939.path1	2	blat.proc4177.chain_126,blat.proc4219.chain_16,blat.proc4221.chain_43,c1218_f2p0_2941.path1,c540_f5p10_3071.path1,c650_f6p14_2013.path1	6
AmTr_v1.0_scaffold00012	alt_acceptor	144032	144033	+	asmbl_1035	none	blat.proc4192.chain_141,c572_f6p3_1780.path1	2	blat.proc4179.chain_182,c1458_f2p4_1817.path1	2
AmTr_v1.0_scaffold00068	alt_donor	2539591	2539592	+	asmbl_3816	none	blat.proc4133.chain_42,blat.proc4174.chain_156,blat.proc4205.chain_188,c2205_f1p2_1968.path1,c5553_f26p16_1851.path1,c6268_f1p0_978.path1	6	blat.proc4198.chain_131,blat.proc4200.chain_141,c10510_f1p4_1911.path1,c685_f5p8_1801.path1	4
AmTr_v1.0_scaffold00170	skipped_exon	736732	739710	+	asmbl_5352	none	blat.proc4174.chain_69,c2539_f2p0_931.path1	2	blat.proc4125.chain_143,blat.proc4129.chain_97,blat.proc4169.chain_180,c16233_f1p1_935.path1,c2251_f1p2_1093.path1,c462_f2p2_1154.path1	6
AmTr_v1.0_scaffold00024	spliced_intron	6600572	6600644	+	asmbl_1855	none	blat.proc4139.chain_223,blat.proc4219.chain_158,blat.proc4223.chain_9,blat.proc4225.chain_231,blat.proc4231.chain_54,c4525_f1p2_2805.path1,c598_f3p6_2829.path1,c6884_f1p2_3332.path1,c868_f2p2_2930.path1,c9593_f1p7_2934.path1	10	blat.proc4221.chain_119,c1751_f1p1_3031.path1	2
AmTr_v1.0_scaffold00003	spliced_intron	2705707	2705866	-	asmbl_369	none	blat.proc4139.chain_146,c680_f1p2_3007.path1	2	blat.proc4139.chain_164,blat.proc4143.chain_16,blat.proc4214.chain_85,blat.proc4214.chain_9,blat.proc4216.chain_233,blat.proc4216.chain_256,blat.proc4216.chain_37,c2004_f1p4_3242.path1,c349_f5p10_2822.path1,c3813_f1p6_2717.path1,c412_f4p30_2969.path1,c456_f5p14_3131.path1,c5927_f1p23_2985.path1,c644_f3p20_3123.path1	14
AmTr_v1.0_scaffold00101	alt_acceptor	712047	712048	-	asmbl_4562	none	blat.proc4139.chain_112,blat.proc4223.chain_33,c128_f3p5_3084.path1,c4920_f1p4_2832.path1	4	blat.proc4137.chain_225,blat.proc4139.chain_246,blat.proc4209.chain_115,blat.proc4227.chain_158,c1111_f2p10_2780.path1,c37_f7p10_3023.path1,c6236_f1p3_2160.path1,c9758_f1p4_1950.path1	8
AmTr_v1.0_scaffold00060	alt_acceptor	2794160	2794161	-	asmbl_3469,asmbl_3470,asmbl_3472	none	blat.proc4216.chain_112,blat.proc4229.chain_38,blat.proc4229.chain_49,blat.proc4231.chain_210,c14532_f2p3_2829.path1,c1538_f2p6_2916.path1,c1593_f2p4_2906.path1,c9155_f1p1_2802.path1	8	c10504_f1p6_3107.path1	1
AmTr_v1.0_scaffold00048	ends_in_intron	2780951	2780951	-	asmbl_2925	none	blat.proc4181.chain_1,c1679_f2p0_1850.path1	2	blat.proc4212.chain_45,c13965_f1p1_1912.path1	2
AmTr_v1.0_scaffold00099	alt_acceptor	1771383	1771384	-	asmbl_4532	none	blat.proc4229.chain_86,c2087_f1p0_2693.path1	2	blat.proc4216.chain_46,c6432_f1p4_2880.path1	2
AmTr_v1.0_scaffold00051	retained_intron	3984148	3985896	+	asmbl_3048	none	blat.proc4143.chain_83,c6259_f1p3_3096.path1	2	blat.proc4127.chain_247,blat.proc4129.chain_26,blat.proc4137.chain_207,blat.proc4145.chain_62,blat.proc4171.chain_66,blat.proc4177.chain_151,blat.proc4183.chain_161,blat.proc4194.chain_55,blat.proc4196.chain_154,blat.proc4200.chain_72,blat.proc4205.chain_90,blat.proc4221.chain_151,c1191_f2p1_1624.path1,c1381_f3p2_1107.path1,c138_f2p3_1089.path1,c227_f1p2_1213.path1,c2293_f1p0_2960.path1,c3452_f1p8_1963.path1,c429_f8p7_1895.path1,c4715_f1p1_1904.path1,c4784_f1p10_1686.path1,c5976_f1p4_1970.path1,c671_f2p0_995.path1,c720_f5p5_2005.path1,c9415_f1p3_1817.path1	25
AmTr_v1.0_scaffold00058	ends_in_intron	1593164	1593164	-	asmbl_3297	none	blat.proc4188.chain_157,c11101_f1p0_2333.path1	2	blat.proc4214.chain_216,c2383_f1p0_3301.path1	2
AmTr_v1.0_scaffold00031	retained_intron	3841036	3841100	+	asmbl_2205	none	blat.proc4183.chain_155,c4654_f1p1_1718.path1	2	blat.proc4188.chain_33,blat.proc4194.chain_245,blat.proc4198.chain_79,c1821_f2p4_2034.path1,c9278_f1p3_1890.path1,c9767_f1p2_1906.path1	6
AmTr_v1.0_scaffold00020	ends_in_intron	4547995	4547995	-	asmbl_1551	none	blat.proc4227.chain_142,c1059_f2p1_2965.path1	2	blat.proc4202.chain_253,c1851_f2p1_1650.path1	2
AmTr_v1.0_scaffold00016	ends_in_intron	1382767	1382767	+	asmbl_1241	none	blat.proc4198.chain_146,c11075_f1p0_1789.path1	2	blat.proc4225.chain_170,c434_f5p1_2716.path1	2
AmTr_v1.0_scaffold00065	ends_in_intron	909809	909809	-	asmbl_3637	none	blat.proc4212.chain_122,blat.proc4216.chain_101,c15509_f1p0_1810.path1,c8937_f1p2_3061.path1	4	blat.proc4125.chain_237,blat.proc4174.chain_135,blat.proc4174.chain_244,c11298_f1p4_976.path1,c4036_f2p0_1124.path1,c5169_f1p3_1040.path1	6
AmTr_v1.0_scaffold00012	ends_in_intron	2355227	2355227	+	asmbl_1048	none	blat.proc4192.chain_36,c15250_f9p4_1755.path1	2	blat.proc4181.chain_50,blat.proc4192.chain_82,blat.proc4200.chain_80,c15656_f2p1_1768.path1,c1820_f2p2_1821.path1,c489_f8p6_1903.path1	6
AmTr_v1.0_scaffold00007	spliced_intron	891020	891146	-	asmbl_615	none	blat.proc4205.chain_121,c4024_f1p2_1689.path1	2	blat.proc4192.chain_249,c924_f3p2_1956.path1	2
AmTr_v1.0_scaffold00029	alternate_exon	3673519	3673540	-	asmbl_2095	none	c175_f2p0_1037.path1	1	c193_f2p1_1035.path1	1
AmTr_v1.0_scaffold00002	alt_acceptor	2113761	2113762	-	asmbl_165	none	blat.proc4198.chain_100,c9814_f1p1_1872.path1	2	blat.proc4183.chain_126,blat.proc4188.chain_245,blat.proc4194.chain_65,c11939_f1p1_1769.path1,c1217_f2p0_1962.path1,c4276_f1p1_2028.path1	6
AmTr_v1.0_scaffold00072	retained_intron	2773214	2773405	-	asmbl_3978	none	blat.proc4214.chain_67,blat.proc4216.chain_228,blat.proc4225.chain_140,c228_f14p5_2752.path1,c325_f6p7_2901.path1,c583_f2p5_2698.path1	6	blat.proc4227.chain_151,c1083_f2p2_2643.path1	2
AmTr_v1.0_scaffold00059	spliced_intron	1937560	1937719	-	asmbl_3401	none	blat.proc4135.chain_114,blat.proc4188.chain_6,blat.proc4200.chain_11,blat.proc4200.chain_238,blat.proc4209.chain_118,c15266_f1p4_1945.path1,c220_f3p2_2256.path1,c933_f3p4_2131.path1,c9441_f1p2_1749.path1,c9766_f1p5_2066.path1	10	blat.proc4216.chain_155,c10530_f1p0_2707.path1	2
AmTr_v1.0_scaffold00117	starts_in_intron	1902814	1902814	+	asmbl_4854	none	blat.proc4185.chain_54,c6677_f1p1_1723.path1	2	blat.proc4129.chain_159,blat.proc4177.chain_178,blat.proc4192.chain_225,c800_f5p2_1705.path1,c855_f3p3_1825.path1,c978_f1p2_1225.path1	6
AmTr_v1.0_scaffold00146	retained_intron	1137570	1137688	-	asmbl_5136	none	blat.proc4190.chain_50,c12623_f1p0_2243.path1	2	blat.proc4185.chain_60,c6769_f1p0_2321.path1	2
AmTr_v1.0_scaffold00021	alternate_exon	1071689	1071844	-	asmbl_1570	none	blat.proc4200.chain_20,blat.proc4200.chain_227,c15604_f2p3_1896.path1,c906_f3p9_1853.path1	4	blat.proc4177.chain_184,blat.proc4183.chain_219,c5463_f2p2_1793.path1,c810_f5p1_1840.path1	4
AmTr_v1.0_scaffold00131	spliced_intron	619690	620086	+	asmbl_4985,asmbl_4987	none	blat.proc4188.chain_197,blat.proc4190.chain_141,blat.proc4194.chain_243,c11523_f1p3_2127.path1,c13648_f1p3_2187.path1,c1818_f2p1_1976.path1	6	blat.proc4223.chain_84,c5819_f1p2_3010.path1	2
AmTr_v1.0_scaffold00071	retained_intron	2787606	2787951	+	asmbl_3939	none	blat.proc4196.chain_172,c5355_f1p2_1787.path1	2	blat.proc4229.chain_148,c3542_f1p0_1355.path1	2
AmTr_v1.0_scaffold00025	spliced_intron	1922332	1922733	+	asmbl_1901	none	blat.proc4139.chain_150,blat.proc4139.chain_32,blat.proc4194.chain_156,blat.proc4202.chain_40,c1006_f1p2_1377.path1,c1095_f3p6_1994.path1,c1532_f2p6_1883.path1,c908_f1p2_1875.path1	8	blat.proc4137.chain_213,blat.proc4212.chain_217,blat.proc4219.chain_134,blat.proc4219.chain_6,blat.proc4227.chain_97,c183_f8p12_2892.path1,c506_f4p0_2930.path1,c6068_f1p3_2842.path1,c793_f2p2_2791.path1,c920_f2p3_2788.path1	10
AmTr_v1.0_scaffold00122	alt_acceptor	114903	114904	-	asmbl_4911	none	blat.proc4190.chain_17,c12303_f1p1_1747.path2	2	blat.proc4181.chain_217,blat.proc4194.chain_52,c1171_f2p3_2494.path2	3
AmTr_v1.0_scaffold00048	starts_in_intron	941512	941512	-	asmbl_2898	none	blat.proc4137.chain_189,c5819_f1p3_1866.path1	2	blat.proc4183.chain_100,blat.proc4194.chain_164,blat.proc4196.chain_261,blat.proc4198.chain_137,c10818_f1p1_2332.path1,c1559_f2p1_1656.path1,c4074_f1p6_1769.path1,c7258_f1p1_1898.path1	8
AmTr_v1.0_scaffold00025	retained_intron	1190613	1191120	+	asmbl_1883	none	blat.proc4135.chain_251,c1310_f1p4_2536.path1	2	blat.proc4177.chain_203,blat.proc4188.chain_122,c10728_f1p1_1908.path1,c889_f4p9_2031.path1	4
AmTr_v1.0_scaffold00078	alternate_exon	1212305	1212348	+	asmbl_4116	none	blat.proc4171.chain_6,c17805_f6p3_1121.path1	2	blat.proc4169.chain_214,c17463_f3p2_1172.path1	2
AmTr_v1.0_scaffold00002	alt_donor	3938624	3938625	-	asmbl_188	none	blat.proc4185.chain_99,c7278_f1p0_1658.path1	2	blat.proc4190.chain_224,c14439_f1p0_1997.path1	2
AmTr_v1.0_scaffold00053	retained_exon	506823	507289	-	asmbl_3076	none	blat.proc4216.chain_127,c9764_f1p0_3088.path1	2	blat.proc4205.chain_9,c1906_f2p3_2148.path1	2
AmTr_v1.0_scaffold00156	retained_exon	808254	808403	-	asmbl_5237	none	blat.proc4219.chain_212,c1018_f2p5_2984.path1	2	blat.proc4219.chain_61,c645_f3p1_2838.path1	2
AmTr_v1.0_scaffold00096	skipped_exon	1261990	1265828	-	asmbl_4484,asmbl_4486	none	blat.proc4135.chain_4,blat.proc4192.chain_101,blat.proc4227.chain_109,c149_f2p0_1716.path1,c398_f10p4_1821.path1,c966_f2p1_2774.path1	6	blat.proc4196.chain_27,c2237_f1p3_1894.path1	2
AmTr_v1.0_scaffold00130	alt_acceptor	803954	803955	-	asmbl_4966	none	blat.proc4185.chain_265,c9408_f1p0_1908.path1	2	blat.proc4200.chain_190,c816_f4p0_1902.path1	2
AmTr_v1.0_scaffold00109	alt_donor	928693	928694	+	asmbl_4733	none	blat.proc4221.chain_24,c1185_f2p0_2845.path1	2	blat.proc4223.chain_40,c5063_f1p0_2621.path1	2
AmTr_v1.0_scaffold00057	alt_acceptor	2797404	2797405	-	asmbl_3241	none	blat.proc4209.chain_4,c1097_f3p3_1847.path1,c7426_f1p2_1660.path1	3	blat.proc4141.chain_49,c3523_f1p5_3237.path1	2
AmTr_v1.0_scaffold00076	alt_acceptor	740708	740709	+	asmbl_4019	none	blat.proc4137.chain_102,c4047_f1p1_1834.path1	2	blat.proc4147.chain_48,blat.proc4216.chain_78,c3116_f1p1_925.path1,c8020_f1p1_2624.path1	4
AmTr_v1.0_scaffold00048	retained_intron	336230	336302	+	asmbl_2884	none	blat.proc4225.chain_260,c676_f3p4_2825.path1	2	blat.proc4192.chain_137,blat.proc4216.chain_266,c485_f5p1_2799.path1,c559_f6p3_1611.path1	4
AmTr_v1.0_scaffold00049	retained_intron	4138286	4138397	+	asmbl_3013	none	blat.proc4205.chain_260,c7247_f1p1_1889.path1	2	c1822_f2p2_2431.path1	1
AmTr_v1.0_scaffold00062	spliced_intron	3653038	3653134	-	asmbl_3584	none	blat.proc4214.chain_118,blat.proc4229.chain_58,c1704_f1p6_2779.path1,c802_f2p3_2640.path1	4	blat.proc4183.chain_90,c3937_f1p1_2667.path1	2
AmTr_v1.0_scaffold00059	alt_donor	1121644	1121645	-	asmbl_3382	none	blat.proc4202.chain_221,c1751_f2p5_1817.path1	2	blat.proc4133.chain_263,blat.proc4192.chain_216,c62_f2p1_1769.path1,c832_f4p4_1936.path1	4
AmTr_v1.0_scaffold00142	retained_intron	225089	225501	+	asmbl_5092	none	blat.proc4214.chain_207,c1823_f1p0_2825.path1	2	blat.proc4127.chain_116,blat.proc4131.chain_138,blat.proc4135.chain_90,blat.proc4192.chain_157,blat.proc4200.chain_157,blat.proc4202.chain_182,blat.proc4202.chain_7,c1023_f4p8_1950.path1,c129_f4p7_1952.path1,c1601_f2p7_1785.path1,c1863_f1p1_1536.path1,c4534_f2p1_1060.path1,c729_f4p5_1808.path1	13
AmTr_v1.0_scaffold00057	ends_in_intron	1408236	1408236	+	asmbl_3218	none	blat.proc4141.chain_74,c5926_f1p1_1382.path1	2	blat.proc4129.chain_38,c272_f2p1_1361.path1	2
AmTr_v1.0_scaffold00056	alt_acceptor	1281893	1281894	+	asmbl_3161	none	blat.proc4196.chain_146,c4610_f1p1_1749.path1	2	blat.proc4139.chain_234,c7607_f1p0_1355.path1	2
AmTr_v1.0_scaffold00038	starts_in_intron	3960509	3960509	+	asmbl_2489	none	blat.proc4221.chain_173,c2685_f1p5_2945.path1	2	blat.proc4219.chain_34,blat.proc4225.chain_143,blat.proc4229.chain_88,c2105_f1p2_2890.path1,c268_f10p12_2776.path1,c583_f4p11_2991.path1	6
AmTr_v1.0_scaffold00173	alt_donor	90702	90703	+	asmbl_5370	none	blat.proc4231.chain_36,c8985_f1p1_2996.path1	2	blat.proc4223.chain_4,blat.proc4225.chain_268,c4407_f1p3_2877.path1,c696_f3p5_2739.path1	4
AmTr_v1.0_scaffold00029	retained_exon	3938487	3938744	-	asmbl_2099	none	blat.proc4188.chain_83,c10299_f1p0_2110.path1	2	c13193_f1p1_1836.path1	1
AmTr_v1.0_scaffold00012	alt_donor	6980933	6980934	-	asmbl_1093	none	blat.proc4169.chain_208,blat.proc4174.chain_63,blat.proc4194.chain_30,blat.proc4200.chain_114,c1092_f3p4_1781.path1,c17326_f6p1_1111.path1,c2500_f2p0_1094.path1,c619_f5p8_1728.path1	8	blat.proc4171.chain_65,blat.proc4174.chain_110,blat.proc4177.chain_52,blat.proc4177.chain_68,blat.proc4177.chain_98,blat.proc4179.chain_183,blat.proc4190.chain_209,blat.proc4190.chain_99,blat.proc4192.chain_110,blat.proc4192.chain_99,blat.proc4194.chain_34,blat.proc4200.chain_87,c1104_f3p7_1898.path1,c13232_f1p6_2004.path1,c14288_f1p0_1517.path1,c14359_f1p3_1109.path1,c14473_f3p1_1002.path1,c1462_f2p2_1885.path1,c3808_f1p7_1197.path1,c393_f8p11_1772.path1,c450_f3p8_1761.path1,c492_f8p6_1652.path1,c526_f5p12_1651.path1,c666_f4p5_1087.path1	24
AmTr_v1.0_scaffold00109	spliced_intron	254675	255482	+	asmbl_4715	none	blat.proc4139.chain_90,blat.proc4212.chain_214,blat.proc4212.chain_230,blat.proc4212.chain_243,blat.proc4214.chain_110,blat.proc4214.chain_145,blat.proc4227.chain_20,c177_f10p10_2896.path1,c242_f6p9_3130.path1,c26_f6p3_3028.path1,c310_f4p7_2881.path1,c734_f3p22_3017.path1,c750_f2p4_2864.path1,c928_f2p3_2761.path1	14	blat.proc4190.chain_152,c13722_f1p3_1790.path1	2
AmTr_v1.0_scaffold00056	alt_acceptor	2849332	2849333	-	asmbl_3184	none	blat.proc4202.chain_222,c1753_f2p0_2017.path1	2	blat.proc4198.chain_267,c14860_f1p3_1733.path1	2
AmTr_v1.0_scaffold00045	retained_intron	2561249	2562509	+	asmbl_2766	none	blat.proc4202.chain_150,c1465_f2p0_1666.path1	2	blat.proc4183.chain_227,blat.proc4194.chain_66,c1218_f2p1_1726.path1,c5526_f1p1_1812.path1	4
AmTr_v1.0_scaffold00106	starts_in_intron	88159	88159	-	asmbl_4655	none	blat.proc4225.chain_190,c489_f8p22_2847.path1	2	blat.proc4139.chain_69,blat.proc4205.chain_190,blat.proc4212.chain_220,blat.proc4216.chain_186,blat.proc4216.chain_199,c11662_f2p12_2709.path1,c205_f7p26_2852.path1,c3511_f2p2_2700.path1,c4742_f1p5_2955.path1,c52_f3p27_2961.path1,c5559_f1p6_2905.path1	11
AmTr_v1.0_scaffold00078	alt_donor	3362517	3362518	+	asmbl_4145	none	blat.proc4231.chain_175,c13774_f1p18_3216.path1	2	blat.proc4139.chain_107,blat.proc4212.chain_232,blat.proc4219.chain_170,blat.proc4225.chain_110,c104_f3p8_3282.path1,c11854_f1p11_3111.path1,c260_f2p13_2990.path1,c8886_f2p10_2989.path1,c911_f2p4_2907.path1	9
AmTr_v1.0_scaffold00029	retained_exon	5513076	5513131	-	asmbl_2128	none	blat.proc4174.chain_78,c2616_f2p1_986.path1	2	blat.proc4143.chain_257,c1013_f4p1_941.path1	2
AmTr_v1.0_scaffold00052	retained_intron	2639230	2639307	+	asmbl_3064	none	c728_f1p1_3036.path1	1	blat.proc4219.chain_138,c801_f2p1_3146.path1	2
AmTr_v1.0_scaffold00008	alternate_exon	3784912	3785033	+	asmbl_740	none	blat.proc4139.chain_255,c88_f3p5_3115.path1	2	blat.proc4214.chain_24,c473_f3p3_2898.path1	2
AmTr_v1.0_scaffold00159	alternate_exon	436328	442908	+	asmbl_5256	none	blat.proc4219.chain_234,blat.proc4229.chain_189,c1061_f2p0_2874.path1,c2501_f1p5_2809.path1,c4693_f1p5_2989.path1	5	blat.proc4190.chain_43,c12570_f1p0_2441.path1	2
AmTr_v1.0_scaffold00101	retained_intron	711984	712161	-	asmbl_4560,asmbl_4561	none	blat.proc4137.chain_113,blat.proc4143.chain_129,blat.proc4202.chain_92,blat.proc4225.chain_188,blat.proc4227.chain_241,c1241_f2p4_1896.path1,c1358_f2p12_2815.path1,c4203_f1p3_1795.path1,c487_f5p20_3215.path1,c7740_f1p12_2938.path1	10	blat.proc4137.chain_225,blat.proc4139.chain_246,blat.proc4209.chain_115,blat.proc4227.chain_158,c1111_f2p10_2780.path1,c37_f7p10_3023.path1,c6236_f1p3_2160.path1,c9758_f1p4_1950.path1	8
AmTr_v1.0_scaffold00019	alternate_exon	6330635	6330681	-	asmbl_1517	none	blat.proc4196.chain_50,c2617_f1p2_1996.path1,c622_f4p2_2832.path1	3	blat.proc4214.chain_20,c461_f3p1_2837.path1	2
AmTr_v1.0_scaffold00088	starts_in_intron	2429875	2429875	+	asmbl_4315	none	blat.proc4227.chain_94,c915_f2p0_3016.path1	2	blat.proc4194.chain_163,c1557_f2p1_2361.path1	2
AmTr_v1.0_scaffold00164	alt_donor	221563	221564	-	asmbl_5296	none	c4392_f1p1_1759.path1	1	blat.proc4185.chain_169,c8214_f1p1_1712.path1	2
AmTr_v1.0_scaffold00049	alt_acceptor	1344892	1344893	+	asmbl_2969	none	blat.proc4171.chain_242,c1746_f2p0_1117.path1	2	blat.proc4192.chain_200,c789_f4p1_1991.path1	2
AmTr_v1.0_scaffold00038	ends_in_intron	1059289	1059289	+	asmbl_2459	none	blat.proc4133.chain_55,c2422_f1p0_2411.path1	2	blat.proc4141.chain_230,blat.proc4223.chain_240,c1732_f1p4_3005.path1,c9132_f1p3_3115.path1	4
AmTr_v1.0_scaffold00115	starts_in_intron	35567	35567	-	asmbl_4830	none	blat.proc4188.chain_57,c10039_f1p1_2133.path1	2	blat.proc4169.chain_100,blat.proc4181.chain_219,blat.proc4188.chain_71,c10173_f1p1_2110.path1,c13967_f1p2_1244.path1,c2562_f1p1_2475.path1	6
AmTr_v1.0_scaffold00002	alt_donor	11121694	11121695	+	asmbl_311	none	blat.proc4135.chain_156,blat.proc4202.chain_171,c1560_f2p4_2039.path1,c368_f2p1_1917.path1	4	blat.proc4209.chain_165,c10951_f1p4_1797.path1	2
AmTr_v1.0_scaffold00066	alt_acceptor	363674	363675	+	asmbl_3686,asmbl_3687	none	blat.proc4139.chain_226,blat.proc4202.chain_29,c1077_f3p0_1941.path1,c7171_f1p1_1795.path1	4	blat.proc4185.chain_239,c9125_f1p1_1891.path1	2
AmTr_v1.0_scaffold00117	ends_in_intron	1620905	1620905	+	asmbl_4851	none	blat.proc4225.chain_88,c11657_f1p5_2770.path1	2	blat.proc4133.chain_134,blat.proc4141.chain_264,blat.proc4143.chain_97,blat.proc4227.chain_1,blat.proc4229.chain_9,c1456_f2p3_3000.path1,c167_f2p0_2221.path1,c3062_f1p2_2831.path1,c6721_f1p2_3203.path1,c698_f3p3_3330.path1	10
AmTr_v1.0_scaffold00024	starts_in_intron	6596544	6596544	+	asmbl_1856	none	blat.proc4221.chain_119,c1751_f1p1_3031.path1	2	blat.proc4139.chain_223,blat.proc4219.chain_158,blat.proc4223.chain_9,blat.proc4225.chain_231,blat.proc4231.chain_54,c4525_f1p2_2805.path1,c598_f3p6_2829.path1,c6884_f1p2_3332.path1,c868_f2p2_2930.path1,c9593_f1p7_2934.path1	10
AmTr_v1.0_scaffold00069	alt_donor	1466289	1466290	+	asmbl_3848	none	blat.proc4185.chain_234,c9060_f1p0_1939.path1	2	blat.proc4181.chain_25,blat.proc4185.chain_156,c1746_f2p0_1838.path1,c8060_f1p0_1831.path1	4
AmTr_v1.0_scaffold00029	alt_acceptor	292532	292533	+	asmbl_2046	none	blat.proc4216.chain_168,blat.proc4221.chain_237,blat.proc4225.chain_203,blat.proc4231.chain_126,blat.proc4231.chain_211,c11021_f1p5_2871.path1,c12296_f1p10_2996.path1,c14538_f1p15_2978.path1,c3774_f1p6_2821.path1,c517_f4p16_3110.path1	10	blat.proc4229.chain_111,c2655_f1p7_2760.path1	2
AmTr_v1.0_scaffold00049	alt_donor	1611133	1611134	-	asmbl_2977	none	blat.proc4190.chain_69,c12860_f1p0_1781.path1	2	blat.proc4143.chain_74,blat.proc4192.chain_235,c6027_f1p0_1919.path1,c875_f3p0_1806.path1	4
AmTr_v1.0_scaffold00076	starts_in_intron	1387321	1387321	+	asmbl_4020	none	blat.proc4205.chain_162,c4877_f1p3_2024.path1	2	c1382_f2p2_2296.path1	1
AmTr_v1.0_scaffold00018	ends_in_intron	4451117	4451117	+	asmbl_1417	none	blat.proc4198.chain_84,c9495_f1p0_1935.path1	2	blat.proc4147.chain_244,blat.proc4209.chain_41,c10198_f1p1_991.path1,c8278_f1p0_1925.path1	4
AmTr_v1.0_scaffold00058	retained_intron	550412	550518	+	asmbl_3279	none	blat.proc4188.chain_44,c9887_f1p0_1863.path1	2	blat.proc4135.chain_48,c2111_f1p0_1772.path1	2
AmTr_v1.0_scaffold00001	starts_in_intron	8831762	8831762	-	asmbl_107	none	blat.proc4221.chain_238,c3799_f1p1_2903.path1	2	blat.proc4125.chain_194,blat.proc4127.chain_236,c120_f4p3_1137.path1,c3417_f1p3_1034.path1	4
AmTr_v1.0_scaffold00049	retained_exon	1605919	1605980	-	asmbl_2976	none	blat.proc4143.chain_74,blat.proc4192.chain_235,c6027_f1p0_1919.path1,c875_f3p0_1806.path1	4	blat.proc4190.chain_69,c12860_f1p0_1781.path1	2
AmTr_v1.0_scaffold00009	retained_intron	9243472	9243769	+	asmbl_847	none	blat.proc4143.chain_35,c4476_f1p1_3467.path1	2	blat.proc4219.chain_21,c547_f4p5_2927.path1	2
AmTr_v1.0_scaffold00051	spliced_intron	3979625	3979735	+	asmbl_3045	none	blat.proc4137.chain_207,blat.proc4200.chain_72,blat.proc4205.chain_90,c3452_f1p8_1963.path1,c429_f8p7_1895.path1,c5976_f1p4_1970.path1	6	blat.proc4177.chain_151,blat.proc4183.chain_161,c4715_f1p1_1904.path1,c720_f5p5_2005.path1,c9415_f1p3_1817.path1	5
AmTr_v1.0_scaffold00059	retained_intron	1937995	1938369	-	asmbl_3402	none	blat.proc4216.chain_155,c10530_f1p0_2707.path1	2	blat.proc4135.chain_114,blat.proc4188.chain_6,blat.proc4200.chain_11,blat.proc4200.chain_238,blat.proc4209.chain_118,c15266_f1p4_1945.path1,c220_f3p2_2256.path1,c933_f3p4_2131.path1,c9441_f1p2_1749.path1,c9766_f1p5_2066.path1	10
AmTr_v1.0_scaffold00090	alt_acceptor	2484392	2484393	+	asmbl_4356	none	blat.proc4127.chain_198,c3700_f1p1_1267.path1	2	blat.proc4125.chain_126,blat.proc4125.chain_53,blat.proc4129.chain_58,c1913_f1p3_1108.path1,c291_f2p3_1305.path1,c330_f2p0_943.path1	6
AmTr_v1.0_scaffold00060	retained_exon	2740490	2740562	+	asmbl_3467	none	blat.proc4147.chain_77,c3978_f1p0_967.path1	2	c7948_f2p0_2164.path1	1
AmTr_v1.0_scaffold00103	retained_intron	2094545	2095266	-	asmbl_4621	none	blat.proc4225.chain_250,c646_f4p2_2994.path1	2	blat.proc4192.chain_83,blat.proc4202.chain_233,c15669_f2p1_1635.path1,c1795_f2p5_1739.path1	4
AmTr_v1.0_scaffold00096	alt_acceptor	1709170	1709171	+	asmbl_4491	none	blat.proc4200.chain_195,c824_f4p3_2016.path1	2	blat.proc4141.chain_34,blat.proc4179.chain_119,blat.proc4192.chain_14,c1288_f2p2_1807.path1,c15023_f1p2_1683.path1,c1612_f1p0_1911.path1	6
AmTr_v1.0_scaffold00021	retained_intron	3444920	3445152	+	asmbl_1596	none	blat.proc4190.chain_214,c14364_f1p0_1757.path1	2	blat.proc4137.chain_251,c6565_f1p1_1856.path1	2
AmTr_v1.0_scaffold00085	skipped_exon	1170378	1173081	+	asmbl_4237	none	blat.proc4183.chain_142,c4454_f1p0_2364.path1	2	blat.proc4137.chain_54,c2963_f1p1_1816.path1	2
AmTr_v1.0_scaffold00025	spliced_intron	2547170	2548332	+	asmbl_1910,asmbl_1911	none	blat.proc4135.chain_57,blat.proc4185.chain_114,blat.proc4192.chain_92,blat.proc4200.chain_62,c2591_f1p0_1792.path1,c295_f16p6_1847.path1,c321_f14p7_1774.path1,c7517_f1p5_2059.path1	8	blat.proc4214.chain_82,c630_f3p4_2917.path1	2
AmTr_v1.0_scaffold00010	retained_exon	8751385	8756437	+	asmbl_971	none	blat.proc4227.chain_91,c911_f3p4_2845.path1	2	blat.proc4229.chain_194,c4864_f1p5_2839.path1	2
AmTr_v1.0_scaffold00058	alternate_exon	2449115	2449415	-	asmbl_3315	none	blat.proc4125.chain_16,blat.proc4131.chain_103,blat.proc4135.chain_75,blat.proc4137.chain_260,blat.proc4137.chain_261,blat.proc4137.chain_76,blat.proc4139.chain_34,blat.proc4141.chain_11,blat.proc4200.chain_77,c1195_f1p2_1738.path1,c120_f3p2_1200.path1,c259_f2p5_1619.path1,c3360_f1p16_2033.path1,c34_f6p34_1948.path1,c4152_f1p4_1020.path1,c465_f9p2_1827.path1,c6782_f4p13_1814.path1,c6804_f3p1_1695.path1	18	blat.proc4135.chain_207,c578_f1p6_2203.path1	2
AmTr_v1.0_scaffold00019	spliced_intron	7035170	7035309	+	asmbl_1534	none	blat.proc4177.chain_100,blat.proc4192.chain_70,c15582_f5p1_1672.path1,c545_f4p1_1771.path1	4	c3236_f1p1_1254.path1	1
AmTr_v1.0_scaffold00007	alt_acceptor	2479054	2479055	-	asmbl_638	none	blat.proc4219.chain_186,c949_f2p2_2921.path1	2	blat.proc4221.chain_262,c4180_f1p2_3197.path1	2
AmTr_v1.0_scaffold00002	alt_acceptor	3819061	3819062	+	asmbl_183	none	blat.proc4179.chain_256,c1648_f2p0_1797.path1	2	blat.proc4231.chain_202,c14463_f1p0_3130.path1	2
AmTr_v1.0_scaffold00022	alternate_exon	3873762	3880266	-	asmbl_1694	none	blat.proc4181.chain_167,blat.proc4192.chain_119,blat.proc4192.chain_12,blat.proc4192.chain_164,blat.proc4194.chain_239,blat.proc4229.chain_131,blat.proc4231.chain_1,blat.proc4231.chain_133,c12515_f1p11_2795.path1,c15001_f2p7_2497.path1,c1801_f2p9_2311.path1,c2106_f2p6_2037.path1,c3063_f1p19_2677.path1,c479_f6p18_2233.path1,c662_f2p17_2338.path1,c7572_f2p16_2715.path1	16	blat.proc4205.chain_212,c6156_f1p10_2496.path1	2
AmTr_v1.0_scaffold00013	retained_intron	3031814	3031933	-	asmbl_1139	none	blat.proc4198.chain_163,blat.proc4202.chain_166,c11583_f1p1_1812.path1,c1527_f2p2_1631.path1	4	blat.proc4131.chain_72,blat.proc4169.chain_104,blat.proc4171.chain_2,c14081_f2p3_1142.path1,c17786_f20p16_1015.path1,c3651_f1p7_1131.path1	6
AmTr_v1.0_scaffold00009	spliced_intron	9236485	9236709	+	asmbl_848,asmbl_849	none	blat.proc4219.chain_21,blat.proc4225.chain_245,c547_f4p5_2927.path1,c628_f4p1_2843.path1	4	blat.proc4143.chain_35,blat.proc4229.chain_103,c2483_f1p0_2495.path1,c4476_f1p1_3467.path1	4
AmTr_v1.0_scaffold00001	alt_donor	1533384	1533385	+	asmbl_37	none	blat.proc4169.chain_82,c13331_f1p1_1244.path1,c1355_f3p1_1037.path1	3	blat.proc4183.chain_79,c3529_f1p0_2078.path1,c3799_f1p0_1957.path1	3
AmTr_v1.0_scaffold00016	ends_in_intron	3992735	3992735	-	asmbl_1269	none	blat.proc4179.chain_29,c1104_f3p5_1704.path1	2	blat.proc4185.chain_250,c9239_f1p4_1706.path1	2
AmTr_v1.0_scaffold00062	retained_intron	708984	709149	-	asmbl_3551,asmbl_3552,asmbl_3553	none	blat.proc4177.chain_195,blat.proc4183.chain_118,blat.proc4200.chain_47,blat.proc4209.chain_253,blat.proc4225.chain_217,blat.proc4231.chain_139,c12571_f1p5_2874.path1,c12797_f1p9_1807.path1,c15816_f23p22_1888.path1,c4229_f1p12_1723.path1,c572_f5p5_2999.path1,c845_f5p18_1782.path1	12	blat.proc4137.chain_216,c6102_f1p6_1692.path1	2
AmTr_v1.0_scaffold00022	ends_in_intron	5697661	5697661	-	asmbl_1724	none	blat.proc4219.chain_27,c562_f4p0_2688.path1	2	blat.proc4131.chain_95,blat.proc4137.chain_99,blat.proc4147.chain_253,blat.proc4169.chain_210,blat.proc4183.chain_34,blat.proc4185.chain_193,blat.proc4188.chain_202,blat.proc4192.chain_88,blat.proc4209.chain_82,c10586_f1p5_1053.path1,c11559_f1p6_2004.path1,c17393_f2p5_1067.path1,c214_f20p17_1802.path1,c3398_f1p6_1936.path1,c3950_f1p0_1384.path1,c4001_f1p1_1774.path1,c8453_f1p0_1803.path1,c9020_f1p9_1574.path1	18
AmTr_v1.0_scaffold00002	skipped_exon	7584485	7584950	+	asmbl_238	none	blat.proc4188.chain_229,c11796_f1p3_2010.path1	2	blat.proc4137.chain_263,blat.proc4137.chain_265,blat.proc4139.chain_237,blat.proc4139.chain_93,blat.proc4141.chain_142,blat.proc4143.chain_136,blat.proc4143.chain_137,blat.proc4181.chain_101,blat.proc4181.chain_216,blat.proc4205.chain_149,blat.proc4209.chain_152,blat.proc4212.chain_57,blat.proc4214.chain_222,blat.proc4216.chain_56,blat.proc4221.chain_129,blat.proc4223.chain_184,blat.proc4225.chain_126,blat.proc4225.chain_5,blat.proc4229.chain_82,blat.proc4231.chain_204,c10731_f1p12_2042.path1,c11983_f1p2_2832.path1,c14506_f3p13_2643.path1,c1887_f1p7_2642.path1,c1954_f2p2_2318.path1,c1992_f1p15_2744.path1,c218_f2p3_3067.path1,c2521_f1p1_2135.path1,c2597_f1p15_3123.path1,c27_f2p4_3296.path1,c4624_f1p8_2408.path1,c46_f2p6_3009.path1,c57_f3p6_3134.path1,c6751_f1p5_2764.path1,c7783_f1p6_3347.path1,c7834_f2p8_3497.path1,c7851_f1p10_3316.path1,c7869_f1p14_2952.path1,c9785_f1p14_2970.path1	39
AmTr_v1.0_scaffold00012	alt_acceptor	8455802	8455803	+	asmbl_1119	none	blat.proc4135.chain_43,c1907_f1p2_1888.path1	2	blat.proc4135.chain_204,c509_f2p1_1893.path1	2
AmTr_v1.0_scaffold00153	alt_acceptor	679061	679062	+	asmbl_5199	none	blat.proc4133.chain_265,blat.proc4139.chain_175,blat.proc4141.chain_185,blat.proc4190.chain_265,blat.proc4225.chain_227,blat.proc4227.chain_108,c14859_f1p2_2016.path1,c2887_f1p0_1674.path1,c461_f1p4_3040.path1,c592_f4p10_2796.path1,c76_f3p1_1779.path1,c965_f2p4_3546.path1	12	blat.proc4209.chain_95,c9257_f1p4_2189.path1	2
AmTr_v1.0_scaffold00024	alt_donor	6224776	6224777	+	asmbl_1845	none	blat.proc4137.chain_223,c6161_f1p0_2046.path1	2	blat.proc4223.chain_19,c4759_f1p1_2801.path1	2
AmTr_v1.0_scaffold00007	alt_acceptor	9318965	9318966	-	asmbl_721	none	blat.proc4209.chain_73,c8919_f1p4_1939.path1	2	blat.proc4192.chain_132,blat.proc4196.chain_94,c3459_f1p6_1763.path1,c548_f6p5_1835.path1	4
AmTr_v1.0_scaffold00077	skipped_exon	2493668	2499118	+	asmbl_4076	none	blat.proc4183.chain_76,c3755_f3p0_1687.path1	2	blat.proc4133.chain_270,blat.proc4133.chain_44,blat.proc4137.chain_14,blat.proc4200.chain_18,blat.proc4200.chain_211,c109_f3p0_2050.path1,c15568_f1p4_2233.path1,c1919_f1p1_1739.path1,c2223_f1p1_1901.path1,c870_f4p9_2175.path1	10
AmTr_v1.0_scaffold00058	spliced_intron	1049340	1049446	-	asmbl_3285	none	blat.proc4198.chain_162,c11489_f1p0_1789.path1	2	blat.proc4209.chain_52,c8425_f1p1_1559.path1	2
AmTr_v1.0_scaffold00009	skipped_exon	4379646	4387876	-	asmbl_779	none	c9982_f1p1_1846.path1	1	blat.proc4198.chain_108	1
AmTr_v1.0_scaffold00024	retained_intron	6606145	6606359	+	asmbl_1856	none	blat.proc4221.chain_119,c1751_f1p1_3031.path1	2	blat.proc4139.chain_223,blat.proc4219.chain_158,blat.proc4223.chain_9,blat.proc4225.chain_231,blat.proc4231.chain_54,c4525_f1p2_2805.path1,c598_f3p6_2829.path1,c6884_f1p2_3332.path1,c868_f2p2_2930.path1,c9593_f1p7_2934.path1	10
AmTr_v1.0_scaffold00092	alt_donor	1160350	1160351	-	asmbl_4392	none	blat.proc4214.chain_204,c1556_f1p6_2895.path1	2	blat.proc4198.chain_64,blat.proc4216.chain_145,blat.proc4216.chain_97,blat.proc4223.chain_27,c10270_f1p9_2968.path1,c16172_f1p4_1775.path1,c4855_f1p3_2719.path1,c8745_f1p6_3165.path1,c8889_f1p2_2433.path1	9
AmTr_v1.0_scaffold00013	alt_acceptor	5133769	5133770	-	asmbl_1159	none	c13651_f1p0_1094.path1	1	blat.proc4137.chain_137,blat.proc4190.chain_97,blat.proc4212.chain_165,c13223_f1p0_2045.path1,c16209_f1p1_1884.path1,c4795_f1p0_1898.path1	6
AmTr_v1.0_scaffold00019	retained_intron	6283826	6283906	+	asmbl_1515	none	blat.proc4177.chain_204,blat.proc4181.chain_194,c2295_f1p2_1800.path1,c890_f4p2_1790.path1	4	blat.proc4133.chain_21,c1067_f1p2_1727.path1	2
AmTr_v1.0_scaffold00006	retained_exon	6074934	6074963	+	asmbl_571	none	blat.proc4216.chain_7,c4885_f1p3_2870.path1	2	blat.proc4219.chain_13,blat.proc4225.chain_149,c308_f10p7_2853.path1,c372_f1p6_2834.path1,c452_f4p1_2705.path1,c531_f3p1_2715.path1,c677_f3p2_2794.path1	7
AmTr_v1.0_scaffold00003	retained_intron	4133875	4134503	+	asmbl_384	none	blat.proc4231.chain_34,c8935_f1p1_2818.path1	2	blat.proc4194.chain_81,blat.proc4196.chain_31,c1289_f2p1_1500.path1,c2263_f1p1_1680.path1	4
AmTr_v1.0_scaffold00029	ends_in_intron	3183039	3183039	+	asmbl_2087	none	blat.proc4194.chain_209,c1698_f2p6_1805.path1	2	blat.proc4179.chain_86,blat.proc4185.chain_22,blat.proc4200.chain_119,c1221_f3p4_2256.path1,c6338_f1p2_1670.path1,c637_f5p7_2146.path1	6
AmTr_v1.0_scaffold00017	alt_acceptor	4686557	4686558	+	asmbl_1356,asmbl_1357,asmbl_1358,asmbl_1360,asmbl_1363,asmbl_1364,asmbl_1365	none	blat.proc4137.chain_75,blat.proc4177.chain_126,blat.proc4183.chain_23,blat.proc4185.chain_248,blat.proc4192.chain_93,blat.proc4194.chain_22,blat.proc4200.chain_107,blat.proc4202.chain_245,blat.proc4202.chain_32,blat.proc4219.chain_16,blat.proc4221.chain_43,c1056_f2p1_1939.path1,c1080_f3p11_1843.path1,c1218_f2p0_2941.path1,c12870_f1p5_2283.path1,c1830_f2p17_2423.path1,c313_f14p20_2536.path1,c3271_f1p5_2273.path1,c3336_f1p1_1960.path1,c498_f6p12_2936.path1,c540_f5p10_3071.path1,c589_f4p16_1721.path1,c650_f6p14_2013.path1,c9211_f1p6_2676.path1	24	blat.proc4177.chain_148,blat.proc4181.chain_209,blat.proc4185.chain_24,blat.proc4190.chain_44,blat.proc4192.chain_113,blat.proc4192.chain_263,blat.proc4200.chain_148,blat.proc4212.chain_234,blat.proc4212.chain_256,blat.proc4212.chain_260,blat.proc4214.chain_87,blat.proc4219.chain_32,blat.proc4221.chain_196,blat.proc4225.chain_43,blat.proc4227.chain_201,blat.proc4231.chain_143,blat.proc4231.chain_56,blat.proc4231.chain_72,c10377_f1p9_3177.path1,c10618_f1p6_2801.path1,c1251_f2p7_2652.path1,c12583_f1p9_2368.path1,c12673_f1p15_4296.path1,c2373_f2p2_1919.path1,c271_f5p7_2808.path1,c3086_f1p14_4095.path1,c342_f3p7_3126.path1,c358_f2p11_3065.path1,c458_f7p5_1670.path1,c576_f5p11_2951.path1,c6361_f1p4_1556.path1,c660_f3p7_3005.path1,c706_f4p7_1810.path1,c710_f6p5_1896.path1,c9685_f1p6_3415.path1,c975_f3p12_2164.path1	36
AmTr_v1.0_scaffold00001	spliced_intron	4455366	4455467	-	asmbl_72	none	blat.proc4225.chain_68,c11223_f1p4_2923.path1	2	blat.proc4139.chain_162,blat.proc4188.chain_24,blat.proc4198.chain_92,blat.proc4214.chain_60,blat.proc4223.chain_153,blat.proc4223.chain_183,blat.proc4223.chain_258,c1927_f1p2_2693.path1,c556_f3p7_2801.path1,c7358_f1p7_3015.path1,c7858_f1p7_3150.path1,c9111_f1p1_1433.path1,c9441_f1p6_3671.path1,c9634_f1p1_1733.path1,c9646_f1p0_2064.path1	15
AmTr_v1.0_scaffold00071	alt_donor	3251685	3251686	-	asmbl_3952	none	blat.proc4177.chain_130,blat.proc4179.chain_168,blat.proc4202.chain_174,blat.proc4202.chain_82,c1210_f2p4_1805.path1,c1421_f2p1_1994.path1,c1569_f2p5_1806.path1,c658_f7p1_1907.path1	8	blat.proc4216.chain_15,c5071_f1p0_2768.path1	2
AmTr_v1.0_scaffold00030	retained_intron	16089	16175	+	asmbl_2144	none	blat.proc4183.chain_190,c5068_f1p0_2037.path1	2	blat.proc4129.chain_42,blat.proc4209.chain_97,c282_f2p1_1153.path1,c9298_f1p2_2100.path1	4
AmTr_v1.0_scaffold00103	ends_in_intron	1453247	1453247	-	asmbl_4612	none	blat.proc4188.chain_195,c11509_f1p1_1664.path1	2	blat.proc4190.chain_238,c14555_f1p1_1665.path1	2
AmTr_v1.0_scaffold00016	retained_intron	2237725	2239563	+	asmbl_1247	none	blat.proc4143.chain_20,c3876_f1p1_3430.path1	2	blat.proc4141.chain_141,c199_f2p1_1607.path1	2
AmTr_v1.0_scaffold00109	retained_intron	2058612	2059070	+	asmbl_4748	none	blat.proc4190.chain_268,blat.proc4229.chain_252,c14886_f1p1_1775.path1,c7074_f1p7_2953.path1	4	blat.proc4125.chain_77,c626_f1p0_1045.path1	2
AmTr_v1.0_scaffold00066	spliced_intron	2519711	2519921	-	asmbl_3719	none	blat.proc4209.chain_61,c8620_f1p1_1781.path1	2	blat.proc4212.chain_102,c15120_f1p0_1896.path1	2
AmTr_v1.0_scaffold00003	alt_donor	2213091	2213092	-	asmbl_359	none	blat.proc4137.chain_149,c5201_f1p0_1918.path1	2	blat.proc4190.chain_163,c13849_f1p0_1677.path1	2
AmTr_v1.0_scaffold00079	spliced_intron	612273	613022	-	asmbl_4151	none	blat.proc4169.chain_151,blat.proc4171.chain_14,blat.proc4171.chain_19,blat.proc4171.chain_42,c15295_f1p14_1043.path1,c322_f1p2_892.path1,c396_f1p9_910.path1,c555_f9p57_1035.path1	8	blat.proc4212.chain_24,c13500_f1p3_1658.path1	2
AmTr_v1.0_scaffold00016	retained_intron	2703012	2703338	+	asmbl_1253	none	blat.proc4139.chain_77,blat.proc4229.chain_41,c1544_f2p3_3401.path1,c5910_f1p6_3110.path1	4	blat.proc4231.chain_67,c10303_f1p3_3098.path1	2
AmTr_v1.0_scaffold00065	alt_donor	912787	912788	-	asmbl_3638	none	blat.proc4174.chain_135,c5169_f1p3_1040.path1	2	blat.proc4125.chain_237,blat.proc4174.chain_244,blat.proc4216.chain_101,c11298_f1p4_976.path1,c4036_f2p0_1124.path1,c8937_f1p2_3061.path1	6
AmTr_v1.0_scaffold00030	starts_in_intron	2668703	2668703	+	asmbl_2162	none	blat.proc4131.chain_184,c5126_f1p1_1411.path1	2	blat.proc4194.chain_238,blat.proc4202.chain_90,c1799_f2p1_1929.path1	3
AmTr_v1.0_scaffold00036	skipped_exon	755990	758001	+	asmbl_2385	none	blat.proc4181.chain_64,c1853_f2p0_1646.path1	2	blat.proc4143.chain_96,blat.proc4179.chain_66,c1184_f3p0_1788.path1,c6716_f1p0_1676.path1	4
AmTr_v1.0_scaffold00017	starts_in_intron	3500548	3500548	+	asmbl_1348	none	blat.proc4129.chain_208,c1689_f2p1_989.path1	2	blat.proc4131.chain_148,c4659_f1p2_998.path1	2
AmTr_v1.0_scaffold00001	alt_donor	4454324	4454325	-	asmbl_70	none	blat.proc4198.chain_92,c9111_f1p1_1433.path1	2	c9646_f1p0_2064.path1	1
AmTr_v1.0_scaffold00069	alternate_exon	1673362	1674079	+	asmbl_3854	none	blat.proc4147.chain_190,c8006_f2p0_1139.path1	2	blat.proc4137.chain_170,blat.proc4198.chain_90,blat.proc4205.chain_92,c3481_f1p2_1591.path1,c5563_f1p2_1745.path1,c9620_f1p5_1543.path1	6
AmTr_v1.0_scaffold00009	spliced_intron	9192955	9193037	+	asmbl_843,asmbl_846	none	blat.proc4135.chain_85,blat.proc4139.chain_176,blat.proc4139.chain_224,blat.proc4179.chain_139,c112_f5p2_1565.path1,c1340_f4p2_2069.path1,c2983_f1p2_1454.path1,c6937_f1p2_1360.path1	8	blat.proc4179.chain_60,blat.proc4181.chain_71,c1175_f3p3_1620.path1,c1870_f2p0_2149.path1	4
AmTr_v1.0_scaffold00131	retained_intron	618327	619578	+	asmbl_4988	none	blat.proc4223.chain_84,c5819_f1p2_3010.path1	2	blat.proc4190.chain_141,c13648_f1p3_2187.path1	2
AmTr_v1.0_scaffold00131	skipped_exon	617974	619578	+	asmbl_4985	none	blat.proc4188.chain_197,blat.proc4194.chain_243,c11523_f1p3_2127.path1,c1818_f2p1_1976.path1	4	blat.proc4190.chain_141,c13648_f1p3_2187.path1	2
AmTr_v1.0_scaffold00131	retained_exon	618211	619689	+	asmbl_4987	none	blat.proc4190.chain_141,c13648_f1p3_2187.path1	2	blat.proc4185.chain_33,c6491_f1p3_2032.path1	2
AmTr_v1.0_scaffold00025	alt_acceptor	3107590	3107591	+	asmbl_1932	none	blat.proc4229.chain_85,c2049_f1p0_2813.path1	2	blat.proc4219.chain_259,c1110_f2p0_2809.path1	2
AmTr_v1.0_scaffold00002	spliced_intron	1522771	1523386	+	asmbl_157	none	blat.proc4135.chain_40,c1851_f1p0_1782.path1	2	blat.proc4219.chain_92,c712_f3p1_2795.path1	2
AmTr_v1.0_scaffold00041	spliced_intron	1517133	1517542	+	asmbl_2617	none	blat.proc4131.chain_60,c3385_f1p1_1264.path1	2	blat.proc4190.chain_211,c14309_f1p1_1857.path1	2
AmTr_v1.0_scaffold00007	retained_intron	3931423	3931500	-	asmbl_663	none	blat.proc4137.chain_27,c2257_f1p0_1783.path1	2	blat.proc4177.chain_256,c1022_f3p0_1863.path1	2
AmTr_v1.0_scaffold00003	starts_in_intron	2705728	2705728	-	asmbl_370	none	blat.proc4231.chain_19,c8198_f1p4_2892.path1	2	blat.proc4139.chain_146,c680_f1p2_3007.path1	2
AmTr_v1.0_scaffold00010	retained_intron	158663	159591	+	asmbl_854	none	blat.proc4221.chain_224,c3610_f1p0_2943.path1	2	blat.proc4177.chain_152,blat.proc4192.chain_211,c724_f6p0_2053.path1,c811_f4p2_1934.path1	4
AmTr_v1.0_scaffold00173	alternate_exon	90442	90701	+	asmbl_5369	none	blat.proc4231.chain_152,blat.proc4231.chain_170,c13024_f1p4_2914.path1,c13697_f1p4_3330.path1	4	blat.proc4223.chain_4,blat.proc4225.chain_268,c4407_f1p3_2877.path1,c696_f3p5_2739.path1	4
AmTr_v1.0_scaffold00071	alt_acceptor	2809799	2809800	-	asmbl_3942	none	blat.proc4196.chain_254,c7159_f1p2_1717.path1	2	blat.proc4205.chain_177,c5172_f1p0_1790.path1	2
AmTr_v1.0_scaffold00025	alt_acceptor	773332	773333	+	asmbl_1875	none	blat.proc4200.chain_100,c572_f4p2_1773.path1	2	blat.proc4127.chain_133,blat.proc4135.chain_171,blat.proc4198.chain_238,c13689_f1p1_1660.path1,c2427_f1p1_1055.path1,c406_f2p0_1765.path1	6
AmTr_v1.0_scaffold00071	alternate_exon	2892221	2892709	-	asmbl_3945	none	blat.proc4141.chain_225,c1642_f1p1_2977.path1	2	blat.proc4145.chain_126,blat.proc4202.chain_163,c1511_f2p1_1771.path1,c1742_f2p2_975.path1	4
AmTr_v1.0_scaffold00014	alt_acceptor	5780685	5780686	+	asmbl_1199	none	blat.proc4192.chain_201,blat.proc4200.chain_92,blat.proc4202.chain_47,c1114_f2p6_1855.path1,c542_f5p7_2012.path1,c790_f4p3_1899.path1	6	blat.proc4209.chain_75,c8942_f1p5_2095.path1	2
AmTr_v1.0_scaffold00045	retained_exon	798759	798951	+	asmbl_2735	none	blat.proc4133.chain_16,c843_f1p0_2139.path1	2	blat.proc4125.chain_164,c2620_f1p0_1629.path1	2
AmTr_v1.0_scaffold00049	retained_intron	843505	843587	-	asmbl_2955	none	blat.proc4196.chain_195,c5912_f1p1_1821.path1	2	blat.proc4174.chain_94,c3007_f1p1_947.path1	2
AmTr_v1.0_scaffold00031	spliced_intron	3841036	3841100	+	asmbl_2204	none	blat.proc4188.chain_33,blat.proc4194.chain_245,blat.proc4198.chain_79,c1821_f2p4_2034.path1,c9278_f1p3_1890.path1,c9767_f1p2_1906.path1	6	blat.proc4183.chain_155,c4654_f1p1_1718.path1	2
AmTr_v1.0_scaffold00060	alt_donor	2807036	2807037	-	asmbl_3469,asmbl_3471	none	blat.proc4229.chain_38,blat.proc4229.chain_49,c10504_f1p6_3107.path1,c1538_f2p6_2916.path1,c1593_f2p4_2906.path1	5	blat.proc4216.chain_112,blat.proc4231.chain_210,c14532_f2p3_2829.path1,c9155_f1p1_2802.path1	4
AmTr_v1.0_scaffold00029	spliced_intron	4354975	4355183	-	asmbl_2106	none	blat.proc4216.chain_67,c7378_f1p8_2977.path1	2	blat.proc4133.chain_110,blat.proc4216.chain_3,c4220_f1p0_1976.path1,c4746_f1p5_2811.path1	4
AmTr_v1.0_scaffold00067	alt_acceptor	2670942	2670943	-	asmbl_3777	none	blat.proc4188.chain_263,c12122_f1p1_1991.path1	2	blat.proc4216.chain_241,blat.proc4219.chain_89,blat.proc4227.chain_83,c387_f7p5_2825.path1,c466_f4p3_2895.path1,c706_f3p4_3004.path1,c880_f3p7_2688.path1	7
AmTr_v1.0_scaffold00007	retained_intron	8463790	8464295	-	asmbl_712	none	blat.proc4219.chain_83,c690_f3p1_2922.path1	2	blat.proc4205.chain_205,blat.proc4209.chain_245,c12586_f1p3_2361.path1,c5989_f1p3_1731.path1	4
AmTr_v1.0_scaffold00049	alt_acceptor	3590603	3590604	-	asmbl_2997	none	blat.proc4198.chain_129,c10458_f1p2_2076.path1	2	blat.proc4139.chain_197,c4782_f1p1_1919.path1	2
AmTr_v1.0_scaffold00003	alt_acceptor	1403317	1403318	-	asmbl_344	none	blat.proc4221.chain_42,c1217_f2p2_2786.path1	2	blat.proc4139.chain_139,c294_f2p2_1655.path1	2
AmTr_v1.0_scaffold00082	alt_acceptor	1533808	1533809	-	asmbl_4201	none	blat.proc4177.chain_122,blat.proc4181.chain_111,c1970_f2p2_2217.path1,c636_f7p2_2083.path1	4	blat.proc4135.chain_109,c203_f3p1_1942.path1	2
AmTr_v1.0_scaffold00061	alt_donor	3053998	3053999	-	asmbl_3525	none	c3234_f1p3_2455.path1	1	blat.proc4181.chain_202,blat.proc4223.chain_246,c2327_f1p1_2434.path1,c9187_f1p1_2913.path1	4
AmTr_v1.0_scaffold00001	starts_in_intron	118631	118631	+	asmbl_3	none	blat.proc4137.chain_255,c6681_f1p7_1722.path1	2	blat.proc4127.chain_150,blat.proc4127.chain_250,blat.proc4129.chain_222,blat.proc4143.chain_141,blat.proc4143.chain_28,blat.proc4192.chain_7,blat.proc4192.chain_90,blat.proc4194.chain_41,blat.proc4196.chain_197,blat.proc4200.chain_45,blat.proc4212.chain_191,blat.proc4212.chain_194,blat.proc4212.chain_202,blat.proc4221.chain_159,c1139_f2p16_1908.path1,c143_f4p6_1498.path1,c14969_f2p7_2079.path1,c15807_f4p109_1859.path1,c16654_f10p72_1753.path1,c16666_f100p87_1754.path1,c16714_f2p29_1622.path1,c2025_f1p3_1644.path1,c2398_f1p2_2890.path1,c265_f5p26_1652.path1,c2694_f1p2_1655.path1,c288_f4p12_1312.path1,c4289_f1p10_1621.path1,c5931_f1p11_1725.path1	28
AmTr_v1.0_scaffold00009	retained_intron	9192955	9193037	+	asmbl_844,asmbl_845	none	blat.proc4179.chain_60,blat.proc4181.chain_71,c1175_f3p3_1620.path1,c1870_f2p0_2149.path1	4	blat.proc4135.chain_85,blat.proc4139.chain_176,blat.proc4139.chain_224,blat.proc4179.chain_139,c112_f5p2_1565.path1,c1340_f4p2_2069.path1,c2983_f1p2_1454.path1,c6937_f1p2_1360.path1	8
AmTr_v1.0_scaffold00068	alt_acceptor	3166551	3166552	+	asmbl_3820	none	blat.proc4179.chain_170,blat.proc4183.chain_234,c1431_f2p1_2094.path1,c5613_f1p2_1764.path1	4	blat.proc4212.chain_118,c15434_f1p4_1890.path1	2
AmTr_v1.0_scaffold00017	retained_intron	4679895	4680432	+	asmbl_1357,asmbl_1365	none	blat.proc4219.chain_16,blat.proc4221.chain_43,c1218_f2p0_2941.path1,c540_f5p10_3071.path1	4	blat.proc4137.chain_75,blat.proc4177.chain_148,blat.proc4179.chain_176,blat.proc4183.chain_23,blat.proc4185.chain_24,blat.proc4185.chain_248,blat.proc4192.chain_93,blat.proc4202.chain_245,blat.proc4221.chain_196,blat.proc4227.chain_201,blat.proc4231.chain_143,c1251_f2p7_2652.path1,c12673_f1p15_4296.path1,c12870_f1p5_2283.path1,c1443_f2p10_2662.path1,c1830_f2p17_2423.path1,c3086_f1p14_4095.path1,c313_f14p20_2536.path1,c3271_f1p5_2273.path1,c3336_f1p1_1960.path1,c498_f6p12_2936.path1,c6361_f1p4_1556.path1,c710_f6p5_1896.path1,c9211_f1p6_2676.path1	24
AmTr_v1.0_scaffold00186	ends_in_intron	330807	330807	+	asmbl_5469	none	blat.proc4141.chain_160,c303_f2p1_1713.path1	2	blat.proc4181.chain_245,blat.proc4212.chain_147,c15891_f2p6_1903.path1,c2867_f1p1_1649.path1	4
AmTr_v1.0_scaffold00106	retained_intron	87985	88136	-	asmbl_4655	none	blat.proc4225.chain_190,c489_f8p22_2847.path1	2	blat.proc4231.chain_235,c14778_f9p7_2700.path1	2
AmTr_v1.0_scaffold00001	retained_intron	4455366	4455467	-	asmbl_69,asmbl_70,asmbl_71	none	blat.proc4139.chain_162,blat.proc4188.chain_24,blat.proc4198.chain_92,blat.proc4214.chain_60,blat.proc4223.chain_153,blat.proc4223.chain_183,blat.proc4223.chain_258,c1927_f1p2_2693.path1,c556_f3p7_2801.path1,c7358_f1p7_3015.path1,c7858_f1p7_3150.path1,c9111_f1p1_1433.path1,c9441_f1p6_3671.path1,c9634_f1p1_1733.path1,c9646_f1p0_2064.path1	15	blat.proc4225.chain_68,c11223_f1p4_2923.path1	2
AmTr_v1.0_scaffold00032	alt_acceptor	1055306	1055307	-	asmbl_2221	none	blat.proc4202.chain_98,c1260_f2p0_1929.path1	2	blat.proc4183.chain_36,c3407_f1p1_1792.path1	2
AmTr_v1.0_scaffold00085	alt_acceptor	1347183	1347184	-	asmbl_4241,asmbl_4242	none	blat.proc4212.chain_257,blat.proc4219.chain_30,c344_f4p0_2645.path1,c569_f4p0_2756.path1	4	blat.proc4219.chain_161,c873_f2p1_2628.path1	2
AmTr_v1.0_scaffold00045	retained_intron	586106	586895	-	asmbl_2729	none	blat.proc4143.chain_101,blat.proc4179.chain_244,blat.proc4227.chain_262,blat.proc4231.chain_81,c10710_f1p4_2800.path1,c1415_f2p6_2808.path1,c1612_f2p4_2365.path1,c6811_f1p2_3412.path1	8	blat.proc4229.chain_248,c6964_f1p2_2767.path1	2
AmTr_v1.0_scaffold00077	retained_intron	2049244	2051274	-	asmbl_4062	none	blat.proc4214.chain_178,c1060_f2p3_2922.path1	2	blat.proc4143.chain_142,c398_f22p3_908.path1	2
AmTr_v1.0_scaffold00162	alternate_exon	497823	497854	+	asmbl_5274	none	blat.proc4194.chain_224,c1744_f2p0_1779.path1	2	blat.proc4202.chain_16,c1051_f3p1_1930.path1	2
AmTr_v1.0_scaffold00013	alt_donor	5122280	5122281	-	asmbl_1157	none	blat.proc4137.chain_137,blat.proc4190.chain_97,c13223_f1p0_2045.path1,c4795_f1p0_1898.path1	4	blat.proc4212.chain_165,c16209_f1p1_1884.path1	2
AmTr_v1.0_scaffold00009	alt_acceptor	6444806	6444807	-	asmbl_805	none	c2517_f1p0_3041.path1	1	blat.proc4196.chain_210,blat.proc4198.chain_152,blat.proc4219.chain_210,c1012_f2p4_2814.path1,c11268_f1p2_1921.path1,c6293_f1p2_1719.path1	6
AmTr_v1.0_scaffold00017	ends_in_intron	7181582	7181582	-	asmbl_1385	none	blat.proc4185.chain_223,c8988_f1p0_2700.path1	2	blat.proc4225.chain_234,c605_f4p2_3013.path1	2
AmTr_v1.0_scaffold00019	ends_in_intron	2916535	2916535	+	asmbl_1464	none	blat.proc4183.chain_111,c4141_f1p0_1861.path1	2	blat.proc4179.chain_166,c1419_f2p4_1989.path1	2
AmTr_v1.0_scaffold00177	spliced_intron	715768	716099	+	asmbl_5427	none	blat.proc4205.chain_184,c5480_f1p2_1638.path1	2	blat.proc4212.chain_16,c13396_f1p0_1944.path1	2
AmTr_v1.0_scaffold00025	spliced_intron	1921616	1921729	+	asmbl_1901,asmbl_1902	none	blat.proc4139.chain_150,blat.proc4139.chain_32,blat.proc4194.chain_156,blat.proc4202.chain_40,blat.proc4227.chain_97,c1006_f1p2_1377.path1,c1095_f3p6_1994.path1,c1532_f2p6_1883.path1,c908_f1p2_1875.path1,c920_f2p3_2788.path1	10	blat.proc4137.chain_213,blat.proc4212.chain_217,blat.proc4219.chain_134,blat.proc4219.chain_6,c183_f8p12_2892.path1,c506_f4p0_2930.path1,c6068_f1p3_2842.path1,c793_f2p2_2791.path1	8
AmTr_v1.0_scaffold00019	retained_intron	5100724	5101103	+	asmbl_1491	none	blat.proc4196.chain_36,c2429_f1p0_2209.path1	2	blat.proc4143.chain_39,c1907_f2p1_1591.path1,c4712_f1p1_1427.path1	3
AmTr_v1.0_scaffold00019	spliced_intron	7035030	7035106	+	asmbl_1534	none	blat.proc4177.chain_100,blat.proc4192.chain_70,c15582_f5p1_1672.path1,c545_f4p1_1771.path1	4	c3236_f1p1_1254.path1	1
AmTr_v1.0_scaffold00007	spliced_intron	2479071	2479211	-	asmbl_637	none	blat.proc4221.chain_262,c4180_f1p2_3197.path1	2	blat.proc4190.chain_89,blat.proc4219.chain_232,c1059_f2p3_2839.path1,c13060_f1p0_1807.path1	4
AmTr_v1.0_scaffold00090	retained_intron	3092426	3092547	+	asmbl_4359	none	blat.proc4188.chain_193,c11496_f1p0_1629.path1	2	blat.proc4141.chain_43,blat.proc4190.chain_114,c13370_f1p0_1864.path1,c2960_f1p1_1328.path1	4
AmTr_v1.0_scaffold00103	starts_in_intron	2379058	2379058	+	asmbl_4626	none	blat.proc4209.chain_220,c12021_f1p8_1716.path1	2	blat.proc4139.chain_242,blat.proc4139.chain_49,blat.proc4139.chain_88,blat.proc4192.chain_118,blat.proc4192.chain_61,blat.proc4212.chain_183,blat.proc4212.chain_207,blat.proc4225.chain_125,c0_f39p24_3083.path1,c11980_f2p18_2601.path1,c1413_f1p5_2269.path1,c143_f11p41_2773.path1,c15529_f4p11_1887.path1,c16554_f8p13_1780.path1,c3045_f1p14_2874.path1,c3_f3p15_2970.path1,c475_f5p10_2117.path1,c678_f1p2_2005.path1	18
AmTr_v1.0_scaffold00022	spliced_intron	2529082	2529326	-	asmbl_1678	none	blat.proc4221.chain_128,c1854_f1p1_2636.path1	2	blat.proc4221.chain_12,c1163_f2p0_2888.path1	2
AmTr_v1.0_scaffold00057	spliced_intron	1382929	1383120	-	asmbl_3214	none	blat.proc4185.chain_209,c8796_f1p0_1623.path1	2	blat.proc4194.chain_108,c1371_f2p0_1744.path1	2
AmTr_v1.0_scaffold00064	retained_intron	575070	575188	-	asmbl_3614	none	blat.proc4216.chain_17,c5128_f1p2_3054.path1	2	blat.proc4216.chain_104,c8993_f1p2_2849.path1	2
AmTr_v1.0_scaffold00163	retained_intron	113612	113731	+	asmbl_5279	none	blat.proc4181.chain_223,c2615_f1p0_2418.path1	2	blat.proc4133.chain_214,c2596_f1p0_1654.path1	2
AmTr_v1.0_scaffold00047	alternate_exon	1321615	1323901	-	asmbl_2857	none	blat.proc4223.chain_28,c4860_f1p2_3031.path1	2	c2290_f1p0_1589.path1	1
AmTr_v1.0_scaffold00003	retained_intron	1553305	1554655	+	asmbl_348	none	blat.proc4225.chain_31,c10361_f1p2_2721.path1	2	blat.proc4177.chain_207,blat.proc4198.chain_232,blat.proc4200.chain_29,blat.proc4209.chain_74,c13599_f1p3_1600.path1,c15662_f2p4_2149.path1,c5040_f1p5_2244.path1,c7697_f1p0_2134.path1,c8923_f1p6_2217.path1,c896_f4p4_2361.path1	10
AmTr_v1.0_scaffold00008	ends_in_intron	3487209	3487209	+	asmbl_738	none	blat.proc4219.chain_159,c870_f2p2_3044.path1	2	blat.proc4181.chain_199,c2310_f1p0_1832.path1	2
AmTr_v1.0_scaffold00022	alternate_exon	3879178	3879923	-	asmbl_1699	none	c958_f1p0_1124.path1	1	blat.proc4205.chain_212,c6156_f1p10_2496.path1	2
AmTr_v1.0_scaffold00013	alternate_exon	5133105	5133410	-	asmbl_1159	none	c13651_f1p0_1094.path1	1	blat.proc4137.chain_137,blat.proc4190.chain_97,blat.proc4212.chain_165,c13223_f1p0_2045.path1,c16209_f1p1_1884.path1,c4795_f1p0_1898.path1	6
AmTr_v1.0_scaffold00062	spliced_intron	708984	709149	-	asmbl_3554	none	blat.proc4137.chain_216,c6102_f1p6_1692.path1	2	blat.proc4177.chain_195,blat.proc4183.chain_118,blat.proc4200.chain_47,blat.proc4209.chain_253,blat.proc4225.chain_217,blat.proc4231.chain_139,c12571_f1p5_2874.path1,c12797_f1p9_1807.path1,c15816_f23p22_1888.path1,c4229_f1p12_1723.path1,c572_f5p5_2999.path1,c845_f5p18_1782.path1	12
AmTr_v1.0_scaffold00131	retained_intron	617974	619578	+	asmbl_4988	none	blat.proc4223.chain_84,c5819_f1p2_3010.path1	2	blat.proc4188.chain_197,blat.proc4194.chain_243,c11523_f1p3_2127.path1,c1818_f2p1_1976.path1	4
AmTr_v1.0_scaffold00036	skipped_exon	3058058	3062291	+	asmbl_2400	none	blat.proc4185.chain_14,blat.proc4200.chain_94,c553_f7p3_1747.path1,c6188_f1p3_1588.path1	4	blat.proc4209.chain_157,c10859_f1p3_1734.path1	2
AmTr_v1.0_scaffold00002	retained_intron	8887457	8887525	-	asmbl_269	none	c9871_f1p1_2799.path1	1	blat.proc4216.chain_150,blat.proc4216.chain_51,blat.proc4221.chain_201,blat.proc4223.chain_55,blat.proc4223.chain_79,blat.proc4225.chain_134,c10375_f1p6_2955.path1,c140_f22p11_2812.path1,c3206_f1p3_2993.path1,c5311_f1p4_2860.path1,c6564_f1p3_2741.path1	11
AmTr_v1.0_scaffold00018	alt_acceptor	6872911	6872912	+	asmbl_1422	none	blat.proc4135.chain_246,c1260_f1p0_1835.path1	2	blat.proc4135.chain_143,blat.proc4198.chain_78,c321_f2p0_1757.path1,c9270_f1p1_1752.path1	4
AmTr_v1.0_scaffold00003	retained_exon	1542941	1543051	+	asmbl_347,asmbl_350	none	blat.proc4177.chain_207,blat.proc4198.chain_232,blat.proc4200.chain_29,blat.proc4209.chain_74,c13599_f1p3_1600.path1,c15662_f2p4_2149.path1,c7697_f1p0_2134.path1,c8923_f1p6_2217.path1,c896_f4p4_2361.path1	9	c5040_f1p5_2244.path1	1
AmTr_v1.0_scaffold00004	spliced_intron	1263870	1264393	-	asmbl_455,asmbl_456	none	blat.proc4194.chain_4,blat.proc4200.chain_133,blat.proc4212.chain_268,c1008_f3p2_1818.path1,c379_f4p1_3009.path1,c667_f5p3_2441.path1	6	blat.proc4190.chain_2,c12174_f1p1_2642.path1	2
AmTr_v1.0_scaffold00003	retained_intron	2297687	2297845	-	asmbl_362	none	blat.proc4229.chain_233,c6390_f1p4_2845.path1	2	blat.proc4227.chain_95,c917_f2p4_2570.path1	2
AmTr_v1.0_scaffold00001	alternate_exon	352469	352747	+	asmbl_17	none	blat.proc4214.chain_151,c954_f2p3_2838.path1	2	blat.proc4214.chain_79,blat.proc4219.chain_101,blat.proc4225.chain_174,blat.proc4227.chain_237,c1342_f2p2_2842.path1,c444_f6p5_2667.path1,c619_f3p5_2782.path1,c723_f3p2_2787.path1	8
AmTr_v1.0_scaffold00104	ends_in_intron	1745090	1745090	+	asmbl_4640	none	blat.proc4214.chain_161,c998_f2p0_2688.path1	2	blat.proc4183.chain_196,blat.proc4196.chain_1,blat.proc4205.chain_134,c1908_f2p2_2017.path1,c4210_f1p2_2053.path1,c5113_f1p0_2038.path1	6
AmTr_v1.0_scaffold00068	spliced_intron	1901892	1902090	+	asmbl_3812	none	blat.proc4169.chain_200,blat.proc4169.chain_242,c17109_f2p2_898.path1,c17646_f2p2_1013.path1	4	blat.proc4188.chain_199,c11542_f1p0_2017.path1	2
AmTr_v1.0_scaffold00025	spliced_intron	5687129	5687316	-	asmbl_1981	none	blat.proc4227.chain_34,c766_f3p4_2856.path1	2	blat.proc4227.chain_165,c1132_f2p1_2908.path1	2
AmTr_v1.0_scaffold00058	retained_exon	1898657	1898719	+	asmbl_3306	none	c1386_f1p0_2091.path1	1	blat.proc4135.chain_34	1
AmTr_v1.0_scaffold00029	retained_intron	6011311	6011516	+	asmbl_2141	none	blat.proc4181.chain_10,c1705_f2p2_2278.path1	2	blat.proc4200.chain_247,c957_f3p3_2050.path1	2
AmTr_v1.0_scaffold00045	ends_in_intron	2571595	2571595	+	asmbl_2767	none	blat.proc4194.chain_66,c1218_f2p1_1726.path1	2	blat.proc4183.chain_227,c5526_f1p1_1812.path1	2
AmTr_v1.0_scaffold00004	alternate_exon	1243896	1244398	+	asmbl_453	none	blat.proc4143.chain_38,blat.proc4174.chain_115,c3982_f1p2_946.path1,c4694_f1p1_1604.path1	4	blat.proc4127.chain_113,blat.proc4135.chain_18,blat.proc4185.chain_186,c1749_f1p4_1081.path1,c384_f1p2_1823.path1,c8372_f1p4_2149.path1	6
AmTr_v1.0_scaffold00065	alt_donor	912766	912767	-	asmbl_3636,asmbl_3637	none	blat.proc4125.chain_237,blat.proc4174.chain_244,blat.proc4216.chain_101,c11298_f1p4_976.path1,c4036_f2p0_1124.path1,c8937_f1p2_3061.path1	6	blat.proc4174.chain_135,c5169_f1p3_1040.path1	2
AmTr_v1.0_scaffold00020	starts_in_intron	6083218	6083218	-	asmbl_1559	none	blat.proc4188.chain_189,c11438_f1p0_1883.path1	2	blat.proc4214.chain_247,c3498_f1p1_3017.path1	2
AmTr_v1.0_scaffold00025	alt_acceptor	1191067	1191068	+	asmbl_1881	none	blat.proc4135.chain_3,blat.proc4135.chain_76,blat.proc4181.chain_43,blat.proc4192.chain_26,c144_f2p4_2022.path1,c15148_f32p13_2134.path1,c1800_f2p2_1990.path1,c49_f1p6_2024.path1	8	blat.proc4177.chain_203,blat.proc4188.chain_122,c10728_f1p1_1908.path1,c889_f4p9_2031.path1	4
AmTr_v1.0_scaffold00049	spliced_intron	4138286	4138397	+	asmbl_3014	none	c1822_f2p2_2431.path1	1	blat.proc4205.chain_260,c7247_f1p1_1889.path1	2
AmTr_v1.0_scaffold00033	ends_in_intron	3801157	3801157	-	asmbl_2321	none	blat.proc4212.chain_244,c314_f5p2_2811.path1	2	blat.proc4209.chain_25,c7777_f1p1_1155.path1	2
AmTr_v1.0_scaffold00058	alt_donor	2456011	2456012	-	asmbl_3315,asmbl_3317,asmbl_3318	none	blat.proc4135.chain_207,blat.proc4135.chain_75,blat.proc4137.chain_260,blat.proc4137.chain_261,blat.proc4137.chain_76,blat.proc4139.chain_34,blat.proc4141.chain_11,blat.proc4141.chain_255,blat.proc4200.chain_77,c1195_f1p2_1738.path1,c259_f2p5_1619.path1,c2662_f1p3_1767.path1,c3360_f1p16_2033.path1,c34_f6p34_1948.path1,c465_f9p2_1827.path1,c578_f1p6_2203.path1,c6782_f4p13_1814.path1,c6804_f3p1_1695.path1	18	c141_f2p0_1744.path1	1
AmTr_v1.0_scaffold00011	retained_intron	8701045	8701945	+	asmbl_1030	none	blat.proc4214.chain_194,c1122_f2p0_2991.path1	2	blat.proc4137.chain_100,c4011_f1p0_2099.path1	2
AmTr_v1.0_scaffold00104	retained_exon	1743867	1743936	+	asmbl_4638	none	blat.proc4196.chain_1,blat.proc4205.chain_134,c1908_f2p2_2017.path1,c4210_f1p2_2053.path1	4	blat.proc4183.chain_196,c5113_f1p0_2038.path1	2
AmTr_v1.0_scaffold00182	alt_acceptor	314411	314412	-	asmbl_5449	none	blat.proc4227.chain_130,c1024_f2p0_3049.path1	2	blat.proc4139.chain_133,c255_f2p1_3052.path1	2
AmTr_v1.0_scaffold00016	alt_acceptor	2573509	2573510	-	asmbl_1252	none	blat.proc4225.chain_48,c10771_f1p9_3099.path1	2	blat.proc4139.chain_21,blat.proc4216.chain_31,blat.proc4225.chain_155,c204_f2p4_3234.path1,c360_f8p16_3141.path1,c5681_f1p7_2998.path1	6
AmTr_v1.0_scaffold00021	retained_exon	3365701	3365833	-	asmbl_1594	none	blat.proc4133.chain_162,c619_f1p0_2175.path1	2	blat.proc4205.chain_183,c5477_f1p1_2414.path1	2
AmTr_v1.0_scaffold00001	alternate_exon	112657	123699	+	asmbl_2	none	blat.proc4125.chain_55,blat.proc4127.chain_150,blat.proc4127.chain_250,blat.proc4129.chain_222,blat.proc4129.chain_256,blat.proc4143.chain_141,blat.proc4143.chain_200,blat.proc4143.chain_28,blat.proc4145.chain_153,blat.proc4169.chain_218,blat.proc4169.chain_244,blat.proc4171.chain_1,blat.proc4179.chain_116,blat.proc4192.chain_90,blat.proc4192.chain_95,blat.proc4194.chain_41,blat.proc4196.chain_197,blat.proc4200.chain_45,blat.proc4212.chain_191,blat.proc4212.chain_194,blat.proc4212.chain_202,blat.proc4231.chain_179,c1139_f2p16_1908.path1,c1270_f3p7_1876.path1,c13795_f1p1_2744.path1,c143_f4p6_1498.path1,c15807_f4p109_1859.path1,c16654_f10p72_1753.path1,c16666_f100p87_1754.path1,c16714_f2p29_1622.path1,c17501_f16p15_998.path1,c17666_f11p16_1154.path1,c17781_f14p5_947.path1,c1917_f2p2_1166.path1,c2025_f1p3_1644.path1,c2507_f1p5_1316.path1,c265_f5p26_1652.path1,c2694_f1p2_1655.path1,c288_f4p12_1312.path1,c295_f2p3_1199.path1,c321_f5p13_1759.path1,c4289_f1p10_1621.path1,c5931_f1p11_1725.path1,c760_f7p23_1141.path1	44	blat.proc4177.chain_89,blat.proc4192.chain_34,c15233_f24p19_1848.path1,c399_f14p18_1801.path1	4
AmTr_v1.0_scaffold00003	alt_acceptor	1402501	1402502	-	asmbl_345	none	blat.proc4139.chain_139,c294_f2p2_1655.path1	2	blat.proc4221.chain_42,c1217_f2p2_2786.path1	2
AmTr_v1.0_scaffold00017	spliced_intron	4680767	4680920	+	asmbl_1355,asmbl_1356,asmbl_1357,asmbl_1359,asmbl_1361,asmbl_1363,asmbl_1364	none	blat.proc4137.chain_75,blat.proc4177.chain_126,blat.proc4177.chain_148,blat.proc4179.chain_176,blat.proc4183.chain_23,blat.proc4185.chain_24,blat.proc4192.chain_93,blat.proc4202.chain_245,blat.proc4219.chain_16,blat.proc4221.chain_196,blat.proc4227.chain_201,blat.proc4231.chain_143,c1251_f2p7_2652.path1,c12673_f1p15_4296.path1,c12870_f1p5_2283.path1,c1443_f2p10_2662.path1,c1830_f2p17_2423.path1,c3086_f1p14_4095.path1,c313_f14p20_2536.path1,c3271_f1p5_2273.path1,c3336_f1p1_1960.path1,c498_f6p12_2936.path1,c540_f5p10_3071.path1,c6361_f1p4_1556.path1,c650_f6p14_2013.path1,c710_f6p5_1896.path1	26	blat.proc4185.chain_248,blat.proc4221.chain_43,c1218_f2p0_2941.path1,c9211_f1p6_2676.path1	4
AmTr_v1.0_scaffold00021	retained_intron	1437429	1437488	+	asmbl_1576,asmbl_1577	none	blat.proc4141.chain_116,blat.proc4192.chain_204,blat.proc4202.chain_20,c1057_f3p1_2030.path1,c801_f4p2_1758.path1,c84_f3p1_1534.path1	6	blat.proc4212.chain_158,c16059_f1p1_1633.path1	2
AmTr_v1.0_scaffold00005	alternate_exon	4923938	4924419	-	asmbl_523	none	blat.proc4227.chain_255,c1394_f2p1_2669.path1	2	blat.proc4137.chain_146,c5189_f1p2_2275.path1	2
AmTr_v1.0_scaffold00032	retained_intron	2212796	2212952	+	asmbl_2240	none	blat.proc4198.chain_73,c9191_f1p0_2167.path1	2	blat.proc4183.chain_218,c5456_f1p0_2173.path1	2
AmTr_v1.0_scaffold00024	alt_donor	6224781	6224782	+	asmbl_1846	none	blat.proc4223.chain_19,c4759_f1p1_2801.path1	2	blat.proc4137.chain_223,c6161_f1p0_2046.path1	2
AmTr_v1.0_scaffold00051	spliced_intron	3984148	3985896	+	asmbl_3045,asmbl_3046,asmbl_3047	none	blat.proc4127.chain_247,blat.proc4129.chain_26,blat.proc4137.chain_207,blat.proc4145.chain_62,blat.proc4171.chain_66,blat.proc4177.chain_151,blat.proc4183.chain_161,blat.proc4194.chain_55,blat.proc4196.chain_154,blat.proc4200.chain_72,blat.proc4205.chain_90,blat.proc4221.chain_151,c1191_f2p1_1624.path1,c1381_f3p2_1107.path1,c138_f2p3_1089.path1,c227_f1p2_1213.path1,c2293_f1p0_2960.path1,c3452_f1p8_1963.path1,c429_f8p7_1895.path1,c4715_f1p1_1904.path1,c4784_f1p10_1686.path1,c5976_f1p4_1970.path1,c671_f2p0_995.path1,c720_f5p5_2005.path1,c9415_f1p3_1817.path1	25	blat.proc4143.chain_83,c6259_f1p3_3096.path1	2
AmTr_v1.0_scaffold00174	retained_intron	265590	266011	-	asmbl_5378	none	blat.proc4190.chain_108,c13337_f1p0_2295.path1	2	blat.proc4202.chain_95,c1250_f2p4_1930.path1	2
AmTr_v1.0_scaffold00001	alternate_exon	129203	129342	+	asmbl_7	none	blat.proc4177.chain_89,blat.proc4192.chain_34,c15233_f24p19_1848.path1,c399_f14p18_1801.path1	4	blat.proc4179.chain_116,blat.proc4192.chain_95,blat.proc4229.chain_207,blat.proc4231.chain_179,c1270_f3p7_1876.path1,c13795_f1p1_2744.path1,c321_f5p13_1759.path1,c5441_f1p3_2563.path1	8
AmTr_v1.0_scaffold00166	alternate_exon	761216	761411	-	asmbl_5321	none	blat.proc4200.chain_218,c886_f3p1_2043.path1	2	blat.proc4190.chain_248,blat.proc4198.chain_149,c11195_f1p1_2201.path1,c14677_f1p0_2093.path1	4
AmTr_v1.0_scaffold00052	alt_acceptor	1620358	1620359	-	asmbl_3060	none	blat.proc4227.chain_149,c1079_f2p2_2982.path1	2	blat.proc4216.chain_44,c6300_f1p5_2833.path1	2
AmTr_v1.0_scaffold00074	retained_intron	354024	354175	+	asmbl_3996	none	blat.proc4227.chain_211,c1279_f2p2_2769.path1	2	blat.proc4229.chain_204,c5395_f1p2_2646.path1	2
AmTr_v1.0_scaffold00021	spliced_intron	4181441	4181934	+	asmbl_1603	none	blat.proc4177.chain_82,c327_f20p1_1715.path1	2	c1101_f3p3_2207.path1	1
AmTr_v1.0_scaffold00099	alt_acceptor	1771261	1771262	-	asmbl_4531	none	blat.proc4216.chain_46,c6432_f1p4_2880.path1	2	blat.proc4229.chain_86,c2087_f1p0_2693.path1	2
AmTr_v1.0_scaffold00001	retained_exon	2146159	2146237	+	asmbl_45,asmbl_46,asmbl_47	none	blat.proc4183.chain_52,blat.proc4185.chain_75,blat.proc4200.chain_116,c3572_f1p3_1885.path1,c630_f3p13_1851.path1,c7009_f1p1_1808.path1	6	blat.proc4200.chain_243,c947_f3p8_1805.path1	2
AmTr_v1.0_scaffold00066	alt_donor	362369	362370	+	asmbl_3686	none	blat.proc4202.chain_29,c1077_f3p0_1941.path1	2	blat.proc4185.chain_239,c7171_f1p1_1795.path1,c9125_f1p1_1891.path1	3
AmTr_v1.0_scaffold00007	alt_acceptor	9318971	9318972	-	asmbl_720	none	blat.proc4192.chain_132,blat.proc4196.chain_94,c3459_f1p6_1763.path1,c548_f6p5_1835.path1	4	blat.proc4209.chain_73,c8919_f1p4_1939.path1	2
AmTr_v1.0_scaffold00053	alternate_exon	2739581	2740029	+	asmbl_3093	none	blat.proc4223.chain_263,c9570_f1p0_2952.path1	2	blat.proc4212.chain_236,blat.proc4212.chain_249,blat.proc4216.chain_235,blat.proc4223.chain_96,blat.proc4227.chain_131,blat.proc4227.chain_59,c1034_f2p0_2961.path1,c274_f5p7_2966.path1,c321_f5p5_2848.path1,c356_f7p7_3003.path1,c6041_f1p3_2727.path1,c824_f3p7_3054.path1	12
AmTr_v1.0_scaffold00078	spliced_intron	973975	974349	+	asmbl_4111	none	blat.proc4143.chain_104,c2735_f1p3_1234.path1,c6864_f1p2_1335.path1	3	blat.proc4196.chain_13,c1986_f1p1_1699.path1	2
AmTr_v1.0_scaffold00013	alt_acceptor	5133759	5133760	-	asmbl_1157,asmbl_1158	none	blat.proc4137.chain_137,blat.proc4190.chain_97,blat.proc4212.chain_165,c13223_f1p0_2045.path1,c16209_f1p1_1884.path1,c4795_f1p0_1898.path1	6	c13651_f1p0_1094.path1	1
AmTr_v1.0_scaffold00060	ends_in_intron	1574246	1574246	-	asmbl_3459	none	blat.proc4225.chain_204,c518_f5p5_2921.path1	2	blat.proc4185.chain_190,blat.proc4221.chain_226,c3623_f1p4_3176.path1,c8406_f1p0_2698.path1	4
AmTr_v1.0_scaffold00074	alt_acceptor	1913043	1913044	-	asmbl_4000	none	blat.proc4227.chain_196,c1236_f2p1_2816.path1	2	blat.proc4227.chain_206,c1264_f2p3_3027.path1	2
AmTr_v1.0_scaffold00123	alt_acceptor	914758	914759	-	asmbl_4926	none	blat.proc4227.chain_244,c1367_f2p2_2979.path1	2	blat.proc4227.chain_82,c877_f2p2_3064.path1	2
AmTr_v1.0_scaffold00067	retained_intron	402691	402767	+	asmbl_3751	none	blat.proc4185.chain_79,c7045_f1p0_1790.path1	2	blat.proc4196.chain_141,blat.proc4209.chain_70,c4500_f1p0_1768.path1,c8850_f1p3_1637.path1	4
AmTr_v1.0_scaffold00109	starts_in_intron	2243001	2243001	-	asmbl_4752	none	blat.proc4202.chain_154,c1486_f2p3_1955.path1	2	blat.proc4137.chain_171,blat.proc4181.chain_261,c2956_f1p0_2103.path1,c5569_f1p1_2072.path1	4
AmTr_v1.0_scaffold00016	spliced_intron	2707271	2707357	+	asmbl_1253,asmbl_1254,asmbl_1255	none	blat.proc4139.chain_77,blat.proc4229.chain_41,blat.proc4229.chain_79,blat.proc4231.chain_67,c10303_f1p3_3098.path1,c1544_f2p3_3401.path1,c1956_f1p3_3136.path1,c5910_f1p6_3110.path1	8	blat.proc4143.chain_9,c3504_f1p4_2662.path1	2
AmTr_v1.0_scaffold00032	alt_acceptor	2468713	2468714	+	asmbl_2246	none	blat.proc4190.chain_51,c12629_f1p9_1891.path1	2	blat.proc4133.chain_209,blat.proc4143.chain_138,blat.proc4143.chain_92,blat.proc4200.chain_109,blat.proc4209.chain_42,c2257_f1p6_1843.path1,c591_f7p78_2002.path1,c6667_f1p4_2099.path1,c7862_f4p4_1865.path1,c8287_f1p63_2112.path1	10
AmTr_v1.0_scaffold00012	retained_exon	2842896	2842962	-	asmbl_1054	none	blat.proc4198.chain_30,c8097_f1p0_1693.path1	2	blat.proc4183.chain_25,c3284_f1p1_1987.path1	2
AmTr_v1.0_scaffold00002	spliced_intron	7062991	7063649	-	asmbl_232	none	blat.proc4171.chain_32,c496_f11p2_990.path1	2	blat.proc4223.chain_198,c8194_f1p1_3089.path1	2
AmTr_v1.0_scaffold00069	spliced_intron	189492	190971	-	asmbl_3836	none	blat.proc4145.chain_83,c1516_f4p1_827.path1	2	blat.proc4183.chain_188,c5065_f1p1_2379.path1	2
AmTr_v1.0_scaffold00089	starts_in_intron	677820	677820	-	asmbl_4329	none	blat.proc4231.chain_150,c13009_f1p6_2846.path1	2	blat.proc4219.chain_28,c563_f4p2_2992.path1	2
AmTr_v1.0_scaffold00033	spliced_intron	3802739	3803644	-	asmbl_2320	none	blat.proc4209.chain_25,c7777_f1p1_1155.path1	2	blat.proc4212.chain_244,c314_f5p2_2811.path1	2
AmTr_v1.0_scaffold00101	alt_acceptor	704298	704299	-	asmbl_4561,asmbl_4564	none	blat.proc4137.chain_113,blat.proc4137.chain_225,blat.proc4143.chain_129,blat.proc4143.chain_202,blat.proc4227.chain_158,c1111_f2p10_2780.path1,c4203_f1p3_1795.path1,c6236_f1p3_2160.path1,c7740_f1p12_2938.path1,c780_f5p1_974.path1	10	blat.proc4139.chain_112,blat.proc4139.chain_246,blat.proc4202.chain_92,blat.proc4209.chain_115,blat.proc4209.chain_55,blat.proc4223.chain_33,blat.proc4225.chain_188,blat.proc4227.chain_241,c1241_f2p4_1896.path1,c128_f3p5_3084.path1,c1358_f2p12_2815.path1,c37_f7p10_3023.path1,c487_f5p20_3215.path1,c4920_f1p4_2832.path1,c8485_f1p2_1679.path1,c9758_f1p4_1950.path1	16
AmTr_v1.0_scaffold00183	spliced_intron	471937	472828	+	asmbl_5460	none	blat.proc4171.chain_61,c646_f7p1_991.path1	2	blat.proc4131.chain_75,blat.proc4181.chain_253,c2915_f1p0_1790.path1,c3712_f1p0_1036.path1	4
AmTr_v1.0_scaffold00162	alternate_exon	497810	497854	+	asmbl_5273	none	blat.proc4183.chain_231,c5579_f1p1_1779.path1	2	blat.proc4202.chain_16,c1051_f3p1_1930.path1	2
AmTr_v1.0_scaffold00010	starts_in_intron	8003268	8003268	+	asmbl_957	none	blat.proc4169.chain_159,c15490_f1p2_1143.path1	2	blat.proc4171.chain_36,c514_f10p3_930.path1	2
AmTr_v1.0_scaffold00058	alt_donor	2452934	2452935	-	asmbl_3317	none	blat.proc4141.chain_255,c2662_f1p3_1767.path1	2	blat.proc4125.chain_16,blat.proc4131.chain_103,blat.proc4135.chain_207,blat.proc4135.chain_75,blat.proc4137.chain_260,blat.proc4137.chain_261,blat.proc4137.chain_76,blat.proc4139.chain_34,blat.proc4141.chain_11,blat.proc4200.chain_77,c1195_f1p2_1738.path1,c120_f3p2_1200.path1,c141_f2p0_1744.path1,c259_f2p5_1619.path1,c3360_f1p16_2033.path1,c34_f6p34_1948.path1,c4152_f1p4_1020.path1,c465_f9p2_1827.path1,c578_f1p6_2203.path1,c6782_f4p13_1814.path1,c6804_f3p1_1695.path1	21
AmTr_v1.0_scaffold00002	spliced_intron	7061399	7062234	-	asmbl_232	none	blat.proc4171.chain_32,c496_f11p2_990.path1	2	blat.proc4223.chain_198,c8194_f1p1_3089.path1	2
AmTr_v1.0_scaffold00039	retained_intron	3575183	3575396	-	asmbl_2522	none	blat.proc4179.chain_240,blat.proc4202.chain_42,blat.proc4205.chain_3,blat.proc4212.chain_140,blat.proc4212.chain_149,c1100_f2p7_2039.path1,c15799_f2p1_1803.path1,c15923_f1p8_1942.path1,c1604_f2p7_1770.path1,c1893_f3p5_1921.path1	10	blat.proc4192.chain_72,blat.proc4198.chain_153,c11288_f2p8_1646.path1,c15602_f2p3_1801.path1	4
AmTr_v1.0_scaffold00053	retained_intron	2722206	2722310	+	asmbl_3091,asmbl_3092,asmbl_3093	none	blat.proc4212.chain_236,blat.proc4212.chain_249,blat.proc4216.chain_235,blat.proc4223.chain_263,blat.proc4227.chain_59,c274_f5p7_2966.path1,c321_f5p5_2848.path1,c356_f7p7_3003.path1,c824_f3p7_3054.path1,c9570_f1p0_2952.path1	10	blat.proc4223.chain_96,blat.proc4227.chain_131,c1034_f2p0_2961.path1,c6041_f1p3_2727.path1	4
AmTr_v1.0_scaffold00135	ends_in_intron	790110	790110	+	asmbl_5033	none	blat.proc4127.chain_72,c732_f1p0_916.path1	2	blat.proc4190.chain_184,blat.proc4196.chain_226,blat.proc4212.chain_219,blat.proc4229.chain_71,c14075_f1p0_1698.path1,c1851_f1p9_2700.path1,c201_f8p7_2826.path1,c6696_f1p3_1809.path1	8
AmTr_v1.0_scaffold00015	starts_in_intron	7186572	7186572	-	asmbl_1221	none	blat.proc4169.chain_202,c17162_f1p1_911.path1	2	blat.proc4194.chain_26,blat.proc4205.chain_147,c1067_f2p4_1781.path1,c4607_f1p2_1710.path1,c923_f3p1_1920.path1	5
AmTr_v1.0_scaffold00059	alt_donor	1788859	1788860	-	asmbl_3397	none	blat.proc4177.chain_249,c995_f4p1_1905.path1	2	blat.proc4202.chain_117,c1361_f2p1_1991.path1	2
AmTr_v1.0_scaffold00025	alt_acceptor	6353305	6353306	-	asmbl_1992	none	blat.proc4209.chain_37,c8238_f1p2_1761.path1	2	blat.proc4185.chain_111,c7472_f1p3_1772.path1	2
AmTr_v1.0_scaffold00058	starts_in_intron	3371746	3371746	+	asmbl_3337	none	blat.proc4225.chain_22,c10207_f1p4_2705.path1	2	blat.proc4129.chain_111,c488_f2p3_1168.path1	2
AmTr_v1.0_scaffold00076	spliced_intron	3343042	3343161	+	asmbl_4024	none	blat.proc4135.chain_98,c157_f3p0_1935.path1	2	blat.proc4205.chain_210,c6137_f1p2_2056.path1	2
AmTr_v1.0_scaffold00004	starts_in_intron	1963825	1963825	+	asmbl_471	none	blat.proc4223.chain_38,c5026_f1p2_2899.path1	2	blat.proc4188.chain_76,c10247_f1p1_1815.path1	2
AmTr_v1.0_scaffold00072	spliced_intron	2773310	2773405	-	asmbl_3980	none	blat.proc4227.chain_238,c1347_f2p3_2719.path1	2	blat.proc4214.chain_67,blat.proc4216.chain_228,blat.proc4225.chain_140,c228_f14p5_2752.path1,c325_f6p7_2901.path1,c583_f2p5_2698.path1	6
AmTr_v1.0_scaffold00025	alt_acceptor	4513896	4513897	-	asmbl_1959	none	c181_f2p2_3245.path1	1	blat.proc4141.chain_137	1
AmTr_v1.0_scaffold00071	starts_in_intron	2037616	2037616	+	asmbl_3927	none	blat.proc4212.chain_173,c16401_f1p0_1948.path1	2	blat.proc4169.chain_79,c13233_f1p1_1002.path1	2
AmTr_v1.0_scaffold00003	spliced_intron	4133875	4134503	+	asmbl_382,asmbl_383	none	blat.proc4194.chain_81,blat.proc4196.chain_31,c1289_f2p1_1500.path1,c2263_f1p1_1680.path1	4	blat.proc4231.chain_34,c8935_f1p1_2818.path1	2
AmTr_v1.0_scaffold00071	alt_donor	3251705	3251706	-	asmbl_3953	none	blat.proc4216.chain_15,c5071_f1p0_2768.path1	2	blat.proc4177.chain_130,blat.proc4179.chain_168,blat.proc4202.chain_174,blat.proc4202.chain_82,c1210_f2p4_1805.path1,c1421_f2p1_1994.path1,c1569_f2p5_1806.path1,c658_f7p1_1907.path1	8
AmTr_v1.0_scaffold00016	retained_intron	6763381	6764265	+	asmbl_1299	none	blat.proc4188.chain_113,c10633_f1p1_1822.path1	2	blat.proc4205.chain_31,blat.proc4225.chain_240,blat.proc4231.chain_176,c13775_f1p6_2760.path1,c2060_f1p2_2108.path1,c621_f4p7_2953.path1	6
AmTr_v1.0_scaffold00117	alt_acceptor	19430	19431	-	asmbl_4842	none	blat.proc4127.chain_31,blat.proc4145.chain_158,c1983_f3p3_1057.path1,c289_f2p0_1028.path1	4	blat.proc4145.chain_141,c1860_f2p1_940.path1	2
AmTr_v1.0_scaffold00001	alt_acceptor	11686759	11686760	+	asmbl_126	none	blat.proc4188.chain_103,c10522_f1p0_2256.path1	2	blat.proc4145.chain_29,blat.proc4196.chain_4,blat.proc4225.chain_220,c1189_f3p2_1048.path1,c1918_f2p1_1937.path1,c576_f6p4_2951.path1	6
AmTr_v1.0_scaffold00131	retained_exon	619579	619689	+	asmbl_4985	none	blat.proc4188.chain_197,blat.proc4194.chain_243,c11523_f1p3_2127.path1,c1818_f2p1_1976.path1	4	blat.proc4185.chain_33,c6491_f1p3_2032.path1	2
AmTr_v1.0_scaffold00011	retained_intron	8788086	8788430	-	asmbl_1032	none	blat.proc4196.chain_176,c5404_f1p0_1936.path1	2	blat.proc4139.chain_12,c169_f2p0_1634.path1	2
AmTr_v1.0_scaffold00025	retained_exon	1499992	1500102	+	asmbl_1890	none	blat.proc4192.chain_160,c652_f5p4_1799.path1	2	blat.proc4196.chain_97,c3516_f1p2_1788.path1	2
AmTr_v1.0_scaffold00077	spliced_intron	1626191	1627340	+	asmbl_4052	none	blat.proc4177.chain_93,blat.proc4205.chain_203,c446_f17p2_1794.path1,c5849_f2p0_1782.path1	4	blat.proc4190.chain_30,blat.proc4227.chain_32,c12429_f1p2_1915.path1,c762_f3p1_2897.path1	4
AmTr_v1.0_scaffold00022	skipped_exon	3870496	3880971	-	asmbl_1695	none	blat.proc4205.chain_212,c6156_f1p10_2496.path1	2	blat.proc4181.chain_160,blat.proc4181.chain_167,blat.proc4190.chain_48,blat.proc4192.chain_119,blat.proc4192.chain_12,blat.proc4192.chain_164,blat.proc4194.chain_239,blat.proc4212.chain_48,blat.proc4216.chain_267,blat.proc4227.chain_115,blat.proc4227.chain_76,blat.proc4229.chain_131,blat.proc4231.chain_1,blat.proc4231.chain_214,blat.proc4231.chain_232,blat.proc4231.chain_236,blat.proc4231.chain_5,c12610_f1p11_2872.path1,c14026_f1p12_2494.path1,c14557_f2p88_3146.path1,c14709_f150p118_3032.path1,c14782_f7p38_2786.path1,c15001_f2p7_2497.path1,c1801_f2p9_2311.path1,c2088_f2p8_2630.path1,c2106_f2p6_2037.path1,c3063_f1p19_2677.path1,c479_f6p18_2233.path1,c490_f2p62_2916.path1,c662_f2p17_2338.path1,c7572_f2p16_2715.path1,c7647_f1p10_2984.path1,c858_f3p43_2827.path1,c979_f1p7_2728.path1	34
AmTr_v1.0_scaffold00024	alt_acceptor	750147	750148	+	asmbl_1787	none	blat.proc4229.chain_177,c4321_f1p7_2721.path1	2	blat.proc4212.chain_210,blat.proc4227.chain_28,c161_f10p3_2835.path1,c753_f3p8_2901.path1	4
AmTr_v1.0_scaffold00019	retained_intron	1064764	1065961	-	asmbl_1440	none	blat.proc4229.chain_57,c1696_f1p0_2816.path1	2	blat.proc4125.chain_101,blat.proc4200.chain_130,c1421_f1p0_976.path1,c661_f4p3_1663.path1	4
AmTr_v1.0_scaffold00009	spliced_intron	7252043	7252187	-	asmbl_815	none	blat.proc4196.chain_56,c2754_f1p1_1695.path1	2	blat.proc4181.chain_169,blat.proc4225.chain_213,blat.proc4227.chain_24,c2115_f2p0_1792.path1,c544_f3p2_2730.path1,c742_f2p2_2743.path1	6
AmTr_v1.0_scaffold00001	retained_intron	119814	120523	+	asmbl_4	none	blat.proc4221.chain_159,c2398_f1p2_2890.path1	2	blat.proc4125.chain_55,blat.proc4127.chain_150,blat.proc4127.chain_250,blat.proc4129.chain_222,blat.proc4129.chain_256,blat.proc4137.chain_255,blat.proc4143.chain_141,blat.proc4143.chain_200,blat.proc4143.chain_28,blat.proc4145.chain_153,blat.proc4169.chain_218,blat.proc4169.chain_244,blat.proc4171.chain_1,blat.proc4192.chain_7,blat.proc4192.chain_90,blat.proc4194.chain_41,blat.proc4196.chain_197,blat.proc4200.chain_45,blat.proc4212.chain_191,blat.proc4212.chain_194,blat.proc4212.chain_202,c1139_f2p16_1908.path1,c143_f4p6_1498.path1,c14969_f2p7_2079.path1,c15807_f4p109_1859.path1,c16654_f10p72_1753.path1,c16666_f100p87_1754.path1,c16714_f2p29_1622.path1,c17501_f16p15_998.path1,c17666_f11p16_1154.path1,c17781_f14p5_947.path1,c1917_f2p2_1166.path1,c2025_f1p3_1644.path1,c2507_f1p5_1316.path1,c265_f5p26_1652.path1,c2694_f1p2_1655.path1,c288_f4p12_1312.path1,c295_f2p3_1199.path1,c4289_f1p10_1621.path1,c5931_f1p11_1725.path1,c6681_f1p7_1722.path1,c760_f7p23_1141.path1	42
AmTr_v1.0_scaffold00033	spliced_intron	2958751	2958829	-	asmbl_2308	none	blat.proc4147.chain_103,c4809_f3p0_1091.path1	2	blat.proc4129.chain_163,c1002_f1p1_1211.path1	2
AmTr_v1.0_scaffold00138	skipped_exon	56307	58278	+	asmbl_5068	none	blat.proc4179.chain_247,c1617_f2p3_1969.path1	2	blat.proc4137.chain_28,blat.proc4179.chain_103,blat.proc4183.chain_242,blat.proc4194.chain_266,blat.proc4198.chain_211,blat.proc4200.chain_252,c1251_f3p5_2126.path1,c13005_f1p4_1858.path1,c14034_f1p4_2010.path1,c1902_f2p4_1932.path1,c2262_f1p2_2097.path1,c5729_f1p1_1725.path1,c969_f3p5_2226.path1	13
AmTr_v1.0_scaffold00041	retained_intron	634481	634568	+	asmbl_2602	none	blat.proc4202.chain_248,c1839_f2p7_1740.path1	2	blat.proc4131.chain_233,blat.proc4190.chain_210,blat.proc4192.chain_121,blat.proc4200.chain_9,c14307_f1p9_1551.path1,c15224_f1p9_1420.path1,c37_f6p5_1657.path1,c492_f7p17_1782.path1	8
AmTr_v1.0_scaffold00175	retained_exon	391244	391296	-	asmbl_5391	none	blat.proc4190.chain_213,c14323_f1p0_2045.path1	2	blat.proc4181.chain_57,blat.proc4202.chain_94,c1247_f2p1_1972.path1,c1843_f2p2_1816.path1	4
AmTr_v1.0_scaffold00002	spliced_intron	5590780	5590918	-	asmbl_207	none	blat.proc4179.chain_239,c1602_f2p0_1873.path1	2	blat.proc4133.chain_103,c4015_f1p1_1754.path1	2
AmTr_v1.0_scaffold00170	retained_exon	739385	739499	+	asmbl_5349	none	blat.proc4125.chain_143,blat.proc4129.chain_97,blat.proc4169.chain_180,c16233_f1p1_935.path1,c2251_f1p2_1093.path1,c462_f2p2_1154.path1	6	blat.proc4174.chain_69,c2539_f2p0_931.path1	2
AmTr_v1.0_scaffold00175	retained_intron	241435	241541	+	asmbl_5384	none	blat.proc4221.chain_141,c2092_f1p1_2646.path1	2	blat.proc4141.chain_169,blat.proc4143.chain_89,blat.proc4225.chain_167,blat.proc4225.chain_229,blat.proc4229.chain_128,c3003_f1p11_2679.path1,c338_f2p0_3184.path1,c420_f6p14_3022.path1,c596_f2p10_2896.path1,c6459_f1p5_3152.path1	10
AmTr_v1.0_scaffold00002	starts_in_intron	1275200	1275200	+	asmbl_151	none	blat.proc4216.chain_47,c6444_f1p3_2599.path1	2	blat.proc4214.chain_126,c844_f2p1_2920.path1	2
AmTr_v1.0_scaffold00090	spliced_intron	3092426	3092547	+	asmbl_4358	none	blat.proc4141.chain_43,blat.proc4190.chain_114,c13370_f1p0_1864.path1,c2960_f1p1_1328.path1	4	blat.proc4188.chain_193,c11496_f1p0_1629.path1	2
AmTr_v1.0_scaffold00071	alt_acceptor	2315360	2315361	-	asmbl_3932	none	blat.proc4212.chain_5,c13134_f1p5_1981.path1,c8509_f1p5_1807.path1	3	c6972_f1p3_1897.path1	1
AmTr_v1.0_scaffold00025	starts_in_intron	2153564	2153564	+	asmbl_1908	none	blat.proc4231.chain_41,c9157_f1p1_2834.path1	2	blat.proc4223.chain_154,blat.proc4223.chain_179,c7388_f1p6_3691.path1,c7804_f1p5_2801.path1	4
AmTr_v1.0_scaffold00087	alt_acceptor	442245	442246	-	asmbl_4272	none	blat.proc4131.chain_34,c3093_f1p2_1097.path1	2	blat.proc4139.chain_129,c229_f2p0_1237.path1	2
AmTr_v1.0_scaffold00025	alt_acceptor	2552429	2552430	+	asmbl_1910,asmbl_1912	none	blat.proc4185.chain_114,blat.proc4192.chain_92,blat.proc4200.chain_62,blat.proc4214.chain_82,c295_f16p6_1847.path1,c321_f14p7_1774.path1,c630_f3p4_2917.path1,c7517_f1p5_2059.path1	8	blat.proc4135.chain_57,c2591_f1p0_1792.path1	2
AmTr_v1.0_scaffold00044	retained_intron	460775	460876	-	asmbl_2667,asmbl_2668	none	blat.proc4137.chain_230,blat.proc4141.chain_9,blat.proc4223.chain_244,c248_f2p0_2998.path1,c6347_f1p3_2268.path1	5	blat.proc4143.chain_60	1
AmTr_v1.0_scaffold00109	retained_exon	2236235	2236290	-	asmbl_4752,asmbl_4754	none	blat.proc4181.chain_261,blat.proc4202.chain_154,c1486_f2p3_1955.path1,c2956_f1p0_2103.path1	4	blat.proc4137.chain_171,c5569_f1p1_2072.path1	2
AmTr_v1.0_scaffold00044	ends_in_intron	2025049	2025049	-	asmbl_2702	none	blat.proc4231.chain_100,c11487_f1p1_2623.path1	2	blat.proc4194.chain_252,c1851_f2p1_2138.path1	2
AmTr_v1.0_scaffold00010	alt_acceptor	664709	664710	-	asmbl_864	none	blat.proc4194.chain_262,c1888_f2p2_1797.path1	2	blat.proc4177.chain_127,blat.proc4200.chain_132,blat.proc4200.chain_184,c652_f8p2_2070.path1,c665_f4p2_1690.path1,c801_f1p2_1793.path1	6
AmTr_v1.0_scaffold00010	alt_donor	4299457	4299458	-	asmbl_902	none	blat.proc4198.chain_143,c10968_f1p0_2760.path1	2	blat.proc4131.chain_54,c3333_f1p1_1046.path1	2
AmTr_v1.0_scaffold00004	alternate_exon	1247786	1248512	+	asmbl_452	none	blat.proc4127.chain_113,blat.proc4135.chain_18,blat.proc4185.chain_186,c1749_f1p4_1081.path1,c384_f1p2_1823.path1,c8372_f1p4_2149.path1	6	blat.proc4143.chain_38,blat.proc4174.chain_115,c3982_f1p2_946.path1,c4694_f1p1_1604.path1	4
AmTr_v1.0_scaffold00030	retained_intron	16313	17067	+	asmbl_2144	none	blat.proc4183.chain_190,c5068_f1p0_2037.path1	2	blat.proc4129.chain_42,blat.proc4209.chain_97,c282_f2p1_1153.path1,c9298_f1p2_2100.path1	4
AmTr_v1.0_scaffold00015	spliced_intron	7288591	7288683	-	asmbl_1223	none	blat.proc4219.chain_168,c902_f2p5_2914.path1	2	blat.proc4139.chain_79,blat.proc4214.chain_62,blat.proc4225.chain_20,c10085_f1p5_2950.path1,c562_f3p4_2849.path1,c6418_f1p1_3388.path1	6
AmTr_v1.0_scaffold00039	spliced_intron	954629	954872	-	asmbl_2503	none	blat.proc4181.chain_139,blat.proc4194.chain_161,blat.proc4198.chain_256,blat.proc4200.chain_142,c14377_f1p4_1555.path1,c1547_f2p3_1873.path1,c2043_f2p5_1855.path1,c687_f5p3_1990.path1	8	c3169_f1p0_2149.path1	1
AmTr_v1.0_scaffold00044	starts_in_intron	3482871	3482871	-	asmbl_2711	none	blat.proc4177.chain_180,c805_f5p4_1725.path1	2	blat.proc4200.chain_163,c743_f4p1_1713.path1	2
AmTr_v1.0_scaffold00025	alt_acceptor	3107608	3107609	+	asmbl_1931	none	blat.proc4219.chain_259,c1110_f2p0_2809.path1	2	blat.proc4229.chain_85,c2049_f1p0_2813.path1	2
AmTr_v1.0_scaffold00006	retained_intron	8718184	8720012	-	asmbl_602	none	blat.proc4227.chain_167,c1142_f2p0_2655.path1	2	blat.proc4129.chain_87,c430_f2p0_1096.path1	2
AmTr_v1.0_scaffold00002	spliced_intron	8887457	8887525	-	asmbl_266,asmbl_267,asmbl_268	none	blat.proc4216.chain_150,blat.proc4216.chain_51,blat.proc4221.chain_201,blat.proc4223.chain_55,blat.proc4223.chain_79,blat.proc4225.chain_134,c10375_f1p6_2955.path1,c140_f22p11_2812.path1,c3206_f1p3_2993.path1,c5311_f1p4_2860.path1,c6564_f1p3_2741.path1	11	c9871_f1p1_2799.path1	1
AmTr_v1.0_scaffold00002	spliced_intron	2110730	2110818	-	asmbl_164	none	blat.proc4188.chain_245,c11939_f1p1_1769.path1	2	blat.proc4183.chain_126,blat.proc4194.chain_65,blat.proc4198.chain_100,c1217_f2p0_1962.path1,c4276_f1p1_2028.path1,c9814_f1p1_1872.path1	6
AmTr_v1.0_scaffold00039	spliced_intron	3575183	3575396	-	asmbl_2523	none	blat.proc4192.chain_72,blat.proc4198.chain_153,c11288_f2p8_1646.path1,c15602_f2p3_1801.path1	4	blat.proc4179.chain_240,blat.proc4202.chain_42,blat.proc4205.chain_3,blat.proc4212.chain_140,blat.proc4212.chain_149,c1100_f2p7_2039.path1,c15799_f2p1_1803.path1,c15923_f1p8_1942.path1,c1604_f2p7_1770.path1,c1893_f3p5_1921.path1	10
AmTr_v1.0_scaffold00049	alt_donor	1611084	1611085	-	asmbl_2976	none	blat.proc4143.chain_74,blat.proc4192.chain_235,c6027_f1p0_1919.path1,c875_f3p0_1806.path1	4	blat.proc4190.chain_69,c12860_f1p0_1781.path1	2
AmTr_v1.0_scaffold00019	retained_intron	7035030	7035106	+	asmbl_1535	none	c3236_f1p1_1254.path1	1	blat.proc4177.chain_100,blat.proc4192.chain_70,c15582_f5p1_1672.path1,c545_f4p1_1771.path1	4
AmTr_v1.0_scaffold00022	retained_intron	5699571	5699930	-	asmbl_1725	none	blat.proc4219.chain_85,c696_f3p0_2956.path1	2	blat.proc4131.chain_95,blat.proc4137.chain_99,blat.proc4147.chain_253,blat.proc4169.chain_210,blat.proc4183.chain_34,blat.proc4185.chain_193,blat.proc4188.chain_202,blat.proc4192.chain_88,blat.proc4209.chain_82,blat.proc4219.chain_27,c10586_f1p5_1053.path1,c11559_f1p6_2004.path1,c17393_f2p5_1067.path1,c214_f20p17_1802.path1,c3398_f1p6_1936.path1,c3950_f1p0_1384.path1,c4001_f1p1_1774.path1,c562_f4p0_2688.path1,c8453_f1p0_1803.path1,c9020_f1p9_1574.path1	20
AmTr_v1.0_scaffold00025	alt_acceptor	2155098	2155099	+	asmbl_1907	none	blat.proc4205.chain_2,blat.proc4223.chain_154,blat.proc4223.chain_179,c1892_f2p2_2115.path1,c7388_f1p6_3691.path1,c7804_f1p5_2801.path1	6	blat.proc4231.chain_41,c9157_f1p1_2834.path1	2
AmTr_v1.0_scaffold00011	alt_donor	5785151	5785152	-	asmbl_1008	none	blat.proc4188.chain_66,c10140_f1p1_1867.path1	2	blat.proc4188.chain_205,c11582_f1p0_1981.path1	2
AmTr_v1.0_scaffold00083	retained_intron	1805260	1805376	-	asmbl_4216	none	c1391_f2p0_2109.path1	1	blat.proc4131.chain_247,blat.proc4137.chain_110,blat.proc4196.chain_232,c126_f2p1_1975.path1,c4131_f1p1_1868.path1,c6752_f1p3_1581.path1	6
AmTr_v1.0_scaffold00049	skipped_exon	3503688	3512488	-	asmbl_2996	none	blat.proc4129.chain_28,c232_f3p1_1264.path1	2	blat.proc4209.chain_203,c11592_f1p0_1561.path1	2
AmTr_v1.0_scaffold00077	alt_acceptor	1394662	1394663	+	asmbl_4050	none	blat.proc4183.chain_107,c4118_f1p0_2110.path1	2	blat.proc4183.chain_213,blat.proc4223.chain_171,c5433_f1p0_2353.path1,c7672_f1p0_2835.path1	4
AmTr_v1.0_scaffold00033	retained_intron	2236555	2236643	+	asmbl_2299	none	blat.proc4209.chain_66,c8751_f1p1_1699.path1	2	blat.proc4125.chain_265,c97_f3p2_1371.path1	2
AmTr_v1.0_scaffold00003	ends_in_intron	11053769	11053769	-	asmbl_424	none	blat.proc4179.chain_73,c1198_f3p1_1870.path1	2	blat.proc4179.chain_227,c1567_f2p1_2447.path1	2
AmTr_v1.0_scaffold00077	starts_in_intron	122490	122490	+	asmbl_4029	none	blat.proc4188.chain_46,c9924_f1p0_1814.path1	2	blat.proc4190.chain_63,c12808_f1p1_1805.path1	2
AmTr_v1.0_scaffold00068	spliced_intron	404333	404419	+	asmbl_3793	none	blat.proc4221.chain_105,c1493_f1p1_2763.path1	2	blat.proc4227.chain_226,c1316_f2p7_2941.path1	2
AmTr_v1.0_scaffold00006	spliced_intron	1576011	1576793	-	asmbl_554	none	blat.proc4169.chain_46,c12330_f1p1_1119.path1	2	c9909_f1p0_2775.path1	1
AmTr_v1.0_scaffold00056	ends_in_intron	2844739	2844739	-	asmbl_3185	none	blat.proc4198.chain_267,c14860_f1p3_1733.path1	2	blat.proc4202.chain_222,c1753_f2p0_2017.path1	2
AmTr_v1.0_scaffold00059	alt_acceptor	1988897	1988898	+	asmbl_3403	none	blat.proc4219.chain_245,blat.proc4225.chain_199,c1088_f2p4_2765.path1,c512_f3p8_2901.path1	4	blat.proc4216.chain_205,c203_f14p3_2733.path1	2
AmTr_v1.0_scaffold00074	starts_in_intron	300999	300999	-	asmbl_3993	none	blat.proc4147.chain_114,c4987_f1p3_962.path1	2	blat.proc4174.chain_97,c3173_f1p1_1089.path1	2