VIGGS:Variant information

Chr01:8503713 - 8506006

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SNPs

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
8503727	A	G	53	2376.77	1.00	UPSTREAM(\|2710\|\|None\|Vigan.01G100600.01), UTR_3_PRIME(\|223\|\|None\|Vigan.01G100500.01)	Vigna nepalensis
8503733	A	T	51	2441.77	1.00	UPSTREAM(\|2704\|\|None\|Vigan.01G100600.01), UTR_3_PRIME(\|217\|\|None\|Vigan.01G100500.01)	Vigna nepalensis
8503736	C	G	52	2334.77	1.00	UPSTREAM(\|2701\|\|None\|Vigan.01G100600.01), UTR_3_PRIME(\|214\|\|None\|Vigan.01G100500.01)	Vigna nepalensis
8503768	G	T	44	1694.77	1.00	UPSTREAM(\|2669\|\|None\|Vigan.01G100600.01), UTR_3_PRIME(\|182\|\|None\|Vigan.01G100500.01)	Vigna nepalensis
8503865	T	A	57	2300.77	1.00	UPSTREAM(\|2572\|\|None\|Vigan.01G100600.01), UTR_3_PRIME(\|85\|\|None\|Vigan.01G100500.01)	Vigna nepalensis
8503886	A	G	49	1969.77	1.00	UPSTREAM(\|2551\|\|None\|Vigan.01G100600.01), UTR_3_PRIME(\|64\|\|None\|Vigan.01G100500.01)	Vigna nepalensis
8503910	G	C	51	1946.77	1.00	UPSTREAM(\|2527\|\|None\|Vigan.01G100600.01), UTR_3_PRIME(\|40\|\|None\|Vigan.01G100500.01)	Vigna nepalensis
8503953	A	G	49	1879.77	1.00	SYNONYMOUS_CODING(SILENT\|ttT/ttC\|F106\|None\|Vigan.01G100500.01), UPSTREAM(\|2484\|\|None\|Vigan.01G100600.01)	Vigna nepalensis
8504112	A	G	64	2491.77	1.00	SYNONYMOUS_CODING(SILENT\|gaT/gaC\|D53\|None\|Vigan.01G100500.01), UPSTREAM(\|2325\|\|None\|Vigan.01G100600.01)	Vigna nepalensis
8504351	C	T	59	2634.77	1.00	INTRON(\|\|\|None\|Vigan.01G100500.01), UPSTREAM(\|2086\|\|None\|Vigan.01G100600.01)	Vigna nepalensis
8504593	C	T	59	2378.77	1.00	INTRON(\|\|\|None\|Vigan.01G100500.01), UPSTREAM(\|1844\|\|None\|Vigan.01G100600.01)	Vigna nepalensis
8504646	T	C	65	2525.77	1.00	INTRON(\|\|\|None\|Vigan.01G100500.01), UPSTREAM(\|1791\|\|None\|Vigan.01G100600.01)	Vigna nepalensis
8504672	T	G	67	2674.77	1.00	INTRON(\|\|\|None\|Vigan.01G100500.01), UPSTREAM(\|1765\|\|None\|Vigan.01G100600.01)	Vigna nepalensis
8504776	T	C	40	1643.77	1.00	INTRON(\|\|\|None\|Vigan.01G100500.01), UPSTREAM(\|1661\|\|None\|Vigan.01G100600.01)	Vigna nepalensis
8504821	G	C	48	1889.77	1.00	INTRON(\|\|\|None\|Vigan.01G100500.01), UPSTREAM(\|1616\|\|None\|Vigan.01G100600.01)	Vigna nepalensis
8504916	T	C	56	2257.77	1.00	INTRON(\|\|\|None\|Vigan.01G100500.01), UPSTREAM(\|1521\|\|None\|Vigan.01G100600.01)	Vigna nepalensis
8504938	T	C	50	1940.77	1.00	INTRON(\|\|\|None\|Vigan.01G100500.01), UPSTREAM(\|1499\|\|None\|Vigan.01G100600.01)	Vigna nepalensis
8504978	C	A	48	1966.77	1.00	INTRON(\|\|\|None\|Vigan.01G100500.01), UPSTREAM(\|1459\|\|None\|Vigan.01G100600.01)	Vigna nepalensis
8505046	T	A	44	1719.77	1.00	INTRON(\|\|\|None\|Vigan.01G100500.01), UPSTREAM(\|1391\|\|None\|Vigan.01G100600.01)	Vigna nepalensis
8505253	A	C	52	1836.77	0.98	INTRON(\|\|\|None\|Vigan.01G100500.01), UPSTREAM(\|1184\|\|None\|Vigan.01G100600.01)	Vigna nepalensis
8505376	A	C	65	2831.77	1.00	INTRON(\|\|\|None\|Vigan.01G100500.01), UPSTREAM(\|1061\|\|None\|Vigan.01G100600.01)	Vigna nepalensis
8505391	A	T	59	2698.77	1.00	INTRON(\|\|\|None\|Vigan.01G100500.01), UPSTREAM(\|1046\|\|None\|Vigan.01G100600.01)	Vigna nepalensis
8505669	A	C	37	1485.77	1.00	START_GAINED(\|\|\|None\|Vigan.01G100500.01), UPSTREAM(\|768\|\|None\|Vigan.01G100600.01), UTR_5_PRIME(\|128\|\|None\|Vigan.01G100500.01)	Vigna nepalensis
8505809	C	G	62	2450.77	1.00	UPSTREAM(\|628\|\|None\|Vigan.01G100600.01), UTR_5_PRIME(\|268\|\|None\|Vigan.01G100500.01)	Vigna nepalensis
8505906	T	A	60	2747.77	1.00	UPSTREAM(\|531\|\|None\|Vigan.01G100600.01), UTR_5_PRIME(\|365\|\|None\|Vigan.01G100500.01)	Vigna nepalensis
8505928	T	C	56	2516.77	1.00	START_GAINED(\|\|\|None\|Vigan.01G100500.01), UPSTREAM(\|509\|\|None\|Vigan.01G100600.01), UTR_5_PRIME(\|387\|\|None\|Vigan.01G100500.01)	Vigna nepalensis

Indels

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
8503729	A	AT	52	2502.73	1.00	UPSTREAM(\|2707\|\|None\|Vigan.01G100600.01), UTR_3_PRIME(\|220\|\|None\|Vigan.01G100500.01)	Vigna nepalensis
8504343	A	AATGTTTCATAAAAGAGTGTAAAGCATC	57	3466.73	1.00	INTRON(\|\|\|None\|Vigan.01G100500.01), UPSTREAM(\|2093\|\|None\|Vigan.01G100600.01)	Vigna nepalensis
8504863	AT	A	54	1890.73	1.00	INTRON(\|\|\|None\|Vigan.01G100500.01), UPSTREAM(\|1573\|\|None\|Vigan.01G100600.01)	Vigna nepalensis
8505578	G	GA	41	1264.73	1.00	UPSTREAM(\|858\|\|None\|Vigan.01G100600.01), UTR_5_PRIME(\|38\|\|None\|Vigan.01G100500.01)	Vigna nepalensis
8505904	CG	C	58	2693.73	1.00	UPSTREAM(\|532\|\|None\|Vigan.01G100600.01), UTR_5_PRIME(\|364\|\|None\|Vigan.01G100500.01)	Vigna nepalensis