VIGGS:Variant information

Chr01:37437802 - 37450720

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SNPs

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
37437922	A	G	44	1740.77	1.00	UTR_3_PRIME(\|698\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37438242	C	T	62	2445.77	1.00	UTR_3_PRIME(\|378\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37438364	G	A	58	2224.77	1.00	UTR_3_PRIME(\|256\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37438386	A	T	55	2160.77	1.00	UTR_3_PRIME(\|234\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37438491	C	G	46	1829.77	1.00	UTR_3_PRIME(\|129\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37438572	A	G	49	2118.77	1.00	UTR_3_PRIME(\|48\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37438594	A	G	45	2041.77	1.00	UTR_3_PRIME(\|26\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37438649	G	A	47	1896.77	1.00	NON_SYNONYMOUS_CODING(MISSENSE\|Cct/Tct\|P317S\|None\|Vigan.01G263800.01)	Vigna nepalensis
37439042	T	A	41	1683.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37439304	C	A	52	2019.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37439750	C	T	38	1336.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37440054	C	A	45	1749.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37440223	A	G	45	1738.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37440255	A	G	49	1957.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37440318	A	G	56	2136.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37440440	T	A	49	1905.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37440457	C	A	48	1869.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37440739	C	G	66	2708.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37441340	C	T	61	2322.77	0.98	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37441568	C	G	58	2206.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37441959	T	A	64	2634.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37442057	C	A	44	1742.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37442086	A	G	47	1765.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37442203	A	G	30	1269.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37442216	C	T	31	1545.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37442240	A	G	36	1591.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37442259	G	A	32	1411.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37442293	C	A	19	813.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37445178	C	T	18	722.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37445257	C	T	28	1036.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37445309	C	T	31	1287.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37445345	A	G	40	1618.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37445399	G	A	43	1844.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37445435	A	C	52	2290.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37445478	G	C	56	2300.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37445624	C	T	45	2073.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37445625	T	C	46	2073.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37445630	T	C	47	2141.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37445733	G	A	59	2651.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37445738	T	C	57	2614.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37445765	C	T	58	2583.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37445776	C	T	55	2417.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37445939	A	G	69	2747.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37445971	G	A	70	2860.77	0.97	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37445992	T	A	69	2719.77	0.94	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446032	C	T	56	195.77	0.12	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446048	T	A, G	44	2184.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446049	C	T	52	2383.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446056	G	T	49	1562.77	0.78	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446082	G	A	35	1424.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446098	C	T	27	250.77	0.30	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446103	T	G	26	253.77	0.31	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446109	T	G	23	259.77	0.35	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446113	C	T	23	262.77	0.35	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446299	C	A	36	1485.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446380	T	C	50	2246.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446405	G	T	59	2556.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446484	G	A	56	2455.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446506	A	G	58	2626.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446520	A	G	61	2756.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446534	A	G	72	3154.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446567	G	A	60	2079.77	0.87	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446576	A	C	55	2220.77	0.91	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446577	T	C	57	2607.73	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446589	C	T	62	2202.77	0.81	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446601	G	A	64	2247.77	0.83	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446609	C	T	67	2325.77	0.82	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446621	A	C	64	2240.77	0.81	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446638	G	T	60	2261.77	0.93	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446686	G	A	61	2255.77	0.92	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446706	C	T	54	2040.77	0.87	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446708	A	G	54	2092.77	0.91	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446727	T	C	47	2019.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446793	T	C	49	2254.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446796	A	C	52	2279.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446831	A	G	52	2298.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446833	T	G	51	2298.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447014	T	C	56	2474.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447018	C	T	54	2509.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447039	C	A	57	2256.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447057	C	G	57	2605.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447066	G	A	57	2565.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447102	G	A	65	2568.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447116	C	A	67	2674.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447149	T	C	76	2959.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447177	A	C	65	2537.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447217	A	G	51	2068.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447304	C	T	59	2352.77	0.98	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447334	C	T	61	2626.77	0.98	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447336	A	G	61	2626.77	0.98	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447375	A	G	51	2184.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447382	G	T	49	2155.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447441	C	T	50	2042.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447485	G	T	43	1778.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447497	G	T	45	1779.77	0.96	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447505	G	A	40	1656.77	0.95	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447540	T	C	42	1633.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447580	A	C	38	1491.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447625	A	C	38	1716.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447673	T	C	35	1591.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447693	G	A	37	1681.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447710	T	C	36	1591.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447712	G	A	35	1591.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447720	G	A	36	1681.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447733	A	C	43	1951.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447744	C	T	45	2073.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447745	C	T	47	2073.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447798	G	A	77	2918.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447862	A	G	73	3178.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447875	C	T	74	3301.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447884	G	A	69	3335.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447891	G	A	72	3181.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447983	C	T	74	2726.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37448001	A	T	76	3078.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37448050	G	A	81	3474.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37448072	G	A	73	3430.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37448105	A	G	70	3165.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37448116	T	C	66	2988.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37448241	G	T	61	2851.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37448284	A	G	57	2264.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37448317	G	A	56	2218.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37448349	T	C	46	1894.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37448492	G	A	51	2373.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37448530	A	G	55	2184.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37448624	C	T	52	2076.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37448648	A	G	50	2108.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37449072	C	T	71	2687.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37449091	A	G	78	2986.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37449119	G	T	77	2996.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37449131	T	C	80	3055.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37449178	G	C	67	2685.77	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37449251	A	G	67	2656.77	1.00	NON_SYNONYMOUS_CODING(MISSENSE\|Tac/Cac\|Y230H\|None\|Vigan.01G263800.01)	Vigna nepalensis
37449992	T	G	56	2136.77	1.00	DOWNSTREAM(\|4532\|\|None\|Vigan.01G263900.01), INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37450287	C	T	60	2304.77	1.00	DOWNSTREAM(\|4237\|\|None\|Vigan.01G263900.01), UTR_5_PRIME(\|59\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37450358	C	T	56	2212.77	1.00	DOWNSTREAM(\|4166\|\|None\|Vigan.01G263900.01), START_GAINED(\|\|\|None\|Vigan.01G263800.01), UTR_5_PRIME(\|130\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37450373	G	C	49	2050.77	1.00	DOWNSTREAM(\|4151\|\|None\|Vigan.01G263900.01), START_GAINED(\|\|\|None\|Vigan.01G263800.01), UTR_5_PRIME(\|145\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37450636	G	C	43	1929.77	1.00	DOWNSTREAM(\|3888\|\|None\|Vigan.01G263900.01), START_GAINED(\|\|\|None\|Vigan.01G263800.01), UTR_5_PRIME(\|408\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37450652	C	T	45	2143.77	1.00	DOWNSTREAM(\|3872\|\|None\|Vigan.01G263900.01), UTR_5_PRIME(\|424\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37450666	T	G	50	2200.77	1.00	DOWNSTREAM(\|3858\|\|None\|Vigan.01G263900.01), UTR_5_PRIME(\|438\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37450702	G	T	47	1917.77	1.00	DOWNSTREAM(\|3822\|\|None\|Vigan.01G263900.01), UTR_5_PRIME(\|474\|\|None\|Vigan.01G263800.01)	Vigna nepalensis

Indels

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
37437907	A	AATT	42	1852.73	1.00	UTR_3_PRIME(\|712\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37440226	GA	G	38	1044.73	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37441206	GA	G	60	2206.73	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37441632	A	AGT	60	2663.73	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37442132	AC	A	37	1460.73	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37442309	T	TAAATTATC	15	637.73	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37442311	G	GAGGCTAATTATTTTTA	5	637.73	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37445411	CCA	C	45	2084.73	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37445769	GA	G	55	2561.73	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37446133	T	TTTTAAAAGCATG	10	199.73	0.60	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447247	G	GC	45	1585.73	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37447629	C	CCTT	38	1707.73	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37448172	TTGATTAGGGTCATGGTTG	T	62	2712.73	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37448192	TTAATCC	T	60	2711.73	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37448417	A	AC	42	1200.73	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37448467	AGACGACCTAGGAGT	A	52	2303.73	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37448710	G	GT	64	2178.73	1.00	INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis
37449671	TA	T	62	1819.73	1.00	DOWNSTREAM(\|4852\|\|None\|Vigan.01G263900.01), INTRON(\|\|\|None\|Vigan.01G263800.01)	Vigna nepalensis