VIGGS:Variant information

Chr03:29347879 - 29359413

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SNPs

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
29348248	A	T	38	907.77	0.95	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29348640	G	A	43	1614.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29348764	T	G	56	2286.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29349317	T	A	53	2142.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29349428	A	T	54	2154.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29349868	T	C	57	2230.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29349913	C	A	66	2611.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29349924	C	A	65	2922.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29349925	A	T	66	2922.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29350447	G	A	54	2192.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29350473	T	C	49	2054.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29350786	G	T	57	2373.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29350810	A	T	54	2178.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29350885	T	C	59	2391.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29351022	T	A	49	2198.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29351030	A	T	48	2142.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29351182	T	A	53	2085.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29351363	C	T	72	2887.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29351428	G	A	66	2613.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29351534	G	A	66	2684.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29351716	T	C	63	2485.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29351992	T	C	56	2518.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29352000	C	T	56	2459.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01), SPLICE_SITE_REGION(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29352616	C	G	50	1975.77	1.00	NON_SYNONYMOUS_CODING(MISSENSE\|Caa/Gaa\|Q346E\|None\|Vigan.03G189400.01)	Vigna nepalensis
29352751	C	G	51	2261.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29352752	G	A	51	2261.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29353500	A	G	41	1544.77	0.98	SYNONYMOUS_CODING(SILENT\|gcA/gcG\|A379\|None\|Vigan.03G189400.01)	Vigna nepalensis
29353792	C	G	48	1879.77	1.00	SYNONYMOUS_CODING(SILENT\|gtC/gtG\|V429\|None\|Vigan.03G189400.01)	Vigna nepalensis
29354214	T	C	39	1710.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29354215	G	A	37	1710.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29354226	G	T	37	1505.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29354348	G	T	58	2253.77	1.00	SYNONYMOUS_CODING(SILENT\|gtG/gtT\|V511\|None\|Vigan.03G189400.01)	Vigna nepalensis
29354383	G	A	52	2089.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29354608	C	A	69	2719.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29354647	A	T	70	2856.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29354907	C	T	64	2460.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29355261	T	A	47	1877.77	1.00	SYNONYMOUS_CODING(SILENT\|gcT/gcA\|A601\|None\|Vigan.03G189400.01)	Vigna nepalensis
29355465	C	T	61	2754.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29355475	A	T	62	2754.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29355548	C	G	60	2417.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29355953	A	C	60	2396.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29356085	C	T	53	2114.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29356267	T	G	56	2266.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29356541	A	G	46	1840.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29356579	T	C	45	1855.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29356627	T	A	55	2419.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29356649	G	A	56	2575.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29356652	G	T	55	2530.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29356755	T	G	50	1905.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29356804	T	C	41	1594.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29356855	A	C	43	1658.77	1.00	SYNONYMOUS_CODING(SILENT\|ggA/ggC\|G740\|None\|Vigan.03G189400.01)	Vigna nepalensis
29357045	T	A	49	2188.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29357049	A	G	50	2227.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29357129	C	T	47	1995.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29357151	A	G	51	2261.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29357259	A	G	67	2798.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29357361	G	A	62	2713.77	1.00	NON_SYNONYMOUS_CODING(MISSENSE\|Gca/Aca\|A811T\|None\|Vigan.03G189400.01)	Vigna nepalensis
29357367	G	T	58	2671.77	1.00	NON_SYNONYMOUS_CODING(MISSENSE\|Gta/Tta\|V813L\|None\|Vigan.03G189400.01)	Vigna nepalensis
29357423	G	T	49	2043.77	1.00	SYNONYMOUS_CODING(SILENT\|acG/acT\|T831\|None\|Vigan.03G189400.01)	Vigna nepalensis
29357548	T	G	55	2186.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29357620	G	C	43	1871.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29357650	G	T	42	1875.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29357711	T	A	35	1421.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29357855	T	C	43	1712.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29357867	C	A	40	1616.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29357940	G	A	51	1899.77	1.00	SYNONYMOUS_CODING(SILENT\|ctG/ctA\|L870\|None\|Vigan.03G189400.01)	Vigna nepalensis
29358007	G	T	50	1963.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29358050	G	C	49	2016.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29358082	A	C	58	2400.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29358137	A	G	51	2027.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29358526	G	T	50	2009.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29358915	G	T	65	2579.77	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29359170	T	G	44	1755.77	1.00	UTR_3_PRIME(\|18\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29359303	C	T	58	2383.77	1.00	UTR_3_PRIME(\|151\|\|None\|Vigan.03G189400.01)	Vigna nepalensis

Indels

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
29348207	G	GT	51	1530.73	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29352478	CT	C	50	1373.73	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29354577	T	TTGTGTTGTAA	64	3000.73	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29355843	TA	T	67	2656.73	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29356639	GAA	G	53	2566.73	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29357622	CTTTT	C	43	1862.73	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis
29358645	GAAAATAAATAAGAAA	G	55	2353.73	1.00	INTRON(\|\|\|None\|Vigan.03G189400.01)	Vigna nepalensis