VIGGS:Variant information

Chr05:3518252 - 3519735

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[SNPs] [Indels]

SNPs

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
3518643	A	T	63	996.77	0.43	INTRON(\|\|\|None\|Vigan.05G049500.01), UPSTREAM(\|2330\|\|None\|Vigan.05G049600.01)	Vigna nepalensis
3518687	G	A	89	1880.77	0.57	INTRON(\|\|\|None\|Vigan.05G049500.01), UPSTREAM(\|2286\|\|None\|Vigan.05G049600.01)	Vigna nepalensis
3518695	G	A	83	1360.77	0.45	INTRON(\|\|\|None\|Vigan.05G049500.01), UPSTREAM(\|2278\|\|None\|Vigan.05G049600.01)	Vigna nepalensis
3518747	G	A	80	790.77	0.29	INTRON(\|\|\|None\|Vigan.05G049500.01), UPSTREAM(\|2226\|\|None\|Vigan.05G049600.01)	Vigna nepalensis
3518762	T	A	73	662.77	0.27	INTRON(\|\|\|None\|Vigan.05G049500.01), UPSTREAM(\|2211\|\|None\|Vigan.05G049600.01)	Vigna nepalensis
3518801	G	A	83	555.77	0.28	INTRON(\|\|\|None\|Vigan.05G049500.01), UPSTREAM(\|2172\|\|None\|Vigan.05G049600.01)	Vigna nepalensis
3518811	T	A	84	3746.77	1.00	INTRON(\|\|\|None\|Vigan.05G049500.01), UPSTREAM(\|2162\|\|None\|Vigan.05G049600.01)	Vigna nepalensis
3518838	G	A	100	2151.77	0.65	INTRON(\|\|\|None\|Vigan.05G049500.01), UPSTREAM(\|2135\|\|None\|Vigan.05G049600.01)	Vigna nepalensis
3518844	C	T	97	882.77	0.35	INTRON(\|\|\|None\|Vigan.05G049500.01), SPLICE_SITE_REGION(\|\|\|None\|Vigan.05G049500.01), UPSTREAM(\|2129\|\|None\|Vigan.05G049600.01)	Vigna nepalensis
3518994	A	G	83	212.77	0.14	INTRON(\|\|\|None\|Vigan.05G049500.01), SPLICE_SITE_REGION(\|\|\|None\|Vigan.05G049500.01), UPSTREAM(\|1979\|\|None\|Vigan.05G049600.01)	Vigna nepalensis
3519125	A	T	69	2695.77	1.00	DOWNSTREAM(\|4879\|\|None\|Vigan.05G049700.01), INTRON(\|\|\|None\|Vigan.05G049500.01), UPSTREAM(\|1848\|\|None\|Vigan.05G049600.01)	Vigna nepalensis
3519164	A	T	59	2318.77	1.00	DOWNSTREAM(\|4840\|\|None\|Vigan.05G049700.01), INTRON(\|\|\|None\|Vigan.05G049500.01), UPSTREAM(\|1809\|\|None\|Vigan.05G049600.01)	Vigna nepalensis
3519266	G	A	82	505.77	0.21	DOWNSTREAM(\|4738\|\|None\|Vigan.05G049700.01), SYNONYMOUS_CODING(SILENT\|gtG/gtA\|V173\|None\|Vigan.05G049500.01), UPSTREAM(\|1707\|\|None\|Vigan.05G049600.01)	Vigna nepalensis

Indels

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
3518640	TAAAAAAAA	T, TAAAAAA	36	2859.73	1.00	INTRON(\|\|\|None\|Vigan.05G049500.01), UPSTREAM(\|2326\|\|None\|Vigan.05G049600.01), UPSTREAM(\|2332\|\|None\|Vigan.05G049600.01)	Vigna nepalensis
3518648	A	ATTTT	65	1492.73	0.55	INTRON(\|\|\|None\|Vigan.05G049500.01), UPSTREAM(\|2324\|\|None\|Vigan.05G049600.01)	Vigna nepalensis
3518721	T	TCGA	78	1074.73	0.37	INTRON(\|\|\|None\|Vigan.05G049500.01), UPSTREAM(\|2251\|\|None\|Vigan.05G049600.01)	Vigna nepalensis
3518723	G	GTTA	76	1110.73	0.36	INTRON(\|\|\|None\|Vigan.05G049500.01), UPSTREAM(\|2249\|\|None\|Vigan.05G049600.01)	Vigna nepalensis