VIGGS:Variant information

Chr05:15384034 - 15388711

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SNPs

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
15384116	A	C	53	2344.77	1.00	UTR_5_PRIME(\|99\|\|None\|Vigan.05G179500.01)	Vigna nepalensis
15384314	C	A	58	2266.77	1.00	INTRON(\|\|\|None\|Vigan.05G179500.01)	Vigna nepalensis
15384545	G	A	56	2230.77	1.00	INTRON(\|\|\|None\|Vigan.05G179500.01)	Vigna nepalensis
15384615	T	G	61	2406.77	1.00	INTRON(\|\|\|None\|Vigan.05G179500.01)	Vigna nepalensis
15384694	G	A	71	2789.77	1.00	INTRON(\|\|\|None\|Vigan.05G179500.01)	Vigna nepalensis
15384741	T	C	78	2912.77	1.00	DOWNSTREAM(\|4968\|\|None\|Vigan.05G179600.01), INTRON(\|\|\|None\|Vigan.05G179500.01)	Vigna nepalensis
15384824	A	G	69	2630.77	1.00	DOWNSTREAM(\|4885\|\|None\|Vigan.05G179600.01), INTRON(\|\|\|None\|Vigan.05G179500.01)	Vigna nepalensis
15384869	G	A	69	2666.77	1.00	DOWNSTREAM(\|4840\|\|None\|Vigan.05G179600.01), INTRON(\|\|\|None\|Vigan.05G179500.01)	Vigna nepalensis
15385055	A	G	72	2945.77	1.00	DOWNSTREAM(\|4654\|\|None\|Vigan.05G179600.01), INTRON(\|\|\|None\|Vigan.05G179500.01)	Vigna nepalensis
15385214	A	C	62	2483.77	1.00	DOWNSTREAM(\|4495\|\|None\|Vigan.05G179600.01), INTRON(\|\|\|None\|Vigan.05G179500.01)	Vigna nepalensis
15385252	C	T	52	2161.77	1.00	DOWNSTREAM(\|4457\|\|None\|Vigan.05G179600.01), INTRON(\|\|\|None\|Vigan.05G179500.01), SPLICE_SITE_REGION(\|\|\|None\|Vigan.05G179500.01)	Vigna nepalensis
15385579	T	A	72	2744.77	1.00	DOWNSTREAM(\|4130\|\|None\|Vigan.05G179600.01), INTRON(\|\|\|None\|Vigan.05G179500.01)	Vigna nepalensis
15386209	A	C	50	2311.77	1.00	DOWNSTREAM(\|3500\|\|None\|Vigan.05G179600.01), SYNONYMOUS_CODING(SILENT\|ctA/ctC\|L151\|None\|Vigan.05G179500.01)	Vigna nepalensis
15386212	T	C	53	2437.77	1.00	DOWNSTREAM(\|3497\|\|None\|Vigan.05G179600.01), SPLICE_SITE_REGION(\|\|\|None\|Vigan.05G179500.01), SYNONYMOUS_CODING(SILENT\|gaT/gaC\|D152\|None\|Vigan.05G179500.01)	Vigna nepalensis
15386222	A	C	55	2412.77	1.00	DOWNSTREAM(\|3487\|\|None\|Vigan.05G179600.01), INTRON(\|\|\|None\|Vigan.05G179500.01)	Vigna nepalensis
15386332	G	C	51	2018.77	1.00	DOWNSTREAM(\|3377\|\|None\|Vigan.05G179600.01), SYNONYMOUS_CODING(SILENT\|gtG/gtC\|V155\|None\|Vigan.05G179500.01)	Vigna nepalensis
15386557	G	T	44	1812.77	1.00	DOWNSTREAM(\|3152\|\|None\|Vigan.05G179600.01), INTRON(\|\|\|None\|Vigan.05G179500.01)	Vigna nepalensis
15386621	T	C	60	2378.77	1.00	DOWNSTREAM(\|3088\|\|None\|Vigan.05G179600.01), INTRON(\|\|\|None\|Vigan.05G179500.01)	Vigna nepalensis
15387610	A	G	55	2419.77	1.00	DOWNSTREAM(\|2099\|\|None\|Vigan.05G179600.01), NON_SYNONYMOUS_CODING(MISSENSE\|Aaa/Gaa\|K405E\|None\|Vigan.05G179500.01)	Vigna nepalensis
15387622	G	A	58	2529.77	1.00	DOWNSTREAM(\|2087\|\|None\|Vigan.05G179600.01), NON_SYNONYMOUS_CODING(MISSENSE\|Gac/Aac\|D409N\|None\|Vigan.05G179500.01)	Vigna nepalensis
15387696	T	A	52	2279.77	1.00	DOWNSTREAM(\|2013\|\|None\|Vigan.05G179600.01), INTRON(\|\|\|None\|Vigan.05G179500.01)	Vigna nepalensis
15387717	C	A	52	2267.77	1.00	DOWNSTREAM(\|1992\|\|None\|Vigan.05G179600.01), INTRON(\|\|\|None\|Vigan.05G179500.01)	Vigna nepalensis

Indels

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
15384110	C	CT	50	2335.73	1.00	UTR_5_PRIME(\|104\|\|None\|Vigan.05G179500.01)	Vigna nepalensis
15384208	TAACGC	T	44	1942.73	1.00	UTR_5_PRIME(\|2\|\|None\|Vigan.05G179500.01)	Vigna nepalensis
15388580	C	CT	55	1917.73	1.00	DOWNSTREAM(\|1128\|\|None\|Vigan.05G179600.01), UTR_3_PRIME(\|113\|\|None\|Vigan.05G179500.01)	Vigna nepalensis