VIGGS:Variant information

Chr04:48595118 - 48597432

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SNPs

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
48595138	C	T	45	1819.77	1.00	UPSTREAM(\|2892\|\|None\|Vigan.04G366800.01), UTR_5_PRIME(\|49\|\|None\|Vigan.04G366700.01)	Vigna nepalensis
48595193	G	A	57	2218.77	1.00	NON_SYNONYMOUS_CODING(MISSENSE\|Gac/Aac\|D3N\|None\|Vigan.04G366700.01), UPSTREAM(\|2837\|\|None\|Vigan.04G366800.01)	Vigna nepalensis
48595208	T	C	62	2454.77	1.00	SYNONYMOUS_CODING(SILENT\|Ttg/Ctg\|L8\|None\|Vigan.04G366700.01), UPSTREAM(\|2822\|\|None\|Vigan.04G366800.01)	Vigna nepalensis
48595320	T	G	53	2120.77	1.00	INTRON(\|\|\|None\|Vigan.04G366700.01), UPSTREAM(\|2710\|\|None\|Vigan.04G366800.01)	Vigna nepalensis
48595438	T	G	62	2437.77	1.00	INTRON(\|\|\|None\|Vigan.04G366700.01), UPSTREAM(\|2592\|\|None\|Vigan.04G366800.01)	Vigna nepalensis
48595651	A	C	59	2358.77	1.00	INTRON(\|\|\|None\|Vigan.04G366700.01), UPSTREAM(\|2379\|\|None\|Vigan.04G366800.01)	Vigna nepalensis
48595670	T	C	55	2220.77	1.00	INTRON(\|\|\|None\|Vigan.04G366700.01), UPSTREAM(\|2360\|\|None\|Vigan.04G366800.01)	Vigna nepalensis
48595884	G	A	51	2105.77	1.00	INTRON(\|\|\|None\|Vigan.04G366700.01), UPSTREAM(\|2146\|\|None\|Vigan.04G366800.01)	Vigna nepalensis
48596014	G	A	69	2703.77	1.00	INTRON(\|\|\|None\|Vigan.04G366700.01), UPSTREAM(\|2016\|\|None\|Vigan.04G366800.01)	Vigna nepalensis
48596062	C	A	77	3028.77	1.00	INTRON(\|\|\|None\|Vigan.04G366700.01), UPSTREAM(\|1968\|\|None\|Vigan.04G366800.01)	Vigna nepalensis
48596095	C	G	72	3311.77	1.00	INTRON(\|\|\|None\|Vigan.04G366700.01), UPSTREAM(\|1935\|\|None\|Vigan.04G366800.01)	Vigna nepalensis
48596106	C	T	72	3211.77	1.00	INTRON(\|\|\|None\|Vigan.04G366700.01), UPSTREAM(\|1924\|\|None\|Vigan.04G366800.01)	Vigna nepalensis
48596193	A	T	70	3332.77	1.00	INTRON(\|\|\|None\|Vigan.04G366700.01), UPSTREAM(\|1837\|\|None\|Vigan.04G366800.01)	Vigna nepalensis
48596624	G	T	57	2169.77	1.00	INTRON(\|\|\|None\|Vigan.04G366700.01), UPSTREAM(\|1406\|\|None\|Vigan.04G366800.01)	Vigna nepalensis
48596712	A	T	55	2245.77	1.00	INTRON(\|\|\|None\|Vigan.04G366700.01), UPSTREAM(\|1318\|\|None\|Vigan.04G366800.01)	Vigna nepalensis
48597022	G	C	44	1815.77	1.00	NON_SYNONYMOUS_CODING(MISSENSE\|caG/caC\|Q153H\|None\|Vigan.04G366700.01), UPSTREAM(\|1008\|\|None\|Vigan.04G366800.01)	Vigna nepalensis
48597146	T	C	55	2461.77	1.00	UPSTREAM(\|884\|\|None\|Vigan.04G366800.01), UTR_3_PRIME(\|85\|\|None\|Vigan.04G366700.01)	Vigna nepalensis
48597154	T	A	58	2557.77	1.00	UPSTREAM(\|876\|\|None\|Vigan.04G366800.01), UTR_3_PRIME(\|93\|\|None\|Vigan.04G366700.01)	Vigna nepalensis
48597207	G	A	55	2163.77	1.00	UPSTREAM(\|823\|\|None\|Vigan.04G366800.01), UTR_3_PRIME(\|146\|\|None\|Vigan.04G366700.01)	Vigna nepalensis
48597227	A	G	62	2370.77	1.00	UPSTREAM(\|803\|\|None\|Vigan.04G366800.01), UTR_3_PRIME(\|166\|\|None\|Vigan.04G366700.01)	Vigna nepalensis
48597278	C	G	66	2653.77	1.00	UPSTREAM(\|752\|\|None\|Vigan.04G366800.01), UTR_3_PRIME(\|217\|\|None\|Vigan.04G366700.01)	Vigna nepalensis
48597305	G	A	63	2591.77	1.00	UPSTREAM(\|725\|\|None\|Vigan.04G366800.01), UTR_3_PRIME(\|244\|\|None\|Vigan.04G366700.01)	Vigna nepalensis

Indels

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
48595121	G	GT	41	1424.73	1.00	UPSTREAM(\|2908\|\|None\|Vigan.04G366800.01), UTR_5_PRIME(\|65\|\|None\|Vigan.04G366700.01)	Vigna nepalensis
48595381	GA	G	64	2524.73	1.00	INTRON(\|\|\|None\|Vigan.04G366700.01), UPSTREAM(\|2648\|\|None\|Vigan.04G366800.01)	Vigna nepalensis
48596029	T	TTC	68	3143.73	1.00	INTRON(\|\|\|None\|Vigan.04G366700.01), UPSTREAM(\|2000\|\|None\|Vigan.04G366800.01)	Vigna nepalensis
48596123	AATATGG	A	74	3337.73	1.00	INTRON(\|\|\|None\|Vigan.04G366700.01), UPSTREAM(\|1906\|\|None\|Vigan.04G366800.01)	Vigna nepalensis
48596189	C	CG	71	3179.73	1.00	INTRON(\|\|\|None\|Vigan.04G366700.01), UPSTREAM(\|1840\|\|None\|Vigan.04G366800.01)	Vigna nepalensis
48596199	GAATATTCCGTGTAATTAAT	G	70	3111.73	1.00	INTRON(\|\|\|None\|Vigan.04G366700.01), UPSTREAM(\|1830\|\|None\|Vigan.04G366800.01)	Vigna nepalensis
48596289	TTTG	T	55	2399.73	1.00	INTRON(\|\|\|None\|Vigan.04G366700.01), UPSTREAM(\|1740\|\|None\|Vigan.04G366800.01)	Vigna nepalensis