VIGGS:Variant information

Chr04:50990938 - 50994263

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SNPs

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
50991045	G	A	54	2091.77	1.00	SYNONYMOUS_CODING(SILENT\|aaG/aaA\|K11\|None\|Vigan.04G397000.01)	Vigna nepalensis
50991303	C	A	45	1757.77	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01)	Vigna nepalensis
50991455	T	G	42	1634.77	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01)	Vigna nepalensis
50991648	T	A	59	2256.77	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01)	Vigna nepalensis
50991706	C	A	64	2490.77	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01)	Vigna nepalensis
50991764	A	G	76	3419.77	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01)	Vigna nepalensis
50991776	G	T	77	3469.77	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01)	Vigna nepalensis
50992162	A	G	61	2682.77	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01)	Vigna nepalensis
50992172	C	A	56	2553.77	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01)	Vigna nepalensis
50992246	A	G	41	1608.77	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01)	Vigna nepalensis
50992348	G	A	52	2095.77	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01), UPSTREAM(\|5000\|\|None\|Vigan.04G397100.01)	Vigna nepalensis
50992369	A	T	46	1934.77	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01), UPSTREAM(\|4979\|\|None\|Vigan.04G397100.01)	Vigna nepalensis
50992590	A	T	47	1825.77	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01), UPSTREAM(\|4758\|\|None\|Vigan.04G397100.01)	Vigna nepalensis
50992613	G	T	45	1802.77	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01), UPSTREAM(\|4735\|\|None\|Vigan.04G397100.01)	Vigna nepalensis
50992998	G	A	61	2319.77	0.98	INTRON(\|\|\|None\|Vigan.04G397000.01), UPSTREAM(\|4350\|\|None\|Vigan.04G397100.01)	Vigna nepalensis
50993025	T	A	67	2587.77	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01), UPSTREAM(\|4323\|\|None\|Vigan.04G397100.01)	Vigna nepalensis
50993083	T	G	57	2310.77	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01), UPSTREAM(\|4265\|\|None\|Vigan.04G397100.01)	Vigna nepalensis
50993505	A	G	40	1606.77	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01), UPSTREAM(\|3843\|\|None\|Vigan.04G397100.01)	Vigna nepalensis
50993561	C	T	40	1652.77	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01), UPSTREAM(\|3787\|\|None\|Vigan.04G397100.01)	Vigna nepalensis
50993630	G	T	55	2250.77	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01), UPSTREAM(\|3718\|\|None\|Vigan.04G397100.01)	Vigna nepalensis
50993668	T	A	56	2476.77	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01), UPSTREAM(\|3680\|\|None\|Vigan.04G397100.01)	Vigna nepalensis
50993671	T	A	57	2569.77	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01), UPSTREAM(\|3677\|\|None\|Vigan.04G397100.01)	Vigna nepalensis
50993757	G	A	54	2368.77	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01), UPSTREAM(\|3591\|\|None\|Vigan.04G397100.01)	Vigna nepalensis
50993883	C	A	58	2562.77	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01), UPSTREAM(\|3465\|\|None\|Vigan.04G397100.01)	Vigna nepalensis
50993907	T	C	60	2616.77	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01), UPSTREAM(\|3441\|\|None\|Vigan.04G397100.01)	Vigna nepalensis
50993947	T	C	60	2432.77	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01), UPSTREAM(\|3401\|\|None\|Vigan.04G397100.01)	Vigna nepalensis
50994016	T	G	52	2371.77	1.00	NON_SYNONYMOUS_CODING(MISSENSE\|Tgt/Ggt\|C485G\|None\|Vigan.04G397000.01), UPSTREAM(\|3332\|\|None\|Vigan.04G397100.01)	Vigna nepalensis
50994026	T	C	57	2484.77	1.00	NON_SYNONYMOUS_CODING(MISSENSE\|aTt/aCt\|I488T\|None\|Vigan.04G397000.01), UPSTREAM(\|3322\|\|None\|Vigan.04G397100.01)	Vigna nepalensis
50994133	G	A	40	1772.77	1.00	UPSTREAM(\|3215\|\|None\|Vigan.04G397100.01), UTR_3_PRIME(\|91\|\|None\|Vigan.04G397000.01)	Vigna nepalensis

Indels

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
50991610	CA	C	50	1834.73	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01)	Vigna nepalensis
50991773	A	AT	77	3534.73	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01)	Vigna nepalensis
50991786	C	CT	78	3467.73	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01)	Vigna nepalensis
50992678	CAT	C	56	2470.73	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01), UPSTREAM(\|4669\|\|None\|Vigan.04G397100.01)	Vigna nepalensis
50993776	ACTT	A	54	2411.73	1.00	INTRON(\|\|\|None\|Vigan.04G397000.01), UPSTREAM(\|3571\|\|None\|Vigan.04G397100.01)	Vigna nepalensis
50994148	T	TATATATATATATATAG, TATATATATATATATATAG	13	1117.73	0.54	UPSTREAM(\|3199\|\|None\|Vigan.04G397100.01), UTR_3_PRIME(\|107\|\|None\|Vigan.04G397000.01)	Vigna nepalensis