VIGGS:Variant information

Chr02:12906692 - 12913808

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SNPs

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
12907610	G	A	48	1924.77	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12907988	T	C	58	2377.77	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12908018	C	T	57	2412.77	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12908219	G	C	70	2777.77	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12908296	G	T	53	2189.77	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12908629	A	T	43	1714.77	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12908719	T	A	47	1918.77	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12908759	T	A	54	2376.77	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12908776	T	G	51	2298.77	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12908893	G	T	70	329.77	0.23	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12908946	A	T	90	771.77	0.28	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12908949	G	T	86	3823.77	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12908955	T	C	89	631.77	0.22	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12908957	G	A	87	594.77	0.23	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12908960	A	G	88	2716.77	0.77	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12908963	G	C	85	600.77	0.22	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12908987	G	T	86	367.77	0.17	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12908990	C	T	82	332.77	0.15	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12909067	G	A	73	675.77	0.23	NON_SYNONYMOUS_CODING(MISSENSE\|Ggg/Agg\|G251R\|None\|Vigan.02G142000.01)	Vigna nepalensis
12909084	G	A	66	531.77	0.26	INTRON(\|\|\|None\|Vigan.02G142000.01), SPLICE_SITE_DONOR(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12909100	T	A	72	500.77	0.22	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12909120	G	T	69	327.77	0.19	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12909137	A	T	63	270.77	0.17	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12909147	T	G	66	132.77	0.12	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12909194	A	G	62	2374.77	0.98	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12909413	T	C	60	2326.77	1.00	SYNONYMOUS_CODING(SILENT\|ttT/ttC\|F267\|None\|Vigan.02G142000.01)	Vigna nepalensis
12909775	A	C	69	2767.77	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12909897	C	A	58	2274.77	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12910011	T	G	65	2884.77	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12910042	G	A	63	2558.77	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12910729	A	C	55	2229.77	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12910994	G	T	55	2191.77	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12911018	T	A	52	2132.77	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12911152	T	C	66	2689.77	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12911370	G	A	57	2261.77	1.00	NON_SYNONYMOUS_CODING(MISSENSE\|Gtt/Att\|V415I\|None\|Vigan.02G142000.01)	Vigna nepalensis
12911508	A	T	53	2050.77	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12911876	T	G	45	1798.77	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12911887	G	A	42	1645.77	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12912044	A	T	56	2169.77	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12912240	T	G	62	2760.77	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12912248	A	G	63	2865.77	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12912286	G	T	56	2249.77	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12912608	A	C	36	1448.77	1.00	NON_SYNONYMOUS_CODING(MISSENSE\|Aat/Cat\|N524H\|None\|Vigan.02G142000.01)	Vigna nepalensis
12912712	A	G	45	1812.77	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12912797	C	G	55	2281.77	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12913725	A	G	47	1915.77	1.00	UTR_3_PRIME(\|278\|\|None\|Vigan.02G142000.01)	Vigna nepalensis

Indels

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
12908770	ATT	A	51	2289.73	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12908965	CAT	C	84	639.73	0.24	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12908992	A	ACT	78	249.73	0.13	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12908993	TCA	T	78	210.73	0.12	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12910017	AT	A	67	3023.73	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12910246	C	CTT	56	2471.73	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12910425	ATC	A	58	2406.73	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis
12913169	CGGTCTA	C	71	3102.73	1.00	INTRON(\|\|\|None\|Vigan.02G142000.01)	Vigna nepalensis