VIGGS:Variant information

Chr08:3684537 - 3688838

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SNPs

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
3684559	A	T	50	1990.77	1.00	UPSTREAM(\|547\|\|None\|Vigan.08G046800.01), UTR_3_PRIME(\|203\|\|None\|Vigan.08G046900.01)	Vigna nepalensis
3684605	T	C	52	2059.77	1.00	UPSTREAM(\|593\|\|None\|Vigan.08G046800.01), UTR_3_PRIME(\|157\|\|None\|Vigan.08G046900.01)	Vigna nepalensis
3684861	A	C	64	2583.77	1.00	NON_SYNONYMOUS_CODING(MISSENSE\|gaT/gaG\|D257E\|None\|Vigan.08G046900.01), UPSTREAM(\|849\|\|None\|Vigan.08G046800.01)	Vigna nepalensis
3685032	T	C	69	2640.77	1.00	DOWNSTREAM(\|4932\|\|None\|Vigan.08G047000.01), INTRON(\|\|\|None\|Vigan.08G046900.01), UPSTREAM(\|1020\|\|None\|Vigan.08G046800.01)	Vigna nepalensis
3685060	T	C	58	2328.77	1.00	DOWNSTREAM(\|4904\|\|None\|Vigan.08G047000.01), INTRON(\|\|\|None\|Vigan.08G046900.01), UPSTREAM(\|1048\|\|None\|Vigan.08G046800.01)	Vigna nepalensis
3685071	G	A	57	2003.77	1.00	DOWNSTREAM(\|4893\|\|None\|Vigan.08G047000.01), INTRON(\|\|\|None\|Vigan.08G046900.01), UPSTREAM(\|1059\|\|None\|Vigan.08G046800.01)	Vigna nepalensis
3685353	T	A	40	1483.77	1.00	DOWNSTREAM(\|4611\|\|None\|Vigan.08G047000.01), INTRON(\|\|\|None\|Vigan.08G046900.01), UPSTREAM(\|1341\|\|None\|Vigan.08G046800.01)	Vigna nepalensis
3685595	T	A	37	1527.77	1.00	DOWNSTREAM(\|4369\|\|None\|Vigan.08G047000.01), INTRON(\|\|\|None\|Vigan.08G046900.01), UPSTREAM(\|1583\|\|None\|Vigan.08G046800.01)	Vigna nepalensis
3686274	C	A	39	1630.77	1.00	DOWNSTREAM(\|3690\|\|None\|Vigan.08G047000.01), INTRON(\|\|\|None\|Vigan.08G046900.01), UPSTREAM(\|2262\|\|None\|Vigan.08G046800.01)	Vigna nepalensis
3686304	A	G	46	1815.77	1.00	DOWNSTREAM(\|3660\|\|None\|Vigan.08G047000.01), INTRON(\|\|\|None\|Vigan.08G046900.01), UPSTREAM(\|2292\|\|None\|Vigan.08G046800.01)	Vigna nepalensis
3686330	T	A	53	2096.77	1.00	DOWNSTREAM(\|3634\|\|None\|Vigan.08G047000.01), INTRON(\|\|\|None\|Vigan.08G046900.01), UPSTREAM(\|2318\|\|None\|Vigan.08G046800.01)	Vigna nepalensis
3686702	A	T	68	2773.77	1.00	DOWNSTREAM(\|3262\|\|None\|Vigan.08G047000.01), INTRON(\|\|\|None\|Vigan.08G046900.01), UPSTREAM(\|2690\|\|None\|Vigan.08G046800.01)	Vigna nepalensis
3687052	G	A	60	2405.77	1.00	DOWNSTREAM(\|2912\|\|None\|Vigan.08G047000.01), INTRON(\|\|\|None\|Vigan.08G046900.01), SPLICE_SITE_REGION(\|\|\|None\|Vigan.08G046900.01), UPSTREAM(\|3040\|\|None\|Vigan.08G046800.01)	Vigna nepalensis
3687262	C	A	72	3200.06	1.00	DOWNSTREAM(\|2702\|\|None\|Vigan.08G047000.01), INTRON(\|\|\|None\|Vigan.08G046900.01), UPSTREAM(\|3250\|\|None\|Vigan.08G046800.01)	Vigna nepalensis
3687267	C	G	69	3129.77	1.00	DOWNSTREAM(\|2697\|\|None\|Vigan.08G047000.01), INTRON(\|\|\|None\|Vigan.08G046900.01), UPSTREAM(\|3255\|\|None\|Vigan.08G046800.01)	Vigna nepalensis
3687323	T	A	66	2643.77	1.00	DOWNSTREAM(\|2641\|\|None\|Vigan.08G047000.01), INTRON(\|\|\|None\|Vigan.08G046900.01), UPSTREAM(\|3311\|\|None\|Vigan.08G046800.01)	Vigna nepalensis
3687638	T	C	61	2782.77	1.00	DOWNSTREAM(\|2326\|\|None\|Vigan.08G047000.01), INTRON(\|\|\|None\|Vigan.08G046900.01), UPSTREAM(\|3626\|\|None\|Vigan.08G046800.01)	Vigna nepalensis
3687643	G	A	66	2918.77	1.00	DOWNSTREAM(\|2321\|\|None\|Vigan.08G047000.01), INTRON(\|\|\|None\|Vigan.08G046900.01), UPSTREAM(\|3631\|\|None\|Vigan.08G046800.01)	Vigna nepalensis
3688265	C	T	58	2340.77	1.00	DOWNSTREAM(\|1699\|\|None\|Vigan.08G047000.01), INTRON(\|\|\|None\|Vigan.08G046900.01), UPSTREAM(\|4253\|\|None\|Vigan.08G046800.01)	Vigna nepalensis
3688299	A	C	62	2465.77	1.00	DOWNSTREAM(\|1665\|\|None\|Vigan.08G047000.01), INTRON(\|\|\|None\|Vigan.08G046900.01), UPSTREAM(\|4287\|\|None\|Vigan.08G046800.01)	Vigna nepalensis
3688374	A	C	68	2783.77	1.00	DOWNSTREAM(\|1590\|\|None\|Vigan.08G047000.01), INTRON(\|\|\|None\|Vigan.08G046900.01), UPSTREAM(\|4362\|\|None\|Vigan.08G046800.01)	Vigna nepalensis
3688401	A	C	65	2731.77	1.00	DOWNSTREAM(\|1563\|\|None\|Vigan.08G047000.01), INTRON(\|\|\|None\|Vigan.08G046900.01), UPSTREAM(\|4389\|\|None\|Vigan.08G046800.01)	Vigna nepalensis
3688643	C	T	49	1977.77	1.00	DOWNSTREAM(\|1321\|\|None\|Vigan.08G047000.01), UPSTREAM(\|4631\|\|None\|Vigan.08G046800.01), UTR_5_PRIME(\|40\|\|None\|Vigan.08G046900.01)	Vigna nepalensis
3688793	C	A	57	2197.77	1.00	DOWNSTREAM(\|1171\|\|None\|Vigan.08G047000.01), UPSTREAM(\|4781\|\|None\|Vigan.08G046800.01), UTR_5_PRIME(\|190\|\|None\|Vigan.08G046900.01)	Vigna nepalensis

Indels

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
3684873	CAATA	C	65	2880.73	1.00	INTRON(\|\|\|None\|Vigan.08G046900.01), UPSTREAM(\|862\|\|None\|Vigan.08G046800.01)	Vigna nepalensis
3685539	C	CA	22	822.73	1.00	DOWNSTREAM(\|4424\|\|None\|Vigan.08G047000.01), INTRON(\|\|\|None\|Vigan.08G046900.01), UPSTREAM(\|1528\|\|None\|Vigan.08G046800.01)	Vigna nepalensis
3685653	GCATTCTTAGTTACTT	G	42	1819.73	1.00	DOWNSTREAM(\|4310\|\|None\|Vigan.08G047000.01), INTRON(\|\|\|None\|Vigan.08G046900.01), UPSTREAM(\|1642\|\|None\|Vigan.08G046800.01)	Vigna nepalensis
3685773	TTG	T	56	2434.73	1.00	DOWNSTREAM(\|4190\|\|None\|Vigan.08G047000.01), INTRON(\|\|\|None\|Vigan.08G046900.01), UPSTREAM(\|1762\|\|None\|Vigan.08G046800.01)	Vigna nepalensis
3688768	A	AT	52	1549.73	1.00	DOWNSTREAM(\|1195\|\|None\|Vigan.08G047000.01), UPSTREAM(\|4757\|\|None\|Vigan.08G046800.01), UTR_5_PRIME(\|166\|\|None\|Vigan.08G046900.01)	Vigna nepalensis