VIGGS:Variant information

Chr11:28681353 - 28685076

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SNPs

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
28681376	G	C	59	2632.77	1.00	UTR_3_PRIME(\|470\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28681384	G	A	63	2711.77	1.00	UTR_3_PRIME(\|462\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28681417	A	T	60	2378.77	1.00	UTR_3_PRIME(\|429\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28681459	A	C	57	2536.77	1.00	UTR_3_PRIME(\|387\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28681468	C	A	55	2518.77	1.00	UTR_3_PRIME(\|378\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28681487	T	C	48	1843.77	1.00	UTR_3_PRIME(\|359\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28681516	C	T	54	2099.77	1.00	UTR_3_PRIME(\|330\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28681544	G	C	51	2247.77	1.00	UTR_3_PRIME(\|302\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28681554	T	A	50	2315.77	1.00	UTR_3_PRIME(\|292\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28681582	T	G	45	1766.77	1.00	UTR_3_PRIME(\|264\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28681631	C	A	32	1273.77	1.00	UTR_3_PRIME(\|215\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28681757	G	A	49	1919.77	1.00	UTR_3_PRIME(\|89\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28682554	A	G	59	2269.77	1.00	SYNONYMOUS_CODING(SILENT\|taT/taC\|Y464\|None\|Vigan.11G173000.01)	Vigna nepalensis
28683118	C	G	38	1379.77	1.00	SYNONYMOUS_CODING(SILENT\|acG/acC\|T276\|None\|Vigan.11G173000.01)	Vigna nepalensis
28683322	G	A	65	2476.77	1.00	SYNONYMOUS_CODING(SILENT\|ctC/ctT\|L208\|None\|Vigan.11G173000.01)	Vigna nepalensis
28683622	G	A	52	2032.77	1.00	NON_SYNONYMOUS_CODING(MISSENSE\|Cac/Tac\|H147Y\|None\|Vigan.11G173000.01)	Vigna nepalensis
28683704	T	C	45	1692.77	1.00	SYNONYMOUS_CODING(SILENT\|ggA/ggG\|G119\|None\|Vigan.11G173000.01)	Vigna nepalensis
28683806	T	C	55	2228.77	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28683856	A	G	50	1907.77	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28683892	G	A	45	1775.77	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28683960	G	C	40	1608.77	1.00	SYNONYMOUS_CODING(SILENT\|ccC/ccG\|P69\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684091	A	C	67	3008.77	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684097	G	C	68	3037.77	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684137	C	A	67	3067.77	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684143	T	A	73	3227.04	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684160	T	C	72	2813.77	0.99	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684199	C	T	66	2685.77	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684223	A	T	64	2625.77	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684281	A	G	68	3140.77	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684286	A	G	73	3263.77	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684318	A	G	77	3446.77	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684322	C	T	76	3422.77	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684333	G	C	80	3651.77	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684343	A	T	84	3763.77	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684378	A	G	61	2717.77	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684396	T	C	59	2704.77	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684447	C	T	55	2570.77	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684451	G	A	58	2606.77	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684476	A	G	66	2921.77	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684506	A	G	69	2712.77	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684542	T	A	78	3390.77	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684556	T	C	74	3376.77	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684570	T	C	71	3219.84	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684710	T	A	50	2012.77	1.00	SYNONYMOUS_CODING(SILENT\|acA/acT\|T23\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684769	C	T	44	1676.77	1.00	NON_SYNONYMOUS_CODING(MISSENSE\|Gcg/Acg\|A4T\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684883	A	G	46	2111.77	1.00	UTR_5_PRIME(\|105\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684889	C	T	46	2035.77	1.00	UTR_5_PRIME(\|111\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684940	A	G	46	1798.77	1.00	UTR_5_PRIME(\|162\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28685009	G	A	53	2070.77	1.00	UTR_5_PRIME(\|231\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28685038	G	C	56	2050.77	1.00	UTR_5_PRIME(\|260\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28685051	A	C	57	2194.77	1.00	UTR_5_PRIME(\|273\|\|None\|Vigan.11G173000.01)	Vigna nepalensis

Indels

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
28681470	C	CA	56	2498.73	1.00	UTR_3_PRIME(\|375\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28683459	T	TA	56	1719.73	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28683828	CA	C	50	1592.73	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684175	CACTATA	C	68	2998.73	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684273	A	AG	66	2977.73	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis
28684426	A	AC	61	2589.73	1.00	INTRON(\|\|\|None\|Vigan.11G173000.01)	Vigna nepalensis