VIGGS:Variant information

Chr05:6008062 - 6013406

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SNPs

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
6008083	A	G	39	1698.77	1.00	START_GAINED(\|\|\|None\|Vigan.05G079300.01), UTR_5_PRIME(\|134\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6008106	C	T	41	1836.77	1.00	UTR_5_PRIME(\|111\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6008173	T	G	42	1893.77	1.00	UTR_5_PRIME(\|44\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6008175	T	A	41	1893.77	1.00	UTR_5_PRIME(\|42\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6008204	T	C	40	1738.77	1.00	UTR_5_PRIME(\|13\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6008231	G	C	41	1957.77	1.00	NON_SYNONYMOUS_CODING(MISSENSE\|ttG/ttC\|L5F\|None\|Vigan.05G079300.01)	Vigna nepalensis
6008235	A	G	46	2099.77	1.00	NON_SYNONYMOUS_CODING(MISSENSE\|Agc/Ggc\|S7G\|None\|Vigan.05G079300.01)	Vigna nepalensis
6008262	T	C	55	2422.77	1.00	SYNONYMOUS_CODING(SILENT\|Ttg/Ctg\|L16\|None\|Vigan.05G079300.01)	Vigna nepalensis
6008270	C	T	53	2466.77	1.00	SYNONYMOUS_CODING(SILENT\|gcC/gcT\|A18\|None\|Vigan.05G079300.01)	Vigna nepalensis
6008273	A	G	50	2214.77	1.00	SYNONYMOUS_CODING(SILENT\|gcA/gcG\|A19\|None\|Vigan.05G079300.01)	Vigna nepalensis
6008375	G	A	57	2129.77	1.00	SYNONYMOUS_CODING(SILENT\|gtG/gtA\|V53\|None\|Vigan.05G079300.01)	Vigna nepalensis
6008527	A	C	54	2174.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6008651	G	A	56	2153.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6008682	A	C	64	2478.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6008866	T	C	48	2175.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6008875	C	G	50	2168.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6008956	A	C	62	2441.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6009000	G	A	64	2543.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6009151	C	T	52	2087.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6009589	A	G	64	2542.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6009842	T	C	69	2679.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6009871	T	C	61	2425.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6009947	C	G	74	3377.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6009971	G	C	73	3184.79	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6010077	T	C	50	2047.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6010133	A	T	62	2338.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6010163	A	C	57	2238.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6010205	T	A	46	1804.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6010330	G	A	53	2102.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6010357	A	G	58	2338.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6010518	G	A	51	2110.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6010662	C	T	62	2755.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6010666	T	C	62	2753.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6011074	G	A	78	3013.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6011100	T	C	83	3209.76	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6011203	T	C	63	2919.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6011206	A	C	66	2922.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6011351	G	T	61	2522.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6011575	T	G	55	2228.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6011640	C	T	37	1345.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6011938	A	G	45	1802.77	1.00	SYNONYMOUS_CODING(SILENT\|aaA/aaG\|K98\|None\|Vigan.05G079300.01)	Vigna nepalensis
6012128	C	T	59	2303.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6012517	A	G	49	1934.77	1.00	SYNONYMOUS_CODING(SILENT\|gaA/gaG\|E217\|None\|Vigan.05G079300.01)	Vigna nepalensis
6012559	A	G	51	2039.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6012717	A	C	50	1982.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6013045	C	T	68	2809.77	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6013199	T	C	47	1919.77	1.00	UTR_3_PRIME(\|37\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6013310	T	C	56	2237.77	1.00	UTR_3_PRIME(\|148\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6013354	T	C	54	2156.77	1.00	UTR_3_PRIME(\|192\|\|None\|Vigan.05G079300.01)	Vigna nepalensis

Indels

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
6008176	A	AT	40	1884.73	1.00	UTR_5_PRIME(\|40\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6008194	TC	T	37	1797.73	1.00	UTR_5_PRIME(\|22\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6008200	AT	A	39	1870.73	1.00	UTR_5_PRIME(\|16\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6009108	TCTGAG	T	57	2511.73	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6009215	CTT	C	54	1973.73	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6009401	T	TC	66	2584.73	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6009808	T	TTATTCCAAAA	66	3420.73	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6010841	CTA	C	60	2451.73	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6010967	A	ATTTAT	47	2270.73	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6011397	GATAGGT	G	57	2461.73	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6011472	TA	T	51	1343.73	0.98	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6011503	TTTATTGAGGTA	T	55	2430.73	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6012145	CCTTGG	C	59	2608.73	1.00	INTRON(\|\|\|None\|Vigan.05G079300.01)	Vigna nepalensis
6013379	A	ATCAAGTGTGTCC	47	2311.73	1.00	UTR_3_PRIME(\|218\|\|None\|Vigan.05G079300.01)	Vigna nepalensis