VIGGS:Variant information

Chr01:28022426 - 28026626

Filter

Species
- Vigna nepalensis
Effect
- INTRON
- SYNONYMOUS_CODING

SNPs

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
28022575	T	C	52	2094.77	1.00	SYNONYMOUS_CODING(SILENT\|gaA/gaG\|E337\|None\|Vigan.01G214300.01)	Vigna nepalensis
28022973	A	G	34	1516.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28023313	G	A	74	3226.07	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28023358	T	C	61	2775.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28023521	C	G	50	1976.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28023592	C	T	59	2354.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024119	C	G	57	2307.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024134	C	T	66	2888.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024180	T	G	52	2148.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024211	C	T	57	2587.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024235	A	T	54	2392.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024248	T	G	54	2278.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024289	C	T	55	2232.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024342	G	C	66	2690.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024359	G	T	67	2979.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024368	T	A	75	3273.73	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024483	G	A	69	2780.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024712	G	A	66	2947.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024827	G	A	46	2042.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024829	T	C	46	2041.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024850	T	G	39	1771.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024855	C	A	37	1681.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024856	C	G	35	1681.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024944	C	T	30	1411.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024947	A	G	30	1366.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024956	C	T	27	1186.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024960	C	T	26	1231.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024968	C	T	29	1501.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024975	T	C	34	1546.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024986	G	A	39	1726.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024995	C	T	41	1816.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024998	G	A	41	1861.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025022	C	T	50	2221.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025023	C	T	50	2221.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025027	T	C	48	2123.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025066	T	A	39	1657.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025077	T	C	33	1474.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025110	G	A	23	978.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025119	G	A	18	864.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025135	A	G	11	511.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025251	T	C	5	196.9	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025267	A	G	5	196.9	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025286	A	G	7	286.8	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025302	C	T	17	736.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025319	A	C	19	826.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025321	T	C	19	826.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025337	T	C	19	826.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025346	C	T	17	781.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025349	A	C	17	736.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025352	G	A	17	736.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025379	A	G	7	286.8	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025385	A	G	9	421.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025389	T	C	10	511.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025400	T	C	12	601.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025407	A	G	17	871.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025410	G	A	20	916.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025411	A	G	21	961.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025414	G	A	21	961.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025416	G	A	20	961.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025420	A	G	22	1051.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025428	C	T	25	1231.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025436	T	G	27	1186.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025438	T	C	26	1186.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025451	A	G	26	1276.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025472	A	G	36	1591.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025475	G	C	36	1591.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025512	A	G	38	1771.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025515	G	A	29	1316.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025539	G	A	27	1183.77	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025690	C	A	40	1591.77	1.00	SYNONYMOUS_CODING(SILENT\|acG/acT\|T227\|None\|Vigan.01G214300.01)	Vigna nepalensis

Indels

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
28022919	GTGTGTGTATATATATATATATATATATATATATATATATATATATATATA	G	32	1470.73	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28023330	GTGTGAACTAGAATGATATATT	G	64	3097.73	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28023461	G	GT	46	1257.73	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024140	CTA	C	59	2707.73	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024212	A	AT	58	2578.73	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024227	A	ATT	54	2450.73	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024699	T	TTATA	63	2848.73	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024874	TCACGAACCAACC	T	26	1222.73	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024887	TAACCCA	T	26	1267.73	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28024895	CACGGGTTTGAACCGTATTGAGTTTGGGAAA	C	28	1222.73	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025122	T	TA	17	772.73	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025254	ACTTCATTTT	A	5	187.87	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025290	T	TA	8	412.74	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025357	A	AC	17	907.73	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025358	T	TCACCAACCCGTAGTAGATCGAGTGGGGTAGC	15	907.73	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025468	A	AC	32	1537.73	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025480	CGGATG	C	36	1582.73	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025489	CCTGATAAT	C	36	1627.73	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis
28025530	C	CTT	28	1253.73	1.00	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis

SSR-associated indels

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
28022876	(AT)21	(AT)17	18	757.73	0.94	INTRON(\|\|\|None\|Vigan.01G214300.01)	Vigna nepalensis