VIGGS:Variant information

Chr01:47393458 - 47398842

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SNPs

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
47393561	T	C	46	1872.77	1.00	UPSTREAM(\|3041\|\|None\|Vigan.01G341400.01), UTR_3_PRIME(\|400\|\|None\|Vigan.01G341500.01)	Vigna nepalensis
47393668	T	A	57	2143.77	1.00	UPSTREAM(\|3148\|\|None\|Vigan.01G341400.01), UTR_3_PRIME(\|293\|\|None\|Vigan.01G341500.01)	Vigna nepalensis
47394259	A	C	65	2625.77	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01), UPSTREAM(\|3739\|\|None\|Vigan.01G341400.01)	Vigna nepalensis
47394308	C	T	59	2371.77	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01), UPSTREAM(\|3788\|\|None\|Vigan.01G341400.01)	Vigna nepalensis
47394464	A	G	68	2817.77	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01), UPSTREAM(\|3944\|\|None\|Vigan.01G341400.01)	Vigna nepalensis
47394650	G	T	71	3221.77	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01), UPSTREAM(\|4130\|\|None\|Vigan.01G341400.01)	Vigna nepalensis
47394656	C	G	78	3422.77	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01), UPSTREAM(\|4136\|\|None\|Vigan.01G341400.01)	Vigna nepalensis
47394733	A	G	74	2953.77	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01), UPSTREAM(\|4213\|\|None\|Vigan.01G341400.01)	Vigna nepalensis
47394823	C	T	60	2445.77	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01), UPSTREAM(\|4303\|\|None\|Vigan.01G341400.01)	Vigna nepalensis
47394883	A	C	60	2366.77	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01), UPSTREAM(\|4363\|\|None\|Vigan.01G341400.01)	Vigna nepalensis
47395203	A	G	47	1917.77	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01), UPSTREAM(\|4683\|\|None\|Vigan.01G341400.01)	Vigna nepalensis
47395216	A	C	51	2041.77	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01), UPSTREAM(\|4696\|\|None\|Vigan.01G341400.01)	Vigna nepalensis
47395302	T	C	54	2128.77	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01), UPSTREAM(\|4782\|\|None\|Vigan.01G341400.01)	Vigna nepalensis
47395487	T	C	52	2031.77	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01), UPSTREAM(\|4967\|\|None\|Vigan.01G341400.01)	Vigna nepalensis
47395591	A	C	65	2487.77	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01)	Vigna nepalensis
47396053	A	G	72	3222.77	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01)	Vigna nepalensis
47396057	A	T	70	3230.77	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01)	Vigna nepalensis
47396063	T	C	72	3230.77	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01)	Vigna nepalensis
47396472	G	A	44	1711.77	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01)	Vigna nepalensis
47397148	T	A	63	2517.77	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01)	Vigna nepalensis
47397683	A	G	43	1674.77	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01)	Vigna nepalensis
47398191	T	G	37	1468.77	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01)	Vigna nepalensis
47398269	C	G	50	2048.77	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01)	Vigna nepalensis
47398388	G	A	57	2161.77	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01)	Vigna nepalensis
47398468	G	A	42	1670.77	1.00	SYNONYMOUS_CODING(SILENT\|gcC/gcT\|A34\|None\|Vigan.01G341500.01)	Vigna nepalensis
47398518	G	A	44	1809.77	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01)	Vigna nepalensis
47398744	T	C	52	1927.77	1.00	UTR_5_PRIME(\|80\|\|None\|Vigan.01G341500.01)	Vigna nepalensis

Indels

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
47394686	CAT	C	67	2927.73	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01), UPSTREAM(\|4167\|\|None\|Vigan.01G341400.01)	Vigna nepalensis
47395350	CA	C	46	1672.73	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01), UPSTREAM(\|4831\|\|None\|Vigan.01G341400.01)	Vigna nepalensis
47395546	T	TC	59	2127.73	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01)	Vigna nepalensis
47396023	C	CA	56	1846.73	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01)	Vigna nepalensis
47396267	T	TA	73	2412.73	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01)	Vigna nepalensis
47397219	AC	A	59	2325.73	1.00	INTRON(\|\|\|None\|Vigan.01G341500.01)	Vigna nepalensis
47398721	A	AAAACGTGAAAGAAAGCGT	44	2521.73	1.00	UTR_5_PRIME(\|58\|\|None\|Vigan.01G341500.01)	Vigna nepalensis