genome.fa.s4593.2.7.7.80.10.50.1000.5.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01004593.1 Hibiscus syriacus cultivar Beakdansim tig00010263_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1592963

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 829 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
942704--942816	19	6.8	18	72	23	88	43	22	24	9	1.83
942812--942856	19	2.4	19	92	0	72	8	17	26	46	1.78
942854--942931	41	1.9	41	94	0	138	11	26	16	44	1.82
942855--942930	21	3.7	21	82	3	100	10	26	17	46	1.80
943031--943080	16	3.0	18	69	22	54	44	22	22	12	1.85
943012--943080	32	2.2	32	89	0	102	46	18	23	11	1.82
943256--943310	22	2.5	22	81	0	74	20	16	40	23	1.91
943455--943646	20	9.6	20	79	7	203	18	19	26	35	1.95
943459--943607	38	3.8	40	83	6	160	20	19	25	34	1.96
943457--943607	58	2.5	59	84	3	205	20	19	25	33	1.97
943594--943686	20	4.7	20	74	10	84	17	17	24	40	1.90
943619--943728	39	2.7	40	89	9	154	23	16	21	38	1.93
943633--943754	21	6.0	21	68	9	90	25	16	23	34	1.95
943999--944029	16	1.9	16	93	0	53	29	0	0	70	0.87
946899--946962	30	2.1	30	85	0	83	34	28	18	18	1.95
947615--947754	63	2.2	64	83	3	176	29	18	20	32	1.96
947697--947800	45	2.3	47	81	8	126	28	16	19	35	1.93
961111--961146	15	2.4	15	100	0	72	25	22	25	27	2.00
966555--966582	2	14.0	2	100	0	56	50	0	0	50	1.00
966386--966602	108	2.0	108	91	6	359	46	6	10	36	1.66
967599--967646	23	2.1	23	84	0	60	35	10	18	35	1.85
968082--968121	20	2.0	20	90	0	62	50	7	12	30	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
968123--968195	23	3.2	23	82	7	94	39	21	4	34	1.73
968619--968673	21	2.5	20	88	8	65	38	21	5	34	1.77
968619--968678	23	2.7	22	89	5	86	38	21	5	35	1.75
967720--969444	483	3.6	485	93	4	2936	40	10	7	41	1.69
969078--969150	23	3.2	23	80	7	85	41	20	4	34	1.72
971305--971356	21	2.5	21	90	3	79	13	32	7	46	1.72
971441--971484	15	2.9	15	93	0	70	15	52	9	22	1.71
973360--973412	24	2.2	24	83	6	63	26	7	13	52	1.66
973552--973594	20	2.3	18	82	17	61	20	16	9	53	1.70
973560--973599	20	2.0	21	95	5	73	20	15	10	55	1.68
973739--973797	20	3.0	19	79	16	66	16	15	15	52	1.75
973737--973782	20	2.4	19	86	13	67	17	17	10	54	1.70
973524--973984	179	2.6	178	85	7	575	27	16	14	42	1.86
982999--983439	221	2.0	221	99	0	875	41	18	19	21	1.91
999116--999185	29	2.5	28	88	6	97	25	21	24	28	1.99
1001992--1002019	3	9.3	3	100	0	56	67	0	0	32	0.91
1004075--1004147	30	2.4	30	95	0	128	24	20	24	30	1.99
1005263--1005354	35	2.5	38	86	6	129	44	19	4	31	1.70
1009795--1009942	35	4.2	36	81	10	155	42	18	6	31	1.77
1009798--1009942	72	2.1	69	83	8	177	42	18	6	31	1.77
1015938--1016123	99	1.9	98	88	4	284	43	16	11	28	1.82
1018340--1018367	14	2.0	14	100	0	56	50	7	0	42	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1018421--1018451	16	1.9	16	100	0	62	19	9	19	51	1.74
1020044--1020104	17	3.4	18	78	15	63	62	1	1	34	1.15
1036149--1036396	36	7.1	36	75	13	200	42	5	8	44	1.56
1036367--1036411	23	2.0	24	87	12	69	37	0	4	57	1.19
1037616--1037674	8	7.2	8	75	17	50	20	5	0	74	1.00
1042779--1043750	164	5.9	163	89	2	1374	30	24	20	24	1.99
1042779--1043750	329	3.0	329	93	0	1592	30	24	20	24	1.99
1044350--1044665	34	8.8	34	72	18	155	42	4	7	45	1.51
1044472--1044496	12	2.1	12	100	0	50	40	8	8	44	1.63
1044350--1044502	74	2.1	71	80	14	159	46	3	5	45	1.42
1044407--1044665	36	7.2	36	72	16	157	41	5	8	45	1.55
1044379--1044660	72	3.9	71	74	12	193	43	4	7	43	1.54
1044628--1044673	24	1.9	24	82	8	58	34	0	8	56	1.30
1045839--1045897	24	2.5	23	81	5	64	23	6	0	69	1.12
1045885--1045943	8	7.2	8	75	17	50	20	5	0	74	1.00
1047355--1047385	14	2.2	14	94	0	53	38	0	0	61	0.96
1057341--1057382	21	2.0	21	90	0	66	40	9	0	50	1.35
1057334--1057381	26	1.9	24	84	16	62	41	8	0	50	1.33
1057890--1058017	57	2.2	60	83	6	156	37	14	11	36	1.82
1058408--1058443	17	2.1	17	100	0	72	41	11	0	47	1.39
1058857--1058892	6	6.0	6	93	0	63	0	19	30	50	1.48
1059722--1060001	94	3.0	94	96	0	497	28	8	22	40	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1080019--1080072	25	2.2	24	80	6	63	51	11	14	22	1.73
1086532--1086573	20	2.2	20	87	8	61	38	4	0	57	1.20
1090405--1090445	20	2.0	21	85	4	57	58	2	2	36	1.24
1091858--1091987	3	43.7	3	90	1	208	64	0	0	34	0.99
1092233--1092799	119	4.9	116	90	4	878	28	19	13	38	1.90
1092235--1092798	233	2.4	233	93	3	946	28	20	13	38	1.90
1093436--1093680	52	4.7	52	98	0	481	37	24	15	22	1.93
1106197--1106237	20	2.0	21	85	4	57	58	2	2	36	1.24
1107643--1107781	3	46.7	3	89	4	219	64	0	0	34	0.99
1109065--1109115	21	2.5	22	71	12	54	47	21	0	31	1.51
1133983--1134221	120	2.0	120	95	0	433	33	23	19	23	1.97
1141203--1141534	91	3.8	90	84	5	455	35	8	3	52	1.47
1147655--1147710	28	2.0	28	100	0	112	32	25	3	39	1.73
1147658--1147706	16	3.3	16	72	21	61	32	24	4	38	1.74
1149185--1149307	60	2.1	60	95	4	223	18	21	16	43	1.88
1150619--1150763	71	2.1	70	98	1	281	27	19	19	33	1.96
1152694--1152757	32	2.0	33	90	3	103	39	18	10	31	1.86
1157809--1158024	101	2.1	102	93	1	371	25	14	23	36	1.93
1158041--1158108	23	3.0	23	88	0	91	22	27	25	25	1.99
1159714--1159915	21	9.6	21	72	16	141	20	20	24	34	1.97
1159739--1159934	21	9.3	21	72	16	147	19	20	24	35	1.96
1159723--1159940	42	5.2	42	93	0	364	20	20	25	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1160540--1160588	6	8.5	6	84	2	57	6	14	48	30	1.67
1160557--1160592	18	2.0	18	100	0	72	16	11	38	33	1.84
1160706--1160780	21	3.6	21	94	0	123	28	28	21	22	1.99
1160770--1160860	21	4.4	20	75	20	98	21	23	19	35	1.96
1160765--1161007	62	4.0	62	81	11	342	24	22	21	32	1.98
1160886--1161021	21	6.5	21	83	8	170	22	22	24	30	1.99
1160765--1160984	117	1.9	116	92	2	370	24	22	20	32	1.98
1161190--1161257	21	3.2	21	89	0	109	23	22	23	30	1.99
1160972--1161408	243	1.8	242	94	0	784	29	15	20	34	1.93
1164705--1164885	24	7.4	24	80	3	119	8	19	40	31	1.81
1164757--1164885	48	2.7	48	90	0	204	6	19	41	32	1.76
1164699--1164885	72	2.5	73	81	4	207	8	20	40	31	1.81
1166445--1166504	30	2.0	30	90	0	93	20	25	31	23	1.98
1168853--1169035	29	6.4	29	95	1	320	30	8	14	46	1.74
1169691--1170023	111	3.0	111	94	0	576	37	7	9	45	1.66
1172680--1172725	18	2.6	18	89	0	74	23	28	10	36	1.89
1174506--1174534	3	9.7	3	100	0	58	0	31	0	68	0.89
1180374--1180440	24	2.8	24	82	6	84	44	0	1	53	1.09
1180778--1180847	30	2.3	30	92	0	113	54	1	4	40	1.29
1181234--1181260	5	5.4	5	100	0	54	0	18	0	81	0.69
1183680--1183757	2	39.0	2	100	0	156	50	0	0	50	1.00
1183866--1183933	31	2.2	31	97	0	127	26	11	25	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1185130--1185193	32	2.0	32	84	6	85	46	7	7	37	1.62
1193253--1193286	2	17.0	2	93	0	59	50	2	0	47	1.16
1193554--1193685	30	4.4	30	95	0	221	31	25	20	21	1.98
1193554--1193702	60	2.5	60	87	1	210	32	25	20	20	1.97
1193668--1193796	63	2.1	61	87	7	188	32	20	20	27	1.97
1193671--1193798	31	4.1	31	80	9	152	33	21	18	26	1.96
1194281--1194323	20	2.1	21	87	8	63	32	11	6	48	1.66
1194287--1194333	20	2.2	20	85	7	58	36	12	6	44	1.68
1197902--1197939	2	19.0	2	94	0	67	50	2	0	47	1.15
1198166--1198297	30	4.4	30	93	0	212	33	24	20	21	1.97

Tables:   1   2   3   4   5   6   7