genome.fa.s9587.2.7.7.80.10.50.1000.5.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: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6483253

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   

This is table  5  of  29  ( 3457 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)
965484--965517	15	2.3	15	94	0	59	8	67	17	5	1.37
971688--971731	23	1.9	23	95	0	79	25	0	38	36	1.56
976299--976363	23	2.8	23	95	0	112	30	0	33	35	1.58
980115--980188	9	8.1	8	84	15	67	66	0	0	33	0.92
980115--980188	6	12.2	6	80	17	82	66	0	0	33	0.92
986214--986242	3	10.0	3	92	7	51	68	0	0	31	0.89
986619--986671	18	2.7	19	80	13	56	37	0	5	56	1.23
987524--987557	11	2.9	12	86	8	52	20	8	2	67	1.31
995465--995489	12	2.1	12	100	0	50	8	36	0	56	1.29
1009823--1009897	31	2.5	30	79	12	82	56	0	12	32	1.36
1020321--1021015	2	344.5	2	63	22	165	47	3	5	43	1.44
1020317--1020590	9	30.1	9	66	24	71	44	4	4	46	1.43
1020321--1021019	20	34.0	20	72	16	227	47	3	5	43	1.44
1020370--1021249	22	40.7	22	66	21	132	49	3	5	41	1.44
1020462--1020658	81	2.4	81	77	9	197	45	6	5	42	1.53
1020513--1020879	191	1.9	193	80	9	423	46	3	4	44	1.42
1020726--1021019	17	16.6	17	72	22	125	50	1	6	41	1.38
1020903--1021115	30	7.3	30	70	23	118	52	2	8	36	1.47
1020903--1021221	8	41.9	8	68	25	94	52	2	7	36	1.44
1021175--1021304	35	3.7	35	79	10	124	54	0	6	38	1.31
1021080--1021289	80	2.6	78	75	14	185	53	2	7	36	1.41
1021133--1021279	58	2.5	58	83	8	183	54	2	6	37	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1021283--1021520	83	2.9	82	90	1	379	51	5	7	35	1.52
1022157--1022189	17	1.9	17	93	0	57	48	18	12	21	1.80
1022377--1022413	18	2.1	18	90	10	58	45	16	0	37	1.47
1024345--1024388	22	2.0	22	81	0	52	31	29	27	11	1.91
1025850--1026067	103	2.1	103	97	0	409	25	13	23	37	1.92
1026079--1026151	23	3.3	23	80	3	87	24	21	21	31	1.98
1027554--1027662	24	4.5	24	72	6	78	48	15	12	22	1.79
1031126--1031258	69	1.9	69	92	0	221	33	15	21	29	1.94
1032780--1032810	2	16.0	2	93	6	55	48	0	0	51	1.00
1036718--1036751	2	17.0	2	93	0	59	47	0	0	52	1.00
1036705--1036765	8	7.5	8	81	7	52	42	0	1	55	1.09
1037363--1037402	16	2.5	16	87	0	53	57	10	0	32	1.32
1040500--1040526	14	1.9	14	100	0	54	33	22	14	29	1.94
1045401--1045444	13	3.4	13	93	0	70	68	0	0	31	0.90
1045401--1045457	20	2.9	19	84	7	78	66	0	3	29	1.08
1045401--1045451	7	7.7	7	89	8	63	68	0	1	29	1.00
1045393--1045457	13	5.1	13	85	5	62	67	0	4	27	1.10
1045398--1045444	6	7.5	6	88	9	67	70	0	0	29	0.88
1051765--1051814	26	1.9	26	91	0	82	26	26	20	28	1.99
1052611--1052702	37	2.3	38	81	12	105	41	27	5	26	1.77
1052692--1052753	2	31.0	2	100	0	124	50	0	0	50	1.00
1053436--1053468	17	1.9	17	93	0	57	21	6	6	66	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1058969--1059022	22	2.5	22	78	9	56	33	3	29	33	1.75
1059057--1059148	35	2.6	37	81	8	102	29	4	35	30	1.77
1060131--1060177	23	2.0	23	95	0	85	14	25	19	40	1.90
1061610--1061675	24	2.8	24	97	0	123	45	15	10	28	1.79
1061868--1061901	12	2.8	12	100	0	68	26	0	0	73	0.83
1073997--1074102	8	13.1	8	87	7	135	83	0	12	4	0.80
1073992--1074112	16	7.7	15	81	14	102	81	0	11	6	0.86
1073992--1074112	8	15.2	8	86	10	90	81	0	11	6	0.86
1074013--1074097	1	85.0	1	73	0	71	87	0	10	2	0.64
1075325--1075874	134	4.1	134	84	2	619	32	20	16	30	1.94
1076064--1076094	3	10.0	3	93	6	53	35	0	0	64	0.94
1079051--1079103	16	3.4	16	70	19	58	43	26	3	26	1.72
1079052--1079113	30	2.1	30	100	0	124	41	25	6	25	1.79
1084955--1084995	17	2.3	18	87	4	57	0	21	0	78	0.76
1093891--1093929	19	2.1	19	85	9	53	41	0	5	53	1.23
1101502--1101534	14	2.4	14	94	0	57	42	27	9	21	1.83
1102120--1102166	22	2.1	22	96	0	85	34	2	19	44	1.62
1103654--1103703	23	2.2	23	92	0	82	38	8	22	32	1.83
1103617--1103779	87	1.9	87	94	0	290	40	12	15	30	1.85
1104358--1105729	545	2.5	546	91	1	2225	28	16	12	42	1.84
1104358--1105729	182	7.5	182	93	1	2157	28	16	12	42	1.84
1106093--1106195	31	3.5	28	82	12	118	29	8	12	49	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1106108--1106195	31	2.8	31	94	0	149	26	9	13	51	1.71
1110351--1110378	3	9.3	3	100	0	56	67	0	32	0	0.91
1112146--1112219	35	2.1	35	87	0	103	44	17	0	37	1.49
1112216--1112290	35	2.1	35	90	0	114	30	0	24	45	1.53
1115349--1115393	23	2.0	23	86	0	63	40	20	20	20	1.92
1121292--1121353	23	2.7	23	100	0	124	20	33	25	19	1.96
1124181--1124215	16	2.2	16	94	0	61	17	25	14	42	1.86
1124465--1124537	23	3.1	23	96	2	128	47	0	4	47	1.21
1124492--1124535	14	3.5	14	71	28	53	40	0	4	54	1.21
1125108--1125142	17	2.1	17	100	0	70	45	17	37	0	1.48
1125108--1125154	17	2.8	17	90	0	58	46	17	34	2	1.59
1127684--1127912	102	2.3	99	89	2	341	51	19	7	20	1.71
1128084--1128217	33	4.1	33	89	4	200	60	14	11	14	1.59
1128086--1128217	32	4.1	32	90	4	194	60	14	10	14	1.59
1128241--1128289	22	2.2	22	89	7	73	53	6	22	18	1.66
1128252--1128277	13	2.0	13	100	0	52	53	7	23	15	1.67
1129369--1129452	22	4.0	21	76	15	93	44	5	7	42	1.56
1129406--1129497	48	1.9	48	82	4	114	41	9	8	40	1.69
1129536--1129630	28	3.4	26	77	12	75	24	0	30	45	1.54
1129742--1129851	42	2.6	41	98	0	157	41	12	6	39	1.69
1129758--1129828	18	3.6	18	67	20	52	39	11	7	42	1.68
1129776--1129847	24	3.2	24	64	22	66	40	13	6	38	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1130067--1130237	62	2.7	59	77	16	166	44	4	2	47	1.38
1130180--1130215	15	2.4	15	95	0	63	41	2	5	50	1.40
1130180--1130497	13	23.5	13	69	19	129	42	3	5	48	1.42
1130132--1130328	102	1.9	102	87	2	288	43	3	4	48	1.39
1130065--1130263	2	103.0	2	70	20	122	45	4	3	47	1.37
1130296--1130461	28	6.6	25	69	20	87	43	4	6	45	1.49
1130347--1130482	18	7.2	18	70	22	93	43	2	5	47	1.42
1130304--1130483	97	1.9	97	94	2	317	43	4	5	46	1.47
1130448--1130505	19	3.3	18	81	13	68	41	0	3	55	1.17
1130296--1130505	97	2.1	99	86	6	311	42	3	5	48	1.43
1146233--1146278	24	1.9	24	100	0	92	41	15	13	30	1.85
1152681--1152747	23	3.0	23	82	2	91	37	19	23	19	1.94
1153579--1153624	24	1.9	24	95	0	83	39	15	15	30	1.88
1157926--1157974	3	16.0	3	95	4	89	34	0	0	65	0.93
1168322--1168383	3	20.7	3	100	0	124	32	0	0	67	0.91
1182810--1182870	32	1.9	32	93	0	104	27	11	11	49	1.73
1183919--1183964	20	2.3	21	85	14	71	26	4	0	69	1.07
1184218--1184242	2	12.5	2	100	0	50	48	0	0	52	1.00
1194623--1194660	15	2.6	14	88	8	58	86	5	7	0	0.69
1194625--1194659	18	1.9	18	88	0	52	88	5	5	0	0.63
1194591--1194750	82	2.0	83	85	7	220	60	10	21	8	1.56
1195499--1195958	105	4.4	105	96	1	859	33	25	17	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1196419--1196479	32	1.9	32	93	0	104	27	11	11	49	1.73
1197574--1197616	2	21.5	2	100	0	86	48	0	0	51	1.00
1198648--1198708	32	1.9	32	93	0	104	49	11	11	27	1.73
1207240--1207344	51	2.1	50	83	5	131	60	5	29	3	1.37
1209662--1209718	2	28.5	2	100	0	114	50	0	0	49	1.00
1209775--1209954	85	2.1	85	86	4	247	33	16	19	31	1.94
1209776--1209988	85	2.5	85	81	7	236	33	16	18	31	1.93
1209966--1210024	13	4.5	13	87	4	66	33	16	20	28	1.95
1209965--1210024	26	2.3	26	82	0	84	35	16	20	28	1.94
1216333--1216416	32	2.6	32	82	0	114	33	10	20	35	1.87

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29