genome.fa.s1582.2.7.7.80.10.50.1000.3.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: VEPZ01001582.1 Hibiscus syriacus cultivar Beakdansim tig00003151_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1162828

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 636 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)
448401--448493	4	23.0	4	74	20	70	75	0	3	21	0.95
448401--448491	24	3.8	23	78	17	89	74	0	3	21	0.96
448473--448535	23	2.9	23	83	6	78	73	4	3	19	1.15
449607--449785	37	4.8	38	85	10	237	45	7	3	43	1.51
449606--449791	76	2.5	74	88	6	261	44	8	4	43	1.53
449607--449811	37	5.5	36	87	4	234	45	8	4	41	1.54
449824--449878	2	27.0	2	96	3	101	49	1	0	49	1.11
451693--451734	20	2.1	20	95	0	75	40	35	9	14	1.78
452721--452764	20	2.2	20	91	0	70	45	0	0	54	0.99
452718--452794	14	4.7	15	75	21	50	46	0	0	53	1.00
452752--452831	30	2.8	29	79	9	92	46	1	0	52	1.08
453871--453916	19	2.5	19	85	3	58	32	8	0	58	1.28
454508--454558	23	2.2	23	85	0	66	41	25	11	21	1.87
455710--455758	21	2.3	21	89	0	80	10	32	36	20	1.86
457471--457529	28	2.1	28	84	6	75	49	3	0	47	1.18
457471--457567	50	1.9	51	81	10	119	47	2	2	48	1.25
457560--457606	24	1.9	25	82	4	60	55	4	2	38	1.31
457616--457677	14	4.4	14	74	11	54	43	1	8	46	1.42
457643--457728	15	5.4	15	68	20	50	48	2	4	44	1.36
457618--457708	43	2.2	40	88	7	128	46	2	6	45	1.41
457552--457728	31	5.5	30	74	20	94	49	2	5	42	1.39
457524--457773	131	1.9	132	82	7	321	48	3	5	42	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
457524--457728	65	3.1	64	80	13	222	48	2	5	43	1.39
457749--457801	21	2.5	21	87	0	79	47	5	7	39	1.56
457844--457902	22	2.8	20	78	14	64	44	5	8	42	1.57
457834--457967	57	2.4	55	80	5	144	40	8	8	43	1.64
459469--459521	25	2.3	23	84	12	72	52	1	5	39	1.36
459502--459536	17	2.1	17	100	0	70	54	0	5	40	1.24
459574--459608	18	1.9	18	88	0	52	42	2	8	45	1.49
459649--459730	20	4.1	20	72	20	64	39	6	10	43	1.65
459827--459993	22	8.0	22	67	17	81	47	4	1	45	1.34
459929--459986	11	5.5	11	73	17	52	43	3	1	51	1.28
459826--459981	81	1.9	81	81	10	185	47	5	1	45	1.36
460056--460202	2	74.0	2	68	18	76	46	2	3	47	1.33
460042--460083	20	2.1	20	90	0	66	40	4	9	45	1.58
460067--460195	9	13.9	9	64	20	52	47	3	3	46	1.34
460057--460126	31	2.2	33	85	7	92	48	1	4	45	1.30
460078--460197	22	5.8	20	72	18	104	46	2	3	47	1.32
460056--460195	42	3.4	42	83	9	155	46	2	3	47	1.34
460056--460196	11	12.8	11	67	20	64	46	2	3	47	1.34
460301--461001	215	3.3	215	88	3	1085	30	11	7	50	1.65
462059--462195	60	2.3	62	85	8	176	16	24	34	24	1.95
462601--462649	23	2.1	24	85	11	66	30	0	4	65	1.11
464255--464318	21	3.1	20	84	6	83	18	34	21	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
464835--464907	34	2.1	34	100	0	146	50	8	5	35	1.55
467239--467318	24	3.3	26	75	16	82	46	0	1	52	1.08
469233--469288	15	3.6	15	79	9	67	42	12	12	32	1.80
469236--469286	17	3.1	17	77	11	61	43	11	9	35	1.75
469685--469739	13	4.2	13	75	13	58	49	12	3	34	1.59
469725--469823	33	3.0	33	94	1	164	45	15	7	32	1.73
469818--469857	21	1.9	21	94	0	71	47	7	15	30	1.72
476638--476662	12	2.1	12	100	0	50	36	16	32	16	1.90
491396--491433	20	1.9	20	88	0	58	23	21	18	36	1.95
491522--491575	23	2.3	23	83	0	63	18	25	24	31	1.97
492393--492478	24	3.6	24	82	0	91	47	15	11	25	1.79
492386--492494	48	2.3	48	82	3	121	49	14	11	23	1.77
492411--492494	24	3.5	24	73	3	71	46	15	13	25	1.81
500627--500686	23	2.6	23	86	0	84	18	20	21	40	1.92
503020--503103	43	2.0	42	86	11	118	30	19	23	26	1.98
503037--503320	43	6.7	43	75	6	220	32	17	21	28	1.96
505023--505192	90	1.9	88	92	2	286	37	11	7	43	1.69
513379--513513	41	3.3	40	71	11	105	31	17	18	31	1.95
513376--513693	83	3.9	83	80	4	340	32	18	16	32	1.94
513530--513647	40	2.9	40	74	17	125	35	18	16	28	1.93
522651--522876	120	1.9	120	85	1	319	38	22	17	21	1.93
535761--535808	21	2.3	21	92	0	78	35	20	6	37	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
536833--537183	161	2.1	162	84	6	449	41	17	19	21	1.90
537366--537396	16	2.0	15	93	6	53	38	19	9	32	1.84
539109--539133	4	6.2	4	100	0	50	24	0	0	76	0.80
539117--539460	127	2.7	127	82	6	382	25	16	13	44	1.84
539465--539509	16	2.8	16	100	0	90	26	20	4	48	1.68
539457--539531	16	4.7	16	86	0	87	30	22	5	41	1.76
539463--539550	32	2.8	32	81	3	99	31	22	4	40	1.74
539809--539851	13	3.1	14	78	21	54	27	0	9	62	1.25
542537--542734	110	1.8	110	92	2	335	26	16	20	36	1.93
543757--543825	23	2.8	26	78	13	81	47	5	5	40	1.51
543910--543945	17	2.2	17	90	5	56	44	5	13	36	1.68
544217--544246	14	2.1	14	100	0	60	40	16	13	30	1.87
544600--544641	20	2.1	20	86	8	59	47	11	0	40	1.40
546260--546291	3	10.7	3	100	0	64	65	0	0	34	0.93
547804--547843	20	2.0	20	100	0	80	35	20	25	20	1.96
550056--550192	59	2.3	59	89	2	213	35	16	12	35	1.87
552010--552044	16	2.3	15	95	5	61	48	20	17	14	1.81
552558--552598	17	2.4	18	80	12	50	78	0	2	19	0.87
552648--552696	19	2.6	18	84	9	71	73	2	2	22	1.04
553273--553316	20	2.3	18	81	14	52	47	18	0	34	1.49
553274--553315	19	2.1	21	86	8	61	50	16	0	33	1.46
555085--555120	9	3.6	10	88	11	56	77	0	2	19	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
555085--555120	5	7.2	5	87	12	56	77	0	2	19	0.88
555088--555119	14	2.2	15	94	5	57	78	0	3	18	0.89
560594--560637	19	2.4	18	88	3	61	75	0	4	20	0.98
561103--561132	12	2.5	12	88	0	51	66	3	23	6	1.30
561270--561413	76	1.9	73	81	6	173	59	11	1	28	1.40
567097--567137	17	2.4	17	95	0	73	12	31	21	34	1.91
580245--581598	233	5.8	232	84	3	1713	35	17	15	31	1.91
588317--588364	6	7.8	6	77	13	53	54	0	0	45	0.99
588470--588549	42	2.0	40	83	9	101	27	16	26	30	1.97
588570--589961	234	6.0	234	83	5	1694	35	16	16	32	1.91
589313--589404	42	2.2	41	88	1	130	33	22	19	23	1.97
589341--589408	20	3.3	20	67	15	57	33	22	22	22	1.97
588570--589961	463	3.0	459	84	5	1742	35	16	16	32	1.91
596665--599182	233	10.9	231	82	6	3085	34	16	16	32	1.92
597147--597185	20	2.0	20	84	0	51	30	23	28	17	1.97
597374--597473	42	2.4	42	84	1	130	32	20	23	25	1.98
597583--597697	42	2.8	41	77	5	117	29	20	23	26	1.98
597862--597934	20	3.5	20	70	14	58	35	21	21	20	1.96
598054--598167	41	2.8	41	77	4	122	31	18	22	27	1.97
598298--598399	42	2.5	41	76	10	109	31	18	21	28	1.97
598524--598630	42	2.6	41	77	5	117	30	18	23	27	1.98
598764--598865	42	2.5	41	77	7	116	30	19	21	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
598990--599096	42	2.6	40	78	11	117	30	19	23	26	1.98
599137--599209	16	4.6	16	64	16	53	42	12	2	42	1.56
599124--599229	47	2.3	47	100	0	212	39	14	4	41	1.66
598891--599452	278	2.0	278	88	3	826	35	16	14	33	1.89
599268--599374	42	2.6	41	76	5	108	29	20	22	27	1.98
602832--602865	13	2.6	13	85	0	50	5	17	0	76	0.98
618036--618079	3	14.3	3	80	4	52	63	0	0	36	0.95
618036--618078	22	2.0	22	85	0	59	62	0	0	37	0.95
625506--625730	120	1.9	120	89	1	353	36	23	16	23	1.94
627876--627950	31	2.4	31	77	2	78	28	25	25	21	1.99

Tables:   1   2   3   4   5   6