genome.fa.s8554.2.7.7.80.10.50.1000.3.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: VEPZ01008554.1 Hibiscus syriacus cultivar Beakdansim tig00111458_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3217407

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  3  of  10  ( 1197 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)
481379--481455	19	4.3	19	77	15	83	14	14	24	46	1.81
481394--481487	33	2.8	33	83	0	116	12	18	22	46	1.82
481430--481487	19	3.3	19	70	22	63	15	20	18	44	1.86
481594--481630	14	2.6	14	91	0	65	45	21	0	32	1.52
485065--485146	20	4.2	20	80	9	96	46	18	21	13	1.83
485063--485139	40	1.9	39	89	2	118	45	19	23	11	1.83
485063--485199	19	7.6	19	71	18	114	46	18	21	13	1.83
485071--485199	33	3.7	33	82	9	141	45	19	21	13	1.84
485235--485306	20	3.5	20	81	5	83	13	16	18	51	1.77
485871--486002	20	6.4	20	79	5	147	17	18	24	40	1.91
485871--486024	40	3.7	42	81	7	174	18	18	24	38	1.92
485868--486044	81	2.2	82	82	5	225	17	18	24	39	1.91
486011--486063	20	2.7	20	93	0	88	13	16	24	45	1.83
497819--498647	55	15.1	55	84	2	1044	32	18	24	24	1.97
499121--499159	21	1.9	21	84	5	53	25	15	2	56	1.52
501915--501990	35	2.2	35	100	0	152	30	13	25	31	1.93
502231--502282	22	2.5	22	82	17	58	28	32	5	32	1.81
502242--502289	22	2.1	23	81	14	55	27	37	4	31	1.76
502855--502911	30	1.9	30	100	0	114	38	17	7	36	1.77
508426--508494	21	3.2	21	74	22	79	33	26	20	20	1.97
511045--511083	18	2.2	18	90	0	60	23	30	12	33	1.92
520057--520086	15	2.0	15	100	0	60	40	6	0	53	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520641--520728	34	2.6	34	85	3	106	19	28	21	30	1.97
523422--523489	26	2.6	26	83	6	93	25	11	1	61	1.38
523422--523526	55	2.0	55	83	5	135	26	11	2	59	1.46
523785--523843	21	2.8	21	81	0	73	10	27	42	20	1.84
525922--525953	3	10.7	3	100	0	64	31	0	0	68	0.90
527359--527408	14	3.6	14	76	15	50	44	0	0	56	0.99
527479--527576	16	6.0	16	75	11	83	34	3	1	61	1.18
527486--527559	25	2.8	26	79	15	80	35	1	0	63	1.03
527360--527559	43	4.7	44	70	17	138	40	3	0	56	1.17
533436--533588	60	2.5	59	80	11	152	41	4	22	31	1.74
533484--533619	60	2.3	59	82	7	157	40	5	21	33	1.75
533982--534057	5	15.2	5	100	0	152	59	0	0	40	0.98
536515--536578	29	2.2	29	85	2	83	32	25	4	37	1.77
537110--537134	12	2.1	12	100	0	50	52	24	0	24	1.48
542154--542195	3	14.0	3	100	0	84	66	0	0	33	0.92
543286--543313	2	14.0	2	100	0	56	50	0	0	50	1.00
545347--545384	20	1.9	20	88	0	58	21	26	10	42	1.85
547054--547097	22	2.1	21	87	8	63	61	2	0	36	1.09
553075--553155	23	3.5	23	83	3	92	25	4	18	50	1.67
553338--553416	12	6.6	12	77	0	77	45	6	17	30	1.73
553338--553416	24	3.3	24	75	7	88	45	6	17	30	1.73
553349--553430	24	3.4	24	77	0	92	47	8	17	26	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
553349--553430	36	2.3	36	82	0	92	47	8	17	26	1.76
557011--557068	23	2.5	23	97	0	107	20	17	20	41	1.90
558813--558857	22	2.1	21	91	4	72	20	2	37	40	1.65
568540--568564	12	2.1	12	100	0	50	76	24	0	0	0.80
570645--570678	12	2.8	12	95	0	59	41	8	2	47	1.50
571084--571134	18	2.7	19	81	9	59	25	31	29	13	1.94
571103--571142	18	2.2	18	100	0	80	20	35	25	20	1.96
575229--575275	20	2.3	20	85	7	60	23	23	27	25	2.00
587859--588247	194	2.0	195	98	1	755	37	13	14	34	1.86
595459--595571	48	2.5	44	83	8	138	30	21	8	38	1.84
602433--602545	48	2.5	44	83	8	138	30	21	8	38	1.84
606876--606939	24	2.7	24	80	0	74	28	20	15	35	1.93
606884--606974	24	3.8	24	73	11	78	28	20	15	35	1.93
608555--608597	21	2.0	21	100	0	86	39	9	23	27	1.85
610792--610923	44	3.0	44	80	8	167	31	24	21	23	1.98
610792--610902	23	4.9	23	78	14	97	29	23	23	23	1.99
610793--610923	46	2.9	44	80	8	156	31	24	21	22	1.98
616132--616190	21	2.7	21	82	10	66	32	25	18	23	1.97
616134--616211	23	3.5	23	82	6	81	32	23	21	23	1.98
616207--616248	21	2.0	21	90	0	66	35	30	16	16	1.92
616213--616256	21	2.1	21	86	0	61	40	22	15	20	1.90
619202--619259	20	2.8	22	75	20	70	27	29	13	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
623446--623470	2	12.5	2	100	0	50	48	0	0	52	1.00
624133--624715	200	2.9	199	91	0	932	31	15	13	39	1.86
624961--625005	18	2.5	18	85	7	56	62	6	15	15	1.52
628884--628916	13	2.6	13	95	4	59	12	18	18	51	1.76
637244--637887	183	3.5	183	89	2	990	27	14	14	43	1.84
643414--643485	29	2.4	30	81	4	92	22	11	5	61	1.50
643429--643569	30	4.7	29	74	10	70	18	11	11	58	1.61
643492--643567	30	2.6	28	79	10	71	14	9	11	64	1.49
646558--646617	21	2.9	21	95	2	104	36	18	15	30	1.91
661268--661330	32	2.0	32	84	6	83	26	12	26	33	1.93
661636--661694	30	1.9	32	89	6	95	30	20	11	37	1.89
662319--662358	3	13.3	3	100	0	80	32	0	0	67	0.91
663450--663676	115	2.0	115	99	0	445	25	24	13	36	1.92
664059--664214	30	5.2	29	76	10	129	21	12	7	58	1.59
664050--664166	60	2.0	60	84	6	157	25	13	5	55	1.59
664050--664144	29	3.2	29	79	7	102	26	13	4	55	1.56
664171--664227	30	1.9	30	92	0	96	19	8	10	61	1.54
670344--670405	22	2.8	22	92	2	97	14	12	11	61	1.57
671408--671434	4	6.8	4	100	0	54	77	0	0	22	0.76
674938--675308	185	2.0	185	97	0	706	36	17	15	30	1.91
683457--683575	32	3.7	32	84	2	114	35	21	9	34	1.85
683482--683585	32	3.2	32	84	2	147	32	21	10	35	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
691181--691221	2	20.0	2	90	5	64	51	0	2	46	1.14
691226--691253	13	2.2	13	100	0	56	28	14	10	46	1.78
696073--696130	20	2.6	22	89	10	84	25	22	20	31	1.98
700137--700194	20	2.6	22	89	10	84	25	22	20	31	1.98
700182--700322	64	2.2	63	82	7	169	25	23	18	32	1.97
704199--704256	20	2.6	22	89	10	84	25	22	20	31	1.98
704307--704346	8	4.8	8	82	11	53	25	25	22	27	2.00
708902--709031	22	6.0	22	85	3	174	39	11	6	43	1.66
714389--714425	13	2.8	13	91	4	56	45	0	0	54	1.00
717806--718004	94	2.1	94	84	3	258	41	12	21	24	1.87
718344--718674	54	6.1	54	90	1	511	35	12	15	36	1.85
718335--718731	162	2.4	162	84	2	485	34	13	15	36	1.87
724485--724672	94	2.0	95	89	1	288	37	11	25	26	1.90
724491--724696	94	2.2	93	84	6	252	36	12	25	25	1.91
725022--725325	54	5.6	54	90	0	448	34	14	16	34	1.89
725022--725376	108	3.3	107	85	3	453	34	13	16	34	1.88
725847--727313	488	3.0	487	88	3	2070	34	18	13	34	1.90
727757--727929	85	2.0	85	100	0	346	32	17	17	31	1.94
734351--734395	21	2.2	21	80	7	58	46	11	33	8	1.70
734590--734650	28	2.2	28	96	0	113	34	18	8	39	1.80
736830--737316	54	9.0	54	77	6	398	30	21	15	32	1.94
736840--737316	108	4.4	109	77	5	441	30	22	15	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
742625--742650	5	5.2	5	100	0	52	23	57	19	0	1.40
751703--751929	100	2.3	100	96	0	427	39	19	11	29	1.88
753641--753670	15	1.9	16	93	6	53	43	6	3	46	1.46
753960--754029	5	13.6	5	94	5	122	62	0	18	18	1.32
754736--755075	46	7.2	46	80	8	209	22	22	10	44	1.84
754751--754907	72	2.2	72	89	0	242	21	24	10	43	1.84
754736--755131	118	3.3	118	88	2	587	22	21	11	43	1.85
754847--755118	26	11.8	20	72	20	85	21	22	12	43	1.85
754868--755098	72	3.2	72	85	9	251	22	21	12	44	1.84
754983--755122	72	2.0	71	92	1	235	22	22	12	42	1.86

Tables:   1   2   3   4   5   6   7   8   9   10