genome.fa.s8355.2.7.7.80.10.50.1000.4.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: VEPZ01008355.1 Hibiscus syriacus cultivar Beakdansim tig00111092_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  983659

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 645 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)
535571--535647	23	3.5	23	77	13	99	24	3	6	64	1.34
535552--535629	4	19.0	4	76	10	77	23	2	5	69	1.21
535675--535699	12	2.1	12	100	0	50	20	0	8	72	1.10
537927--537971	18	2.6	17	89	3	63	40	6	0	53	1.27
537921--537971	17	2.9	17	80	5	66	39	5	1	52	1.37
545722--545768	17	2.8	17	78	15	62	31	2	2	63	1.18
550613--550677	24	2.8	23	88	4	103	24	21	9	44	1.81
552638--552735	43	2.3	43	100	0	196	39	28	2	29	1.68
552736--552770	11	3.1	11	92	8	61	45	25	8	20	1.79
565976--566002	14	1.9	14	100	0	54	7	22	3	66	1.33
569482--569590	8	14.0	8	79	12	97	76	0	13	10	1.03
569486--569603	30	4.1	28	73	21	111	77	0	13	8	0.97
569482--569603	38	3.0	38	73	20	120	77	0	13	9	1.00
569533--569568	10	3.7	10	92	3	56	83	0	13	2	0.76
569502--569603	8	13.6	7	76	17	50	79	0	12	7	0.93
569502--569604	9	11.8	8	74	20	57	78	0	13	7	0.95
570513--571202	105	6.6	105	96	0	1200	36	19	22	21	1.95
584326--584352	14	1.9	14	100	0	54	7	22	3	66	1.33
587830--587937	8	14.0	8	79	14	97	76	0	13	9	1.01
587834--587949	30	3.9	30	75	19	109	78	0	13	7	0.96
587814--587943	38	3.4	36	78	14	136	76	0	14	8	1.00
587863--587923	10	6.4	10	83	16	69	80	0	13	6	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
588859--589548	105	6.6	105	96	0	1200	36	19	22	21	1.95
597176--597221	20	2.3	20	88	7	67	28	19	13	39	1.89
598141--598209	22	3.3	21	66	25	56	27	20	2	49	1.63
598934--598965	13	2.4	14	94	5	57	81	0	18	0	0.70
599073--599129	28	2.0	28	96	0	105	52	5	14	28	1.62
600107--600142	10	3.6	10	85	14	56	83	0	0	16	0.65
600136--600494	38	9.9	35	76	11	237	47	6	2	44	1.40
600136--600323	37	5.0	37	89	7	256	50	5	1	42	1.36
600144--600323	73	2.4	75	87	8	258	49	5	1	43	1.36
600144--600324	75	2.4	77	84	9	255	49	5	1	43	1.35
600294--600358	26	2.4	28	84	10	98	44	9	0	46	1.35
600333--600536	38	5.5	38	81	9	242	44	5	3	46	1.44
602211--602280	19	3.5	19	71	17	52	55	0	2	41	1.14
602227--602295	19	3.2	21	70	19	54	50	0	1	47	1.09
610929--610994	2	33.0	2	90	0	105	46	1	1	50	1.20
611364--611818	226	2.0	228	99	0	896	33	19	15	31	1.94
622097--622122	12	2.2	12	100	0	52	61	30	7	0	1.24
623452--623555	28	3.8	28	90	2	165	24	23	24	28	1.99
623452--623555	55	1.9	55	91	0	172	24	23	24	28	1.99
626492--626589	39	2.5	38	85	8	126	21	37	2	38	1.65
631715--631812	39	2.5	39	83	8	119	21	36	2	39	1.65
632008--632142	30	4.5	30	78	4	146	36	22	10	31	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
632008--632149	60	2.3	61	83	3	171	36	21	10	30	1.88
635669--635720	21	2.5	21	81	3	61	38	19	25	17	1.93
635709--635844	20	6.7	20	81	7	107	36	22	17	22	1.94
635706--635838	61	2.2	62	85	6	173	39	22	16	21	1.92
635749--635844	21	4.6	21	80	7	115	39	22	16	20	1.92
635739--635824	41	2.1	41	91	0	136	38	23	17	20	1.93
636012--636055	22	2.0	22	90	0	70	20	43	15	20	1.88
636319--636356	20	1.9	20	88	0	58	13	15	21	50	1.78
636493--636547	25	2.2	24	78	15	58	20	9	18	52	1.71
637677--637721	18	2.5	18	88	0	72	26	44	15	13	1.83
638197--638263	20	3.4	20	81	2	73	38	23	22	14	1.92
638252--638310	14	3.9	14	76	20	64	49	23	16	10	1.77
638236--638327	33	2.8	33	98	0	175	47	21	18	11	1.80
638236--638332	19	5.6	19	71	22	97	46	21	19	12	1.83
638368--638420	14	3.4	14	72	22	52	11	15	22	50	1.75
638344--638436	33	2.8	33	96	1	170	12	18	21	47	1.82
638339--638436	18	5.8	18	70	22	86	12	18	21	47	1.80
638430--638476	20	2.3	20	88	0	67	17	23	23	36	1.95
638842--638929	41	2.1	42	85	2	124	21	42	14	21	1.89
640345--640380	14	2.6	14	90	0	54	30	0	22	47	1.52
640520--640584	19	3.7	19	84	15	95	46	18	21	13	1.84
640603--640660	20	2.9	20	97	0	107	15	22	24	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
642818--642842	12	2.1	12	100	0	50	0	28	0	72	0.86
643017--643070	24	2.2	24	90	0	81	40	20	16	22	1.91
643780--643851	20	3.6	20	92	0	117	26	19	26	27	1.99
645040--645084	2	22.5	2	100	0	90	51	0	0	48	1.00
645033--645093	12	5.3	12	90	5	74	54	0	0	45	1.00
647940--647980	20	2.0	20	100	0	82	29	19	14	36	1.92
649004--649078	26	2.7	26	83	8	87	21	29	28	21	1.98
652536--652563	5	5.6	5	100	0	56	21	39	21	17	1.93
653673--654530	426	2.0	426	96	0	1574	36	9	18	35	1.83
654811--654841	16	1.9	16	100	0	62	25	6	19	48	1.72
656728--656768	21	2.0	21	95	0	73	26	26	21	24	2.00
657331--657377	22	2.2	22	88	3	69	14	25	34	25	1.94
658730--658776	22	2.2	21	84	3	58	19	21	31	27	1.97
661500--661576	20	3.9	20	98	1	147	29	19	19	31	1.96
663314--663361	23	2.1	23	88	0	69	37	8	20	33	1.83
663392--663439	23	2.1	23	84	7	62	37	10	18	33	1.85
663273--663437	87	1.9	86	94	1	294	40	12	15	31	1.84
663458--663942	199	2.4	199	82	6	549	31	15	14	38	1.87
663458--663942	198	2.4	196	81	6	543	31	15	14	38	1.87
667100--668671	198	7.9	198	88	4	2152	30	13	15	40	1.86
667100--668671	593	2.6	587	88	4	2275	30	13	15	40	1.86
669956--669989	6	5.7	6	89	0	50	20	32	2	44	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
670754--670789	2	18.0	2	100	0	72	50	0	0	50	1.00
671096--671131	15	2.4	15	90	0	63	30	5	47	16	1.70
671568--672532	198	4.9	198	93	1	1582	31	15	15	36	1.90
673980--674015	17	2.1	17	100	0	72	30	11	8	50	1.67
674317--674355	18	2.2	18	90	0	60	7	33	0	58	1.26
675028--675086	24	2.7	23	80	12	70	54	8	0	37	1.31
676934--677289	182	2.0	179	86	5	493	28	17	12	42	1.85
677274--677322	20	2.5	20	89	0	80	32	18	10	38	1.84
677100--677490	199	2.0	200	87	3	563	28	16	12	42	1.84
677848--677917	34	2.1	34	97	0	131	38	12	14	34	1.84
678256--678307	26	2.0	26	96	0	95	34	13	19	32	1.90
683672--683829	21	7.8	20	72	7	86	38	25	17	18	1.92
683796--684065	20	13.5	20	85	4	321	36	26	18	18	1.94
684748--684794	24	2.0	24	87	8	69	25	14	21	38	1.92
684969--684993	12	2.1	12	100	0	50	72	0	28	0	0.86
686252--686307	20	2.8	20	100	0	112	14	23	14	48	1.80
686324--686378	14	3.6	14	73	21	56	45	20	23	10	1.82
686306--686397	33	2.8	33	98	1	175	44	18	23	13	1.85
686338--686454	52	2.2	52	95	0	207	44	17	21	16	1.87
686461--686560	19	5.5	19	84	12	147	15	23	17	45	1.85
686444--686560	53	2.2	53	95	1	209	14	24	17	43	1.86
686667--686703	14	2.6	14	91	0	65	45	21	0	32	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
688682--688738	14	3.7	14	77	20	60	45	22	21	10	1.82
688663--688755	33	2.8	33	95	0	168	47	21	20	10	1.80
688626--688760	19	7.6	19	76	16	128	45	23	19	11	1.82
688756--688884	19	7.3	19	75	17	125	8	17	28	45	1.77
688756--688847	33	2.8	33	93	3	150	7	18	28	45	1.76
688928--689401	93	5.1	93	99	0	930	45	18	12	22	1.83
691107--691196	14	5.7	14	74	23	81	41	24	25	8	1.84
691099--691213	33	3.5	33	95	0	203	44	21	24	9	1.82
691106--691218	19	6.8	18	72	23	88	42	23	24	9	1.84
691230--691286	14	3.7	14	75	20	60	8	24	22	43	1.81

Tables:   1   2   3   4   5   6