genome.fa.s8646.2.7.7.80.10.50.1000.2.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: VEPZ01008646.1 Hibiscus syriacus cultivar Beakdansim tig00111633_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1024377

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 507 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)
313477--313526	23	2.2	23	88	0	73	40	6	22	32	1.78
313440--313602	87	1.9	87	90	2	265	42	9	15	32	1.80
313625--314072	197	2.3	198	81	5	516	33	15	13	37	1.87
313596--314118	198	2.6	194	77	6	541	32	15	13	38	1.86
317251--318083	198	4.2	198	91	3	1212	31	13	15	39	1.87
318470--319120	182	3.6	183	83	4	814	27	16	13	42	1.86
321298--321339	21	2.0	21	85	0	57	50	0	0	50	1.00
324508--325140	138	4.6	138	90	3	994	20	20	24	33	1.97
324547--325140	269	2.2	271	90	3	942	21	21	24	33	1.97
325274--325376	23	4.7	23	72	16	94	44	0	17	36	1.55
326137--326206	21	3.3	20	88	5	95	22	24	34	18	1.96
326182--326272	42	2.2	42	79	0	101	25	18	34	21	1.96
326199--326278	42	1.9	42	84	0	106	22	21	33	22	1.97
327828--327885	25	2.4	24	82	5	64	63	1	0	34	1.04
327982--328077	30	3.3	30	73	11	74	58	1	0	40	1.05
330421--330480	30	2.1	27	87	9	84	66	0	0	33	0.92
330419--330485	28	2.5	26	79	9	73	68	0	0	31	0.90
330747--330946	76	2.6	77	88	3	271	23	33	23	19	1.97
338991--339062	30	2.3	30	95	4	126	41	2	18	37	1.65
339370--339581	76	2.8	77	86	2	277	25	32	22	19	1.98
340964--340996	13	2.5	13	95	0	57	33	6	60	0	1.21
342521--342563	21	2.0	21	95	0	77	48	9	16	25	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
342528--342570	21	2.1	21	91	4	70	48	9	20	20	1.77
352605--352644	21	1.9	21	84	0	53	17	40	2	40	1.63
357117--357176	26	2.4	26	76	13	63	33	1	3	61	1.22
359935--359986	19	2.7	19	85	8	61	48	1	13	36	1.54
360772--360809	20	1.9	20	94	0	67	39	10	10	39	1.74
363349--363388	3	13.3	3	94	0	71	35	0	30	35	1.58
363570--363644	38	2.0	38	94	0	132	28	8	12	52	1.66
374462--374506	3	14.7	3	90	4	72	35	2	0	62	1.08
375307--375344	20	1.9	20	88	0	58	23	18	13	44	1.85
378360--378402	18	2.4	18	96	0	77	37	18	23	20	1.94
379115--379144	8	3.9	8	95	4	53	13	20	13	53	1.72
379115--379144	15	1.9	15	93	6	51	13	20	13	53	1.72
380567--380641	13	5.2	13	77	17	60	77	5	14	2	1.06
380575--380634	16	3.9	15	80	10	68	76	5	15	3	1.08
380609--380651	11	3.6	11	82	14	50	83	4	9	2	0.87
380573--380663	45	2.0	46	81	10	107	75	5	13	5	1.15
383105--383212	37	2.9	36	80	4	117	33	16	12	37	1.86
383172--383368	102	1.9	102	90	2	315	28	18	11	40	1.86
383185--383716	270	2.0	273	80	7	602	31	18	12	38	1.87
383633--383763	66	2.0	66	89	0	199	29	18	12	38	1.88
383768--384311	274	2.0	274	84	2	716	27	30	16	26	1.96
383768--384311	137	4.0	136	80	4	592	27	30	16	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
384501--384537	3	12.0	3	88	5	56	35	2	0	62	1.10
384494--384537	22	2.0	22	86	0	61	40	2	0	56	1.11
384500--384537	16	2.4	16	91	4	60	36	2	0	60	1.11
389996--390150	51	3.1	50	69	12	149	27	22	16	33	1.95
389947--390107	51	3.4	46	67	12	117	27	24	13	34	1.92
389949--390164	97	2.2	98	91	0	353	28	22	14	34	1.93
389837--390303	236	2.0	236	90	0	729	28	21	14	35	1.93
390047--390397	139	2.5	139	93	0	621	26	22	15	35	1.94
396075--396113	2	19.5	2	100	0	78	51	0	0	48	1.00
396129--396231	46	2.2	46	81	10	109	35	19	10	33	1.86
396733--396758	9	2.9	9	100	0	52	69	0	0	30	0.89
398244--398302	12	5.2	12	75	17	54	52	0	1	45	1.10
400440--400499	27	2.3	27	91	2	95	26	10	16	46	1.78
400840--400962	60	2.0	60	98	0	237	42	7	13	37	1.71
404831--405195	184	2.0	184	98	1	714	25	23	13	37	1.91
410239--410289	25	2.0	26	81	11	61	17	7	23	50	1.72
434253--434471	43	5.1	43	83	2	244	21	19	24	34	1.96
434205--434471	86	3.1	84	78	4	275	23	18	23	33	1.97
434203--434471	43	6.3	42	80	3	234	23	18	24	33	1.97
434204--434593	171	2.3	172	78	5	387	25	18	24	32	1.97
434203--434593	43	9.1	43	75	8	217	25	18	24	31	1.97
434585--434683	44	2.3	42	83	8	112	31	20	19	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
435003--435113	21	5.3	21	77	6	91	2	37	17	42	1.63
438532--438600	25	2.8	25	100	0	138	27	26	28	17	1.97
439064--439101	20	1.9	20	88	0	58	10	31	34	23	1.89
445482--445620	41	3.4	40	75	5	100	25	20	17	36	1.94
448896--448946	23	2.2	24	82	3	59	56	5	3	33	1.42
451780--452199	133	3.2	133	87	1	563	24	17	31	26	1.97
452284--452342	30	1.9	32	93	6	104	35	10	16	37	1.83
452284--452351	30	2.2	29	87	12	93	30	8	17	42	1.80
452313--452483	65	2.6	67	75	12	167	35	13	15	35	1.86
452445--452504	31	2.0	31	96	3	113	41	11	13	33	1.80
452543--452645	36	2.9	35	88	2	134	35	10	17	35	1.85
452549--452679	36	3.7	35	83	5	104	36	11	17	34	1.86
452695--452781	37	2.3	37	86	7	113	41	13	14	29	1.85
452720--452827	37	3.0	36	83	5	137	39	12	14	33	1.83
453120--453160	14	3.1	14	82	6	50	17	0	29	53	1.44
454168--454239	2	36.5	2	97	2	137	50	0	0	50	1.00
459177--459222	17	2.5	20	86	13	71	60	4	0	34	1.16
459665--459717	20	2.6	20	84	3	61	47	9	5	37	1.60
464575--464642	35	1.9	35	82	5	84	35	19	16	29	1.93
466467--466810	54	6.4	54	85	0	427	29	16	20	32	1.95
473395--473728	54	6.2	54	86	1	420	31	15	19	33	1.94
480350--480384	15	2.3	15	95	0	61	45	17	20	17	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
483862--483968	30	3.6	30	87	3	146	43	6	12	37	1.68
484444--484494	19	2.8	18	82	8	68	60	0	1	37	1.08
487322--487412	30	2.9	31	85	8	123	39	7	9	42	1.67
497888--497921	16	2.1	16	94	0	59	32	26	8	32	1.87
520969--521008	14	2.7	14	84	7	53	32	2	0	65	1.06
520931--521001	23	2.9	24	77	10	63	26	5	0	67	1.12
520993--521035	2	22.0	2	84	13	54	44	4	0	51	1.22
521065--521161	37	2.9	34	81	9	110	27	3	2	67	1.17
521329--521373	8	5.2	8	82	15	54	24	2	0	73	0.95
524521--524566	14	3.4	14	80	14	51	76	0	17	6	1.00
526752--526864	32	3.5	32	80	8	122	30	13	18	37	1.89
527481--527791	106	3.0	105	88	3	461	35	23	18	22	1.96
528125--528300	65	2.7	65	82	3	212	29	20	12	37	1.89
528289--528467	93	1.9	93	91	0	295	32	15	13	38	1.86
528471--528508	15	2.5	15	95	0	67	18	23	18	39	1.92
528529--528611	34	2.5	34	88	2	123	39	18	9	32	1.83
529873--529945	14	5.1	15	82	9	73	39	2	0	57	1.13
529896--529950	2	28.0	2	83	10	69	43	3	1	50	1.30
529981--530076	37	2.8	36	80	13	105	28	4	2	65	1.22
530173--530226	17	3.2	17	75	15	58	14	12	0	72	1.13
530880--530913	17	2.0	17	94	0	59	20	0	2	76	0.92
531483--531518	19	1.9	18	88	5	54	41	11	0	47	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
533722--533913	30	6.5	30	82	1	201	53	1	5	39	1.34
536223--536292	30	2.3	30	90	0	104	38	5	22	32	1.78
543290--543358	30	2.3	30	94	0	120	39	2	24	33	1.70
544259--544311	22	2.4	22	87	0	70	24	15	11	49	1.77
547965--547995	16	1.9	16	93	0	53	9	9	35	45	1.70
550364--550403	20	2.0	20	95	0	71	30	10	7	52	1.62
555917--555966	26	1.9	26	84	8	66	44	0	0	56	0.99
567050--567146	36	2.7	36	84	7	119	41	26	2	29	1.67
567631--567893	143	1.8	144	90	0	420	50	7	6	35	1.55
568063--568157	35	2.7	35	88	0	127	30	0	26	43	1.55

Tables:   1   2   3   4   5