genome.fa.s8570.2.7.7.80.10.50.1000.3.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: VEPZ01008570.1 Hibiscus syriacus cultivar Beakdansim tig00111495_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  912507

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 580 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)
343292--343374	21	4.0	21	73	6	78	25	16	24	33	1.96
343272--343370	42	2.4	43	77	11	100	21	18	23	37	1.94
349785--349829	24	1.9	23	81	4	54	51	2	2	44	1.26
349805--349838	17	1.9	18	88	5	52	52	8	0	38	1.33
353759--353823	29	2.2	29	100	0	130	35	24	13	26	1.93
360080--360127	21	2.3	20	82	13	53	43	4	0	52	1.20
367244--367286	17	2.5	17	88	3	59	74	2	0	23	0.93
367870--368068	64	2.9	65	77	17	206	58	11	1	28	1.41
367913--368089	76	2.4	75	85	5	234	58	9	2	29	1.42
369653--369766	53	2.2	52	93	1	192	20	22	16	40	1.91
369860--369905	20	2.3	20	85	3	67	82	4	2	10	0.89
373804--373836	15	2.2	15	100	0	66	6	27	24	42	1.78
375607--375647	4	10.0	4	94	5	73	75	0	0	24	0.80
376214--376260	21	2.3	20	78	10	51	53	21	2	23	1.57
376270--376332	19	3.2	19	75	4	54	55	12	0	31	1.37
376235--376432	64	2.8	68	80	14	199	58	11	1	28	1.42
376290--376454	76	2.2	76	87	3	244	56	10	2	30	1.47
376977--377076	50	2.0	50	90	3	157	45	8	13	34	1.72
378202--378562	77	4.7	77	83	1	384	34	10	18	36	1.84
378394--378518	40	3.2	40	64	11	105	35	9	20	35	1.85
378573--378978	155	2.6	154	87	2	568	42	10	11	35	1.75
379203--379385	77	2.4	77	91	0	285	38	13	14	34	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
379203--379425	77	2.9	77	86	0	221	35	13	14	36	1.85
384756--384867	54	2.1	54	91	0	179	46	10	12	30	1.76
385660--385733	27	2.7	25	80	14	76	50	1	2	45	1.24
385813--385851	17	2.3	17	90	0	60	51	0	2	46	1.14
385808--385858	25	2.0	27	88	7	79	52	0	1	45	1.12
385890--385930	19	2.1	20	86	4	57	56	0	2	41	1.13
387623--387681	29	2.0	29	100	0	118	37	13	20	28	1.91
389649--389693	21	2.1	21	100	0	90	44	8	8	37	1.67
391033--391076	12	3.7	12	87	0	70	47	27	0	25	1.52
403192--403271	20	3.9	20	73	13	65	23	35	26	15	1.94
416437--416483	25	1.9	25	91	4	78	48	2	12	36	1.53
421406--421594	91	2.1	92	97	1	362	28	20	20	30	1.97
421815--421941	3	42.7	3	88	1	193	36	0	2	61	1.09
423975--424338	131	2.8	130	82	3	419	31	10	15	42	1.81
426198--426226	12	2.5	12	94	5	51	27	0	10	62	1.28
426146--426332	75	2.5	76	83	5	238	29	5	12	52	1.61
426352--426382	2	15.5	2	100	0	62	48	0	0	51	1.00
426340--426391	10	5.0	10	83	6	50	40	0	1	57	1.10
429200--429590	186	2.1	185	89	3	592	42	4	8	44	1.53
440916--440963	19	2.5	19	96	0	87	20	27	18	33	1.96
441297--441358	31	2.1	30	85	11	83	58	11	1	29	1.42
445098--445195	20	4.9	20	83	3	108	27	23	23	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
456745--456789	20	2.2	20	80	0	54	33	24	15	26	1.95
456739--456794	20	2.8	20	72	5	51	35	23	16	25	1.94
460466--460518	5	10.0	5	80	11	52	26	0	0	73	0.83
460468--460511	17	2.8	15	83	10	52	27	0	0	72	0.85
460465--460520	21	2.6	22	91	2	87	28	0	0	71	0.86
460617--460648	15	2.1	15	94	0	55	15	0	0	84	0.63
468949--468997	20	2.5	19	80	6	53	48	4	2	44	1.33
474267--474381	54	2.1	54	98	0	221	51	21	8	18	1.73
489529--489578	23	2.2	23	85	0	64	24	10	8	58	1.57
489536--489583	23	2.1	23	88	0	69	22	10	6	60	1.52
490930--490963	11	3.1	11	100	0	68	35	0	20	44	1.52
491212--491709	231	2.2	229	97	0	924	45	7	7	39	1.61
491988--492034	20	2.4	19	89	10	76	55	10	17	17	1.69
491776--492248	181	2.6	182	88	1	680	41	13	17	27	1.87
492178--492220	20	2.3	19	88	11	63	51	11	16	20	1.75
494428--494492	21	3.1	21	88	0	94	41	10	29	18	1.84
494526--494591	33	2.0	33	90	0	105	28	0	48	22	1.51
496384--496432	19	2.6	19	96	0	89	32	2	10	55	1.45
496525--497898	399	3.4	400	97	0	2590	36	14	17	30	1.90
496525--497898	200	6.9	200	97	0	2590	36	14	17	30	1.90
496525--497898	599	2.3	600	98	0	2678	36	14	17	30	1.90
499361--499408	6	8.0	6	80	0	51	39	8	33	18	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
499361--499427	12	5.3	12	79	10	71	37	8	32	20	1.84
499361--499415	18	3.1	18	83	0	74	38	9	32	20	1.84
499374--499427	6	8.5	6	78	11	54	35	9	33	22	1.86
503210--503273	25	2.4	26	87	12	94	37	10	14	37	1.81
503224--503278	25	2.2	25	96	0	101	41	12	10	34	1.78
503625--503719	23	4.2	23	93	1	156	34	6	21	37	1.79
504138--504210	23	3.2	23	84	0	92	35	4	21	38	1.73
504568--504640	23	3.2	23	90	0	110	34	5	20	39	1.76
503929--504807	430	2.0	431	96	0	1616	40	7	12	39	1.70
507445--507482	20	1.9	20	88	0	58	39	7	18	34	1.80
508530--508582	19	2.8	19	88	0	79	33	18	26	20	1.96
508570--508709	64	2.2	64	82	8	171	31	20	23	25	1.98
510168--510230	23	2.7	23	85	0	81	15	26	26	30	1.96
515242--515296	13	4.2	13	90	0	83	25	20	18	36	1.94
515269--515433	85	1.9	85	81	7	201	29	21	18	30	1.97
519512--519574	11	6.3	11	75	17	57	47	0	0	52	1.00
522050--522101	20	2.6	21	76	11	56	26	7	0	65	1.20
528400--528739	114	3.0	114	94	0	572	34	15	17	31	1.92
529690--529834	76	1.9	76	82	2	184	33	18	19	28	1.96
530727--530830	54	1.9	54	84	3	138	38	14	21	25	1.91
531143--531198	23	2.5	23	88	2	87	37	8	14	39	1.77
531713--532037	165	2.0	167	88	4	496	35	13	12	38	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
532041--532404	76	4.8	76	97	0	683	23	18	21	35	1.96
532530--532822	76	3.9	76	96	0	534	22	20	22	35	1.96
532530--532821	151	1.9	151	97	0	548	21	20	22	35	1.96
531924--532825	488	1.9	485	95	0	1491	27	17	19	35	1.94
533015--533071	11	5.8	10	78	14	57	47	0	0	52	1.00
540788--540978	6	32.0	6	84	11	187	16	1	5	76	1.03
540846--540958	29	4.0	28	83	5	120	17	0	7	75	1.02
541401--541915	281	1.8	283	82	2	669	29	13	15	41	1.85
542297--542733	220	2.0	220	89	0	676	32	12	22	33	1.91
544106--544291	32	5.8	32	83	1	194	33	15	19	31	1.93
544106--544325	64	3.4	64	82	1	208	32	15	20	31	1.93
545183--545299	39	3.0	39	87	0	162	51	12	5	30	1.62
547205--547258	20	2.7	19	76	18	65	33	27	18	20	1.96
547287--547339	20	2.7	20	88	5	72	45	24	15	15	1.84
547306--547537	20	11.6	20	77	5	173	39	23	17	19	1.92
547306--547500	80	2.4	81	81	8	227	38	24	17	19	1.93
547306--547537	40	5.8	40	79	6	202	39	23	17	19	1.92
548397--548450	24	2.2	24	86	0	72	22	16	18	42	1.89
550962--551005	20	2.3	19	84	4	52	38	20	20	20	1.94
550989--551072	14	5.1	17	68	24	63	44	17	25	13	1.85
550989--551082	33	2.8	33	98	0	179	43	19	24	12	1.85
550989--551080	19	5.4	19	68	24	87	44	18	23	13	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
551085--551158	19	4.2	19	76	16	86	13	13	22	50	1.77
551097--551190	33	2.8	32	88	3	125	12	18	22	46	1.82
551132--551190	19	3.4	19	71	22	65	15	20	18	45	1.85
551297--551333	14	2.6	14	91	0	65	45	21	0	32	1.52
552684--552750	21	3.2	21	68	4	55	19	20	35	23	1.95
554773--554835	20	3.2	20	80	8	74	46	15	23	14	1.83
554860--554973	19	6.5	19	72	20	95	10	21	23	44	1.83
554860--554973	52	2.2	53	90	1	176	10	21	23	44	1.83
555319--555378	22	2.7	22	92	0	102	30	13	41	15	1.85
555556--555728	20	8.6	20	76	8	154	19	19	23	37	1.94

Tables:   1   2   3   4   5