genome.fa.s8539.2.7.7.80.10.50.1000.3.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: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6067759

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   

This is table  3  of  31  ( 3630 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)
311434--311476	23	1.9	23	90	4	70	32	25	16	25	1.96
313806--313921	43	2.6	45	82	8	141	26	12	20	39	1.89
317963--318178	41	5.2	41	70	7	150	31	15	18	34	1.92
321991--322041	21	2.3	21	80	10	57	70	3	0	25	1.04
321985--322062	33	2.4	33	83	10	90	69	2	2	25	1.14
322883--322959	20	3.8	20	91	0	127	1	25	20	51	1.55
323405--323494	3	31.0	3	91	6	150	66	0	1	32	0.99
323405--323495	20	4.5	20	92	1	146	65	0	1	32	1.00
323752--323811	17	3.4	17	68	17	50	18	23	8	50	1.74
323873--324193	121	2.8	113	81	9	357	27	18	15	38	1.91
325152--325177	13	2.0	13	100	0	52	38	23	7	30	1.83
326172--326329	75	2.1	75	96	0	289	34	22	12	31	1.91
329343--329415	9	8.4	9	86	8	89	6	21	0	71	1.09
331451--331492	21	2.0	21	95	0	75	26	28	21	23	1.99
331597--331639	19	2.3	19	87	0	59	30	16	11	41	1.83
331758--331799	21	2.0	21	95	0	75	23	21	28	26	1.99
331828--331867	20	1.9	21	85	10	55	37	37	10	15	1.80
334159--334199	6	6.0	7	83	16	59	56	12	17	14	1.68
334262--334346	43	1.9	45	90	4	138	34	17	11	36	1.86
336529--336558	14	2.2	14	94	5	53	60	0	0	40	0.97
336623--336735	12	9.9	11	74	19	90	69	2	1	26	1.12
336633--336712	25	3.1	23	77	19	70	70	3	0	26	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
336658--336735	21	3.6	21	77	13	77	71	2	1	24	1.06
336621--336715	3	33.3	3	71	21	55	68	3	1	27	1.11
338036--338120	3	29.3	3	83	7	113	65	0	1	32	1.00
343901--343941	21	2.0	20	86	9	57	31	24	17	26	1.97
346148--346202	22	2.5	22	84	0	65	43	12	21	21	1.86
346876--347016	40	3.5	40	95	0	246	32	28	17	21	1.96
364479--364518	15	2.6	16	84	8	55	15	10	5	70	1.32
363948--364587	322	2.0	322	97	0	1208	24	23	14	37	1.92
366406--366446	21	2.0	21	95	0	73	26	24	26	21	2.00
368326--368366	19	2.1	20	86	13	59	56	12	0	31	1.36
369528--369586	18	3.1	17	76	23	55	30	10	8	50	1.66
369538--369585	21	2.4	21	80	16	57	27	10	8	54	1.63
369903--369943	21	2.0	21	90	0	64	24	26	26	21	2.00
369996--370046	21	2.4	21	96	0	93	25	25	25	23	2.00
381854--381903	20	2.4	21	80	3	57	18	16	16	50	1.79
382656--382698	21	2.0	21	86	0	59	30	27	25	16	1.97
382678--382830	68	2.2	68	86	4	202	27	26	27	18	1.98
383469--383535	22	3.0	22	100	0	134	19	26	26	26	1.99
389575--389617	21	2.0	21	86	0	59	30	27	25	16	1.97
389597--389750	69	2.2	68	86	3	202	27	26	27	18	1.98
390389--390455	22	3.0	22	100	0	134	19	26	26	26	1.99
393660--393702	17	2.6	17	78	14	54	44	2	6	46	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
394398--394468	21	3.2	21	73	13	54	47	2	0	49	1.16
394397--394469	6	12.2	6	77	11	62	49	2	0	47	1.15
394397--394469	24	3.0	24	74	18	71	49	2	0	47	1.15
395769--395802	16	2.0	18	88	11	54	52	0	0	47	1.00
396305--396446	20	7.1	20	89	0	185	35	21	18	25	1.95
403218--403279	21	2.9	21	69	13	54	48	3	0	48	1.17
403217--403302	27	3.4	26	77	19	78	47	5	0	46	1.26
404548--404590	16	2.6	16	81	3	50	58	2	2	37	1.24
405353--405398	23	2.0	23	86	0	65	19	17	23	39	1.92
411508--411590	23	3.8	22	79	9	80	25	33	24	16	1.96
411508--411568	23	2.7	22	89	2	86	24	32	24	18	1.97
413145--413190	18	2.5	17	89	10	65	43	23	32	0	1.54
413208--413253	20	2.3	20	100	0	92	23	19	19	36	1.95
413851--413897	23	2.0	23	91	0	76	36	6	36	21	1.79
413891--413921	16	1.9	16	100	0	62	29	12	6	51	1.65
414029--414053	13	1.9	13	100	0	50	44	8	8	40	1.63
423853--423877	12	2.1	12	100	0	50	68	8	24	0	1.16
429957--430175	40	5.4	40	77	7	199	26	18	20	34	1.96
429965--430175	82	2.6	81	82	7	275	27	18	20	34	1.96
430029--430320	153	1.9	148	83	6	372	27	16	19	36	1.94
430272--430360	41	2.2	41	89	0	133	30	21	13	34	1.92
430285--430395	41	2.7	41	84	5	143	31	20	12	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
435587--435751	79	2.1	79	84	5	210	35	18	13	33	1.89
436984--437080	44	2.3	43	85	5	133	26	14	24	34	1.94
436999--437082	44	1.9	44	92	0	141	27	13	26	33	1.93
437502--437547	21	2.2	21	92	7	76	0	34	21	43	1.53
437502--437557	21	2.6	21	86	11	60	1	32	21	44	1.63
441161--441205	22	2.0	22	91	0	72	13	20	11	55	1.68
446123--446148	13	2.0	13	100	0	52	38	30	30	0	1.58
446131--446262	43	3.1	43	93	0	219	29	19	40	10	1.85
447758--447806	22	2.2	22	96	0	89	30	16	12	40	1.85
448269--448496	123	1.9	123	85	1	323	36	24	8	30	1.86
456769--456798	13	2.3	13	100	0	60	6	6	6	80	1.04
460795--460828	12	2.8	12	90	0	50	26	2	38	32	1.71
460954--460998	13	3.5	13	81	0	54	15	2	13	68	1.30
464882--464911	14	2.1	14	100	0	60	66	0	0	33	0.92
467445--467481	18	2.1	18	100	0	74	24	5	43	27	1.76
470003--470029	13	2.1	13	100	0	54	7	14	0	77	0.97
472436--472487	11	4.6	11	80	17	54	25	21	23	30	1.99
472435--472487	23	2.3	23	90	3	81	24	20	24	30	1.99
473734--473786	20	2.3	23	72	24	58	37	11	0	50	1.38
473739--473780	20	2.0	21	90	4	68	40	14	0	45	1.45
482866--483077	29	7.1	29	66	20	98	31	22	15	31	1.94
482857--483271	56	6.8	56	70	17	267	30	22	15	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
482913--483346	67	6.8	67	74	12	412	30	22	14	32	1.94
482844--483156	123	2.5	123	91	1	484	30	22	15	31	1.95
483179--483268	29	3.2	28	73	12	85	31	23	14	31	1.94
483199--483280	29	3.0	27	72	13	76	31	19	13	35	1.90
482913--483346	190	2.3	189	87	3	629	30	22	14	32	1.94
483179--483362	56	3.1	56	73	15	179	29	22	15	32	1.95
483101--483362	123	2.1	123	88	1	391	29	21	16	32	1.95
483365--483656	86	3.3	89	89	3	439	28	18	22	30	1.97
483991--484045	3	18.3	3	100	0	110	32	0	0	67	0.91
492408--492775	180	2.0	181	95	1	657	56	16	8	19	1.65
493574--493677	42	2.5	41	73	11	104	37	16	13	32	1.87
493574--493802	82	2.8	83	81	5	257	35	16	13	34	1.88
495638--495688	21	2.4	21	93	0	84	33	15	9	41	1.80
499788--499833	24	1.9	24	90	0	74	58	8	0	32	1.28
500002--500083	40	2.0	40	92	0	137	32	0	20	46	1.51
500714--500756	18	2.4	18	92	0	68	20	6	0	72	1.08
504576--504774	86	2.3	87	86	4	280	30	25	23	21	1.99
504837--505524	200	3.4	200	88	0	1018	32	20	20	26	1.97
506612--506651	18	2.2	18	86	0	53	22	10	0	67	1.20
506733--506895	84	2.0	83	81	6	195	25	6	1	66	1.23
506851--506914	29	2.2	29	82	0	74	31	4	1	62	1.25
507232--507270	20	2.0	20	89	0	60	33	10	23	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
509447--509490	15	2.9	15	96	0	79	40	29	13	15	1.86
512977--513003	14	1.9	14	100	0	54	88	0	11	0	0.50
516875--516953	31	2.5	31	83	0	104	46	10	10	32	1.71
517521--517552	16	2.0	16	93	0	55	65	0	0	34	0.93
525745--525799	24	2.5	20	78	18	65	47	1	5	45	1.36
525752--525806	24	2.3	24	96	0	101	47	1	3	47	1.30
531481--531519	18	2.2	18	95	4	71	64	2	0	33	1.08
532242--532273	16	2.0	16	93	0	55	43	0	3	53	1.16
534253--534344	33	2.8	32	75	11	87	58	2	0	39	1.10
534240--534350	17	6.4	18	74	19	69	61	1	0	36	1.07

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31