genome.fa.s8061.2.7.7.80.10.50.1000.3.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: VEPZ01008061.1 Hibiscus syriacus cultivar Beakdansim tig00110556_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5800122

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   

This is table  3  of  26  ( 3118 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)
423497--423542	20	2.4	19	85	7	58	39	26	17	17	1.91
423586--423653	20	3.4	20	83	0	82	20	17	23	38	1.93
425559--425634	20	3.8	20	84	3	109	51	23	15	9	1.72
426225--426401	40	4.3	40	75	7	149	27	20	25	26	1.99
426225--426303	20	4.0	20	94	0	140	25	21	27	25	1.99
426327--426386	22	2.7	22	94	0	102	30	20	26	23	1.98
426327--426394	22	3.2	21	89	4	84	30	20	26	22	1.98
429551--429921	184	2.0	184	99	0	733	38	16	13	32	1.87
434219--434248	12	2.5	12	94	0	51	43	23	6	26	1.78
445586--445624	16	2.5	16	87	4	53	38	2	23	35	1.68
447670--447715	23	2.0	23	83	12	58	26	32	0	41	1.56
450156--450232	32	2.4	31	91	8	111	50	25	11	11	1.73
450642--450707	31	2.1	31	86	5	89	40	4	9	45	1.56
456507--456535	12	2.3	13	94	5	51	58	0	3	37	1.15
456749--456810	8	7.5	8	72	13	54	77	1	6	14	1.04
457920--457971	4	14.2	4	80	15	60	75	1	0	23	0.91
457920--457971	25	2.0	26	92	3	88	75	1	0	23	0.91
458046--458094	15	3.3	15	72	11	55	40	8	2	48	1.44
457975--458168	102	1.9	102	82	9	243	42	5	3	48	1.42
458064--458178	36	3.1	37	87	8	153	40	5	3	51	1.41
458078--458213	36	3.6	36	88	6	166	45	4	2	47	1.38
458199--458246	2	24.5	2	95	4	89	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
458244--458284	4	10.8	4	89	10	68	24	0	24	51	1.49
458250--458284	18	1.9	18	100	0	70	22	0	25	51	1.48
458888--459845	84	11.6	84	73	6	733	25	20	23	30	1.98
458813--459845	164	6.2	163	80	5	968	25	20	23	31	1.98
458888--459670	248	3.2	248	88	1	1097	25	20	23	30	1.98
465104--465158	14	4.1	13	77	13	58	78	3	3	14	1.03
465093--465156	33	1.9	33	81	12	78	75	3	4	17	1.11
466343--466619	37	7.5	36	87	6	376	44	6	2	46	1.43
466371--466612	37	6.6	36	92	5	378	45	5	2	46	1.41
466621--466678	2	29.0	2	100	0	116	50	0	0	50	1.00
466371--466612	73	3.3	73	94	2	405	45	5	2	46	1.41
466977--467002	2	13.0	2	100	0	52	50	0	0	50	1.00
472924--472953	15	2.0	15	93	0	51	76	6	16	0	0.99
481051--481162	58	1.9	58	87	0	161	28	29	10	31	1.91
484535--484593	28	2.1	28	87	0	82	55	10	10	23	1.63
484730--485064	78	4.5	78	81	9	425	37	22	7	31	1.83
484866--485006	70	2.1	66	86	7	194	39	24	7	28	1.83
484751--485064	143	2.1	150	87	6	455	38	23	7	30	1.82
488613--488902	85	3.6	78	89	4	341	31	6	24	38	1.80
488667--488902	85	2.8	85	92	0	400	29	5	24	40	1.78
489059--489113	21	2.6	21	88	5	67	20	7	10	61	1.52
499620--499914	147	2.0	147	99	0	581	44	15	17	22	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
500727--500780	22	2.3	25	81	9	69	53	0	3	42	1.18
502762--503009	101	2.5	99	84	7	322	26	17	16	38	1.91
502762--503011	98	2.5	96	80	12	281	26	18	16	38	1.91
503178--503607	112	3.8	112	83	5	510	28	19	14	37	1.91
504014--504067	21	2.5	22	87	6	83	35	14	14	35	1.88
506077--506621	114	4.8	114	92	0	849	31	21	16	30	1.95
508682--508756	37	2.1	36	97	2	141	18	22	16	42	1.88
513922--513975	22	2.3	25	81	9	69	53	0	3	42	1.18
518922--519278	151	2.3	155	84	7	476	47	5	19	28	1.70
524302--524382	36	2.5	31	71	21	74	46	4	1	46	1.32
525019--525067	22	2.3	22	89	3	73	55	2	4	38	1.31
526477--526513	17	2.2	17	95	0	65	18	2	0	78	0.87
539704--539752	19	2.5	20	86	3	73	30	30	14	24	1.94
542484--542520	15	2.4	15	95	4	65	40	16	13	29	1.86
552208--552249	16	2.6	16	88	0	66	61	9	16	11	1.55
558069--558093	11	2.3	11	100	0	50	84	0	0	16	0.63
567304--567346	2	21.5	2	100	0	86	51	0	0	48	1.00
573230--573270	18	2.3	18	91	4	66	63	2	4	29	1.28
574425--574465	18	2.3	18	91	4	66	63	2	4	29	1.28
574447--574493	22	2.1	22	85	14	62	61	2	0	36	1.08
575743--575844	39	2.9	32	74	19	96	42	31	8	17	1.80
575743--575848	33	3.1	32	75	18	104	42	30	9	17	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
578335--578367	2	16.5	2	100	0	66	51	0	0	48	1.00
581615--581701	40	2.3	36	82	7	93	42	10	21	25	1.84
585186--585229	20	2.1	22	83	8	56	36	27	0	36	1.57
585218--585277	2	31.0	2	90	6	97	46	0	0	53	1.00
590424--590640	103	2.1	102	93	0	371	26	13	23	36	1.92
590656--590724	23	3.0	23	82	6	86	21	27	23	27	1.99
590753--590786	17	2.1	17	88	5	52	32	23	5	38	1.79
595534--595751	103	2.1	103	95	1	393	26	13	23	37	1.91
595768--595835	23	3.0	23	86	0	91	20	26	26	26	1.99
596001--596040	20	1.9	20	90	10	62	27	2	27	42	1.68
598411--598550	64	2.2	64	84	2	183	25	17	29	27	1.98
598823--598881	32	1.9	32	83	10	79	55	5	8	30	1.51
599207--599274	17	3.9	17	76	12	68	54	1	0	44	1.09
599229--599384	18	8.3	18	69	16	77	46	5	2	46	1.38
599234--599418	98	1.9	98	93	0	316	45	5	3	45	1.44
599403--599514	2	57.5	2	69	18	67	45	2	4	47	1.37
599303--599436	28	4.8	27	68	16	87	46	5	4	43	1.48
599407--599465	23	2.5	23	78	10	57	45	3	3	47	1.36
599270--599436	13	12.0	13	68	15	77	44	5	4	44	1.49
599729--599838	42	2.6	42	95	0	193	39	8	12	40	1.73
599770--599884	24	5.3	22	67	19	55	41	5	9	43	1.59
599851--599892	2	20.0	2	90	9	66	47	2	2	47	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
600077--600212	57	2.4	57	82	4	170	44	8	6	40	1.62
600243--600295	21	2.5	21	81	0	70	37	7	5	49	1.55
600242--600421	88	2.0	88	84	6	231	41	6	4	48	1.48
600316--600383	21	3.2	21	75	10	59	45	4	4	45	1.43
600357--600426	31	2.3	31	88	9	101	42	2	2	51	1.31
600270--600443	88	2.0	88	83	8	221	44	5	3	46	1.44
600460--600502	12	3.2	12	77	22	50	48	0	0	51	1.00
600440--600506	28	2.4	28	85	7	82	47	0	1	50	1.10
600441--600502	22	2.9	23	77	17	62	48	0	1	50	1.10
601924--601992	33	2.1	33	100	0	138	40	2	5	50	1.41
602206--602259	23	2.3	23	80	0	63	25	9	25	38	1.86
602800--602865	15	4.4	15	74	14	73	37	6	3	53	1.41
602954--603003	23	2.1	24	92	3	84	50	2	0	48	1.12
603014--603076	22	2.7	23	79	20	76	38	1	1	58	1.17
603260--603346	16	5.4	16	88	0	102	44	13	20	20	1.85
619219--619258	21	1.9	21	89	0	62	30	7	7	55	1.56
626200--626250	24	2.1	25	78	7	61	58	1	0	39	1.09
626346--626440	45	2.2	45	79	12	108	56	3	1	38	1.22
626393--626451	17	3.4	17	73	15	57	54	5	0	40	1.23
626425--626475	8	6.4	8	73	8	50	60	0	0	39	0.97
626425--626475	23	2.1	25	89	7	79	60	0	0	39	0.97
626425--626483	14	4.4	13	72	20	50	59	1	0	38	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
638779--638850	34	2.2	32	82	7	81	26	27	12	33	1.92
639226--639265	19	2.1	19	90	9	64	20	30	32	17	1.95
646430--646484	19	2.8	20	70	10	51	34	9	7	49	1.62
646685--646937	118	2.1	119	80	7	293	50	6	7	35	1.56
647693--647718	5	5.2	5	100	0	52	23	57	19	0	1.40
648422--648465	3	14.7	3	100	0	88	65	0	0	34	0.93
649762--649799	15	2.5	15	83	16	51	68	0	0	31	0.90
650495--650543	25	2.0	25	84	11	66	42	6	4	46	1.47
652117--652199	13	6.8	13	76	10	68	26	21	18	33	1.96
652085--652222	11	11.6	11	73	13	87	26	21	21	30	1.98

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