genome.fa.s2647.2.7.7.80.10.50.1000.20.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: VEPZ01002647.1 Hibiscus syriacus cultivar Beakdansim tig00005406_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7027529

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  20  of  26  ( 3011 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)
5228771--5228826	19	3.2	18	78	12	64	80	10	7	1	0.97
5228771--5228818	18	2.7	18	81	18	64	79	10	8	2	1.02
5229599--5229629	11	2.8	11	100	0	62	64	9	9	16	1.48
5229599--5229640	22	1.9	22	85	9	59	66	7	9	16	1.42
5236351--5236396	23	2.0	23	83	8	58	36	6	8	47	1.60
5240803--5240848	23	2.0	23	83	8	58	36	6	8	47	1.60
5245562--5245609	15	3.1	15	82	5	60	68	0	14	16	1.21
5245562--5245611	16	3.2	16	80	2	57	68	0	14	18	1.22
5255013--5255053	20	2.1	20	90	4	66	7	12	0	80	0.90
5255013--5255085	13	5.6	12	74	20	58	5	15	2	76	1.08
5255047--5255092	19	2.5	18	86	10	58	2	17	6	73	1.14
5257311--5257349	20	1.9	21	84	5	53	33	0	38	28	1.57
5258732--5258873	36	3.9	36	88	0	212	28	36	5	28	1.80
5259319--5259362	9	5.2	8	82	17	54	84	0	13	2	0.73
5263291--5263432	36	3.9	36	89	0	212	27	37	6	28	1.81
5271207--5271270	29	2.2	29	94	0	110	48	3	23	25	1.65
5274903--5274942	20	1.9	20	85	10	53	32	7	32	27	1.85
5276277--5276306	13	2.4	13	94	5	53	26	30	0	43	1.55
5280462--5280501	20	1.9	20	85	10	53	32	7	32	27	1.85
5285432--5285504	35	2.0	37	89	5	114	31	34	4	30	1.77
5289363--5289430	35	1.9	36	93	3	120	30	35	4	29	1.77
5311956--5312008	11	4.6	11	76	6	52	81	9	7	1	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5311967--5311998	13	2.5	13	94	0	55	81	9	9	0	0.88
5311981--5312015	10	3.4	10	88	4	52	74	14	8	2	1.17
5320554--5320589	17	2.1	18	89	5	56	61	27	2	8	1.39
5327133--5327158	13	2.0	13	100	0	52	30	30	0	38	1.58
5330659--5330721	29	2.2	29	97	0	117	23	19	33	23	1.97
5333614--5333656	2	21.5	2	100	0	86	51	0	0	48	1.00
5333707--5333760	23	2.3	24	87	3	83	62	11	16	9	1.52
5333707--5333766	24	2.6	23	81	7	77	63	10	18	8	1.50
5336515--5336544	13	2.4	13	94	5	53	43	0	30	26	1.55
5341837--5341883	23	2.0	24	83	4	60	68	12	10	8	1.40
5343083--5343133	21	2.2	24	83	10	63	68	3	15	11	1.34
5343780--5343888	36	3.0	36	86	2	157	30	5	32	32	1.80
5344992--5345033	22	1.9	23	85	9	61	50	14	11	23	1.76
5350735--5350760	5	5.2	5	100	0	52	80	0	19	0	0.71
5353336--5353375	20	1.9	22	90	10	66	25	20	10	45	1.81
5354811--5354845	12	3.0	12	87	4	54	65	8	14	11	1.46
5359160--5359197	20	1.9	20	88	0	58	0	5	15	78	0.91
5359524--5359559	12	3.1	12	88	4	56	66	8	13	11	1.44
5364123--5364152	13	2.4	13	94	5	53	26	30	0	43	1.55
5368139--5368199	25	2.4	25	78	13	70	9	16	14	59	1.61
5371834--5371888	26	2.1	26	100	0	110	25	7	18	49	1.73
5375531--5375574	19	2.2	21	76	19	58	9	15	15	59	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5380555--5380631	35	2.2	36	83	2	102	28	37	2	31	1.71
5380984--5381046	25	2.6	23	78	14	63	79	3	17	0	0.86
5380988--5381032	23	2.0	23	82	8	56	82	4	13	0	0.82
5381233--5381291	16	3.6	16	79	6	57	15	18	0	66	1.26
5392331--5392366	15	2.4	15	90	0	54	13	22	2	61	1.46
5412233--5412283	20	2.6	20	90	9	79	35	11	5	47	1.65
5418458--5418504	22	2.1	22	84	7	60	76	17	6	0	0.98
5418468--5418504	11	3.4	11	92	0	65	72	18	8	0	1.08
5427211--5427283	35	2.0	37	92	5	123	30	4	34	31	1.77
5429064--5429112	19	2.4	21	90	6	75	48	8	8	34	1.62
5432260--5432319	25	2.5	23	82	15	77	1	13	5	80	0.96
5433015--5433066	19	2.6	21	90	6	81	46	7	13	32	1.72
5443117--5443163	24	2.0	22	84	15	60	29	0	34	36	1.58
5443117--5443184	35	1.9	36	87	3	102	30	1	35	32	1.67
5447298--5447344	19	2.5	19	83	13	62	85	2	12	0	0.70
5447298--5447342	23	2.0	23	86	8	65	84	2	13	0	0.72
5449205--5449259	24	2.3	24	75	9	60	67	10	14	7	1.41
5450908--5450959	21	2.6	21	84	6	72	32	13	7	46	1.72
5451665--5451723	17	3.6	17	73	17	63	77	5	15	1	1.01
5451667--5451719	8	6.2	8	77	12	52	79	3	15	1	0.96
5454777--5454828	21	2.6	21	84	6	72	32	13	7	46	1.72
5455534--5455580	17	2.7	18	86	3	60	78	6	12	2	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5455543--5455594	13	4.0	13	76	14	54	76	3	15	3	1.07
5455542--5455610	31	2.2	30	82	14	79	75	4	14	5	1.15
5458646--5458697	21	2.6	21	84	6	72	32	13	7	46	1.72
5459403--5459467	17	3.6	17	78	17	60	78	4	15	1	0.99
5459406--5459467	19	3.2	19	76	19	65	79	3	16	1	0.95
5459406--5459462	13	4.3	13	75	18	55	78	3	15	1	0.96
5459411--5459479	31	2.2	30	85	14	88	76	4	14	4	1.09
5462516--5462567	21	2.6	21	84	6	72	32	13	7	46	1.72
5463273--5463337	17	3.6	17	78	17	60	78	4	15	1	0.99
5463276--5463337	19	3.2	19	76	19	65	79	3	16	1	0.95
5463276--5463332	13	4.3	13	75	18	55	78	3	15	1	0.96
5463281--5463349	31	2.2	30	85	14	88	76	4	14	4	1.09
5466385--5466436	21	2.6	21	87	6	72	34	15	5	44	1.70
5473824--5474321	246	2.0	246	94	1	883	27	24	7	40	1.81
5479239--5479283	20	2.2	20	88	7	65	84	0	13	2	0.72
5479239--5479283	10	4.5	10	83	8	56	84	0	13	2	0.72
5479310--5479365	14	3.8	14	76	17	51	76	3	14	5	1.09
5479307--5479374	30	2.2	32	82	10	88	67	5	17	8	1.37
5479486--5479540	16	3.4	16	79	18	60	14	18	1	65	1.36
5483817--5483878	28	2.1	29	82	11	74	66	4	19	9	1.39
5495016--5495052	16	2.4	17	86	13	53	64	0	21	13	1.27
5499005--5499053	16	2.9	17	84	9	64	67	0	18	14	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5499255--5499298	6	7.2	6	82	12	54	0	18	2	79	0.83
5499255--5499298	13	3.6	12	82	11	54	0	18	2	79	0.83
5506256--5506318	12	5.1	12	74	14	65	0	6	7	85	0.73
5506261--5506318	14	4.4	14	87	12	72	0	6	6	86	0.72
5506256--5506319	24	2.6	24	80	2	74	0	6	9	84	0.78
5509536--5509574	11	3.7	10	86	10	51	89	5	2	2	0.63
5509544--5509575	11	2.8	11	95	4	55	90	6	3	0	0.53
5523837--5523880	12	3.6	11	82	17	52	75	4	20	0	0.98
5530550--5530585	12	3.0	12	92	8	56	0	22	0	77	0.76
5532634--5532701	35	1.9	36	90	3	111	30	36	1	30	1.67
5536389--5536426	12	3.1	12	82	17	51	73	7	10	7	1.24
5536469--5536498	13	2.2	14	94	5	53	73	6	20	0	1.05
5547466--5547497	16	2.0	17	88	11	50	28	15	0	56	1.40
5551411--5551459	19	2.5	20	78	21	59	69	0	8	22	1.14
5551872--5551923	19	2.6	21	90	6	81	46	5	11	36	1.64
5553476--5553526	24	2.2	23	92	3	84	19	29	17	33	1.95
5555534--5555582	19	2.5	20	78	21	59	67	0	8	24	1.18
5557231--5557264	10	3.3	11	88	12	54	88	11	0	0	0.52
5557213--5557257	9	4.9	9	78	5	54	82	11	4	2	0.91
5561296--5561402	50	2.1	50	79	6	119	19	21	23	35	1.96
5561942--5561993	19	2.6	21	90	6	81	46	5	11	36	1.64
5563349--5563385	12	3.2	12	85	14	51	29	8	45	16	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5564535--5564591	23	2.4	24	82	8	73	63	12	14	10	1.53
5564547--5564596	24	2.1	23	85	3	64	62	12	16	10	1.55
5567380--5567559	90	2.0	91	89	5	276	29	21	26	23	1.99
5585695--5585755	12	4.9	12	82	6	59	81	9	8	0	0.86
5585719--5585771	21	2.5	21	81	0	61	73	15	11	0	1.09
5585703--5585764	12	5.5	11	78	17	56	79	11	9	0	0.95
5594492--5594551	30	2.0	31	83	3	77	51	10	10	28	1.67
5598832--5598890	22	2.6	23	81	8	66	22	20	15	42	1.89
5609362--5609421	23	2.5	22	76	12	66	65	10	15	10	1.48
5610724--5610766	23	1.9	21	81	13	50	32	18	13	34	1.90

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