genome.fa.s8747.2.7.7.80.10.50.1000.20.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: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12616935

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   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  20  of  51  ( 6054 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)
5149428--5149495	10	6.5	10	72	9	55	80	2	11	4	0.96
5152388--5152441	24	2.2	24	78	15	58	38	3	5	51	1.43
5157375--5157715	167	2.0	173	95	3	631	35	18	12	33	1.88
5161349--5161404	24	2.3	24	78	0	67	57	17	14	10	1.65
5161391--5161425	8	4.2	8	85	7	52	82	0	14	2	0.77
5161393--5161426	17	2.0	17	94	0	59	79	0	17	2	0.86
5163245--5163364	60	2.0	60	100	0	240	26	15	30	28	1.96
5164846--5164899	6	9.0	6	76	15	58	79	3	16	0	0.87
5165729--5165982	127	2.0	126	97	2	483	35	16	25	22	1.95
5172597--5172636	17	2.3	18	86	4	55	15	12	0	72	1.12
5186279--5186389	38	2.9	38	89	4	161	27	22	16	34	1.95
5190763--5190888	47	2.8	45	86	5	173	31	23	5	39	1.77
5190997--5191125	59	2.2	59	88	0	186	28	25	17	27	1.98
5197309--5197361	22	2.2	25	87	9	76	60	7	18	13	1.56
5197322--5197367	25	1.9	23	82	8	56	65	8	17	8	1.45
5198530--5198588	30	2.0	30	86	0	82	33	13	16	35	1.88
5200494--5200529	19	1.9	18	94	5	63	27	11	16	44	1.82
5200831--5200858	14	2.0	14	100	0	56	28	14	7	50	1.69
5202781--5202829	24	2.0	25	84	4	64	55	16	20	8	1.66
5209463--5209705	58	4.2	58	72	15	162	31	22	10	35	1.88
5209460--5209705	117	2.1	116	84	3	323	31	22	10	35	1.88
5219064--5219199	42	3.2	42	97	0	263	39	2	27	30	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5224804--5224855	24	2.2	24	82	0	59	44	17	15	23	1.86
5224860--5224942	23	3.6	23	78	0	85	36	22	21	19	1.95
5225938--5226150	58	3.7	58	75	8	207	29	24	10	35	1.89
5225913--5226149	117	2.0	117	90	0	375	30	24	9	35	1.87
5225913--5226149	58	4.1	58	74	10	196	30	24	9	35	1.87
5232242--5232279	7	5.4	7	87	0	58	47	0	23	28	1.52
5232240--5232279	21	1.9	21	94	0	71	50	0	22	27	1.50
5232558--5232618	23	2.7	23	81	0	68	39	19	24	16	1.92
5233568--5233791	58	3.8	58	76	8	229	29	23	9	36	1.87
5233543--5233792	117	2.1	117	88	2	360	30	23	9	36	1.87
5235985--5236043	30	2.0	28	84	12	75	45	0	20	33	1.51
5240388--5240423	17	2.1	18	89	5	56	61	30	0	8	1.26
5243098--5243140	20	2.2	20	91	4	70	46	4	9	39	1.57
5246421--5246501	35	2.3	35	86	0	108	25	33	3	37	1.74
5246946--5246983	15	2.5	16	87	12	62	81	0	18	0	0.69
5247112--5247169	15	3.7	15	76	15	55	18	17	0	63	1.31
5251789--5251843	20	2.8	20	97	0	101	23	12	7	56	1.61
5252347--5252398	23	2.3	23	100	0	104	28	17	21	32	1.96
5259270--5259306	18	2.1	18	94	0	65	40	0	27	32	1.57
5259808--5259837	11	2.7	11	100	0	60	60	13	20	6	1.55
5268256--5268303	24	2.0	24	83	0	60	31	18	16	33	1.94
5276903--5276940	5	7.8	5	85	14	53	0	18	0	81	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5276902--5276941	9	4.3	9	84	6	53	0	17	0	82	0.67
5276938--5276981	22	2.0	23	95	4	81	13	15	13	56	1.67
5282078--5282127	24	2.1	24	84	0	64	16	8	10	66	1.44
5282920--5282973	25	2.4	21	75	21	63	25	16	35	22	1.95
5282928--5282978	25	2.0	25	100	0	102	27	15	35	21	1.94
5285741--5285793	23	2.3	23	83	9	63	9	13	11	66	1.46
5286744--5286839	51	1.9	50	89	2	147	29	17	34	18	1.94
5286744--5286839	25	3.8	25	87	2	147	29	17	34	18	1.94
5287626--5287944	160	2.0	160	100	0	638	30	13	19	36	1.90
5295856--5295887	15	2.2	14	94	5	55	40	12	0	46	1.42
5295852--5295902	19	3.0	18	78	21	65	39	11	3	45	1.59
5296034--5296089	23	2.4	23	100	0	112	58	5	16	19	1.56
5301091--5301144	23	2.2	25	83	6	67	0	16	7	75	1.01
5302057--5302096	12	3.3	12	86	10	55	67	7	17	7	1.38
5302058--5302103	11	4.1	11	88	8	58	69	6	15	8	1.34
5302615--5302705	36	2.6	35	80	11	105	29	6	35	28	1.83
5302639--5302717	36	2.2	36	93	4	133	27	5	37	29	1.78
5303054--5303104	19	2.6	20	87	3	68	45	5	15	33	1.71
5306280--5306320	12	3.5	12	90	3	66	75	7	14	2	1.12
5306856--5306909	23	2.2	25	83	6	67	0	16	7	75	1.01
5307821--5307860	12	3.3	12	86	10	55	67	7	17	7	1.38
5307822--5307867	11	4.1	11	88	8	58	69	6	15	8	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5308382--5308485	36	2.9	36	90	2	149	29	6	34	28	1.83
5308825--5308875	19	2.6	20	87	3	68	45	5	13	35	1.68
5312360--5312411	22	2.3	23	93	3	88	28	3	34	32	1.76
5312362--5312441	36	2.2	38	78	17	98	31	5	32	31	1.79
5312380--5312451	36	2.0	36	97	0	135	29	5	34	30	1.80
5312791--5312841	20	2.6	20	87	3	68	45	5	15	33	1.71
5317614--5317648	16	2.2	16	89	0	52	62	0	0	37	0.95
5321530--5321609	35	2.2	37	91	4	128	31	37	3	27	1.74
5321990--5322034	23	2.0	21	87	8	63	82	4	13	0	0.82
5321990--5322034	17	2.6	18	82	13	58	82	4	13	0	0.82
5321990--5322036	11	4.1	11	78	15	51	80	4	14	0	0.85
5322246--5322284	16	2.4	16	86	0	51	10	15	2	71	1.23
5325544--5325623	35	2.2	37	91	4	128	31	37	3	27	1.74
5335329--5335381	23	2.3	23	77	6	63	11	13	13	62	1.55
5339638--5339733	30	3.2	30	72	5	86	36	14	25	23	1.93
5340512--5340576	29	2.2	29	100	0	130	32	16	12	38	1.86
5342972--5343003	11	2.9	11	100	0	64	46	34	9	9	1.68
5347185--5347216	11	2.9	11	100	0	64	46	34	9	9	1.68
5351801--5351881	30	2.7	30	73	7	83	39	13	23	23	1.90
5352649--5352673	5	5.0	5	100	0	50	80	0	20	0	0.72
5358323--5358365	15	2.7	15	78	7	50	16	23	0	60	1.35
5360907--5361018	35	3.2	34	79	5	118	29	35	3	31	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5361716--5361778	26	2.5	26	94	2	110	26	34	0	38	1.57
5365452--5365557	35	3.0	35	85	1	122	27	35	3	33	1.75
5372202--5372228	14	1.9	14	100	0	54	22	40	0	37	1.54
5372638--5372679	21	2.0	22	86	9	61	78	9	11	0	0.96
5378106--5378141	15	2.4	15	90	0	54	25	38	8	27	1.84
5382347--5382375	14	2.1	14	100	0	58	27	34	0	37	1.57
5383903--5383934	12	2.7	12	100	0	64	65	6	15	12	1.44
5385387--5385428	2	22.0	2	80	9	52	45	2	0	52	1.13
5385381--5385433	12	4.8	11	82	13	56	41	1	3	52	1.30
5394593--5394730	36	3.9	36	92	0	224	30	34	5	29	1.79
5394612--5394713	11	8.5	11	69	23	64	31	34	3	30	1.76
5401577--5401617	15	2.8	16	82	14	52	80	0	19	0	0.71
5401574--5401615	12	3.3	12	81	18	50	83	0	16	0	0.65
5416738--5416783	18	2.6	18	92	0	74	47	13	6	32	1.68
5416839--5416880	17	2.4	18	80	7	52	45	11	14	28	1.80
5417042--5417098	28	2.2	25	74	17	60	24	21	15	38	1.92
5420625--5420663	18	2.2	18	90	0	60	43	12	5	38	1.65
5420719--5420760	17	2.4	18	80	7	52	45	9	14	30	1.77
5420922--5420978	28	2.2	25	74	17	60	24	21	15	38	1.92
5424517--5424562	18	2.6	18	92	0	74	47	13	6	32	1.68
5424618--5424659	17	2.4	18	80	7	52	45	11	14	28	1.80
5432711--5432749	18	2.2	18	90	0	60	43	17	2	35	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5436097--5436143	18	2.6	18	86	0	67	51	10	6	31	1.62
5436198--5436239	17	2.4	18	80	7	52	45	11	14	28	1.80
5436401--5436457	28	2.2	25	74	17	60	24	21	15	38	1.92
5437108--5437199	29	3.2	29	74	9	98	54	9	11	23	1.67
5437584--5437640	21	2.9	19	74	18	55	17	26	3	52	1.60
5440033--5440078	18	2.6	18	85	0	65	47	13	4	34	1.62
5440133--5440175	17	2.5	18	81	7	54	46	11	13	27	1.78
5440902--5440964	29	2.2	29	97	0	117	57	11	11	20	1.64
5441351--5441399	19	2.5	20	78	18	59	18	22	6	53	1.66
5443808--5443849	18	2.3	18	95	0	75	50	9	7	33	1.62

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   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51