genome.fa.s8747.2.7.7.80.10.50.1000.19.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  19  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)
4801232--4801275	21	2.1	21	86	0	61	6	43	15	34	1.74
4801603--4801647	24	1.9	24	86	13	67	17	2	26	53	1.56
4802327--4802536	65	3.3	63	81	9	226	31	22	19	26	1.98
4802533--4802575	19	2.3	19	95	0	77	20	34	20	23	1.96
4806965--4807086	41	2.9	42	83	2	138	16	22	12	49	1.78
4809334--4809415	40	2.0	40	95	4	148	32	26	15	24	1.95
4810762--4810791	15	2.0	15	100	0	60	13	46	13	26	1.80
4812576--4815388	6	479.2	6	92	7	4730	49	33	0	16	1.46
4821113--4821154	2	21.5	2	95	4	77	52	0	0	47	1.00
4821852--4821888	16	2.2	17	90	4	58	27	0	0	72	0.84
4823952--4824002	9	5.7	9	79	9	59	29	0	0	70	0.87
4823951--4824002	12	4.3	12	79	18	54	30	0	0	69	0.89
4825253--4825277	11	2.3	11	100	0	50	64	0	12	24	1.27
4827480--4827518	20	2.0	21	90	10	64	28	12	12	46	1.79
4827754--4827949	105	1.9	105	93	2	340	24	21	5	48	1.70
4846683--4847085	199	2.0	202	98	1	785	35	19	13	31	1.90
4857208--4857244	20	2.0	19	85	15	51	43	8	10	37	1.69
4860816--4860847	13	2.5	13	94	0	55	9	6	9	75	1.20
4864924--4864977	22	2.5	22	84	6	74	31	0	22	46	1.52
4864946--4867521	876	3.0	876	91	1	4200	35	8	21	34	1.85
4869059--4869105	19	2.5	20	74	19	55	48	2	4	44	1.34
4869970--4870020	21	2.4	21	96	0	93	23	23	19	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4874190--4874280	33	2.8	33	78	6	103	36	19	13	30	1.90
4874422--4874508	29	2.9	29	73	15	79	48	8	13	29	1.71
4875143--4875481	167	2.0	169	98	1	664	29	13	17	39	1.88
4879617--4879712	33	2.9	33	79	3	95	39	0	38	21	1.54
4883887--4883975	29	3.1	29	86	3	126	23	22	8	44	1.81
4884499--4884796	79	3.7	82	85	6	391	27	25	11	36	1.90
4885206--4885415	95	2.2	97	82	1	253	26	21	16	35	1.94
4889069--4889106	19	2.0	19	90	10	60	13	5	13	68	1.37
4890252--4890286	10	3.4	10	92	4	52	82	11	5	0	0.82
4912575--4912657	37	2.3	37	87	2	123	25	22	3	48	1.67
4914824--4914854	2	15.5	2	100	0	62	51	0	0	48	1.00
4915492--4915595	53	2.0	53	92	0	172	40	19	14	25	1.89
4917615--4917696	29	2.8	29	94	1	137	29	14	8	47	1.74
4925414--4925524	53	2.1	53	93	0	186	39	21	16	22	1.92
4927057--4927081	11	2.3	11	100	0	50	32	8	0	60	1.26
4933856--4933901	18	2.6	18	89	0	65	47	10	6	34	1.64
4935055--4935111	21	2.9	19	76	18	55	21	24	3	50	1.64
4938876--4938927	2	26.0	2	92	0	50	38	0	11	50	1.39
4939507--4939613	49	2.2	49	91	0	169	14	34	25	25	1.94
4947797--4947827	16	1.9	16	100	0	62	3	19	0	77	0.90
4947800--4947835	16	2.3	16	90	4	56	2	22	0	75	0.94
4947824--4947877	23	2.2	25	87	6	76	9	16	12	61	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4952485--4952611	48	2.8	46	86	9	179	31	22	7	39	1.81
4952711--4952912	40	5.1	40	86	5	293	33	26	16	22	1.96
4953694--4953849	77	2.0	78	98	1	305	20	20	12	46	1.83
4954383--4954460	36	2.2	36	97	0	147	39	30	6	23	1.79
4965797--4965845	19	2.5	20	93	3	82	34	10	4	51	1.55
4969508--4969556	20	2.5	20	86	3	64	32	10	4	53	1.54
4972461--4972530	2	36.5	2	91	8	119	48	0	0	51	1.00
4974728--4974783	25	2.2	25	81	12	60	30	0	12	57	1.36
4976070--4976110	17	2.4	17	88	8	57	48	14	7	29	1.71
4977009--4977066	21	2.8	21	82	10	66	34	20	22	22	1.97
4980611--4980683	37	2.0	37	91	0	119	43	6	19	30	1.76
4980649--4980723	24	3.2	23	66	27	59	44	4	20	32	1.70
4980648--4980794	45	3.2	45	86	1	213	40	4	22	31	1.75
4983291--4983329	21	1.9	20	85	15	53	28	10	20	41	1.85
4983385--4983494	6	18.8	6	73	12	79	78	1	15	4	1.00
4983386--4983440	17	3.3	16	80	7	65	78	3	14	3	1.03
4983382--4983488	33	3.4	31	81	10	117	77	1	15	4	1.02
4983397--4983494	27	3.7	26	78	9	108	79	1	15	4	0.93
4983396--4983494	17	5.6	19	72	20	58	78	1	16	4	0.95
4983386--4983492	16	6.5	17	77	13	82	77	1	15	4	1.02
4986549--4986679	6	21.8	6	77	16	121	80	2	14	2	0.90
4988606--4988647	21	2.0	22	85	4	59	38	4	9	47	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4988784--4988970	93	2.0	93	100	0	374	34	13	17	34	1.89
4989189--4989254	29	2.2	29	81	7	80	39	7	18	34	1.79
4995438--4995482	23	2.0	22	83	12	56	51	17	2	28	1.58
4997211--4997238	14	2.0	14	100	0	56	28	14	7	50	1.69
4997664--4997708	23	2.0	23	86	0	63	60	13	13	13	1.60
4997713--4997741	5	6.0	5	92	8	51	79	0	20	0	0.74
5002442--5002485	21	2.1	21	87	4	63	20	2	15	61	1.45
5003143--5003236	48	2.0	48	100	0	188	32	22	19	25	1.97
5004657--5004712	22	2.6	21	85	2	67	39	23	14	23	1.91
5006376--5006410	18	1.9	18	100	0	70	42	17	22	17	1.88
5009661--5009836	87	2.0	87	100	0	352	27	9	13	49	1.73
5022787--5022825	6	6.5	6	87	0	60	30	15	2	51	1.57
5023001--5023058	23	2.5	23	82	0	71	32	17	20	29	1.95
5024050--5024250	59	3.4	59	71	10	187	29	22	10	37	1.88
5024060--5024296	117	2.0	117	88	0	348	29	24	10	35	1.89
5024780--5024830	19	2.7	19	96	0	93	25	25	17	31	1.97
5028418--5028446	12	2.3	13	94	5	51	20	13	13	51	1.75
5030538--5030575	7	5.4	7	93	0	67	44	0	26	28	1.54
5030536--5030575	21	1.9	21	100	0	80	47	0	25	27	1.52
5030713--5030890	89	2.0	89	100	0	356	33	15	21	29	1.94
5030944--5031004	23	2.7	23	72	10	61	39	18	19	22	1.92
5034159--5034217	30	2.0	28	84	12	75	45	0	20	33	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5041327--5041377	19	2.6	20	87	3	77	45	5	11	37	1.65
5043619--5043656	19	2.0	19	85	10	51	21	13	0	65	1.26
5044640--5044720	35	2.3	35	86	0	108	28	30	3	37	1.75
5044954--5044990	17	2.1	18	90	5	58	78	8	13	0	0.96
5045015--5045048	15	2.3	15	90	10	52	82	0	17	0	0.67
5054082--5054123	16	2.7	16	85	3	59	78	11	7	2	1.04
5054073--5054153	36	2.2	36	82	6	101	75	14	4	4	1.14
5059678--5059724	22	2.1	23	88	4	69	27	6	31	34	1.82
5066857--5066900	22	2.0	23	90	4	72	11	15	15	56	1.66
5071992--5072051	23	2.6	23	78	2	66	13	10	8	68	1.39
5073009--5073059	25	2.0	25	96	0	93	27	15	33	23	1.95
5075945--5075995	23	2.3	22	80	9	59	9	11	11	66	1.44
5076942--5077037	25	3.8	25	98	0	183	28	16	34	20	1.95
5080711--5080763	23	2.2	24	83	3	63	11	13	9	66	1.46
5087279--5087310	15	2.2	14	94	5	55	40	12	0	46	1.42
5087523--5087578	23	2.4	23	96	0	103	58	5	14	21	1.55
5095538--5095562	13	1.9	13	100	0	50	12	0	0	88	0.53
5096839--5096872	15	2.2	16	89	5	52	61	0	0	38	0.96
5097852--5097884	2	17.0	2	87	6	50	48	0	3	48	1.17
5099013--5099046	17	2.0	17	100	0	68	41	5	17	35	1.74
5112896--5112956	30	2.0	31	84	12	81	39	13	21	26	1.90
5112918--5112991	30	2.5	31	77	6	89	36	14	27	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5113741--5113765	5	5.0	5	100	0	50	80	0	20	0	0.72
5129882--5129931	16	3.0	17	77	11	50	18	18	0	64	1.30
5132024--5132112	35	2.5	35	75	1	88	25	35	5	32	1.80
5132744--5132793	16	3.0	17	77	11	50	18	18	0	64	1.30
5134886--5134974	35	2.5	35	75	1	88	25	35	5	32	1.80
5135671--5135731	26	2.3	26	94	0	104	26	34	0	39	1.57
5139425--5139529	35	3.0	35	87	1	147	27	36	3	32	1.75
5146619--5146659	20	2.0	20	86	9	57	78	12	9	0	0.98
5149428--5149459	9	3.4	10	87	12	50	84	0	15	0	0.63
5149440--5149508	31	2.3	30	85	9	97	79	4	8	7	1.04

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