genome.fa.s8488.2.7.7.80.10.50.1000.35.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

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   52   53   54   

This is table  35  of  54  ( 6450 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)
8505085--8505320	117	2.0	117	100	0	472	20	6	33	39	1.79
8507344--8507444	29	3.5	28	71	14	80	50	11	0	36	1.46
8507407--8507492	28	3.0	28	69	14	77	43	11	3	41	1.58
8507547--8507801	129	2.0	129	100	0	510	29	26	11	32	1.92
8510091--8510172	20	4.1	20	77	13	87	35	0	1	63	1.02
8510122--8510159	18	2.0	19	85	10	51	44	0	0	55	0.99
8510092--8510200	30	3.7	29	73	16	89	35	0	2	61	1.10
8511279--8511304	13	2.0	13	100	0	52	53	0	0	46	1.00
8515802--8515922	47	2.6	47	90	0	179	27	22	19	31	1.97
8516178--8516211	16	2.1	17	88	5	52	41	17	2	38	1.65
8516876--8516946	21	3.3	21	86	4	97	35	26	21	16	1.95
8516891--8516996	56	1.9	56	84	0	140	34	25	16	22	1.95
8519073--8519124	27	2.0	24	85	10	68	50	1	0	48	1.12
8522066--8522133	21	3.1	21	87	4	100	33	27	20	17	1.95
8522148--8522229	42	2.0	42	82	0	101	40	20	13	25	1.89
8522145--8522234	21	4.3	21	69	0	63	41	22	12	24	1.88
8523323--8523375	20	2.6	21	79	8	56	35	28	3	32	1.75
8525917--8525970	21	2.5	22	79	14	67	72	1	3	22	1.10
8529540--8529597	29	2.0	30	82	3	73	25	8	8	56	1.58
8531630--8531720	46	2.0	47	80	6	105	34	12	20	32	1.90
8534029--8534181	52	2.9	52	87	1	227	25	24	18	30	1.98
8542003--8542044	6	7.0	6	88	0	66	21	16	61	0	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8542003--8542047	18	2.5	18	100	0	90	22	15	62	0	1.33
8552728--8552823	20	4.8	20	98	0	183	41	10	27	20	1.85
8552980--8553010	15	2.1	15	93	0	53	54	0	0	45	0.99
8557310--8557439	66	2.0	66	87	1	190	20	13	24	41	1.88
8559148--8559199	21	2.5	21	90	0	86	19	17	30	32	1.95
8559183--8559228	21	2.2	21	88	0	65	28	26	23	21	1.99
8559400--8559448	21	2.2	21	85	7	62	67	4	2	26	1.19
8559550--8559576	14	1.9	14	100	0	54	66	0	0	33	0.92
8559503--8559685	81	2.2	81	78	13	205	55	3	2	38	1.30
8560597--8560648	10	5.2	10	71	0	50	26	0	13	59	1.34
8560598--8560648	20	2.5	20	100	0	102	27	0	13	58	1.36
8566686--8566728	21	2.0	21	95	0	77	58	0	0	41	0.98
8567097--8567135	3	13.3	3	89	5	53	41	0	0	58	0.98
8567099--8567146	9	5.1	9	78	9	51	41	2	0	56	1.11
8567465--8567508	21	2.1	21	100	0	88	36	0	31	31	1.58
8568769--8568848	39	2.1	39	100	0	160	31	15	12	41	1.84
8570170--8570202	16	2.0	17	94	5	59	24	6	39	30	1.79
8570964--8571009	19	2.4	19	92	0	74	13	10	10	65	1.48
8574025--8574905	106	8.4	106	94	1	1495	33	24	18	23	1.97
8575110--8575436	85	3.8	85	88	2	406	30	24	19	25	1.98
8575951--8575993	2	22.0	2	81	13	54	48	0	2	48	1.14
8576022--8576069	3	16.3	3	86	4	71	37	0	2	60	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8577634--8577713	39	2.1	39	100	0	160	31	15	12	41	1.84
8578524--8578611	21	4.2	21	79	13	101	30	23	20	25	1.98
8578537--8578627	41	2.2	41	96	0	164	32	20	20	25	1.97
8578558--8578627	20	3.5	20	78	18	90	35	20	20	24	1.96
8578620--8578734	21	5.6	21	85	4	144	22	20	25	31	1.98
8578686--8578746	19	3.0	19	76	9	59	22	21	18	37	1.94
8578629--8578746	42	2.8	41	85	5	148	23	20	22	33	1.97
8579401--8579527	41	3.0	41	85	7	143	36	19	19	24	1.95
8579416--8579588	21	8.4	20	71	17	106	30	23	20	26	1.98
8579530--8579613	41	2.0	41	100	0	168	23	22	19	34	1.96
8579537--8579609	20	3.6	20	79	17	96	23	21	19	35	1.96
8579494--8579636	21	6.9	21	73	19	104	26	23	20	29	1.99
8579456--8579636	62	2.9	62	81	11	187	28	23	20	27	1.99
8579533--8579630	41	2.4	41	91	3	153	25	22	19	32	1.97
8579597--8579643	21	2.2	21	92	0	76	23	23	25	27	2.00
8580764--8580824	28	2.2	28	93	0	104	26	26	26	21	1.99
8583020--8583073	3	18.7	3	83	7	67	59	0	3	37	1.15
8583020--8583067	14	3.6	14	83	10	57	58	0	4	37	1.18
8583023--8583073	17	2.9	18	82	11	79	58	0	3	37	1.16
8583217--8583307	37	2.3	38	78	14	96	16	24	17	41	1.89
8583254--8583497	35	6.8	35	79	6	224	19	18	19	41	1.90
8583350--8583497	72	2.1	71	88	1	215	21	18	20	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8583683--8584471	62	12.6	62	79	6	684	37	14	20	28	1.91
8589943--8590040	45	2.1	48	84	5	130	31	16	13	38	1.87
8591920--8591952	18	1.9	17	88	11	50	0	33	9	57	1.30
8593896--8593942	20	2.4	19	82	10	67	53	10	17	19	1.72
8593684--8594156	181	2.6	182	91	0	741	42	14	16	26	1.87
8594077--8594123	20	2.4	19	82	10	67	53	10	17	19	1.72
8594088--8594128	20	2.2	19	83	12	50	51	14	17	17	1.77
8596353--8596417	21	3.1	21	93	0	103	41	10	30	16	1.83
8596451--8596516	33	2.0	33	90	0	105	28	0	48	22	1.51
8598309--8598358	19	2.6	19	96	0	91	34	2	10	54	1.45
8598591--8599353	200	3.8	200	95	0	1350	35	15	18	30	1.92
8600821--8600884	6	10.7	6	86	0	65	39	6	32	21	1.79
8600838--8600888	3	17.0	3	83	0	66	37	3	33	25	1.74
8600821--8600884	12	5.3	12	90	0	83	39	6	32	21	1.79
8602098--8602687	184	3.2	184	96	1	1060	35	14	16	33	1.89
8602561--8602807	120	2.1	120	95	0	440	32	14	15	37	1.88
8602382--8602939	303	1.8	303	96	0	1044	34	13	16	34	1.89
8604918--8605167	87	2.9	87	96	0	455	33	14	10	42	1.79
8605002--8605046	23	2.0	23	86	0	63	37	15	8	37	1.79
8605089--8605133	23	2.0	23	90	0	72	37	13	8	40	1.76
8617010--8617085	38	2.0	38	100	0	152	34	18	2	44	1.64
8619189--8619225	16	2.3	16	90	0	56	18	29	16	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8620049--8620109	23	2.7	23	92	0	104	37	22	8	31	1.84
8622540--8622589	23	2.2	23	100	0	100	28	14	30	28	1.95
8623115--8623140	9	2.9	9	100	0	52	23	19	0	57	1.40
8623169--8623370	18	11.3	18	67	14	98	40	7	7	44	1.62
8623166--8623297	58	2.5	51	78	17	158	41	7	7	43	1.61
8623180--8623397	33	6.5	33	71	17	155	41	7	7	43	1.62
8623181--8623295	58	2.0	58	89	3	178	41	8	7	41	1.65
8623256--8623314	15	3.8	15	70	22	50	44	8	8	38	1.65
8623254--8623311	17	3.5	17	73	21	68	44	8	6	39	1.62
8623441--8623547	7	17.0	6	75	15	58	47	2	5	43	1.41
8623499--8623559	18	3.6	18	74	17	58	47	1	6	44	1.39
8623467--8623533	27	2.5	27	82	2	82	52	2	4	40	1.37
8623441--8623547	2	51.0	2	68	18	58	47	2	5	43	1.41
8623555--8623604	24	2.2	23	82	13	59	42	10	6	42	1.63
8623524--8623659	26	5.2	24	73	21	78	41	7	8	42	1.64
8623554--8623661	26	4.1	25	78	18	112	38	9	10	41	1.71
8623575--8623707	31	4.4	30	79	15	125	41	6	9	42	1.63
8623555--8623670	55	2.1	54	85	9	155	39	9	8	42	1.68
8623636--8623701	18	3.8	18	74	11	66	43	7	7	40	1.61
8623651--8623717	33	2.1	32	91	2	107	50	4	5	38	1.47
8623668--8623741	20	3.5	20	77	16	85	52	1	6	39	1.36
8623668--8623728	23	2.7	23	79	16	74	54	1	6	37	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8623681--8623730	13	3.8	13	77	17	59	54	2	6	38	1.37
8623785--8623834	22	2.2	22	85	7	64	48	2	2	48	1.24
8623881--8624117	20	11.2	21	70	20	140	41	5	5	46	1.51
8623881--8623918	11	3.5	11	88	0	58	44	2	2	50	1.30
8623960--8624020	27	2.2	28	88	2	88	39	4	8	47	1.55
8624012--8624117	2	50.5	2	69	15	54	45	4	2	47	1.38
8624013--8624107	22	4.3	22	84	12	133	44	5	3	47	1.41
8625367--8625397	3	10.3	3	100	0	62	0	0	32	67	0.91
8625397--8625993	215	2.8	215	93	1	982	30	11	8	50	1.67
8626349--8626398	26	2.0	26	84	4	66	20	30	18	32	1.96

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   52   53   54