genome.fa.s8488.2.7.7.80.10.50.1000.54.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  54  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)
12709031--12709057	14	1.9	14	100	0	54	48	0	0	51	1.00
12709198--12709305	41	2.6	42	89	1	155	38	14	10	36	1.80
12712371--12712430	2	30.0	2	87	12	88	50	0	46	3	1.18
12712371--12712430	20	3.1	20	95	4	106	50	0	46	3	1.18
12724805--12725164	181	2.0	178	95	1	648	38	15	16	30	1.89
12730893--12730942	21	2.4	21	96	0	91	42	2	46	10	1.49
12740560--12740584	5	5.0	5	100	0	50	80	0	0	20	0.72
12742603--12742666	3	21.3	3	100	0	128	0	32	0	67	0.91
12743563--12743630	21	3.4	20	78	13	61	67	0	23	8	1.18
12751284--12751355	30	2.4	30	86	2	92	31	26	20	20	1.98
12751341--12751405	31	2.1	31	94	0	112	33	26	21	18	1.96
12752022--12752059	16	2.4	16	79	12	51	52	21	2	23	1.59
12752401--12752541	64	2.2	63	82	7	169	25	24	17	32	1.97
12753959--12754031	29	2.5	29	76	10	76	17	27	24	30	1.97
12753979--12754052	20	3.8	20	79	13	68	17	27	27	28	1.98
12753991--12754058	10	7.1	9	77	11	55	16	29	27	26	1.97
12753995--12754056	19	3.3	19	80	13	74	17	27	27	27	1.98
12754024--12754078	19	3.0	19	84	5	60	20	32	23	23	1.98
12754054--12754092	17	2.3	17	95	0	69	17	43	23	15	1.87
12761266--12761334	20	3.4	21	80	13	83	15	26	27	30	1.96
12761278--12761345	19	3.5	19	80	13	77	14	25	30	29	1.95
12761278--12761347	10	7.3	9	75	10	59	14	27	30	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12771772--12771817	22	2.0	22	83	4	56	56	8	0	34	1.30
12771932--12771976	23	1.9	24	82	13	58	62	0	6	31	1.21
12772054--12772079	13	2.0	13	100	0	52	76	0	7	15	0.99
12776314--12776719	138	3.0	138	92	0	663	30	14	19	34	1.92
12779387--12779594	103	2.0	103	91	1	337	19	14	16	49	1.79
12780773--12780816	22	2.0	22	95	4	81	20	6	18	54	1.66
12782705--12782920	29	7.5	29	74	5	125	39	17	18	24	1.91
12782725--12782885	57	2.8	56	82	10	166	39	16	21	22	1.92
12782705--12782943	86	2.8	84	77	12	216	40	17	18	23	1.91
12782705--12782961	115	2.2	114	78	6	270	40	17	18	22	1.91
12782789--12782945	58	2.7	57	84	8	194	42	16	18	22	1.89
12784681--12784746	24	2.8	24	80	13	73	33	9	1	56	1.40
12785140--12785174	4	8.8	4	93	0	61	51	20	0	28	1.47
12785148--12785195	4	12.0	4	95	0	51	50	10	0	39	1.37
12785144--12785194	8	6.4	8	93	0	66	50	11	0	37	1.39
12785140--12785190	12	4.2	12	89	0	75	50	13	0	35	1.42
12785582--12785760	54	3.3	54	90	0	277	35	20	15	29	1.93
12786159--12786221	21	3.1	20	86	8	92	12	26	38	22	1.90
12790054--12790094	21	1.9	21	85	5	55	24	29	24	21	1.99
12791850--12791888	20	2.0	20	90	10	62	23	33	30	12	1.92
12793134--12793291	64	2.5	63	82	7	167	35	16	20	27	1.94
12793752--12793969	103	2.1	103	96	0	409	24	12	24	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12793986--12794048	23	2.7	23	78	4	65	23	25	23	26	2.00
12800116--12800273	64	2.5	63	81	7	158	36	15	20	27	1.93
12800737--12800951	103	2.1	103	96	0	394	25	13	25	35	1.92
12800960--12801011	23	2.3	23	93	0	86	19	30	26	23	1.98
12800958--12801022	23	2.8	23	79	4	78	21	26	26	26	2.00
12801962--12802009	20	2.4	20	96	0	87	16	18	0	64	1.29
12801961--12802017	16	3.3	16	79	13	51	14	19	1	64	1.36
12803670--12803706	16	2.2	18	85	9	51	18	18	0	62	1.34
12805533--12805576	18	2.4	18	76	0	52	40	11	18	29	1.85
12806387--12806452	24	2.8	24	81	2	80	27	25	21	25	1.99
12808695--12808816	29	4.2	28	81	7	129	41	17	20	20	1.90
12808691--12808798	58	1.9	56	84	7	146	43	15	20	20	1.88
12810441--12810470	15	2.0	15	93	0	51	23	20	23	33	1.97
12811276--12811429	29	5.4	28	81	9	168	38	19	20	21	1.94
12813856--12813908	21	2.5	21	93	0	88	33	7	3	54	1.46
12813905--12813943	16	2.4	16	95	0	69	46	0	0	53	1.00
12815451--12815558	24	4.5	24	72	9	78	49	14	14	21	1.80
12818086--12818786	350	2.0	348	96	3	1302	29	21	21	27	1.99
12823143--12823208	32	2.1	32	100	0	132	45	15	13	25	1.83
12825540--12825662	64	1.9	64	93	3	212	31	23	13	30	1.94
12826059--12826098	21	1.9	21	94	0	71	50	12	17	20	1.78
12830045--12830087	21	2.0	21	100	0	86	41	39	13	4	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12833122--12833190	24	2.9	24	82	0	75	21	13	15	49	1.79
12836969--12837095	30	4.3	29	85	3	157	38	21	4	35	1.74
12836940--12837119	29	6.2	30	80	6	183	39	20	4	35	1.73
12836940--12837119	58	3.1	59	80	7	206	39	20	4	35	1.73
12837133--12837169	17	2.2	17	95	0	65	10	24	45	18	1.81
12844253--12844381	30	4.3	30	81	5	154	38	18	5	37	1.74
12844253--12844381	59	2.2	60	84	1	170	38	18	5	37	1.74
12844294--12844405	60	1.9	59	85	5	154	39	18	5	36	1.74
12844253--12844405	30	5.2	30	77	10	111	39	18	5	36	1.73
12844420--12844455	17	2.1	17	100	0	72	11	25	47	16	1.79
12844958--12844994	18	2.1	18	94	0	65	32	32	13	21	1.92
12845573--12845633	29	2.2	28	82	5	70	72	3	18	6	1.21
12846396--12846448	25	2.1	25	85	0	70	26	1	1	69	1.09
12846406--12846452	17	2.7	18	87	6	62	25	4	0	70	1.05
12846412--12846523	17	6.9	15	67	25	50	15	6	2	75	1.10
12847951--12848027	23	3.5	23	75	13	99	22	22	18	37	1.94
12847951--12848033	21	3.9	21	74	15	80	21	21	19	37	1.94
12847952--12848046	42	2.3	42	90	0	154	24	23	18	33	1.97
12848946--12849035	19	4.5	19	78	10	99	33	22	21	23	1.97
12848909--12849035	61	2.1	61	90	0	200	35	20	19	24	1.96
12848958--12849043	42	2.2	38	89	8	127	36	20	20	22	1.96
12848935--12849043	19	5.4	19	74	10	74	35	22	20	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12849039--12849091	21	2.5	21	90	0	79	16	18	32	32	1.94
12875889--12875938	2	25.5	2	95	4	93	50	0	0	50	1.00

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

The End!