genome.fa.s9579.2.7.7.80.10.50.1000.24.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: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6215474

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   

This is table  24  of  29  ( 3390 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)
4878637--4878679	22	2.0	22	90	0	68	30	27	2	39	1.69
4880205--4880259	21	2.5	22	77	11	60	47	1	0	50	1.11
4884390--4884419	6	4.8	6	95	4	51	53	16	0	30	1.44
4884608--4884795	104	1.8	104	84	2	261	34	14	17	34	1.90
4884796--4884825	15	1.9	16	93	6	53	13	20	20	46	1.83
4887520--4887559	2	20.0	2	100	0	80	50	0	0	50	1.00
4890032--4890076	17	2.6	18	89	7	74	33	15	11	40	1.83
4890066--4890120	27	2.0	27	89	0	83	36	16	16	30	1.91
4890487--4890519	2	16.5	2	100	0	66	51	0	0	48	1.00
4895237--4895277	20	2.0	20	100	0	82	24	19	9	46	1.80
4905210--4905245	15	2.4	15	90	0	54	58	2	0	38	1.13
4905622--4905673	23	2.3	23	82	0	59	38	1	3	55	1.29
4910883--4910944	31	2.0	31	100	0	124	38	6	22	32	1.80
4913595--4913641	24	2.0	24	83	8	60	34	55	2	8	1.42
4913690--4913744	9	6.1	9	75	8	58	45	43	0	10	1.39
4913690--4913744	18	3.1	18	81	0	65	45	43	0	10	1.39
4921833--4921990	21	7.8	20	72	7	86	38	25	17	18	1.92
4921957--4922111	40	3.8	40	82	4	186	37	26	18	18	1.93
4921957--4922110	20	7.7	20	80	7	168	37	26	18	18	1.93
4922487--4922555	33	2.2	33	86	5	97	11	23	18	46	1.82
4922644--4922741	19	5.7	19	69	22	90	11	22	21	44	1.83
4922666--4922755	14	5.7	14	69	23	63	10	23	22	44	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4922649--4922757	33	3.3	33	97	0	209	10	22	21	46	1.80
4924333--4924879	92	6.0	93	95	3	999	21	12	19	45	1.84
4924333--4924879	183	3.0	186	95	3	999	21	12	19	45	1.84
4924930--4925058	19	7.2	20	75	18	85	45	28	16	9	1.78
4924947--4925058	19	6.5	18	75	17	105	47	28	16	7	1.73
4924986--4925042	14	3.8	13	74	26	51	45	29	17	7	1.75
4924968--4925058	32	2.8	33	90	6	141	46	28	17	7	1.76
4925054--4925188	19	7.6	19	75	16	128	11	19	23	45	1.82
4925076--4925132	14	3.7	14	77	20	60	10	21	22	45	1.82
4925059--4925151	33	2.8	33	95	0	168	10	20	21	47	1.80
4927083--4927118	14	2.6	14	95	0	63	33	0	22	44	1.53
4927224--4927320	19	5.4	19	84	13	134	45	17	22	14	1.85
4927224--4927337	52	2.2	52	95	3	203	42	18	24	14	1.87
4927351--4927405	14	3.6	14	73	21	56	10	23	20	45	1.82
4927338--4927509	33	5.1	33	83	12	231	13	21	18	46	1.83
4927338--4927495	19	9.1	19	73	21	159	14	20	17	46	1.83
4927365--4927509	52	2.8	52	79	13	181	13	21	18	46	1.84
4929921--4929967	24	2.0	24	87	8	69	38	21	14	25	1.92
4930649--4930898	20	12.5	20	87	0	277	20	17	25	36	1.94
4930885--4930967	21	4.0	21	73	6	78	25	16	24	33	1.96
4931335--4931782	228	2.0	227	93	1	772	45	8	6	39	1.60
4931846--4931890	19	2.3	20	85	14	67	53	11	17	17	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4932009--4932054	20	2.4	19	79	13	58	54	10	15	19	1.70
4934348--4934413	33	2.0	33	90	0	105	28	0	48	22	1.51
4936191--4936239	19	2.6	19	93	0	80	30	2	10	57	1.43
4938091--4938176	6	14.3	6	80	0	73	38	6	34	19	1.79
4938106--4938180	3	25.0	3	73	0	60	36	6	34	22	1.81
4938094--4938172	36	2.2	36	88	0	113	36	7	35	20	1.81
4938094--4938176	12	6.9	12	81	0	85	37	7	34	20	1.80
4939296--4939332	19	1.9	19	88	0	56	29	13	8	48	1.71
4939628--4940469	183	4.6	183	96	0	1564	35	14	15	34	1.88
4943013--4943061	22	2.2	23	78	10	57	40	12	10	36	1.77
4943084--4943171	43	2.0	43	97	0	167	32	5	20	40	1.76
4943079--4943178	23	4.5	23	83	9	127	34	5	20	41	1.74
4943588--4943636	24	2.0	25	88	4	73	32	4	14	48	1.62
4943882--4943967	38	2.2	39	89	2	138	47	19	13	18	1.82
4944386--4944448	21	2.9	22	88	4	92	36	3	23	36	1.71
4944392--4944460	21	3.2	20	78	17	68	34	2	23	39	1.70
4944805--4944876	23	3.2	23	84	4	92	34	4	20	40	1.72
4944805--4944863	22	2.6	22	89	2	82	37	5	18	38	1.73
4944185--4945219	422	2.5	424	95	4	1891	41	7	12	38	1.71
4947095--4947256	64	2.5	65	76	8	161	32	20	19	27	1.97
4948156--4948220	31	2.1	31	85	5	87	21	20	23	35	1.96
4948179--4948284	30	3.5	30	85	1	122	22	19	24	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4948206--4948307	30	3.4	30	89	1	116	22	18	26	32	1.97
4948981--4949022	2	21.0	2	100	0	84	50	0	0	50	1.00
4961486--4961816	167	2.0	167	100	0	662	41	11	6	40	1.66
4963560--4963592	2	17.0	2	93	6	59	48	0	0	51	1.00
4965346--4965372	2	13.5	2	100	0	54	51	0	0	48	1.00
4969686--4969751	28	2.3	29	77	12	75	42	6	6	45	1.53
4970459--4970504	23	2.0	23	91	0	74	52	15	8	23	1.70
4970967--4971001	17	2.1	17	100	0	70	34	17	20	28	1.95
4975516--4975557	2	22.0	2	85	9	61	45	0	0	54	0.99
4989066--4989099	17	1.9	18	88	5	52	47	5	0	47	1.26
4991695--4991744	20	2.4	20	80	12	57	52	0	2	46	1.12
4992823--4992887	29	2.2	29	97	0	121	38	3	16	41	1.64
4994838--4995215	200	1.9	200	100	0	756	32	13	15	38	1.87
4998634--4998671	11	3.2	12	88	7	51	28	2	0	68	1.03
5000511--5000550	15	2.7	15	88	3	55	40	17	5	37	1.72
5001057--5001089	16	2.1	16	100	0	66	33	12	0	54	1.37
5001887--5001922	19	1.9	19	94	5	65	30	0	0	69	0.89
5002651--5002726	37	2.1	37	100	0	152	46	32	5	15	1.69
5004725--5004779	21	2.6	21	73	0	56	25	29	16	29	1.97
5004772--5004921	20	7.5	20	91	0	228	41	23	19	16	1.90
5005115--5005176	22	3.0	22	71	26	71	29	38	14	17	1.89
5005478--5005544	34	2.0	34	93	0	116	40	20	22	16	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5005569--5005618	20	2.5	20	86	0	64	18	16	28	38	1.91
5006058--5006104	20	2.3	20	89	7	69	17	19	25	38	1.92
5007098--5007142	23	2.0	23	86	0	63	26	28	24	20	1.99
5007361--5007419	30	2.0	30	93	0	100	32	23	5	38	1.77
5007441--5007512	29	2.5	29	93	0	117	38	12	9	38	1.76
5013951--5013995	23	2.0	23	86	0	63	26	28	24	20	1.99
5014217--5014275	30	2.0	30	93	0	100	32	22	5	40	1.75
5014297--5014368	29	2.5	29	93	0	117	38	12	9	38	1.76
5017501--5017554	24	2.2	24	90	0	81	42	20	16	20	1.89
5018406--5018461	20	2.8	20	86	5	60	23	21	21	33	1.97
5018664--5018735	31	2.3	31	82	0	81	41	4	4	50	1.41
5019420--5019468	14	3.4	14	76	20	55	51	2	2	44	1.24
5028871--5028910	18	2.0	20	86	13	57	60	2	0	37	1.11
5032229--5032296	30	2.3	30	82	5	75	50	11	7	30	1.66
5038474--5038594	54	2.2	54	97	0	224	25	15	28	30	1.96
5038906--5039239	166	2.0	168	98	1	654	42	14	16	26	1.86
5041523--5041550	12	2.3	12	100	0	56	60	17	0	21	1.36
5041796--5041826	12	2.6	12	89	0	53	48	22	12	16	1.80
5044394--5044467	18	3.9	18	80	13	76	20	21	29	28	1.98
5044393--5044452	22	3.0	21	85	11	81	20	23	30	26	1.98
5048288--5048332	21	2.1	21	87	0	63	31	28	24	15	1.96
5048881--5048920	2	21.5	2	85	14	59	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5048882--5048931	22	2.3	22	86	6	66	46	0	6	48	1.27
5049414--5049507	30	3.1	29	84	4	98	22	21	22	34	1.97
5049439--5049560	30	4.1	31	88	4	139	20	22	25	31	1.98
5052597--5052641	21	2.1	21	84	8	56	31	26	24	17	1.97
5053708--5053785	31	2.5	31	85	4	95	21	20	23	34	1.97
5053758--5053857	30	3.3	30	88	2	139	22	22	25	31	1.98
5059133--5060773	708	2.3	710	94	0	2853	26	19	15	37	1.92
5060725--5060828	51	2.0	51	100	0	208	17	26	17	38	1.92
5062133--5062280	75	2.0	75	90	0	233	40	16	12	30	1.86
5063289--5063368	33	2.4	33	87	0	115	22	8	17	51	1.73

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