genome.fa.s9579.2.7.7.80.10.50.1000.23.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  23  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)
4605320--4605359	21	1.9	21	89	0	62	25	40	25	10	1.86
4610028--4610093	20	3.3	20	95	0	123	37	18	15	28	1.91
4610604--4610681	26	3.0	26	100	0	156	26	26	11	34	1.91
4619360--4619411	26	2.0	26	81	7	61	44	0	1	53	1.11
4624513--4624919	205	2.0	205	96	2	757	30	15	21	33	1.94
4627575--4627613	13	2.9	14	84	7	62	38	12	0	48	1.42
4628226--4628253	14	2.0	14	100	0	56	42	0	0	57	0.99
4628669--4628697	4	7.2	4	100	0	58	51	24	0	24	1.48
4633561--4633599	19	2.0	20	90	5	62	51	2	7	38	1.44
4633833--4633857	5	5.0	5	100	0	50	0	40	0	60	0.97
4634573--4634628	27	2.1	27	89	0	85	35	26	10	26	1.89
4634940--4635022	34	2.6	32	85	12	116	38	0	0	61	0.96
4637797--4637848	24	2.2	24	82	0	59	15	15	21	48	1.81
4637807--4637868	24	2.6	24	92	0	97	11	14	19	54	1.69
4638219--4638285	16	4.3	16	86	3	93	13	11	16	58	1.64
4642607--4642643	15	2.5	15	100	0	74	45	0	24	29	1.53
4644410--4644462	23	2.3	24	83	9	83	20	18	9	50	1.74
4648242--4648279	20	1.9	20	88	0	58	21	26	10	42	1.85
4651215--4651253	3	13.0	3	94	0	69	64	2	0	33	1.08
4666100--4666156	15	3.7	15	77	9	69	22	35	26	15	1.94
4666100--4666168	32	2.2	32	91	0	111	23	33	26	17	1.96
4666100--4666168	15	4.3	15	74	20	52	23	33	26	17	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4677138--4677190	23	2.5	22	87	9	74	18	39	20	20	1.92
4677695--4677729	12	2.9	12	100	0	70	42	8	5	42	1.59
4680644--4680787	64	2.2	64	83	8	177	36	16	20	27	1.94
4681379--4681441	23	2.7	23	87	4	92	20	26	26	25	1.99
4683396--4683432	18	2.1	18	100	0	74	62	10	5	21	1.48
4683750--4683861	58	1.9	58	87	3	161	41	11	9	36	1.75
4687427--4687502	23	3.3	23	67	17	66	48	3	3	43	1.40
4687440--4687513	23	3.2	23	66	17	62	50	2	4	43	1.35
4687425--4687515	47	1.9	47	95	0	164	47	3	4	45	1.39
4689093--4689125	16	2.1	17	88	11	52	6	6	45	42	1.53
4689871--4689919	22	2.3	21	85	3	62	57	0	2	40	1.10
4691584--4691613	14	2.1	14	100	0	60	50	0	6	43	1.28
4702976--4703051	20	3.7	21	82	8	84	28	11	18	40	1.86
4707105--4707292	94	2.0	94	100	0	376	28	30	15	24	1.96
4708931--4708971	22	2.0	20	85	9	55	43	12	12	31	1.79
4709038--4709171	61	2.2	61	89	4	218	42	11	11	34	1.77
4710647--4710799	60	2.5	60	84	6	177	41	3	24	31	1.71
4711613--4711650	20	1.9	20	100	0	76	36	10	28	23	1.88
4717219--4717289	30	2.3	31	90	2	108	40	4	22	32	1.73
4717541--4717588	25	1.9	25	87	8	71	20	27	25	27	1.99
4718402--4718493	44	2.1	43	88	6	132	27	19	25	28	1.99
4718406--4718482	23	3.4	23	68	20	72	29	22	23	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4722164--4722203	20	2.0	21	85	5	55	25	17	10	47	1.78
4723778--4723820	21	2.0	21	86	0	59	30	27	25	16	1.97
4723800--4723949	67	2.3	67	88	1	212	27	28	25	18	1.98
4723913--4723950	20	1.9	20	88	0	58	23	34	31	10	1.89
4724250--4724321	29	2.5	29	88	0	99	38	9	12	38	1.76
4724464--4724761	149	2.0	149	97	0	569	27	15	19	37	1.92
4724742--4724786	23	2.0	23	86	0	63	20	24	28	26	1.99
4727146--4727192	21	2.1	24	88	11	73	48	8	19	23	1.75
4727944--4728013	33	2.1	33	100	0	140	42	14	14	28	1.84
4729069--4729237	84	2.0	84	100	0	338	23	30	21	24	1.99
4734640--4734666	13	2.1	13	100	0	54	22	7	14	55	1.64
4736676--4736714	16	2.4	16	86	0	51	28	10	25	35	1.89
4742126--4742169	2	22.0	2	100	0	88	50	0	0	50	1.00
4746188--4746302	10	12.0	9	76	12	77	14	26	28	30	1.95
4746190--4746306	19	6.1	19	79	16	109	13	27	29	29	1.94
4746188--4746262	29	2.5	30	89	8	118	17	26	26	29	1.97
4746189--4746306	29	4.1	27	84	8	110	14	27	28	29	1.95
4746189--4746306	9	12.3	9	80	12	119	14	27	28	29	1.95
4746301--4746351	23	2.3	23	96	3	95	17	49	21	11	1.79
4746303--4746358	28	1.9	29	89	7	87	17	48	23	10	1.79
4747232--4747355	63	2.0	63	82	6	153	16	28	29	25	1.97
4753544--4753658	10	12.0	9	76	12	77	14	26	28	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4753546--4753662	19	6.1	19	79	16	109	13	27	29	29	1.94
4753544--4753618	29	2.5	30	89	8	118	17	26	26	29	1.97
4753545--4753662	29	4.1	27	84	8	110	14	27	28	29	1.95
4753545--4753662	9	12.3	9	80	12	119	14	27	28	29	1.95
4753659--4753699	5	7.8	5	84	10	55	19	53	21	4	1.63
4753657--4753706	22	2.3	22	100	0	100	18	48	22	12	1.80
4753696--4753726	7	4.4	7	100	0	62	16	29	29	25	1.96
4754596--4754719	63	2.0	63	82	6	153	16	28	29	25	1.97
4757076--4757126	23	2.2	23	96	0	93	27	3	33	35	1.75
4774994--4775080	32	2.8	32	77	11	99	33	18	17	31	1.94
4775105--4775165	30	2.0	30	90	0	95	24	19	24	31	1.98
4780208--4780331	31	4.0	31	76	11	94	31	19	17	31	1.95
4788316--4788568	129	2.0	128	94	0	443	33	20	13	31	1.92
4788614--4788678	21	3.1	21	72	16	71	20	20	24	35	1.96
4789282--4789307	6	4.3	6	100	0	52	0	15	50	34	1.45
4790443--4790692	102	2.5	102	91	1	412	39	11	22	27	1.88
4790718--4790768	18	2.8	18	85	5	59	25	0	3	70	1.04
4792048--4792088	21	2.0	21	90	0	64	24	0	31	43	1.54
4792107--4792146	14	2.9	14	100	0	80	22	0	27	50	1.50
4798343--4798387	23	2.0	23	86	0	63	22	13	17	46	1.83
4799260--4799567	6	51.3	6	96	0	508	46	16	3	33	1.66
4801867--4801909	23	2.0	22	90	9	70	25	23	11	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4807153--4807223	3	23.7	3	97	0	133	67	1	0	30	0.99
4807315--4807530	57	3.8	57	98	0	414	40	9	6	43	1.63
4807869--4807911	20	2.2	20	86	0	59	74	9	4	11	1.20
4808132--4808206	21	3.6	21	96	0	132	29	26	22	21	1.99
4808146--4808273	41	3.1	41	84	5	152	32	19	21	25	1.97
4808265--4808351	21	4.1	21	92	2	140	21	19	31	27	1.98
4808267--4808376	42	2.6	43	85	5	145	21	20	27	30	1.98
4808469--4808493	6	4.2	6	100	0	50	36	48	16	0	1.46
4811111--4811552	220	2.0	221	99	0	877	32	14	16	37	1.88
4811651--4811692	21	2.0	20	86	4	57	40	7	14	38	1.73
4820755--4820793	18	2.2	18	90	0	60	20	46	20	12	1.83
4823273--4823334	12	5.2	12	75	7	54	14	14	14	56	1.68
4823245--4823324	24	3.3	24	81	6	92	21	17	15	46	1.84
4823498--4823522	2	12.5	2	100	0	50	48	0	0	52	1.00
4837624--4837675	22	2.4	21	84	9	68	42	7	0	50	1.31
4844125--4844230	31	3.4	31	81	6	124	30	17	18	33	1.95
4846554--4846607	27	2.0	27	88	0	81	40	16	12	29	1.86
4847941--4847974	6	5.7	6	92	0	59	32	29	2	35	1.73
4847941--4847980	18	2.2	18	86	0	53	35	25	2	37	1.69
4855736--4855791	3	18.7	3	100	0	112	66	0	0	33	0.92
4864287--4864370	32	2.6	32	83	3	98	29	15	23	30	1.95
4864531--4864560	2	15.0	2	92	0	51	46	0	3	50	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4865091--4865244	43	3.6	41	81	8	166	31	31	16	21	1.95
4865092--4865257	86	1.9	86	84	4	219	31	29	17	21	1.96
4865091--4865262	43	4.0	43	78	8	163	32	30	16	20	1.95
4865335--4865849	83	6.1	83	81	2	557	35	21	17	25	1.95
4865343--4865841	167	3.0	166	83	2	588	35	21	17	25	1.95
4871632--4871763	56	2.3	58	82	13	159	33	13	17	35	1.89
4871839--4871966	60	2.1	60	84	5	170	33	14	17	34	1.90
4874028--4874399	197	1.9	190	81	5	442	28	15	16	39	1.89
4875704--4875784	37	2.2	37	100	0	162	34	22	22	20	1.97
4875868--4875918	22	2.2	24	79	6	61	54	0	0	45	0.99

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