genome.fa.s258.2.7.7.80.10.50.1000.20.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: Scaffold258
Parameters: 2 7 7 80 10 50 1000
Length:  5730937

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   

This is table  20  of  25  ( 2900 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)
4720767--4720795	13	2.1	14	93	6	51	44	0	0	55	0.99
4721821--4721845	2	12.5	2	100	0	50	52	0	0	48	1.00
4722692--4722722	16	1.9	16	100	0	62	54	12	25	6	1.62
4725115--4725161	25	2.0	23	83	8	58	46	0	6	46	1.28
4725464--4725491	2	14.0	2	100	0	56	50	0	0	50	1.00
4727893--4727938	20	2.3	19	85	14	58	43	0	0	56	0.99
4727975--4728016	10	4.2	10	79	11	50	61	2	0	35	1.09
4734210--4734246	13	2.8	13	87	4	56	35	0	0	64	0.94
4734323--4734651	134	2.4	135	80	9	353	54	3	6	35	1.44
4734384--4734771	134	2.8	132	79	11	322	54	4	4	36	1.42
4734871--4734906	5	7.2	5	90	9	56	61	0	0	38	0.96
4734871--4734917	14	3.1	16	82	11	55	61	0	0	38	0.96
4737328--4737517	93	2.0	93	93	2	328	35	24	12	27	1.91
4751802--4751891	46	2.0	46	100	0	180	28	20	18	32	1.96
4752537--4752603	31	2.1	31	82	17	77	38	1	1	58	1.17
4754746--4754804	18	3.4	17	78	17	52	52	1	0	45	1.10
4754719--4754794	20	3.6	21	73	22	70	53	1	0	44	1.08
4754715--4754794	32	2.5	31	82	8	97	53	1	0	45	1.08
4754779--4754835	15	3.7	15	80	2	69	59	0	0	40	0.97
4754799--4754864	28	2.6	25	76	17	73	60	0	1	37	1.06
4754779--4754836	30	1.9	31	85	3	82	58	0	0	41	0.98
4754717--4754839	51	2.4	55	75	15	127	56	0	0	43	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4754798--4754857	24	2.7	21	72	18	50	63	0	1	35	1.05
4755314--4755339	2	13.0	2	100	0	52	50	0	0	50	1.00
4766015--4766101	31	2.9	31	77	16	94	51	0	2	45	1.13
4766064--4766110	17	2.7	18	74	6	53	48	0	0	51	1.00
4767749--4767793	24	1.9	23	86	4	63	62	4	4	28	1.34
4768035--4768064	2	15.0	2	100	0	60	0	50	0	50	1.00
4769465--4769517	2	26.5	2	96	0	97	49	0	1	49	1.12
4770591--4770641	2	25.5	2	91	0	84	3	47	0	49	1.20
4771173--4771226	16	3.4	15	76	18	56	50	0	0	50	1.00
4771207--4771275	23	2.8	26	80	14	76	62	0	0	37	0.96
4771189--4771267	16	4.9	15	75	22	63	60	0	0	39	0.97
4771189--4771267	17	4.8	16	76	14	72	60	0	0	39	0.97
4773703--4773739	12	3.2	12	81	11	51	64	0	0	35	0.94
4773687--4773741	27	2.1	26	82	3	65	63	0	0	36	0.95
4774585--4774628	13	3.3	13	78	6	52	47	0	0	52	1.00
4777221--4777246	2	13.0	2	100	0	52	50	0	0	50	1.00
4778302--4778339	13	2.9	13	96	0	67	34	0	2	63	1.09
4778842--4778880	2	20.0	2	94	5	71	51	0	0	48	1.00
4779695--4779729	13	2.6	14	86	13	56	0	14	0	85	0.59
4779693--4779729	18	2.0	19	94	5	67	0	13	0	86	0.57
4780208--4780237	15	2.0	15	100	0	60	46	26	6	20	1.75
4785502--4785553	2	26.0	2	88	0	77	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4786450--4786504	23	2.4	23	77	14	60	72	0	20	7	1.07
4787169--4787207	2	19.5	2	100	0	78	0	48	0	51	1.00
4788434--4788468	2	17.5	2	93	0	61	45	0	0	54	0.99
4790728--4790768	2	20.0	2	90	5	64	51	2	0	46	1.14
4797586--4797611	10	2.6	10	100	0	52	92	0	7	0	0.39
4798757--4798795	2	19.5	2	100	0	78	0	48	0	51	1.00
4803770--4803807	2	19.0	2	100	0	76	50	0	0	50	1.00
4804598--4804712	57	2.0	56	89	1	176	33	25	7	33	1.85
4805933--4805969	16	2.3	16	95	0	65	56	18	0	24	1.41
4809539--4809576	2	19.0	2	100	0	76	50	0	0	50	1.00
4810196--4810221	4	6.5	4	100	0	52	50	0	23	26	1.50
4811692--4811764	25	3.0	24	76	15	71	47	0	1	50	1.09
4811795--4811834	20	2.0	20	95	0	71	67	0	0	32	0.91
4815840--4815884	22	2.0	22	86	0	63	73	2	0	24	0.95
4815947--4816047	13	7.9	13	72	18	70	47	0	0	50	1.14
4815977--4816018	11	3.5	12	87	9	59	54	0	0	45	0.99
4816651--4816734	28	2.7	31	79	18	88	40	0	0	59	0.97
4824090--4824152	20	3.1	20	74	19	67	33	0	0	66	0.92
4824093--4824148	28	2.0	28	89	6	87	37	0	0	62	0.95
4824091--4824159	10	6.5	11	73	23	60	34	0	0	65	0.93
4824089--4824159	18	4.0	18	74	7	74	35	0	0	64	0.94
4833926--4833968	23	1.9	23	85	4	61	48	0	4	46	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4834446--4834475	3	10.0	3	100	0	60	33	0	0	66	0.92
4837062--4837097	2	18.0	2	88	0	54	47	2	2	47	1.31
4840287--4840371	22	4.0	22	69	17	61	51	0	1	47	1.08
4842720--4842766	2	23.5	2	100	0	94	48	0	0	51	1.00
4844161--4844212	25	2.1	25	96	0	95	25	23	13	38	1.91
4845415--4845459	2	22.5	2	95	0	81	51	2	0	46	1.13
4852025--4852051	2	13.5	2	100	0	54	48	0	0	51	1.00
4856061--4856085	2	12.5	2	100	0	50	0	0	48	52	1.00
4856450--4856476	2	13.5	2	100	0	54	48	0	0	51	1.00
4858627--4858651	2	12.5	2	100	0	50	52	0	0	48	1.00
4858990--4859023	14	2.5	13	86	9	50	20	0	0	79	0.73
4862878--4862908	2	15.5	2	100	0	62	48	0	0	51	1.00
4864972--4865041	8	8.9	8	72	18	58	61	0	1	37	1.05
4864974--4865041	15	4.4	15	74	18	59	61	0	1	36	1.05
4864990--4865049	26	2.3	27	82	8	70	58	0	3	38	1.15
4864981--4865049	8	7.8	9	75	9	54	60	0	2	36	1.11
4866832--4866866	2	17.5	2	100	0	70	51	0	0	48	1.00
4870393--4870420	13	2.2	13	100	0	56	53	0	0	46	1.00
4872083--4872114	2	16.0	2	93	0	55	50	3	0	46	1.17
4872664--4872700	2	18.5	2	94	0	65	45	0	2	51	1.15
4873165--4873194	3	10.0	3	100	0	60	66	0	0	33	0.92
4873193--4873237	3	15.3	3	86	4	65	35	2	28	33	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4873979--4874027	3	16.0	3	95	4	89	32	0	2	65	1.04
4874642--4874689	25	1.9	25	83	8	62	47	2	4	45	1.33
4874996--4875053	3	19.3	3	74	25	52	65	1	0	32	1.03
4874996--4875053	18	3.2	18	85	9	66	65	1	0	32	1.03
4874996--4875065	23	3.0	23	80	14	72	62	1	0	35	1.04
4875040--4875145	30	3.7	30	77	14	82	54	0	0	45	0.99
4875042--4875143	38	2.7	37	81	18	115	53	0	0	46	1.00
4875069--4875148	18	4.4	18	71	21	51	57	0	0	42	0.98
4875301--4875412	58	1.9	58	92	0	188	19	32	13	34	1.91
4881565--4881597	2	16.5	2	100	0	66	51	48	0	0	1.00
4884538--4884564	2	13.5	2	100	0	54	51	48	0	0	1.00
4885936--4885964	14	2.1	14	100	0	58	44	20	6	27	1.77
4892859--4892897	3	13.0	3	100	0	78	66	0	0	33	0.92
4903688--4903731	23	2.0	22	86	4	61	52	0	0	47	1.00
4903689--4903723	18	1.9	18	88	11	54	54	0	0	45	0.99
4904568--4904606	11	3.5	11	90	10	62	64	0	0	35	0.94
4904571--4904605	16	2.2	16	89	0	52	65	0	0	34	0.93
4904810--4904913	29	3.6	28	82	8	120	57	0	1	39	1.16
4911045--4911123	39	2.0	39	92	0	131	41	15	16	26	1.88
4916726--4916751	2	13.0	2	100	0	52	50	0	0	50	1.00
4919679--4919717	3	13.0	3	100	0	78	33	0	0	66	0.92
4923969--4924007	18	2.2	17	86	4	51	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4924664--4924697	2	17.0	2	93	0	59	50	2	0	47	1.16
4926301--4926352	7	7.4	7	75	16	54	46	0	0	53	1.00
4926336--4926376	21	1.9	21	85	5	55	36	0	0	63	0.95
4926296--4926352	28	2.1	27	83	9	71	43	0	0	56	0.99
4926303--4926373	35	2.0	35	81	10	83	43	0	0	56	0.99
4937564--4937658	15	6.5	15	67	20	67	57	1	0	41	1.05
4937738--4937799	22	2.8	22	71	21	58	46	1	0	51	1.10
4939089--4939133	23	2.0	21	83	8	54	37	0	2	60	1.09
4939694--4939728	14	2.5	14	86	13	54	45	5	0	48	1.26
4939694--4939725	15	2.3	15	89	10	50	50	6	0	43	1.27

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