genome.fa.s456.2.7.7.80.10.50.1000.3.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: Scaffold456
Parameters: 2 7 7 80 10 50 1000
Length:  970336

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 568 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)
499535--499576	21	1.9	22	85	9	59	45	2	0	52	1.13
499747--499784	2	19.0	2	100	0	76	50	0	0	50	1.00
504113--504148	3	12.0	3	87	0	54	66	0	33	0	0.92
505552--505590	20	2.0	20	85	10	53	38	2	17	41	1.64
510656--510684	2	14.5	2	100	0	58	0	48	0	51	1.00
511175--511208	17	2.0	17	94	0	59	32	11	20	35	1.89
514246--514279	2	17.0	2	100	0	68	50	0	0	50	1.00
515187--515220	17	2.1	16	94	5	59	0	14	0	85	0.60
515823--515854	7	4.6	7	100	0	64	25	31	15	28	1.96
515815--515854	21	2.0	20	90	5	62	25	30	17	27	1.97
515843--515916	35	2.1	37	87	10	109	17	29	20	32	1.95
516333--516364	2	16.0	2	100	0	64	50	0	0	50	1.00
516724--516793	22	3.3	22	82	13	83	47	7	0	45	1.30
516782--516856	31	2.4	33	82	8	93	45	10	0	44	1.38
516759--516875	16	7.4	16	79	5	96	45	8	0	46	1.34
519142--519220	24	3.3	23	75	7	68	41	0	0	58	0.98
522785--522887	31	3.4	30	76	15	88	59	0	0	40	0.98
522794--522834	11	3.8	11	83	3	57	68	0	0	31	0.90
522791--522829	6	6.5	6	82	11	53	66	0	0	33	0.92
522813--522889	25	3.0	26	81	12	88	53	0	0	46	1.00
522785--522897	32	3.5	31	79	15	106	59	0	0	40	0.97
522781--522897	17	6.6	17	68	24	73	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
535680--536071	208	1.9	208	95	0	703	30	17	20	31	1.96
539440--539500	19	3.3	18	78	19	63	29	0	0	70	0.88
539452--539502	3	18.7	3	81	18	67	29	0	0	70	0.87
539456--539502	14	3.4	14	91	8	71	27	0	0	72	0.85
539452--539493	17	2.5	17	96	3	77	30	0	0	69	0.89
539806--539842	3	13.3	3	83	16	53	27	0	0	72	0.84
539803--539842	14	2.9	14	96	3	73	27	0	0	72	0.85
539806--539842	11	3.3	12	85	14	53	27	0	0	72	0.84
539466--540491	340	3.0	340	97	1	1890	32	12	13	41	1.82
540146--540182	3	13.3	3	83	16	53	27	0	0	72	0.84
540143--540182	14	2.9	14	96	3	73	27	0	0	72	0.85
540146--540182	11	3.3	12	85	14	53	27	0	0	72	0.84
547292--547335	15	2.6	18	79	17	58	22	4	0	72	1.02
552110--552139	15	2.0	15	100	0	60	26	0	20	53	1.46
555988--556017	13	2.2	14	94	5	53	3	6	0	90	0.56
558744--558953	105	2.0	105	98	0	402	34	10	22	33	1.87
564735--564773	17	2.3	18	86	8	55	58	5	0	35	1.20
574093--574152	15	3.5	17	84	13	70	53	0	1	45	1.10
575521--575549	12	2.3	13	94	5	51	55	0	0	44	0.99
576764--576805	14	3.1	14	75	6	50	57	0	0	42	0.99
577394--577446	10	5.1	11	70	21	51	49	0	1	49	1.12
577383--577459	31	2.5	31	83	12	97	44	0	2	53	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
577491--577530	19	2.2	18	86	4	53	60	0	2	37	1.11
577844--577884	21	2.0	21	85	9	57	43	0	0	56	0.99
579278--579400	59	2.0	64	85	9	175	38	2	5	53	1.38
581091--581140	7	7.0	7	80	13	57	60	0	0	40	0.97
581104--581146	21	2.0	22	90	4	70	58	0	0	41	0.98
581538--581568	3	10.3	3	100	0	62	0	32	0	67	0.91
593052--593097	2	23.0	2	95	0	83	47	2	0	50	1.13
605758--605793	2	18.0	2	100	0	72	50	0	0	50	1.00
605811--605867	27	2.1	27	86	0	78	57	12	3	26	1.50
615920--615957	2	19.0	2	100	0	76	50	0	0	50	1.00
619568--619597	3	9.7	3	92	7	51	66	0	0	33	0.92
619886--619933	23	2.0	24	84	11	64	54	0	2	43	1.12
620353--620390	19	2.0	20	85	10	53	55	0	0	44	0.99
620387--620430	17	2.5	18	81	7	54	72	0	0	27	0.85
621109--621137	2	14.5	2	100	0	58	51	0	0	48	1.00
621441--621481	22	1.9	23	85	14	61	65	0	0	34	0.93
621441--621487	19	2.5	20	80	13	55	65	0	0	34	0.93
621753--621777	1	25.0	1	100	0	50	0	0	0	100	0.00
622307--622332	6	4.3	6	100	0	52	65	0	0	34	0.93
624116--624169	26	2.0	28	86	13	78	40	0	0	59	0.98
624117--624175	26	2.3	25	81	18	68	42	0	0	57	0.98
625486--625565	32	2.5	32	87	0	115	46	7	6	40	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
625952--625994	22	2.0	22	90	9	70	37	0	0	62	0.95
626214--626248	2	18.0	2	94	5	63	48	0	0	51	1.00
626895--627055	10	15.5	11	69	21	89	39	0	0	60	1.02
626880--627050	33	5.1	33	68	25	94	39	0	0	60	0.97
626914--626969	16	3.5	16	73	7	51	37	0	0	62	0.95
626881--627040	51	3.1	55	69	23	132	39	0	0	60	0.97
626880--627050	63	2.5	67	74	20	167	39	0	0	60	0.97
626936--627014	18	4.5	17	71	23	65	43	0	0	56	0.99
626894--627048	55	2.8	54	73	15	147	39	0	0	60	0.97
627255--627300	14	3.3	14	84	0	65	52	0	0	47	1.00
627255--627306	7	7.4	7	76	8	52	50	0	0	50	1.00
627471--627530	24	2.5	24	78	10	68	56	1	0	41	1.09
628143--628196	21	2.7	20	77	5	54	53	0	0	46	1.00
628517--628565	22	2.3	20	75	6	53	63	0	0	36	0.95
628525--628591	33	2.0	34	94	2	118	55	0	0	44	0.99
628598--628625	2	14.0	2	100	0	56	50	0	0	50	1.00
629125--629165	14	3.1	14	75	10	50	51	0	7	41	1.30
631990--632072	36	2.2	39	85	8	109	45	4	1	48	1.31
631990--632088	36	2.5	40	75	18	102	45	4	1	49	1.27
635195--635225	3	10.3	3	100	0	62	32	0	0	67	0.91
635714--635761	8	5.8	8	80	9	60	39	0	0	60	0.97
635703--635761	16	3.6	16	81	2	64	40	1	0	57	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
635777--635818	19	2.3	19	79	4	50	28	2	2	66	1.16
636599--636640	14	2.8	15	85	7	59	40	2	0	57	1.12
636602--636667	16	4.1	16	75	7	53	43	1	0	54	1.09
636625--636698	10	7.2	10	70	11	51	55	0	0	44	0.99
636620--636685	22	3.0	22	76	10	73	51	0	0	48	1.00
638514--638586	19	3.9	19	72	24	66	41	0	0	58	0.98
638514--638593	36	2.3	35	83	12	103	41	0	0	58	0.98
638516--638593	16	4.6	16	69	13	57	39	0	0	60	0.97
638835--638936	37	2.8	36	73	19	93	56	1	0	40	1.17
641813--641885	26	2.7	29	73	16	66	42	0	1	56	1.08
641842--641919	24	3.1	26	75	12	74	46	0	1	52	1.08
642151--642183	17	1.9	17	93	0	57	33	0	0	66	0.92
642164--642215	27	2.0	26	85	11	70	36	0	3	59	1.16
643555--643581	5	5.4	5	100	0	54	22	0	37	40	1.54
653516--653573	23	2.7	20	75	19	55	63	1	17	17	1.39
654923--654967	21	2.2	20	84	4	54	42	0	2	55	1.12
655129--655171	21	2.0	21	91	8	70	58	0	0	41	0.98
663127--663152	2	13.0	2	100	0	52	50	0	0	50	1.00
663213--663257	2	22.5	2	100	0	90	51	0	48	0	1.00
671877--671950	21	3.7	20	71	20	64	52	1	1	44	1.17
672045--672119	37	2.0	37	94	0	132	36	14	13	36	1.85
674135--674184	21	2.4	22	74	16	52	42	16	12	30	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
677745--677809	15	4.5	15	76	16	57	55	1	0	43	1.09
677747--677815	30	2.3	30	78	9	70	55	1	0	43	1.08
677796--677834	20	2.0	20	90	10	62	46	0	0	53	1.00
677823--677865	22	2.0	22	85	0	59	65	2	0	32	1.06
684486--684518	13	2.6	13	90	4	50	66	0	0	33	0.92
684548--684588	16	2.6	16	88	11	59	60	0	0	39	0.96
684615--684654	20	2.0	20	100	0	80	20	15	45	20	1.86
685848--685873	2	13.0	2	100	0	52	50	0	0	50	1.00
685873--685905	2	16.5	2	100	0	66	51	0	48	0	1.00
686068--686116	17	3.1	17	71	11	50	57	0	0	42	0.99

Tables:   1   2   3   4   5