genome.fa.s253.2.7.7.80.10.50.1000.5.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: Scaffold253
Parameters: 2 7 7 80 10 50 1000
Length:  2064896

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  5  of  13  ( 1496 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)
551202--551336	33	3.9	34	70	17	100	56	0	0	43	0.99
551244--551355	50	2.2	51	77	17	126	58	0	0	40	1.04
552326--552359	3	11.3	3	100	0	68	64	0	0	35	0.94
554837--554879	15	2.7	15	85	10	50	44	0	0	55	0.99
554850--554879	15	2.1	15	93	6	53	43	0	0	56	0.99
555127--555279	7	22.4	7	69	20	76	45	1	0	53	1.08
555118--555243	46	2.7	47	74	20	122	46	0	0	53	1.06
555134--555235	43	2.4	42	74	16	104	48	0	0	50	1.07
555726--555805	26	2.9	29	74	11	85	50	5	1	43	1.32
559377--559416	15	2.6	16	84	8	55	35	0	2	62	1.09
560746--560947	99	2.0	99	94	0	350	22	20	15	41	1.90
560939--561119	90	2.0	89	98	1	353	29	9	9	50	1.68
562019--562096	32	2.4	33	85	10	106	46	1	1	51	1.17
563260--563314	24	2.2	25	87	9	78	50	5	3	40	1.43
564445--564487	22	2.0	22	81	9	52	32	0	6	60	1.23
564852--564899	24	2.0	24	88	8	71	45	10	10	33	1.72
565132--565179	16	3.1	15	75	19	53	41	0	0	58	0.98
565306--565344	20	1.9	21	84	5	53	35	2	5	56	1.35
566432--566484	18	2.9	18	86	5	63	64	1	30	3	1.22
566454--566484	3	10.3	3	100	0	62	67	0	32	0	0.91
568322--568379	21	2.7	21	86	7	73	62	0	0	37	0.96
568322--568381	22	2.8	22	87	7	79	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
578318--578472	11	15.2	11	69	20	79	61	0	0	38	1.01
578309--578471	14	10.9	15	66	25	53	60	0	0	38	1.06
578305--578457	61	2.5	62	76	11	156	60	0	0	38	1.07
578400--578479	17	4.5	17	73	26	60	57	0	0	42	0.98
578323--578467	71	2.1	69	83	7	177	61	0	0	37	1.01
578384--578454	8	8.4	8	71	17	54	57	0	0	42	0.98
578318--578472	18	8.1	20	70	18	100	61	0	0	38	1.01
578746--578784	20	2.0	20	89	0	60	7	15	5	71	1.26
578928--578980	2	27.5	2	77	7	56	54	0	0	45	0.99
578887--578981	14	6.4	15	71	14	72	55	0	2	42	1.11
578883--578998	10	10.8	11	72	18	59	56	0	2	40	1.13
578883--578998	14	8.7	13	69	19	62	56	0	2	40	1.13
579273--579309	16	2.4	16	86	8	51	75	0	2	21	0.92
580340--580373	14	2.2	16	90	10	54	14	5	0	79	0.91
581759--581861	43	2.4	45	76	16	112	54	0	0	45	0.99
581759--581864	19	5.0	21	71	17	78	54	0	0	45	0.99
582276--582341	16	4.1	16	71	15	55	53	0	0	46	1.00
582255--582358	29	3.6	27	74	19	75	57	0	0	42	0.98
582456--582534	14	6.1	14	67	24	57	43	1	0	55	1.07
582455--582558	48	2.0	54	85	10	148	42	0	0	55	1.12
582578--582655	20	3.5	21	77	15	68	50	1	1	47	1.17
582592--582655	20	3.0	22	79	11	69	51	0	1	46	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
583005--583101	38	2.5	39	79	12	101	46	0	1	52	1.07
583053--583123	28	2.6	28	78	13	76	50	0	1	47	1.09
583064--583123	15	4.2	14	77	16	61	51	0	1	46	1.10
587022--587060	2	19.5	2	100	0	78	48	0	0	51	1.00
587907--587959	22	2.5	22	75	3	54	54	1	0	43	1.11
588563--588604	22	1.9	22	85	9	59	54	0	2	42	1.13
588743--588885	73	2.0	73	95	0	259	30	17	23	28	1.97
591593--591635	17	2.7	15	83	13	59	55	0	0	44	0.99
592065--592098	16	2.1	16	88	0	50	64	5	0	29	1.17
594401--594432	2	16.0	2	100	0	64	50	0	0	50	1.00
598266--598293	2	14.0	2	100	0	56	50	0	0	50	1.00
602249--602330	26	3.3	25	74	20	82	46	0	0	53	1.00
602269--602326	12	5.0	12	70	16	50	43	0	0	56	0.99
602265--602306	22	1.9	22	90	9	68	38	0	0	61	0.96
603064--603112	24	2.1	24	88	3	73	46	4	8	40	1.52
603460--603490	16	1.9	16	93	0	53	25	0	0	74	0.82
603723--603755	2	16.5	2	100	0	66	48	0	0	51	1.00
603930--603955	2	13.0	2	100	0	52	50	0	0	50	1.00
604308--604342	16	2.3	15	90	5	52	42	5	2	48	1.41
604644--604726	20	4.3	20	72	23	63	63	1	0	34	1.02
604654--604700	15	3.2	15	79	14	53	68	0	0	31	0.90
604636--604725	48	1.9	45	82	13	110	63	1	0	35	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
604647--604716	29	2.5	28	82	13	81	65	1	0	32	1.01
604647--604720	28	2.6	29	77	16	75	66	1	0	32	1.00
604749--604774	2	13.0	2	100	0	52	50	0	0	50	1.00
604884--604908	12	2.1	12	100	0	50	16	0	8	76	1.02
605815--605852	2	19.0	2	100	0	76	50	0	0	50	1.00
606893--606944	19	2.8	18	75	11	52	55	0	0	44	0.99
609802--609842	20	2.0	20	85	0	55	24	4	9	60	1.47
611839--611904	19	3.7	19	66	25	54	51	0	0	48	1.00
611842--611912	35	2.0	36	86	10	103	52	0	0	47	1.00
613851--613881	2	15.5	2	100	0	62	48	0	0	51	1.00
615840--615879	13	3.2	13	80	20	57	52	0	0	47	1.00
616160--616186	4	6.8	4	100	0	54	22	0	77	0	0.76
616680--616707	2	14.0	2	100	0	56	50	0	0	50	1.00
620390--620432	13	3.3	13	80	9	52	30	0	2	67	1.03
623151--623190	19	2.1	19	90	0	62	32	0	0	67	0.91
623600--623699	49	2.1	50	83	9	127	47	0	0	53	1.00
623728--623798	36	2.0	36	88	0	106	59	4	1	35	1.26
624411--624458	17	2.8	17	81	12	53	62	2	0	35	1.07
627900--627973	11	6.8	11	72	18	57	58	1	0	40	1.07
627912--627949	17	2.3	17	90	4	60	60	0	0	39	0.97
627910--627952	17	2.6	18	78	14	56	58	0	0	41	0.98
628441--628514	19	4.0	18	75	10	51	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)
628426--628495	24	3.0	23	72	17	63	52	0	1	45	1.09
628476--628513	18	2.2	17	86	9	51	50	0	0	50	1.00
628474--628544	31	2.2	32	82	2	81	47	2	0	49	1.16
629666--629718	22	2.4	23	77	20	60	33	1	5	58	1.32
631345--631416	8	8.4	8	74	18	56	25	1	4	69	1.14
631769--631825	23	2.5	23	81	18	75	40	3	0	56	1.17
634380--634449	26	2.7	25	77	14	63	38	0	8	52	1.32
634385--634423	21	1.9	20	94	5	69	35	0	7	56	1.28
634378--634427	10	4.9	10	78	11	57	34	0	10	56	1.33
635335--635388	2	26.5	2	84	3	72	48	5	1	44	1.37
638997--639046	21	2.5	20	84	9	66	58	0	2	40	1.10
642526--642585	22	2.8	21	73	14	59	31	0	5	63	1.16
643623--643668	18	2.5	19	82	7	58	54	6	2	36	1.39
643895--643949	23	2.3	24	84	12	69	60	0	3	36	1.15
644003--644030	13	2.2	13	100	0	56	42	0	0	57	0.99
644754--644790	2	18.5	2	100	0	74	0	0	48	51	1.00
646650--646686	2	19.0	2	88	5	58	48	2	0	48	1.15
647237--647277	5	8.2	5	100	0	82	19	0	0	80	0.71
648717--648762	23	2.0	23	91	0	74	28	15	19	36	1.92
651535--651888	177	2.0	177	94	1	620	34	20	15	29	1.94
652157--652231	39	2.0	35	85	10	96	32	6	2	58	1.38
653863--653953	32	2.9	31	77	8	76	46	2	2	49	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
653873--653953	32	2.5	32	84	4	92	45	1	2	50	1.22
654498--654548	20	2.6	20	73	14	52	35	1	0	62	1.06
654619--654655	19	2.0	18	94	5	65	75	0	0	24	0.80
654619--654655	14	2.5	16	83	16	53	75	0	0	24	0.80
656407--656481	39	1.9	39	88	0	114	52	9	6	32	1.60
658475--658501	13	2.1	13	100	0	54	22	25	7	44	1.79
660770--660829	20	3.0	20	79	13	54	43	1	1	53	1.20
668041--668130	37	2.5	34	77	15	99	38	1	5	54	1.31
668682--668714	15	2.1	16	88	5	50	30	0	0	69	0.88
668740--668773	17	2.0	17	94	0	59	38	0	0	61	0.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13