genome.fa.s3.2.7.7.80.10.50.1000.5.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: Scaffold3
Parameters: 2 7 7 80 10 50 1000
Length:  6198200

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   30   31   32   

This is table  5  of  32  ( 3795 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)
510805--511022	102	2.1	101	89	0	328	26	7	25	40	1.82
511502--511535	11	3.1	11	95	0	59	61	0	0	38	0.96
511500--511548	16	3.1	16	82	14	57	59	0	0	40	0.98
511805--511859	5	11.4	5	75	21	55	65	0	0	34	0.93
511804--511856	11	4.6	11	86	9	79	66	0	0	33	0.92
511804--511946	19	8.3	17	66	22	59	58	0	0	41	0.98
511835--511879	9	4.7	10	78	18	51	57	0	0	42	0.98
511841--511944	32	3.2	31	73	20	79	55	0	0	44	0.99
511889--511941	26	2.2	23	83	10	61	54	0	0	45	0.99
512864--512892	3	9.7	3	100	0	58	31	0	0	68	0.89
513226--513281	26	2.2	26	83	0	67	69	1	5	23	1.18
513573--513637	28	2.3	27	86	5	94	43	6	0	50	1.27
513688--513712	7	3.6	7	100	0	50	84	0	0	16	0.63
521671--521708	16	2.2	18	90	9	62	57	0	0	42	0.98
525527--525576	21	2.5	20	81	12	59	66	2	0	32	1.03
525578--525627	17	3.1	17	72	27	54	52	0	0	48	1.00
525559--525631	32	2.2	32	85	2	101	54	4	0	41	1.19
525641--525687	11	4.7	10	77	17	53	63	0	0	36	0.94
525641--525687	20	2.3	21	85	10	71	63	0	0	36	0.94
525984--526016	2	16.5	2	100	0	66	51	0	0	48	1.00
529481--529530	20	2.4	20	80	6	55	30	4	4	62	1.32
540407--540452	24	2.0	24	86	4	67	47	0	4	47	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540493--540537	22	2.0	23	83	12	58	53	0	0	46	1.00
543359--543390	16	2.0	16	93	0	55	40	0	0	59	0.97
543808--543888	33	2.4	34	81	12	94	41	3	2	51	1.32
545814--545857	2	22.0	2	100	0	88	50	0	0	50	1.00
547096--547259	81	2.0	81	95	0	292	51	3	3	41	1.37
547420--547457	15	2.4	17	86	8	53	47	0	0	52	1.00
547420--547473	17	3.3	17	85	10	60	42	0	0	57	0.98
547500--547554	21	2.9	18	75	17	58	58	0	0	41	0.98
547501--547546	21	2.1	23	88	8	69	58	0	0	41	0.98
554970--555049	30	2.8	28	76	14	74	55	1	0	43	1.08
560019--560051	16	2.0	17	88	5	50	45	3	0	51	1.16
561226--561276	13	3.6	15	82	12	63	45	0	0	54	0.99
561218--561282	13	4.8	13	78	15	62	47	0	0	52	1.00
565909--565948	16	2.5	17	84	12	57	52	0	0	47	1.00
565989--566081	45	2.1	45	80	11	102	34	1	5	59	1.27
567879--567917	2	19.5	2	100	0	78	51	0	48	0	1.00
575539--575585	2	23.5	2	91	0	76	48	2	46	2	1.25
575907--575941	2	18.5	2	88	11	56	54	0	0	45	0.99
575906--575995	24	3.8	24	80	15	82	57	0	0	42	0.98
576242--576272	13	2.4	13	94	0	53	35	0	0	64	0.94
580523--580598	33	2.3	33	83	0	89	46	7	2	43	1.47
583891--583920	2	15.0	2	100	0	60	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)
586752--586792	20	2.0	21	90	4	66	26	2	9	60	1.40
586926--586968	2	21.5	2	100	0	86	51	48	0	0	1.00
592726--592755	8	3.8	8	90	0	51	86	3	10	0	0.67
594121--594183	11	6.0	11	76	10	53	47	0	0	52	1.00
594125--594197	16	4.6	16	78	11	80	46	0	0	53	1.00
594121--594177	10	5.6	10	74	12	53	47	0	0	52	1.00
594134--594196	27	2.3	28	76	15	69	44	0	0	55	0.99
594385--594424	4	10.2	4	89	5	64	55	0	0	45	0.99
594380--594422	19	2.3	19	91	0	68	55	0	0	44	0.99
594878--594985	32	3.5	31	76	19	93	40	0	0	58	1.04
595620--595668	21	2.4	21	80	10	57	46	0	0	53	1.00
597544--597661	31	3.6	32	76	13	100	53	0	0	46	1.00
597549--597598	13	3.6	14	74	10	50	54	0	0	46	1.00
597554--597606	23	2.3	25	84	12	69	50	0	0	49	1.00
597529--597648	27	4.2	28	74	16	95	53	0	0	45	1.06
597614--597662	21	2.5	20	80	6	55	59	0	0	40	0.98
597543--597660	9	12.2	10	72	16	54	53	0	0	46	1.00
597802--597866	9	7.6	9	74	17	50	50	0	0	49	1.00
598494--598532	3	13.0	3	100	0	78	33	0	0	66	0.92
599295--599355	30	2.1	30	85	11	83	55	0	1	42	1.09
599709--599759	19	2.8	19	85	8	70	60	0	0	39	0.97
600173--600206	16	2.1	17	88	5	52	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
601398--601442	24	1.9	23	90	4	72	42	4	2	51	1.34
601660--601737	28	2.7	28	73	16	70	43	5	1	50	1.32
601701--601776	30	2.5	30	75	12	84	43	11	1	43	1.49
605713--605752	18	2.2	18	86	0	53	50	0	2	47	1.14
605714--605754	10	4.2	10	81	15	50	48	0	2	48	1.14
605789--605829	20	2.0	21	85	4	57	39	2	0	58	1.11
607184--607225	21	2.2	19	84	16	52	30	0	2	66	1.04
608477--608520	3	14.7	3	100	0	88	34	0	0	65	0.93
609819--609847	14	2.0	15	93	6	51	62	0	0	37	0.96
610423--610477	25	2.3	24	84	12	69	50	0	1	47	1.11
611110--611141	2	16.0	2	93	0	55	46	0	3	50	1.17
611540--611589	27	1.9	27	84	8	68	44	6	2	48	1.39
611540--611595	27	2.1	27	80	6	62	41	7	3	48	1.48
612271--612347	33	2.3	32	74	10	75	51	0	0	48	1.00
612742--612773	2	16.0	2	100	0	64	50	0	0	50	1.00
613167--613230	16	3.8	16	76	13	58	56	0	0	43	0.99
613553--613584	2	16.0	2	100	0	64	50	0	0	50	1.00
616608--616677	21	3.2	21	79	20	65	54	4	5	35	1.44
620774--620807	2	17.0	2	100	0	68	0	50	0	50	1.00
627130--627154	1	25.0	1	100	0	50	0	100	0	0	0.00
634159--634400	121	2.0	121	100	0	484	29	19	14	35	1.92
634696--634738	2	21.5	2	100	0	86	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
635205--635238	14	2.5	14	90	4	52	41	0	0	58	0.98
635192--635259	30	2.2	32	79	10	79	44	2	0	52	1.16
635377--635423	22	2.0	23	84	15	62	55	0	0	44	0.99
635404--635454	25	1.9	26	84	11	68	58	1	0	39	1.09
636127--636159	17	1.9	17	93	0	57	51	3	0	45	1.16
636176--636233	23	2.5	23	83	10	75	67	0	3	29	1.07
636904--636934	2	15.5	2	100	0	62	0	48	0	51	1.00
637130--637192	24	2.5	25	87	5	83	39	0	4	55	1.21
637236--637294	30	2.1	27	84	9	73	61	5	5	28	1.39
639903--640067	83	2.0	83	92	0	276	33	10	6	49	1.62
640061--640116	25	2.2	25	81	9	69	51	1	1	44	1.22
640616--640650	18	2.0	17	88	5	52	48	0	2	48	1.16
640846--640887	20	2.2	19	86	4	57	59	0	0	40	0.97
640853--640897	19	2.3	20	88	11	67	53	0	0	46	1.00
642873--642903	3	10.3	3	92	0	53	35	3	0	61	1.12
644854--644886	2	16.5	2	100	0	66	0	48	0	51	1.00
649510--649540	2	15.5	2	100	0	62	0	51	0	48	1.00
650164--650194	15	2.1	15	93	0	53	45	0	0	54	0.99
651046--651087	17	2.4	17	88	11	59	50	4	0	45	1.23
651061--651099	17	2.3	17	86	8	53	48	2	0	48	1.15
651056--651127	20	3.7	20	78	20	64	48	1	0	50	1.09
651072--651135	20	3.0	20	76	13	58	50	1	0	48	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
651094--651140	20	2.3	21	81	7	60	53	0	0	46	1.00
651447--651473	1	27.0	1	100	0	54	100	0	0	0	0.00
654474--654503	2	15.5	2	93	6	53	53	0	0	46	1.00
658547--658598	15	3.5	14	80	17	52	42	1	1	53	1.23
658560--658598	9	4.0	9	81	18	51	43	0	0	56	0.99
658559--658598	21	1.9	21	100	0	80	42	0	0	57	0.98
658591--658671	16	5.1	15	74	12	63	58	2	0	39	1.12
658567--658675	49	2.3	49	84	9	145	55	1	0	43	1.10
658571--658654	6	14.3	6	74	20	56	54	0	0	45	0.99
661350--661407	21	2.7	22	87	10	77	46	0	0	53	1.00

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   30   31   32