genome.fa.s247.2.7.7.80.10.50.1000.5.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: Scaffold247
Parameters: 2 7 7 80 10 50 1000
Length:  4737410

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  5  of  29  ( 3470 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)
506919--506948	15	1.9	16	93	6	53	60	0	0	40	0.97
506909--506951	16	2.6	17	82	10	54	53	2	0	44	1.13
506939--506978	21	1.9	20	85	10	53	55	0	0	45	0.99
507492--507518	14	1.9	14	100	0	54	48	0	0	51	1.00
507879--507927	23	2.2	22	85	3	62	67	6	6	20	1.35
508045--508074	15	1.9	15	93	6	51	0	16	3	80	0.85
508368--508453	38	2.3	35	80	7	91	65	0	1	33	1.01
508413--508467	23	2.4	23	84	6	67	63	1	0	34	1.05
509211--509273	23	2.7	23	80	14	67	65	11	0	23	1.25
509538--509588	21	2.5	20	84	15	68	0	19	1	78	0.85
509538--509589	20	2.6	20	88	11	72	0	21	1	76	0.87
509539--509598	26	2.3	25	78	18	61	1	21	1	75	0.99
509538--509597	20	3.0	20	83	11	70	1	20	1	76	0.96
510152--510201	20	2.5	21	80	9	59	64	2	0	34	1.05
510212--510273	31	1.9	33	87	9	92	4	22	1	70	1.14
510291--510345	27	2.0	27	92	0	92	63	10	3	21	1.42
511255--511288	17	1.9	18	88	5	52	58	0	0	41	0.98
520399--520461	30	2.1	30	90	0	99	33	26	11	28	1.91
526962--526992	14	2.2	14	94	0	53	58	3	38	0	1.15
527344--527417	33	2.1	35	83	11	91	56	0	0	43	0.99
527358--527547	73	2.6	76	73	13	171	51	1	0	46	1.10
527395--527438	19	2.4	19	81	11	56	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
527496--527529	16	2.1	16	88	0	50	55	5	0	38	1.24
527478--527527	24	2.2	21	80	13	55	60	4	0	36	1.16
528905--528937	14	2.3	15	89	5	50	15	0	3	81	0.80
528996--529037	20	2.0	20	86	13	57	40	2	0	57	1.12
528995--529037	11	4.1	10	80	19	52	39	2	0	58	1.11
529889--529935	16	3.1	15	79	11	51	48	0	2	48	1.13
533536--533566	2	15.5	2	100	0	62	51	0	0	48	1.00
535866--535904	20	2.0	20	89	0	60	56	0	0	43	0.99
538893--538938	23	2.0	22	83	4	56	47	2	4	45	1.34
539605--539738	71	1.9	72	87	3	198	54	6	1	37	1.36
548674--548699	7	3.7	7	100	0	52	26	15	26	30	1.96
549379--549416	16	2.4	16	86	8	51	52	2	0	44	1.14
552580--552655	28	2.7	29	78	11	77	47	0	1	51	1.09
555001--555060	26	2.3	25	83	11	68	45	0	1	53	1.10
555001--555071	22	3.0	24	80	12	58	45	0	1	53	1.09
555181--555221	21	1.9	22	90	5	66	43	0	0	56	0.99
555224--555259	18	2.0	19	89	10	58	36	2	5	55	1.38
555381--555419	10	3.9	10	79	0	51	82	0	2	15	0.79
560296--560332	2	18.5	2	100	0	74	48	0	0	51	1.00
561200--561232	8	4.1	8	100	0	66	51	0	0	48	1.00
561190--561250	8	8.4	7	81	12	54	44	0	1	54	1.10
561308--561343	6	5.8	6	87	6	54	47	0	2	50	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
561308--561343	13	2.9	12	84	8	54	47	0	2	50	1.15
562413--562462	10	5.1	10	87	2	75	18	20	0	62	1.34
562594--562679	30	2.9	30	82	1	102	33	25	2	38	1.69
564971--565026	22	2.5	24	77	16	66	14	21	1	62	1.40
564971--565021	21	2.3	22	80	12	61	15	19	1	62	1.41
568068--568509	228	1.9	229	96	0	814	24	21	13	40	1.90
573713--573747	18	1.9	18	88	0	52	57	0	11	31	1.34
573989--574027	17	2.2	18	86	4	53	38	0	0	61	0.96
573977--574027	17	3.1	17	80	8	52	41	0	0	58	0.98
577221--577481	90	2.9	88	77	12	260	41	6	6	45	1.57
580361--580403	21	2.0	21	86	0	59	25	32	0	41	1.56
580448--580521	27	2.7	27	76	17	73	31	1	4	63	1.21
580458--580521	27	2.3	28	86	7	87	28	1	4	65	1.21
580450--580523	28	2.7	28	81	12	91	29	1	4	64	1.20
580778--580839	24	2.6	25	70	12	58	41	0	25	32	1.56
586062--586255	36	5.2	36	66	11	122	29	7	23	39	1.82
586042--586231	36	5.1	38	64	12	122	28	7	24	39	1.83
586042--586285	75	3.3	75	94	0	416	29	8	22	39	1.84
591598--591641	6	7.5	6	97	2	81	65	0	15	18	1.27
594122--594218	36	2.9	33	82	14	121	29	23	12	34	1.92
596421--596446	13	2.0	13	100	0	52	46	7	7	38	1.61
597984--598036	21	2.5	21	84	0	61	18	20	0	60	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
597997--598040	21	2.1	21	91	0	70	20	18	0	61	1.35
601179--601278	51	2.0	51	93	0	173	49	15	4	32	1.63
601535--601567	2	16.5	2	93	0	57	51	3	0	45	1.16
605153--605194	16	2.6	16	82	10	50	50	2	0	47	1.14
605295--605353	22	2.5	23	75	13	57	59	0	1	38	1.08
605297--605351	23	2.4	22	84	6	65	58	0	1	40	1.09
606366--606417	25	2.1	25	85	7	70	46	0	7	46	1.31
607048--607092	3	14.7	3	83	4	54	4	31	4	60	1.37
610587--610647	22	2.9	21	70	13	54	45	0	0	54	1.00
610587--610664	42	1.9	41	82	15	99	47	0	0	52	1.00
611004--611043	21	1.9	21	85	10	55	52	0	5	42	1.23
611689--611731	21	2.1	21	86	4	61	48	18	2	30	1.60
612091--612159	25	2.8	25	80	10	61	40	0	1	57	1.07
612418--612470	25	2.2	24	84	15	67	58	1	0	39	1.09
621286--621347	32	1.9	32	96	0	115	30	22	17	29	1.97
623236--623287	26	2.0	26	92	0	86	44	17	13	25	1.85
626191--626228	8	4.8	8	93	0	67	86	0	13	0	0.56
629030--629059	5	6.0	5	100	0	60	60	20	0	20	1.37
629032--629070	15	2.6	15	88	8	53	61	20	2	15	1.45
630938--630982	17	2.9	15	78	12	54	37	2	0	60	1.09
631144--631187	2	22.0	2	100	0	88	50	0	0	50	1.00
631218--631273	21	2.7	21	77	0	58	44	0	8	46	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
632498--632563	22	2.9	22	73	10	62	40	7	13	37	1.73
634441--634482	15	2.7	15	79	13	50	69	4	2	23	1.20
635445--635546	53	1.9	52	90	5	161	50	12	27	9	1.72
635829--635883	24	2.3	24	83	0	65	43	12	32	10	1.78
636555--636589	14	2.7	13	91	8	54	74	0	0	25	0.82
649165--650435	44	29.0	44	78	4	1066	16	27	16	39	1.90
651742--652033	79	3.7	77	79	7	273	32	15	25	26	1.96
652001--652110	50	2.2	50	83	0	130	40	11	22	25	1.88
657386--657514	52	2.5	52	94	0	231	29	17	17	35	1.93
657592--657694	32	3.2	32	94	0	170	34	16	13	34	1.88
657632--657695	19	3.7	19	74	23	77	35	17	14	32	1.89
657651--657675	13	1.9	13	100	0	50	32	16	16	36	1.90
657932--657989	20	2.9	20	86	0	80	41	13	20	24	1.89
658520--658547	14	2.0	14	100	0	56	71	7	0	21	1.09
659469--659580	53	2.1	52	90	4	172	54	11	25	8	1.65
659861--659918	24	2.4	24	85	0	71	44	17	34	3	1.65
661901--661938	20	1.9	20	84	10	51	39	21	18	21	1.93
663896--663928	15	2.2	15	94	0	57	3	30	30	36	1.73
664167--664308	69	2.1	69	100	0	284	35	15	12	35	1.86
666053--666101	20	2.5	19	90	6	80	75	16	2	6	1.09
666545--666593	21	2.3	21	85	0	62	44	6	6	42	1.54
671825--671859	18	1.9	18	88	0	52	57	2	2	37	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
672298--672343	21	2.0	24	88	12	71	32	0	0	67	0.91
675078--675128	16	3.4	16	78	10	54	41	0	21	37	1.54
678456--678497	22	1.9	22	90	0	66	57	0	0	42	0.99
678451--678607	36	4.6	34	69	18	92	52	0	1	44	1.16
678329--678625	110	2.6	113	83	13	346	52	1	2	44	1.19
678515--678594	35	2.2	38	80	19	98	47	0	3	48	1.19
678566--678653	46	1.9	47	83	4	117	61	2	2	34	1.21
679023--679069	22	2.1	22	84	4	58	40	0	4	55	1.19
678969--679296	123	2.7	121	85	9	438	42	2	2	52	1.29
679655--679755	39	2.6	39	79	3	96	44	2	6	45	1.45

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