genome.fa.s89.2.7.7.80.10.50.1000.4.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: Scaffold89
Parameters: 2 7 7 80 10 50 1000
Length:  5168001

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   

This is table  4  of  27  ( 3236 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)
443564--443646	36	2.3	35	77	8	87	44	0	0	55	0.99
443575--443612	20	1.9	19	89	5	58	52	0	0	47	1.00
443596--443626	16	1.9	16	93	0	53	48	0	0	51	1.00
443636--443708	9	8.3	9	78	6	60	32	0	0	67	0.91
443618--443670	22	2.2	25	83	12	76	35	0	0	64	0.94
443656--443731	22	3.3	22	72	16	55	38	0	0	61	0.96
443660--443707	17	2.9	16	79	17	53	33	0	0	66	0.92
443760--443797	19	2.1	19	90	5	60	31	0	0	68	0.90
443940--443971	16	2.1	16	88	11	50	34	0	0	65	0.93
446583--446631	21	2.4	21	86	6	66	61	0	2	36	1.08
446672--446892	120	1.8	119	85	10	308	38	9	7	44	1.65
446672--446924	120	2.1	119	82	9	302	37	9	7	45	1.64
448483--448522	21	2.0	21	85	14	57	55	12	10	22	1.67
448735--448786	19	2.7	20	81	6	70	32	15	9	42	1.79
448837--448861	13	1.9	13	100	0	50	36	16	16	32	1.90
456173--456245	33	2.2	33	90	4	112	24	21	17	35	1.95
456524--456550	14	1.9	14	100	0	54	51	0	7	40	1.30
457387--457431	23	2.0	22	86	4	63	44	2	0	53	1.13
459147--459206	27	2.2	26	82	14	68	60	0	0	40	0.97
459883--459914	14	2.2	15	94	5	57	50	0	0	50	1.00
463230--463307	26	2.9	27	81	11	106	50	0	1	48	1.09
463230--463358	27	4.6	25	75	20	87	48	0	0	51	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
463274--463323	15	3.1	16	72	27	52	44	0	0	56	0.99
463230--463310	27	3.0	27	82	10	112	49	0	1	49	1.08
463274--463350	32	2.4	31	79	18	86	44	0	0	55	0.99
466468--466515	17	3.0	17	82	8	57	66	0	0	33	0.92
466485--466559	23	3.4	24	70	15	72	61	0	0	38	0.96
466503--466548	18	2.5	17	83	13	56	56	0	0	43	0.99
466470--466555	19	4.5	19	68	18	63	61	0	0	38	0.96
468259--468292	2	17.0	2	100	0	68	50	0	0	50	1.00
468792--468823	4	8.0	4	92	0	55	71	0	28	0	0.86
469680--469737	18	3.2	17	77	15	53	44	0	1	53	1.10
469691--469730	20	2.0	20	85	9	55	45	0	2	52	1.14
471548--471584	14	2.6	15	83	12	51	43	0	0	56	0.99
473607--473721	30	3.9	30	74	9	94	18	7	13	60	1.57
473608--473717	31	3.7	31	76	10	113	19	6	13	60	1.54
473607--473721	61	1.9	58	84	8	151	18	7	13	60	1.57
474410--474454	22	2.1	22	87	4	65	66	13	4	15	1.39
474431--474532	29	3.5	29	91	4	161	63	13	5	16	1.48
474467--474532	10	6.8	10	70	16	50	65	15	3	16	1.40
479532--479609	29	2.7	29	91	0	120	58	14	7	19	1.59
479564--479608	11	4.5	11	73	21	53	60	13	6	20	1.55
482543--482596	2	27.0	2	100	0	108	0	50	0	50	1.00
484832--484902	36	2.0	36	94	5	128	50	8	0	40	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
485020--485058	2	19.5	2	100	0	78	48	0	0	51	1.00
485195--485285	38	2.5	34	77	8	83	32	1	3	62	1.18
485996--486051	28	2.1	26	83	12	69	46	0	0	53	1.00
488921--488948	3	9.3	3	100	0	56	32	0	0	67	0.91
489900--490084	93	2.0	92	92	3	311	32	20	20	27	1.97
494147--494198	22	2.4	21	87	6	77	51	7	9	30	1.62
498117--498148	2	16.0	2	93	0	55	46	0	3	50	1.17
500178--500224	24	2.0	24	100	0	94	31	8	8	51	1.63
501406--501433	2	14.0	2	100	0	56	50	0	0	50	1.00
502742--502779	12	3.2	12	78	14	51	26	0	2	71	1.00
502820--502866	17	2.8	17	78	15	62	34	4	2	59	1.29
503102--503140	20	2.1	19	86	13	55	61	0	0	38	0.96
503118--503171	14	3.9	14	79	13	58	59	0	0	40	0.98
503102--503144	16	2.6	17	82	10	54	58	0	0	41	0.98
503110--503185	13	5.4	14	71	16	59	56	0	1	42	1.07
503639--503678	16	2.5	17	80	15	50	65	10	5	20	1.42
504270--504321	16	3.2	16	78	7	61	48	0	0	51	1.00
507925--507960	18	1.9	18	88	5	54	52	0	0	47	1.00
507985--508028	16	2.7	16	80	13	54	65	0	0	34	0.93
507970--508011	21	2.0	21	81	13	50	64	0	0	35	0.94
508077--508123	7	7.0	7	79	15	55	38	0	0	61	0.96
508084--508112	15	1.9	15	100	0	58	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
509419--509485	2	34.5	2	80	5	75	46	2	2	47	1.33
509553--509640	14	6.1	14	67	15	54	21	2	5	70	1.19
509556--509596	19	2.2	18	86	8	55	14	2	4	78	1.03
509560--509638	28	2.7	28	74	20	81	20	2	6	70	1.20
514584--514638	26	2.0	30	82	13	73	36	1	5	56	1.33
514622--514655	17	2.1	17	88	5	52	38	0	8	52	1.33
518512--518574	28	2.2	28	83	8	74	34	4	0	60	1.18
518534--518625	9	9.6	9	69	17	51	29	1	1	68	1.03
518533--518617	16	5.1	16	70	16	57	28	1	1	69	1.03
518553--518636	41	2.0	42	84	11	111	29	0	1	69	0.97
518576--518646	12	6.1	11	75	19	56	32	0	0	67	0.91
523931--524109	89	2.0	89	98	0	349	35	12	22	29	1.91
527532--527557	2	13.0	2	100	0	52	50	0	0	50	1.00
528017--528124	14	7.1	15	75	20	66	55	1	0	42	1.10
528041--528104	18	3.7	18	76	17	55	51	3	0	45	1.17
528000--528086	38	2.3	38	74	4	86	59	2	0	37	1.10
528055--528127	27	2.6	28	77	14	80	54	0	0	45	0.99
528076--528124	7	7.0	7	83	6	64	53	0	0	46	1.00
528542--528613	18	4.1	17	76	18	60	48	5	1	44	1.34
528536--528632	25	3.8	25	71	18	76	49	6	2	42	1.39
528537--528612	30	2.3	35	78	17	92	50	5	1	43	1.33
529114--529190	6	12.3	6	73	16	50	51	1	0	46	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
529123--529191	26	2.6	27	84	6	97	55	1	0	43	1.08
529607--529660	18	2.8	19	78	10	58	51	1	0	46	1.11
529751--529781	13	2.3	14	94	5	55	54	0	0	45	0.99
529944--530000	25	2.3	23	77	16	60	52	3	1	42	1.28
532634--532715	42	2.0	42	97	0	155	25	18	12	43	1.84
536960--537006	21	2.5	19	77	16	53	46	0	0	53	1.00
537003--537048	19	2.4	19	88	3	65	47	0	0	52	1.00
537012--537054	19	2.3	18	88	11	68	46	0	0	53	1.00
537206--537344	45	3.1	44	81	7	156	51	5	7	35	1.54
538274--538342	14	5.0	14	70	6	52	49	0	2	47	1.16
538273--538348	28	2.7	28	81	4	82	50	1	2	46	1.24
538390--538436	15	3.3	15	82	11	64	61	0	0	38	0.96
538398--538439	13	3.2	13	83	13	50	61	0	0	38	0.96
539318--539349	15	2.1	15	94	0	55	46	9	0	43	1.35
540003--540040	17	2.3	17	86	4	51	44	0	0	55	0.99
540076--540163	17	4.8	19	72	18	64	47	1	0	51	1.08
540084--540163	37	2.2	37	80	8	92	48	1	0	50	1.08
553890--553933	22	2.0	23	87	12	67	52	0	0	47	1.00
563126--563159	6	5.7	6	92	0	59	0	64	0	35	0.94
566291--566377	41	2.1	41	93	0	147	27	21	21	28	1.99
567806--567835	6	5.0	6	100	0	60	0	83	0	16	0.65
571375--571416	2	21.0	2	90	0	66	50	45	2	2	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
572645--572710	14	4.9	14	73	14	50	56	3	0	40	1.15
577577--577603	6	4.5	6	100	0	54	14	37	14	33	1.88
578293--578322	15	2.0	15	93	0	51	50	3	0	46	1.18
578573--578624	18	2.9	18	75	13	54	40	0	0	59	0.97
578930--578987	31	1.9	29	82	6	71	27	8	8	55	1.60
584829--584894	27	2.4	27	89	0	96	24	9	19	46	1.78
584856--584925	24	2.8	24	77	14	70	22	8	21	47	1.78
590313--590343	16	1.9	16	93	0	53	54	3	0	41	1.16
591965--592057	46	2.0	46	100	0	186	54	10	15	19	1.69
593950--594053	12	9.1	11	66	15	59	51	1	0	46	1.12

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