genome.fa.s169.2.7.7.80.10.50.1000.3.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: Scaffold169
Parameters: 2 7 7 80 10 50 1000
Length:  2015121

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  3  of  14  ( 1635 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)
423193--423273	41	2.0	41	100	0	162	41	20	12	24	1.87
423710--423752	2	21.5	2	100	0	86	48	0	0	51	1.00
425406--425457	27	1.9	27	84	7	70	42	1	0	55	1.10
425485--425524	13	3.0	13	81	3	53	40	0	0	60	0.97
425986--426024	21	1.9	20	84	5	51	30	5	0	64	1.15
426295--426335	20	2.0	20	85	0	55	58	0	0	41	0.98
431181--431361	95	1.9	96	94	1	319	38	13	12	35	1.82
441404--441500	36	2.8	37	72	26	95	48	1	0	50	1.07
441481--441524	16	2.7	16	80	13	54	47	2	0	50	1.13
441939--441995	30	1.9	30	85	7	80	40	0	1	57	1.09
442062--442112	20	2.6	19	79	11	59	56	1	0	41	1.10
442035--442112	40	2.0	39	82	7	95	55	1	0	43	1.08
446423--446501	2	40.0	2	84	2	106	49	2	1	46	1.23
449804--449829	3	8.7	3	100	0	52	65	0	0	34	0.93
456831--456889	29	2.0	30	87	9	86	52	0	0	47	1.00
456849--456889	16	2.8	16	78	14	52	53	0	0	46	1.00
457395--457436	14	2.9	14	85	3	57	47	2	0	50	1.14
457870--457914	20	2.3	19	81	11	54	44	0	4	51	1.21
458865--458916	26	2.0	27	85	11	72	46	0	0	53	1.00
459067--459108	20	2.0	22	86	9	61	42	0	0	57	0.99
459142--459174	5	6.6	5	100	0	66	39	0	0	60	0.97
459611--459671	31	1.9	32	86	3	88	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
471102--471140	20	2.0	20	89	0	60	38	0	43	17	1.50
471193--471262	24	2.8	25	89	6	99	44	25	8	21	1.80
471247--471317	27	2.6	27	86	6	90	46	22	7	23	1.76
471195--471320	24	4.9	24	75	12	83	46	24	7	22	1.77
475787--475856	24	2.8	25	89	6	99	44	25	8	21	1.80
475841--475911	27	2.6	27	88	6	99	46	23	7	22	1.76
475789--475914	24	4.9	24	77	12	92	46	25	7	21	1.77
476907--476943	2	18.5	2	100	0	74	48	0	0	51	1.00
477595--477621	7	3.9	7	100	0	54	14	0	0	85	0.61
480272--480332	29	2.1	29	100	0	122	42	14	18	24	1.88
482191--482394	57	3.6	57	93	2	347	22	21	40	16	1.91
482370--482431	15	4.1	15	81	8	81	30	24	37	8	1.84
484149--484207	31	1.9	31	89	0	91	44	11	10	33	1.75
485317--485356	16	2.5	16	87	0	62	72	0	0	27	0.85
485400--485434	15	2.4	14	90	4	52	45	0	2	51	1.16
486007--486054	17	2.8	17	78	15	62	54	0	0	45	0.99
486551--486643	27	3.5	26	77	12	91	45	0	0	54	0.99
486529--486648	53	2.3	51	77	16	120	42	0	0	56	1.05
486574--486618	15	3.2	15	71	28	53	42	0	0	57	0.98
486533--486613	34	2.3	36	79	6	87	41	0	1	56	1.07
487302--487363	17	3.6	17	76	19	58	64	0	0	35	0.94
487305--487391	27	3.1	27	79	9	95	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
487327--487397	19	3.8	19	68	17	58	59	0	0	40	0.98
487311--487397	9	9.4	9	72	13	70	60	0	0	39	0.97
487561--487610	20	2.5	20	76	0	55	8	2	8	82	0.93
491492--491597	52	2.0	52	94	0	185	56	6	1	34	1.36
491884--491963	40	2.0	39	83	7	99	41	0	0	58	0.98
502740--502780	17	2.4	17	88	12	57	70	0	2	26	0.99
503000--503062	20	3.4	19	77	20	62	31	3	0	65	1.09
503000--503047	18	2.7	17	84	9	60	31	4	0	64	1.12
503638--503682	23	1.9	24	90	4	74	20	0	6	73	1.05
504009--504092	24	3.5	24	79	14	84	29	2	2	65	1.18
504009--504110	52	2.0	51	83	9	127	29	1	1	66	1.13
504012--504110	24	3.8	24	72	17	74	28	2	2	67	1.12
504142--504186	14	2.8	17	72	27	53	44	0	0	55	0.99
504124--504178	14	3.9	14	83	13	69	41	0	0	58	0.98
504498--504606	13	7.4	15	71	20	70	55	0	0	44	0.99
504531--504606	27	2.8	27	75	18	70	57	0	0	42	0.98
505884--505937	23	2.4	23	73	14	58	61	9	7	22	1.51
506202--506260	24	2.5	25	75	10	61	64	11	0	23	1.27
506550--506606	7	8.0	7	86	9	80	0	17	0	82	0.67
506552--506608	29	2.0	29	93	6	98	0	19	0	80	0.71
506547--506605	22	2.8	21	85	10	84	0	15	0	84	0.62
506555--506616	29	2.1	29	85	11	83	1	20	0	77	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
507064--507090	6	4.5	6	100	0	54	81	0	0	18	0.69
508445--508495	26	2.0	25	85	11	68	68	13	0	17	1.21
508608--508660	23	2.4	22	76	17	56	69	7	0	22	1.13
508611--508663	21	2.7	20	82	5	54	69	7	0	22	1.13
508648--508743	15	6.3	15	66	17	54	65	3	0	31	1.08
509955--509994	21	1.9	20	85	10	53	22	12	7	57	1.60
510080--510141	14	4.4	14	78	8	63	43	1	0	54	1.09
510109--510149	17	2.5	17	84	7	59	43	0	0	56	0.99
510529--510564	6	5.8	6	90	3	54	0	16	0	83	0.65
510617--510700	33	2.4	33	83	13	98	65	1	1	32	1.08
510617--510680	19	3.4	19	71	16	53	67	1	1	29	1.09
510997--511078	22	3.6	23	73	18	73	68	2	1	28	1.10
511190--511252	23	2.8	23	83	7	76	61	1	0	36	1.05
511261--511295	10	3.5	10	88	0	52	0	14	0	85	0.59
511568--511619	11	5.1	11	72	23	51	53	0	0	46	1.00
511565--511602	20	1.9	20	94	0	67	55	0	0	44	0.99
512258--512323	30	2.2	29	79	12	71	54	1	1	42	1.18
516166--516223	18	3.3	17	73	26	50	58	3	0	37	1.15
516489--516527	18	2.2	18	86	4	53	2	17	0	79	0.84
517103--517146	22	2.0	22	95	0	79	11	4	25	59	1.51
518638--518677	20	2.1	20	86	9	57	50	0	2	47	1.14
518636--518691	29	1.9	29	82	7	69	50	1	1	46	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
518810--518838	2	14.5	2	100	0	58	48	0	0	51	1.00
518977--519028	20	2.7	20	75	3	52	57	9	3	28	1.48
519967--519991	4	6.2	4	100	0	50	24	0	24	52	1.48
520430--520469	19	2.1	19	90	0	62	52	7	2	37	1.43
526774--526807	2	17.0	2	100	0	68	50	0	0	50	1.00
526807--526849	2	21.5	2	100	0	86	0	0	48	51	1.00
530120--530168	13	3.8	13	83	0	62	30	8	40	20	1.81
530243--530295	27	2.0	27	84	0	70	45	20	9	24	1.81
534615--534674	13	4.6	13	78	0	57	35	6	38	20	1.79
557952--557988	20	1.9	19	89	10	58	37	0	2	59	1.12
557948--558033	23	3.8	22	76	13	84	37	1	1	60	1.12
557982--558053	24	3.2	22	83	15	69	31	1	1	65	1.10
561160--561200	3	13.7	3	100	0	82	68	0	0	31	0.90
561455--561552	30	3.3	29	73	11	90	40	6	3	50	1.43
563932--563994	25	2.5	25	80	10	83	19	11	6	63	1.48
564205--564247	2	21.5	2	100	0	86	51	0	0	48	1.00
564375--564419	20	2.2	21	84	7	58	48	4	0	46	1.22
567643--567678	18	1.9	19	88	5	56	30	5	30	33	1.81
569738--569883	73	2.0	73	97	0	274	33	10	21	34	1.87
571715--571747	7	4.6	7	92	7	57	57	0	0	42	0.98
571709--571766	22	2.7	22	78	5	66	62	0	0	37	0.96
571715--571747	15	2.3	15	94	5	59	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
571906--572010	52	2.0	52	100	0	210	28	26	9	35	1.88
572155--572206	13	4.1	12	76	18	52	50	0	0	50	1.00
572811--572862	14	3.4	14	73	19	50	46	0	0	53	1.00
572782--572875	32	3.2	28	76	16	84	41	0	0	58	0.98
572803--572875	32	2.2	34	85	7	105	42	0	0	57	0.98
573434--573477	20	2.3	19	81	14	54	13	2	27	56	1.49
573750--573798	2	24.5	2	100	0	98	48	0	0	51	1.00
573912--573990	39	2.0	39	90	0	122	30	21	24	24	1.99
576080--576120	16	2.6	16	88	0	55	80	0	14	4	0.87
577199--577237	20	2.0	20	84	0	51	46	0	2	51	1.14

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14