genome.fa.s38.2.7.7.80.10.50.1000.4.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: Scaffold38
Parameters: 2 7 7 80 10 50 1000
Length:  2073527

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  4  of  15  ( 1750 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)
506625--506662	10	3.7	10	89	6	58	0	13	0	86	0.56
507167--507474	166	1.8	168	81	2	388	46	9	12	31	1.74
507457--507880	166	2.6	165	79	7	421	52	7	9	30	1.61
508829--509298	86	5.5	86	73	7	308	37	17	26	18	1.93
508829--509150	43	7.5	43	78	5	265	37	17	27	17	1.92
508829--509150	129	2.5	129	84	1	385	37	17	27	17	1.92
508832--509298	43	10.9	42	74	7	260	37	17	26	18	1.93
509302--509626	42	7.8	42	75	8	234	34	16	31	17	1.92
509309--509419	41	2.7	42	84	2	134	31	16	34	18	1.93
509271--509457	83	2.2	84	77	7	202	35	15	31	17	1.91
509396--509713	84	3.8	85	75	4	211	36	17	28	17	1.93
509562--509644	42	2.0	42	82	0	103	39	18	28	13	1.88
509629--509710	42	2.0	42	82	4	103	39	15	28	17	1.90
509433--509726	84	3.5	83	74	7	220	37	17	28	17	1.92
509975--510084	44	2.5	44	82	8	134	32	10	30	26	1.90
510065--510430	44	8.6	44	68	12	217	40	15	22	21	1.90
510026--510221	88	2.2	88	84	1	259	38	15	24	21	1.92
510484--510668	83	2.2	84	90	2	284	42	13	24	20	1.88
510606--510712	36	3.0	36	80	4	101	42	8	26	22	1.81
512044--512073	15	1.9	16	93	6	53	3	10	0	86	0.67
512332--512371	10	3.9	10	86	3	53	2	15	0	82	0.77
516197--516470	148	1.9	148	82	4	356	40	11	12	36	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
518182--518491	167	1.9	165	84	2	415	53	7	8	30	1.59
521716--521767	20	2.5	21	90	3	79	32	17	9	40	1.82
522538--522564	14	1.9	14	100	0	54	37	3	14	44	1.63
526279--526353	20	3.7	20	76	16	73	40	16	10	33	1.82
528780--528834	19	2.8	20	86	5	85	38	14	18	29	1.90
528820--528846	13	2.1	13	100	0	54	40	14	14	29	1.86
528801--528865	32	2.0	33	87	3	96	41	13	16	27	1.87
529077--529116	20	2.0	20	85	5	53	27	15	5	52	1.63
531963--532014	25	2.1	25	96	0	95	38	17	11	32	1.85
532895--533228	49	6.8	50	79	9	278	30	17	26	25	1.98
532945--533210	101	2.8	93	79	8	241	28	18	26	26	1.98
533233--533339	29	3.6	30	78	16	116	19	18	28	32	1.96
533301--533582	34	9.5	28	75	17	225	29	15	33	20	1.94
533340--533644	34	9.7	33	75	16	217	33	14	33	19	1.91
533301--533582	89	3.2	89	97	0	537	29	15	33	20	1.94
533518--533644	35	3.7	35	87	6	170	37	11	33	18	1.86
535142--535315	1	174.0	1	71	0	123	1	1	10	85	0.74
535141--535313	48	3.6	46	81	14	188	1	2	10	84	0.78
535142--535317	59	3.0	59	84	9	225	1	1	11	85	0.75
536559--537174	43	14.1	44	68	13	256	20	21	16	41	1.90
536597--537174	132	4.4	130	76	8	408	20	21	16	41	1.90
537307--537583	83	3.3	83	80	3	288	18	25	13	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
538634--539110	165	2.9	163	80	8	473	30	10	9	49	1.69
539676--539721	19	2.3	19	85	7	56	80	0	15	4	0.86
552380--552432	7	7.9	7	75	8	56	81	1	16	0	0.79
552377--552434	13	4.4	13	82	4	62	82	1	15	0	0.74
552454--552478	11	2.3	11	100	0	50	16	8	16	60	1.58
558630--558704	28	2.7	28	82	0	87	29	21	28	21	1.98
558692--558803	51	2.2	51	85	6	156	32	12	25	29	1.93
561173--561198	13	2.0	13	100	0	52	38	15	15	30	1.88
561153--561218	33	2.0	33	84	0	87	40	13	15	30	1.85
562002--562093	42	2.2	43	80	7	107	46	13	23	16	1.82
562114--562612	61	8.2	60	76	13	397	27	19	27	26	1.99
562168--562536	193	1.9	193	93	1	632	27	19	26	26	1.99
562425--562617	55	3.4	54	83	7	228	23	20	28	27	1.99
563223--563296	28	2.6	28	89	0	103	27	20	29	22	1.98
565651--565701	20	2.5	21	78	9	61	41	7	15	35	1.76
565698--565749	20	2.6	20	90	6	79	40	15	17	26	1.89
565645--565750	53	2.0	53	81	7	126	39	12	16	32	1.85
565765--565794	13	2.3	13	94	0	51	43	10	16	30	1.81
567637--567662	13	2.0	13	100	0	52	30	15	15	38	1.88
567701--567776	21	3.7	21	82	3	109	28	18	11	40	1.86
567721--567794	20	3.7	20	81	3	103	31	20	13	35	1.91
567701--567794	41	2.3	41	100	0	188	29	19	12	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
570245--570283	13	3.0	13	96	0	69	35	15	17	30	1.91
570269--570347	20	3.7	20	78	15	77	44	15	15	25	1.85
574194--574238	21	2.1	21	84	8	56	22	20	4	53	1.63
576453--576478	13	2.0	13	100	0	52	30	15	15	38	1.88
576517--576592	21	3.7	21	82	3	109	28	18	11	40	1.86
576537--576610	20	3.7	20	81	3	103	31	20	13	35	1.91
576517--576610	41	2.3	41	100	0	188	29	19	12	38	1.89
577690--577732	19	2.2	20	87	4	61	79	0	13	6	0.93
578059--578118	30	2.0	30	86	0	84	21	10	16	51	1.73
578570--578599	13	2.2	14	94	5	53	66	0	10	23	1.21
580446--580484	20	2.0	20	89	0	60	43	7	15	33	1.75
583738--583821	42	2.0	42	95	0	150	42	16	9	30	1.80
584873--585224	169	2.1	171	88	3	512	39	8	9	42	1.68
584867--585321	169	2.8	157	77	12	475	40	9	10	39	1.71
593366--593437	21	3.6	19	83	7	72	36	15	11	37	1.83
594131--594901	104	7.4	104	80	5	636	35	14	23	26	1.93
594132--594901	156	4.9	157	78	4	736	35	14	23	26	1.94
594160--594901	52	14.3	52	79	4	539	36	14	22	26	1.93
595047--596028	29	33.9	29	72	9	466	29	14	28	27	1.95
595098--596025	87	10.7	87	75	7	587	29	14	29	27	1.95
595502--595564	33	1.9	33	86	0	90	31	12	28	26	1.93
595233--595712	176	2.7	178	80	8	480	27	15	30	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
595833--595941	54	2.0	54	87	3	157	33	14	26	25	1.95
595775--596000	112	2.0	113	81	2	267	34	14	24	25	1.94
598840--598894	20	2.7	20	82	2	65	43	9	14	32	1.77
598950--599073	51	2.4	51	85	7	155	31	14	10	43	1.79
602258--602302	23	2.0	23	90	0	72	42	4	26	26	1.74
603056--603106	19	2.6	19	87	3	66	33	17	9	39	1.83
603034--603106	20	3.7	20	80	7	78	30	15	12	42	1.83
605790--605887	51	1.9	50	87	6	144	32	29	4	33	1.76
605869--605938	27	2.5	28	81	4	97	28	30	15	25	1.96
605895--606067	78	2.2	80	83	4	217	27	27	12	32	1.93
605818--606016	106	1.9	106	86	4	285	29	28	11	31	1.91
605976--606401	108	3.9	107	84	4	516	29	29	9	32	1.88
605977--606393	216	1.9	217	86	2	597	29	29	9	32	1.88
606264--606341	28	2.8	28	82	0	93	30	32	10	26	1.90
606294--606476	81	2.2	81	83	2	215	31	27	8	32	1.87
610611--610643	17	2.0	17	94	5	59	24	0	0	75	0.80
610641--610676	16	2.2	17	95	5	65	38	0	2	58	1.13
611467--611504	10	3.7	10	89	6	58	0	13	0	86	0.56
612273--612696	166	2.6	165	80	7	439	52	7	8	30	1.60
613674--613966	129	2.3	129	83	2	356	37	17	27	17	1.92
613648--614116	43	10.9	42	75	6	296	36	17	26	18	1.93
613615--614116	86	5.8	86	74	5	327	36	17	26	18	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
614091--614442	42	8.4	42	73	7	169	35	17	29	17	1.93
614125--614235	41	2.7	41	82	2	123	33	16	32	18	1.93
614118--614273	83	1.9	84	80	9	185	36	15	30	17	1.91
614089--614356	84	3.2	84	76	8	199	35	16	30	18	1.93
614791--614900	44	2.5	44	82	8	134	32	10	30	26	1.90
614881--615076	44	4.5	44	75	5	198	41	15	21	21	1.90
614842--615037	88	2.2	88	83	1	250	38	15	23	21	1.92
615300--615484	83	2.2	84	89	2	275	42	13	23	20	1.88
615422--615533	36	3.1	36	79	3	93	43	10	24	21	1.84
617156--617195	10	3.9	10	86	3	53	2	15	0	82	0.77

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15