genome.fa.s373.2.7.7.80.10.50.1000.4.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: Scaffold373
Parameters: 2 7 7 80 10 50 1000
Length:  3053563

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  4  of  20  ( 2389 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)
479588--479645	20	2.8	21	70	14	57	44	0	1	53	1.10
479701--479747	19	2.5	19	89	6	69	40	2	0	57	1.11
480056--480081	2	13.0	2	100	0	52	50	0	0	50	1.00
484549--484573	13	1.9	13	100	0	50	32	16	16	36	1.90
484582--484705	52	2.4	52	93	4	207	34	18	17	29	1.94
489507--489572	23	2.9	22	76	12	60	40	1	1	56	1.18
489563--489612	3	16.7	3	100	0	100	34	0	0	66	0.92
494936--494972	2	18.5	2	94	0	65	0	45	0	54	1.00
494961--495062	49	2.1	49	98	0	195	15	30	3	50	1.62
496864--496888	2	12.5	2	100	0	50	48	0	0	52	1.00
496939--496968	2	15.0	2	100	0	60	50	0	0	50	1.00
497169--497197	14	2.0	15	93	6	51	44	0	6	48	1.29
497465--497542	36	2.2	36	85	0	102	37	14	17	30	1.90
498333--498357	2	12.5	2	100	0	50	48	0	0	52	1.00
498513--498562	23	2.2	23	88	0	73	34	0	0	66	0.92
501241--501273	17	1.9	17	93	0	57	45	9	24	21	1.80
501303--501373	33	2.2	33	97	0	133	18	12	9	59	1.60
501483--501523	21	2.0	20	90	4	64	29	0	0	70	0.87
501564--501590	14	1.9	14	100	0	54	25	0	0	74	0.83
501554--501598	23	2.0	22	83	12	56	24	0	2	73	0.95
502851--502915	33	2.0	33	84	6	87	36	16	13	32	1.89
502946--502994	19	2.6	19	84	15	66	32	14	16	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
508796--508822	13	2.1	13	100	0	54	29	14	14	40	1.86
508872--508940	33	2.1	33	86	5	95	33	11	17	37	1.86
508978--509064	20	4.7	19	74	21	87	34	11	17	36	1.86
517115--517189	20	3.8	20	78	0	87	34	13	12	40	1.81
517115--517192	40	2.0	39	87	2	111	34	12	12	39	1.82
521838--521894	20	2.9	20	72	12	55	3	22	5	68	1.25
522492--522584	17	5.8	17	77	12	97	47	10	23	18	1.80
522486--522584	46	2.2	46	96	0	180	45	11	24	19	1.82
522509--522569	29	2.1	29	87	0	86	49	9	22	18	1.77
522760--522819	31	2.0	30	83	3	75	41	0	0	58	0.98
522837--522896	14	4.5	14	78	14	56	21	1	0	76	0.87
522859--522900	7	5.9	7	91	5	66	16	0	0	83	0.65
522859--522900	15	2.9	15	92	3	68	16	0	0	83	0.65
524321--524363	22	2.0	22	85	0	59	37	0	0	62	0.95
524343--524376	17	1.9	18	94	5	61	44	0	0	55	0.99
524379--524450	10	7.1	10	73	7	56	48	1	0	50	1.09
526023--526081	19	3.2	18	79	13	57	35	0	0	64	0.94
527147--527205	18	3.3	18	63	13	50	50	1	1	45	1.21
527136--527205	35	2.0	36	94	2	124	47	1	4	47	1.31
527438--527504	28	2.5	25	79	13	71	38	0	2	58	1.14
527993--528019	8	3.4	8	100	0	54	0	33	0	66	0.92
534320--534377	30	1.9	30	89	0	89	34	18	12	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
534689--534743	27	2.0	27	96	0	101	38	3	20	38	1.70
541174--541223	27	1.9	25	84	8	64	36	0	2	62	1.07
541291--541391	31	3.4	30	67	20	68	56	8	4	29	1.51
542851--542923	20	3.6	20	81	3	101	35	13	19	31	1.91
542869--542944	21	3.7	21	80	3	100	42	11	17	28	1.84
542851--542944	41	2.3	41	98	0	179	39	12	18	29	1.88
542983--543008	13	2.0	13	100	0	52	38	15	15	30	1.88
546828--546858	15	2.1	15	93	0	53	48	16	22	12	1.80
548872--548950	20	3.7	21	75	15	72	26	13	15	44	1.84
548937--548975	13	3.0	13	96	0	69	30	17	15	35	1.91
550768--550830	33	1.9	33	96	0	117	25	1	25	47	1.61
551451--551523	20	3.6	20	81	3	101	35	13	19	31	1.91
551469--551544	21	3.7	21	80	3	100	42	11	17	28	1.84
551451--551544	41	2.3	41	98	0	179	39	12	18	29	1.88
551583--551608	13	2.0	13	100	0	52	38	15	15	30	1.88
552384--552429	16	2.9	16	90	3	67	54	2	0	43	1.12
552885--552914	11	2.8	11	95	5	53	63	0	0	36	0.95
553057--553104	20	2.5	20	81	18	57	58	0	0	41	0.98
553077--553142	30	2.1	32	88	5	100	48	0	0	51	1.00
556992--557018	13	2.1	13	100	0	54	40	14	14	29	1.86
557160--557205	22	2.1	21	88	4	65	45	0	2	52	1.13
568970--569033	28	2.2	29	81	15	71	10	6	50	32	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
571127--571173	24	1.9	25	82	4	60	36	2	8	53	1.44
571493--571522	15	2.0	15	100	0	60	33	0	0	66	0.92
572358--572497	40	3.5	37	74	21	106	65	3	0	30	1.15
572386--572422	15	2.4	15	95	4	65	67	5	0	27	1.12
572352--572414	24	2.5	24	87	5	81	69	4	0	25	1.07
572352--572620	9	31.4	9	63	28	56	63	3	2	29	1.26
572552--572601	17	3.2	16	78	10	50	68	0	2	30	1.01
572568--572621	17	2.9	18	76	17	58	59	0	1	38	1.08
572568--572642	37	2.0	38	82	12	93	60	0	4	36	1.16
572646--572678	14	2.2	16	89	10	52	78	0	9	12	0.95
572718--572773	18	3.1	19	87	7	73	78	0	1	19	0.84
572727--572773	6	8.0	6	85	4	69	80	0	2	17	0.80
572829--573086	9	29.3	9	68	22	76	28	1	4	65	1.22
572829--572955	58	2.2	57	83	10	154	26	0	5	66	1.18
572942--573077	8	15.8	8	73	15	69	30	2	2	63	1.21
573010--573045	10	3.5	11	88	11	58	30	0	0	69	0.89
572886--573087	10	22.7	9	69	17	50	28	1	3	65	1.21
576287--576323	18	2.1	18	89	0	56	37	18	5	37	1.74
580061--580280	97	2.3	97	85	1	289	29	12	27	30	1.93
580107--580310	97	2.1	97	81	3	232	32	11	24	31	1.90
580377--580568	97	2.0	97	83	6	246	30	12	26	30	1.93
580088--580624	269	2.0	267	88	2	808	32	10	25	31	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
582201--582238	11	3.2	12	85	10	51	2	15	0	81	0.80
582762--583108	165	2.1	165	79	5	360	51	8	12	27	1.67
583733--583816	31	2.7	31	82	8	93	21	16	30	30	1.95
583771--584175	85	4.8	84	82	5	433	25	15	27	31	1.96
583771--584175	28	14.4	28	83	2	413	25	15	27	31	1.96
585467--585502	15	2.5	14	86	4	54	0	0	13	86	0.58
595397--595423	13	2.1	13	100	0	54	29	14	14	40	1.86
607205--607265	25	2.6	23	76	16	61	83	9	6	0	0.80
607224--607291	4	17.8	4	79	14	56	82	14	2	0	0.79
607205--607265	26	2.4	25	89	8	88	83	9	6	0	0.80
607222--607291	18	3.9	18	85	7	81	82	14	2	0	0.77
607210--607293	31	2.8	30	84	8	100	83	11	4	0	0.79
607221--607291	22	3.5	21	79	11	85	83	14	2	0	0.77
607507--607585	39	2.0	39	100	0	158	27	22	15	34	1.94
608762--608999	28	8.5	28	82	4	255	33	29	17	19	1.95
608761--609025	57	4.7	56	78	9	245	33	29	16	20	1.95
608753--608999	85	2.9	85	83	7	322	32	29	17	20	1.95
608762--609037	28	9.7	30	81	10	131	32	29	18	19	1.96
609107--609173	22	3.1	21	66	12	55	25	23	20	29	1.99
609277--609353	39	2.0	39	86	0	109	28	24	22	24	1.99
609051--609353	87	3.4	88	80	7	317	27	25	19	28	1.99
610148--610186	21	1.9	20	94	5	69	35	15	12	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
610319--610345	13	2.1	13	100	0	54	29	14	14	40	1.86
615479--615708	97	2.4	97	88	2	329	27	11	30	30	1.91
615793--615981	97	1.9	97	85	4	229	31	12	25	30	1.92
615508--616044	268	2.0	269	90	3	850	32	9	25	32	1.89
617397--617426	15	2.0	15	93	0	51	76	0	0	23	0.78
618329--618361	13	2.6	13	85	4	50	63	9	3	24	1.38
635990--636044	1	55.0	1	77	0	56	89	9	1	0	0.57
635990--636044	11	5.2	11	82	14	71	89	9	1	0	0.57
635990--636044	19	2.9	19	94	0	92	89	9	1	0	0.57
636908--636980	36	2.0	36	100	0	146	36	21	19	21	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20