genome.fa.s5.2.7.7.80.10.50.1000.4.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: Scaffold5
Parameters: 2 7 7 80 10 50 1000
Length:  1536239

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

This is table  4  of  14  ( 1571 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)
487886--487918	17	2.0	16	94	5	57	84	0	0	15	0.61
488630--488664	18	2.0	17	88	5	52	2	14	0	82	0.77
488772--488799	12	2.3	12	100	0	56	64	0	7	28	1.20
490078--490148	23	3.3	22	81	18	87	26	1	2	69	1.11
490077--490157	25	3.2	26	78	13	96	29	2	2	65	1.18
492081--492116	17	2.1	18	89	5	56	47	0	0	52	1.00
492078--492137	24	2.5	24	81	2	77	45	0	0	55	0.99
492094--492152	28	2.1	28	84	9	77	54	0	0	45	0.99
492136--492174	21	1.9	20	84	5	51	66	0	0	33	0.92
492683--492748	35	1.9	35	87	3	98	48	1	1	48	1.20
492871--492904	17	1.9	18	88	5	52	58	0	2	38	1.13
501021--501129	38	2.9	38	79	5	121	29	24	11	33	1.91
505730--505838	38	2.9	38	80	4	121	33	24	8	33	1.85
512411--512481	35	2.0	36	86	5	99	56	2	1	39	1.23
515296--515356	19	3.2	19	78	15	63	59	0	3	37	1.14
515296--515365	21	3.4	21	74	18	60	61	0	2	35	1.11
515558--515638	39	2.0	40	88	7	119	32	7	4	55	1.49
515835--515869	4	8.8	4	100	0	70	22	0	0	77	0.78
515990--516020	10	3.0	10	90	9	53	0	9	0	90	0.46
515987--516020	11	3.0	11	95	4	59	0	11	0	88	0.52
516745--516777	3	11.0	3	93	0	57	69	0	30	0	0.88
518463--518499	18	2.0	19	89	5	58	45	5	8	40	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
518631--518672	22	1.9	22	85	9	59	57	0	0	42	0.99
520009--520047	20	2.1	18	85	9	51	38	7	0	53	1.30
520238--520312	32	2.4	33	84	10	95	41	1	0	57	1.07
520237--520312	34	2.4	31	80	10	91	40	1	0	57	1.07
520613--520639	2	13.5	2	100	0	54	48	0	0	51	1.00
521472--521510	19	2.1	19	85	0	51	43	7	0	48	1.31
521558--521599	21	2.0	20	86	4	57	47	0	0	52	1.00
522285--522332	21	2.4	21	86	13	66	60	0	0	39	0.97
522267--522340	27	2.7	27	70	4	69	55	0	0	44	0.99
522380--522417	6	6.3	6	100	0	76	36	0	0	63	0.95
522783--522875	42	2.4	40	81	13	108	59	1	0	39	1.05
523524--523567	23	2.0	21	86	8	61	59	2	0	38	1.10
523722--523785	16	4.1	16	85	2	76	57	1	1	39	1.17
523723--523775	16	3.4	16	89	2	81	56	0	0	43	0.99
524850--524888	19	2.0	20	90	5	62	35	5	0	58	1.20
525301--525339	21	1.9	20	89	5	60	56	0	0	43	0.99
525306--525356	14	3.5	15	78	17	54	56	0	0	43	0.99
525764--525808	20	2.2	20	84	7	56	51	2	2	44	1.26
525783--525862	33	2.4	33	91	4	135	50	0	0	50	1.00
525866--525975	51	2.2	50	86	4	150	59	4	0	36	1.18
525875--525953	18	4.6	17	71	13	54	54	5	0	40	1.22
526209--526256	17	2.9	17	84	6	55	56	0	2	41	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
526223--526256	15	2.5	13	90	9	50	55	0	0	44	0.99
526944--526968	2	12.5	2	100	0	50	48	0	0	52	1.00
529158--529199	20	2.1	20	82	8	50	54	2	0	42	1.13
529308--529335	4	7.0	4	100	0	56	75	0	25	0	0.81
529493--529559	3	22.3	3	96	0	107	32	4	0	62	1.15
529800--529871	37	2.0	36	81	8	83	45	0	0	54	0.99
529925--529951	14	1.9	14	100	0	54	62	0	0	37	0.95
529955--530019	17	3.7	18	81	10	80	36	0	0	63	0.95
533149--533173	13	1.9	13	100	0	50	80	0	0	20	0.72
536940--536973	14	2.4	14	90	0	50	70	0	0	29	0.87
537757--537805	17	2.8	17	81	9	53	51	0	0	48	1.00
537761--537804	19	2.3	18	81	11	52	54	0	0	45	0.99
542251--542333	26	3.2	28	78	13	88	46	0	1	51	1.08
542262--542321	19	3.2	18	75	13	59	41	0	1	56	1.09
542298--542344	16	3.2	15	80	20	55	53	2	0	44	1.12
542382--542446	29	2.3	27	77	15	69	43	4	3	49	1.39
542529--542563	16	2.1	17	89	5	54	51	0	0	48	1.00
542771--542870	21	4.5	22	71	15	73	55	1	1	43	1.13
542777--542875	35	2.9	35	73	16	93	55	2	1	41	1.18
542818--542895	24	3.2	25	80	12	83	57	2	0	39	1.12
542830--542935	38	2.8	37	74	20	85	57	0	0	41	1.05
542767--542935	83	2.1	79	80	10	184	57	1	0	40	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
542778--542946	55	2.8	60	72	19	143	57	1	0	40	1.10
543476--543513	12	3.3	12	82	14	53	39	0	13	47	1.42
555388--555439	19	2.9	19	78	10	58	36	0	1	61	1.07
555436--555562	61	2.1	58	80	11	141	48	2	0	49	1.14
556057--556170	11	10.7	11	66	23	50	59	0	0	39	1.03
556081--556157	31	2.6	31	82	10	99	58	0	0	41	0.98
556131--556180	22	2.3	22	86	13	68	54	0	0	46	1.00
556076--556184	30	3.7	29	69	19	66	55	0	0	44	0.99
556071--556171	18	5.2	20	67	21	54	58	0	0	41	0.98
556833--556958	60	2.1	59	95	1	225	32	14	7	46	1.72
557373--557405	13	2.5	13	95	0	57	0	12	0	87	0.53
557537--557566	2	15.0	2	100	0	60	50	0	0	50	1.00
559112--559155	21	2.2	21	88	8	65	43	2	0	54	1.12
559164--559244	35	2.5	31	72	14	76	56	0	0	43	0.99
561370--561427	15	3.9	15	73	8	55	60	0	0	39	0.97
561369--561428	30	2.0	31	87	9	90	58	0	0	41	0.98
561816--561877	4	15.5	4	80	12	74	75	0	24	0	0.80
561814--561877	25	2.5	26	89	5	94	75	0	25	0	0.81
561816--561877	17	3.9	16	79	12	74	75	0	24	0	0.80
562153--562193	16	2.5	17	80	11	50	26	4	2	65	1.25
562365--562413	18	2.8	18	82	14	59	77	0	20	2	0.87
562949--562982	11	3.0	11	87	8	50	85	0	14	0	0.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
563726--563783	9	6.2	9	76	20	57	36	1	0	62	1.06
563719--563799	31	2.7	30	82	16	89	35	2	0	61	1.09
563735--563809	20	3.8	20	89	0	105	37	2	0	60	1.11
563793--563850	9	6.2	9	75	20	57	36	1	0	62	1.06
563782--563850	30	2.3	30	85	9	88	36	2	0	60	1.11
563719--563873	15	10.0	16	63	23	55	34	2	0	61	1.14
563778--563879	32	3.4	30	80	10	93	34	2	0	61	1.17
564768--564817	18	2.7	18	79	14	66	38	6	4	52	1.45
565297--565363	33	2.0	33	94	2	116	49	0	0	50	1.00
565402--565428	2	13.5	2	100	0	54	48	0	0	51	1.00
566735--566760	2	13.0	2	100	0	52	50	0	0	50	1.00
566791--566818	13	2.2	13	100	0	56	32	0	0	67	0.91
568292--568351	2	31.0	2	85	6	70	41	0	6	51	1.28
568292--568351	25	2.4	25	94	0	102	41	0	6	51	1.28
570331--570397	22	2.9	23	77	6	73	50	0	1	47	1.10
570417--570457	22	1.9	21	85	14	57	70	2	0	26	0.99
570934--570983	22	2.2	23	86	10	68	68	2	2	28	1.12
570935--571001	16	4.3	15	76	14	64	68	1	1	28	1.07
571080--571124	19	2.2	20	81	18	58	71	0	0	28	0.87
572661--572697	15	2.5	16	83	16	53	24	0	2	72	0.97
572661--572698	14	2.6	14	88	12	51	26	0	2	71	1.00
572728--573096	157	2.4	156	95	1	659	36	6	7	49	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
573902--573966	18	3.6	19	76	12	66	53	1	0	44	1.09
574253--574313	28	2.2	28	85	5	81	49	1	0	49	1.10
574287--574344	15	3.7	15	79	4	62	50	0	0	50	1.00
574309--574344	17	2.1	17	94	0	63	55	0	0	44	0.99
574610--574663	27	2.0	27	85	7	74	48	0	0	51	1.00
574767--574811	22	2.0	22	84	16	58	31	0	2	66	1.04
574895--574921	2	13.5	2	100	0	54	48	0	0	51	1.00
575618--575681	31	2.2	29	83	10	78	46	0	1	51	1.10
576443--576518	2	41.5	2	72	21	51	44	1	0	53	1.08
576453--576526	12	6.0	12	72	15	53	41	1	0	56	1.07

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