genome.fa.s258.2.7.7.80.10.50.1000.22.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: Scaffold258
Parameters: 2 7 7 80 10 50 1000
Length:  5730937

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   

This is table  22  of  25  ( 2900 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)
5126969--5127001	3	11.0	3	87	12	50	33	0	0	66	0.92
5126969--5127073	12	8.2	13	74	13	76	39	0	0	59	1.11
5126963--5127057	26	3.5	28	79	13	92	38	1	0	60	1.04
5130217--5130250	1	34.0	1	87	0	50	0	5	0	94	0.32
5130215--5130251	13	3.0	13	88	11	60	0	10	0	89	0.49
5139742--5139793	3	17.3	3	100	0	104	32	0	0	67	0.91
5140308--5140355	20	2.5	19	90	6	78	50	0	0	50	1.00
5140315--5140360	11	4.5	11	81	15	62	45	0	0	54	0.99
5141092--5141142	18	2.9	18	75	21	54	45	0	0	54	0.99
5141158--5141186	9	3.0	10	90	10	51	58	0	0	41	0.98
5141309--5141356	21	2.5	18	76	10	51	47	0	0	52	1.00
5141672--5141697	13	2.0	13	100	0	52	38	0	0	61	0.96
5141858--5141897	17	2.4	17	87	8	55	27	0	2	70	1.01
5141996--5142053	23	2.5	23	91	5	91	36	12	5	46	1.63
5142753--5142810	29	2.0	30	83	10	75	55	3	1	39	1.27
5143517--5143607	20	4.2	21	70	24	73	61	0	1	37	1.03
5144540--5144587	23	2.1	23	85	11	64	47	0	4	47	1.21
5144611--5144639	14	2.0	15	93	6	51	48	0	0	51	1.00
5147582--5147624	19	2.2	19	83	8	50	13	11	18	55	1.68
5147594--5147632	19	2.1	19	95	0	69	20	10	12	56	1.65
5148403--5148438	3	12.0	3	87	0	54	63	2	2	30	1.22
5150059--5150364	61	5.0	61	87	4	413	38	12	6	43	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5150059--5150364	120	2.5	122	89	2	472	38	12	6	43	1.67
5160206--5160274	19	3.8	19	78	16	67	49	1	1	47	1.19
5160370--5160416	18	2.7	18	75	15	53	46	4	0	48	1.21
5164611--5164640	15	1.9	16	93	6	53	66	0	0	33	0.92
5165616--5165662	20	2.5	19	76	10	51	44	4	0	51	1.21
5165622--5165662	20	2.0	20	85	0	55	43	4	0	51	1.23
5168953--5169250	157	1.9	157	90	4	485	30	13	18	37	1.89
5176703--5176887	90	2.0	92	90	4	295	26	16	21	36	1.94
5183071--5183101	2	15.5	2	93	0	53	0	48	0	51	1.00
5183573--5183676	51	2.0	51	100	0	208	41	13	18	26	1.87
5186008--5186062	3	18.3	3	84	0	65	25	0	5	69	1.10
5186712--5186755	17	2.6	16	82	13	52	40	6	0	52	1.28
5188453--5188489	3	12.3	3	100	0	74	64	0	0	35	0.94
5189247--5189282	18	2.0	18	100	0	72	50	11	11	27	1.72
5189693--5189729	2	18.5	2	100	0	74	0	48	0	51	1.00
5191161--5191194	12	2.8	12	90	0	50	41	0	8	50	1.34
5192648--5192703	2	28.0	2	100	0	112	50	0	50	0	1.00
5193045--5193086	21	1.9	23	90	9	70	69	0	0	30	0.89
5194080--5194110	14	2.2	14	94	0	53	58	0	0	41	0.98
5195800--5195912	34	3.3	34	81	0	136	29	2	21	46	1.64
5196267--5196291	2	12.5	2	100	0	50	48	0	0	52	1.00
5196451--5196506	17	3.1	18	75	17	53	57	7	0	35	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5200076--5200112	15	2.5	15	100	0	74	51	5	0	43	1.24
5200431--5200456	11	2.4	11	100	0	52	0	7	0	92	0.39
5204272--5204401	45	2.9	45	82	8	151	30	0	14	53	1.46
5204289--5204431	45	3.2	45	83	4	128	32	2	13	52	1.52
5204640--5204705	20	2.8	25	69	21	79	27	25	0	46	1.53
5205239--5205294	28	2.0	28	85	3	76	53	7	5	33	1.51
5207086--5207125	2	20.0	2	94	0	71	47	2	0	50	1.14
5220100--5220150	24	2.1	24	82	10	59	41	0	0	58	0.98
5220420--5220455	2	18.0	2	100	0	72	50	0	50	0	1.00
5221155--5221192	2	19.0	2	88	0	58	0	50	5	44	1.24
5227550--5227574	2	12.5	2	100	0	50	52	0	0	48	1.00
5230254--5230288	6	5.8	6	96	0	61	34	20	14	31	1.92
5233119--5233214	47	2.0	49	93	4	169	44	22	15	16	1.86
5245250--5245313	29	2.2	30	88	2	94	43	1	1	53	1.19
5253175--5253208	18	1.9	17	88	5	50	58	0	0	41	0.98
5254554--5254599	20	2.4	20	85	7	60	58	0	0	41	0.98
5254514--5254602	44	2.0	43	83	10	110	58	0	1	40	1.05
5254604--5254637	16	2.0	18	88	11	54	70	0	0	29	0.87
5255410--5255444	5	7.0	5	86	0	52	60	0	0	40	0.97
5255458--5255504	17	2.8	17	81	12	53	29	4	0	65	1.11
5256856--5256906	15	3.4	16	84	10	72	31	0	0	68	0.90
5257437--5257479	21	2.0	21	82	8	52	62	4	0	32	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5257443--5257530	31	2.8	33	75	6	83	55	2	1	40	1.20
5257544--5257596	19	2.8	19	88	5	72	64	1	1	32	1.15
5258056--5258108	24	2.2	24	80	9	65	58	1	1	37	1.20
5258833--5258893	18	3.3	18	76	19	63	55	0	0	44	0.99
5259713--5259749	18	2.1	18	89	0	56	13	0	8	78	0.96
5261497--5261534	19	2.0	19	85	10	51	31	0	0	68	0.90
5261574--5261635	27	2.4	25	80	17	72	37	0	4	58	1.20
5263257--5263298	6	7.0	6	89	10	50	21	9	50	19	1.75
5264158--5264388	115	2.0	115	96	1	428	29	25	16	29	1.97
5271285--5271326	2	21.0	2	100	0	84	50	0	0	50	1.00
5271423--5271561	69	2.0	69	95	2	253	43	12	5	38	1.66
5271433--5271579	69	2.1	70	90	5	228	43	10	4	41	1.59
5271577--5271635	2	30.0	2	91	3	93	45	0	0	54	0.99
5272291--5272316	3	8.7	3	100	0	52	0	0	65	34	0.93
5273426--5273463	19	2.0	20	89	5	60	44	0	0	55	0.99
5273462--5273504	19	2.3	18	81	14	52	46	0	0	53	1.00
5275313--5275381	27	2.6	26	81	6	77	49	1	0	49	1.09
5275374--5275415	17	2.4	18	80	11	52	42	0	2	54	1.13
5275475--5275536	27	2.5	24	80	17	72	64	3	3	29	1.25
5279423--5279581	53	3.0	53	91	0	264	25	11	28	34	1.91
5279632--5279688	28	2.0	29	86	10	82	47	0	1	50	1.11
5279967--5280007	2	20.5	2	84	0	55	43	2	2	51	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5281067--5281091	2	12.5	2	100	0	50	52	0	0	48	1.00
5284913--5284943	3	10.3	3	100	0	62	67	0	0	32	0.91
5285497--5285521	2	12.5	2	100	0	50	48	0	0	52	1.00
5285881--5285912	6	5.2	6	96	3	55	31	0	53	15	1.43
5291014--5291098	33	2.5	33	78	17	86	62	2	0	35	1.08
5291630--5291676	24	1.9	24	86	4	67	36	0	2	61	1.08
5291634--5291690	24	2.3	25	78	6	62	40	1	3	54	1.28
5292186--5292238	27	1.9	28	85	11	74	20	9	0	69	1.15
5292186--5292239	24	2.1	27	83	10	69	22	9	0	68	1.17
5292938--5292973	2	18.0	2	94	0	63	47	0	2	50	1.15
5295692--5295728	2	19.0	2	88	5	58	51	0	2	45	1.15
5298531--5298582	26	2.0	26	96	0	95	53	1	0	44	1.11
5299301--5299335	1	35.0	1	100	0	70	100	0	0	0	0.00
5301246--5301292	16	2.8	16	79	17	51	29	2	4	63	1.25
5302402--5302434	17	2.0	17	88	5	50	54	0	0	45	0.99
5303889--5303922	12	2.9	12	86	4	52	70	0	0	29	0.87
5304004--5304068	32	2.0	32	88	8	96	60	3	1	35	1.22
5304010--5304070	11	5.5	11	77	14	56	65	1	1	31	1.12
5304243--5304276	15	2.3	15	95	5	61	41	0	0	58	0.98
5306505--5306542	16	2.3	17	86	4	60	47	0	0	52	1.00
5306511--5306547	17	2.2	18	85	9	51	48	2	0	48	1.15
5306728--5306778	21	2.5	21	78	15	70	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5307767--5307793	14	1.9	14	100	0	54	48	0	0	51	1.00
5307839--5307919	32	2.6	31	76	9	85	54	0	0	45	0.99
5309016--5309059	2	22.5	2	86	4	63	45	0	2	52	1.13
5318516--5318556	2	20.5	2	100	0	82	0	51	0	48	1.00
5318940--5319210	137	2.0	134	96	2	497	42	12	10	35	1.77
5324068--5324097	6	5.0	6	91	0	51	83	0	13	3	0.77
5325396--5325581	94	2.0	94	91	0	300	24	15	19	40	1.90
5331502--5331552	11	5.2	9	76	21	50	50	1	1	45	1.24
5332461--5332496	17	2.1	18	90	10	58	52	0	8	38	1.32
5332606--5332678	36	2.0	36	91	0	119	49	1	1	47	1.18

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