genome.fa.s106.2.7.7.80.10.50.1000.21.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: Scaffold106
Parameters: 2 7 7 80 10 50 1000
Length:  4928209

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   26   27   

This is table  21  of  27  ( 3135 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)
3535921--3535963	17	2.6	16	78	10	50	48	0	4	46	1.22
3537043--3537070	3	9.3	3	100	0	56	32	0	0	67	0.91
3545894--3545978	43	2.0	43	88	0	125	41	15	25	17	1.89
3548947--3548981	14	2.5	14	95	0	61	57	5	20	17	1.60
3563957--3564173	5	43.4	5	68	19	80	42	0	0	56	1.05
3563940--3564090	23	6.9	22	69	22	79	47	1	0	51	1.09
3564064--3564120	9	6.9	9	79	20	63	35	0	0	64	0.93
3564058--3564131	23	3.2	23	88	11	100	36	0	0	63	0.95
3564059--3564173	32	3.9	31	75	20	113	38	0	0	61	0.96
3564058--3564217	16	9.9	16	69	17	100	39	1	0	58	1.11
3564860--3564903	13	3.3	15	76	23	53	61	0	0	38	0.96
3565174--3565214	10	4.2	10	84	3	57	58	0	0	41	0.98
3567446--3567475	14	2.1	14	93	0	51	43	0	3	53	1.17
3567444--3567503	18	3.6	17	78	17	72	46	0	1	51	1.10
3567470--3567540	19	3.8	19	84	1	81	33	0	1	64	1.02
3567489--3567545	10	5.9	10	73	22	50	29	0	1	68	1.00
3567657--3567683	2	13.5	2	100	0	54	48	0	0	51	1.00
3567734--3567766	15	2.1	16	83	11	50	48	0	0	51	1.00
3568150--3568190	20	2.0	20	86	9	57	39	0	4	56	1.21
3568212--3568251	11	3.5	11	83	6	53	30	0	2	67	1.04
3572289--3572328	21	2.0	19	85	9	53	40	0	0	60	0.97
3572359--3572413	21	2.7	20	73	18	58	50	3	0	45	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3572360--3572444	40	2.1	40	80	8	102	47	4	0	48	1.23
3572981--3573021	18	2.3	18	95	4	75	41	0	4	53	1.22
3573087--3573125	2	19.5	2	100	0	78	48	0	0	51	1.00
3573831--3573888	20	2.8	20	82	7	71	51	3	1	43	1.28
3576862--3576897	18	1.9	19	88	5	56	16	2	11	69	1.29
3581884--3582236	117	3.0	117	85	2	494	28	27	18	25	1.98
3593497--3593828	177	1.9	176	92	0	565	31	15	26	26	1.96
3600128--3600176	25	2.0	23	84	7	62	36	0	0	63	0.95
3605902--3605939	18	2.1	19	90	5	60	65	0	0	34	0.93
3605906--3606000	27	3.4	28	73	7	77	63	0	0	36	0.95
3605952--3606023	17	4.6	16	72	16	53	62	0	0	37	0.95
3605952--3606008	15	3.8	15	73	17	55	63	0	0	36	0.95
3605903--3606017	20	5.9	20	70	20	84	64	0	0	35	0.94
3606569--3606626	30	1.9	30	82	0	71	17	17	15	50	1.79
3613748--3613780	11	3.1	11	86	8	50	78	0	0	21	0.75
3613748--3613779	10	3.1	10	95	4	55	78	0	0	21	0.76
3616575--3616604	2	15.0	2	92	0	51	46	3	0	50	1.18
3621880--3621914	2	17.5	2	100	0	70	48	0	0	51	1.00
3630524--3631307	261	3.0	260	96	0	1410	33	20	21	24	1.97
3631474--3631631	79	2.0	79	91	2	255	36	13	12	37	1.82
3633653--3633736	33	2.6	32	81	12	84	52	3	7	36	1.46
3633800--3633826	2	13.5	2	100	0	54	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3635365--3635410	22	2.1	22	92	8	76	36	0	0	63	0.95
3641413--3641460	15	3.4	15	80	16	66	41	0	0	58	0.98
3644556--3644587	2	16.0	2	100	0	64	50	0	0	50	1.00
3652509--3652549	20	2.0	21	85	4	57	48	17	2	31	1.60
3659202--3659261	16	3.8	16	75	20	63	43	0	1	55	1.10
3661454--3661508	23	2.3	23	87	3	74	7	29	0	63	1.21
3666698--3666735	4	9.5	4	88	0	58	0	31	0	68	0.90
3668233--3668287	2	27.5	2	78	7	58	41	0	9	49	1.34
3673635--3673663	10	2.7	11	89	10	51	86	0	13	0	0.58
3674477--3674507	3	10.7	3	93	6	55	29	0	0	70	0.87
3674474--3674507	11	3.0	11	95	4	59	29	0	0	70	0.87
3681741--3681820	22	3.8	22	82	11	96	48	0	3	47	1.19
3681735--3681825	20	4.3	20	76	16	78	48	0	3	48	1.18
3681735--3681825	21	4.3	21	72	20	73	48	0	3	48	1.18
3682315--3682356	2	21.0	2	90	0	66	0	45	2	52	1.13
3691223--3691288	28	2.2	31	81	7	84	42	3	0	54	1.15
3693789--3693822	8	4.2	8	100	0	68	88	0	0	11	0.52
3693899--3693928	8	3.8	8	90	0	51	0	50	10	40	1.36
3699340--3699401	30	2.1	30	100	0	124	29	0	58	12	1.35
3699342--3699408	30	2.4	28	92	7	109	28	0	53	17	1.44
3699981--3700034	2	27.5	2	92	3	92	48	0	1	50	1.11
3702214--3702243	2	15.0	2	100	0	60	50	50	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3703255--3703290	2	18.0	2	100	0	72	50	0	0	50	1.00
3705229--3705264	2	18.0	2	100	0	72	50	0	0	50	1.00
3705774--3705842	23	3.0	22	69	22	68	40	17	11	30	1.85
3712162--3712288	33	3.8	33	78	4	130	24	40	16	18	1.91
3712165--3712326	66	2.5	66	82	2	209	25	37	17	19	1.93
3712960--3712988	2	14.5	2	100	0	58	51	48	0	0	1.00
3713824--3713872	23	2.1	24	84	3	64	46	4	0	48	1.20
3726833--3726907	33	2.3	33	88	0	105	64	1	2	32	1.16
3726860--3726884	12	2.1	12	100	0	50	80	0	0	20	0.72
3727042--3727099	25	2.3	26	80	14	68	34	0	1	63	1.04
3727499--3727545	20	2.4	21	86	10	64	55	2	0	42	1.12
3727885--3727918	16	2.1	17	88	5	52	64	2	0	32	1.08
3728033--3728104	23	3.3	23	80	20	93	55	0	0	44	0.99
3728039--3728107	14	5.0	14	71	28	67	56	0	0	43	0.99
3729264--3729339	21	3.5	21	74	10	80	6	17	51	25	1.69
3729259--3729362	45	2.3	45	89	0	163	7	14	51	25	1.68
3729259--3729370	24	4.9	24	73	9	92	8	14	51	25	1.69
3729370--3729417	21	2.3	21	85	0	60	18	6	52	22	1.68
3730186--3730286	51	2.0	51	90	0	157	16	10	23	48	1.78
3731692--3731721	2	15.0	2	100	0	60	50	0	0	50	1.00
3733784--3734097	170	1.8	170	95	0	574	27	21	16	34	1.95
3736184--3736215	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3738385--3738414	4	7.8	4	92	7	53	23	0	0	76	0.78
3742775--3742808	16	2.2	15	89	5	50	79	2	0	17	0.86
3744640--3744689	20	2.5	21	81	15	61	34	0	0	66	0.92
3744621--3744680	24	2.7	23	76	16	63	30	0	0	70	0.88
3754961--3755035	27	2.7	28	76	15	77	41	0	0	58	0.98
3756050--3756106	19	3.0	18	70	12	51	49	0	0	50	1.00
3756120--3756157	16	2.4	17	87	12	55	31	0	0	68	0.90
3756724--3756765	17	2.4	18	81	18	54	57	0	2	40	1.12
3758580--3758722	16	9.7	15	68	19	79	44	0	0	54	1.05
3758580--3758697	23	5.3	23	67	12	59	44	0	0	55	0.99
3758586--3758643	21	2.6	23	78	15	68	37	0	0	62	0.96
3759998--3760030	16	2.0	17	88	5	50	45	0	0	54	0.99
3763915--3763981	20	3.2	21	69	22	61	58	0	1	40	1.07
3770066--3770097	14	2.1	16	88	11	50	53	0	0	46	1.00
3777504--3777559	19	3.3	19	67	27	61	44	16	8	30	1.78
3778504--3778567	29	2.1	31	85	5	87	37	1	3	57	1.24
3778515--3778561	14	3.1	15	75	9	51	34	2	2	61	1.20
3785223--3785275	17	3.2	16	75	15	54	62	0	0	37	0.96
3785211--3785284	35	2.3	31	79	9	76	59	0	0	40	0.97
3785283--3785320	17	2.3	17	81	4	51	55	0	0	44	0.99
3785517--3785569	24	2.3	24	83	6	65	32	5	0	62	1.19
3788012--3788045	7	4.9	7	92	0	59	0	14	2	82	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3792003--3792044	22	2.0	21	85	4	57	59	0	11	28	1.33
3792564--3792603	21	2.0	21	85	9	57	52	2	0	45	1.14
3792564--3792619	18	2.9	19	78	7	51	51	1	1	44	1.22
3792880--3792932	18	3.0	17	83	8	61	62	0	1	35	1.06
3794089--3794146	3	19.0	3	96	3	107	34	0	0	65	0.93
3794536--3794571	2	18.0	2	94	0	63	50	2	0	47	1.15
3794924--3794984	28	2.1	28	85	8	79	44	1	1	52	1.20
3794940--3795019	34	2.3	36	83	12	96	42	0	2	55	1.13
3795366--3795402	3	12.3	3	100	0	74	67	0	0	32	0.91
3795518--3795551	2	17.0	2	100	0	68	50	0	0	50	1.00

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   26   27