genome.fa.s160.2.7.7.80.10.50.1000.22.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: Scaffold160
Parameters: 2 7 7 80 10 50 1000
Length:  5021213

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   28   29   30   

This is table  22  of  30  ( 3592 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)
3529740--3530459	84	8.6	84	77	8	571	16	27	19	36	1.93
3529627--3530304	295	2.3	293	83	4	837	16	27	18	36	1.93
3531398--3531444	14	3.3	14	85	5	67	78	2	2	17	0.94
3531398--3531452	7	7.4	7	80	8	56	80	1	1	16	0.90
3531398--3531452	15	3.7	15	85	4	67	80	1	1	16	0.90
3531398--3531455	23	2.5	24	78	10	68	77	1	1	18	0.94
3532599--3532873	51	5.3	51	76	14	283	30	13	28	27	1.94
3532700--3532770	28	2.5	29	86	6	101	25	15	33	25	1.95
3532592--3532901	158	2.0	158	96	0	566	31	13	27	27	1.94
3532886--3533003	51	2.3	51	92	0	200	30	11	27	29	1.92
3532728--3533166	130	3.4	130	93	1	729	30	13	27	27	1.94
3533016--3533135	51	2.4	51	88	0	186	30	15	28	26	1.96
3533119--3533193	28	2.7	28	87	0	96	26	18	32	22	1.97
3533183--3533293	51	2.2	51	95	0	195	31	12	25	30	1.93
3533229--3533524	79	3.8	79	87	2	438	33	13	24	29	1.93
3532490--3533372	418	2.1	417	83	2	1162	32	13	26	27	1.93
3535826--3535920	20	4.8	19	88	7	136	43	13	15	27	1.85
3535826--3535920	40	2.4	40	94	0	163	43	13	15	27	1.85
3536399--3536499	40	2.5	40	80	7	107	42	11	27	17	1.85
3536505--3536697	42	4.5	43	74	10	126	39	13	24	21	1.90
3536682--3537012	117	2.9	117	87	4	480	25	19	27	27	1.99
3536669--3537033	55	6.5	56	83	6	450	24	19	27	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3536957--3537349	100	4.0	100	90	3	577	28	17	30	23	1.97
3538313--3538359	13	3.6	12	83	16	58	0	4	8	87	0.67
3540970--3541048	37	2.1	37	100	0	158	26	21	15	36	1.93
3550618--3550893	51	5.3	51	76	9	288	31	14	26	27	1.94
3550718--3550788	28	2.5	28	82	11	92	28	16	30	23	1.97
3550618--3550919	158	1.9	158	95	0	541	31	14	27	27	1.95
3550825--3550972	79	1.9	79	92	0	251	29	16	28	26	1.97
3550904--3551021	51	2.3	51	92	0	200	30	14	27	27	1.95
3550767--3551184	130	3.2	130	93	1	721	30	13	27	27	1.94
3550955--3551100	79	1.8	79	91	0	238	29	14	28	27	1.95
3551034--3551153	51	2.4	51	91	0	195	29	15	28	26	1.96
3551137--3551212	28	2.7	29	85	4	102	23	14	32	28	1.94
3551194--3551311	51	2.3	51	89	4	184	28	11	28	30	1.92
3551247--3551545	79	3.8	79	85	2	390	31	13	25	28	1.94
3554198--3554342	72	2.0	72	100	0	290	36	13	9	40	1.78
3659531--3659565	13	2.7	13	95	0	61	85	5	8	0	0.73
3659535--3659578	23	1.9	23	90	9	72	86	6	6	0	0.71
3659531--3659602	35	2.0	37	84	10	96	81	6	11	0	0.85
3660618--3660703	26	3.2	26	66	15	66	29	33	18	18	1.95
3660571--3661028	55	8.3	55	91	3	685	29	30	20	20	1.98
3661695--3661758	19	3.7	19	74	23	68	40	12	10	35	1.78
3661695--3661755	32	1.9	32	93	0	104	39	13	11	36	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3661798--3661823	13	2.0	13	100	0	52	30	15	15	38	1.88
3661778--3661844	33	2.0	33	88	0	98	25	14	16	43	1.86
3664295--3664363	27	2.5	27	88	2	93	24	31	21	21	1.98
3664244--3664633	107	3.7	105	73	11	335	27	27	13	30	1.94
3664350--3664519	52	3.3	51	76	11	175	28	25	12	32	1.93
3664183--3664518	104	3.2	103	70	13	288	29	25	12	32	1.92
3664503--3664579	28	2.8	28	87	0	100	22	33	19	24	1.97
3664181--3664586	212	1.9	212	89	3	629	27	27	13	31	1.94
3664534--3664735	79	2.6	79	83	3	228	24	29	16	29	1.96
3671784--3672073	79	3.7	78	80	5	307	35	14	23	26	1.94
3672005--3672105	51	2.0	51	96	3	186	33	12	26	26	1.93
3671931--3672165	130	1.8	131	85	0	337	34	14	23	27	1.93
3672013--3672120	51	2.1	51	87	3	155	35	11	24	29	1.90
3675522--3675588	37	1.9	35	88	11	102	29	25	11	32	1.92
3676067--3676092	13	2.0	13	100	0	52	30	23	15	30	1.95
3676182--3676235	21	2.5	22	87	6	92	37	11	24	27	1.89
3676313--3676383	20	3.5	20	77	11	74	29	12	16	40	1.86
3676423--3676463	21	2.0	21	85	9	57	41	7	12	39	1.70
3690618--3690683	20	3.3	20	80	2	89	42	10	13	33	1.79
3696269--3696363	34	2.8	34	93	0	172	43	3	28	25	1.70
3700351--3700378	2	14.0	2	100	0	56	50	0	0	50	1.00
3707599--3707633	3	11.7	3	87	0	52	28	31	0	40	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3709213--3709269	20	2.8	20	87	7	80	28	21	12	38	1.89
3711834--3711858	13	1.9	13	100	0	50	36	16	16	32	1.90
3711813--3711877	33	2.0	32	88	8	96	30	15	15	38	1.88
3718123--3718187	20	3.6	20	73	26	81	27	15	15	41	1.87
3718142--3718167	13	2.0	13	100	0	52	30	15	15	38	1.88
3718123--3718188	33	2.0	33	100	0	132	27	15	15	42	1.86
3719665--3719731	33	2.0	33	82	5	82	25	28	17	28	1.98
3720025--3720083	23	2.5	24	91	5	93	49	5	20	25	1.69
3720773--3720801	13	2.2	13	100	0	58	41	17	13	27	1.87
3720757--3720821	33	2.0	33	84	6	87	38	13	18	29	1.89
3725223--3725318	20	4.8	20	88	5	140	42	10	12	34	1.77
3725173--3725388	111	1.9	111	83	3	274	43	10	14	31	1.79
3725261--3725399	71	2.0	71	89	0	215	42	11	15	30	1.82
3725334--3725388	20	2.8	20	80	0	65	40	14	12	32	1.84
3726418--3726461	13	3.1	14	83	9	54	61	2	0	36	1.09
3726418--3726446	14	2.0	15	93	6	51	55	3	0	41	1.17
3726618--3726642	2	12.5	2	100	0	50	52	0	48	0	1.00
3733747--3733774	2	14.0	2	100	0	56	50	0	0	50	1.00
3734754--3734791	14	2.6	14	84	16	51	73	0	0	26	0.83
3734797--3734866	25	2.6	27	82	11	90	51	4	1	42	1.30
3736653--3736707	24	2.2	25	84	15	71	43	0	0	56	0.99
3737821--3737935	57	2.0	57	89	3	178	29	3	27	39	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3745355--3745475	52	2.3	52	88	0	188	28	17	17	37	1.92
3745355--3745491	52	2.6	52	80	4	152	28	16	18	35	1.93
3745551--3745575	13	1.9	13	100	0	50	32	16	16	36	1.90
3745529--3745595	33	2.0	33	88	0	98	40	13	11	34	1.81
3746078--3746156	21	3.6	22	82	5	88	34	3	22	39	1.72
3746124--3746190	34	1.9	35	87	3	100	28	2	28	40	1.71
3746472--3746505	15	2.1	17	89	10	54	70	2	2	23	1.15
3746831--3746871	19	2.2	19	95	0	73	43	0	2	53	1.13
3747089--3747166	2	39.5	2	81	2	95	50	7	0	42	1.31
3752312--3752354	16	2.7	16	77	0	50	41	9	4	44	1.57
3755300--3755358	20	2.9	21	82	7	68	37	11	11	38	1.79
3756701--3756742	9	4.6	9	77	16	50	14	11	9	64	1.50
3756698--3757011	58	5.5	57	79	11	286	23	13	11	50	1.74
3756815--3756856	9	4.4	10	82	8	52	19	9	9	61	1.53
3756696--3756978	115	2.5	115	79	8	292	23	13	12	50	1.74
3757196--3757501	78	3.9	77	77	6	303	38	11	14	35	1.82
3757196--3757501	79	3.9	76	78	5	283	38	11	14	35	1.82
3757196--3757501	157	2.0	156	82	4	375	38	11	14	35	1.82
3757528--3757709	78	2.3	78	81	10	196	35	12	14	37	1.85
3759180--3759245	21	3.2	20	78	17	57	36	3	16	43	1.64
3762166--3762222	19	2.9	19	81	2	60	35	10	17	36	1.84
3763139--3763205	33	2.0	33	82	5	82	29	19	28	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3764737--3764776	20	2.0	21	90	5	64	32	12	10	45	1.75
3770932--3770987	19	2.9	19	86	2	76	35	14	17	32	1.90
3770972--3770998	13	2.1	13	100	0	54	40	14	14	29	1.86
3780356--3780406	19	2.6	20	87	3	77	29	21	13	35	1.92
3780947--3780973	13	2.1	13	100	0	54	29	14	14	40	1.86
3782025--3782062	19	2.1	19	85	5	51	50	13	0	36	1.42
3787843--3787868	13	2.0	13	100	0	52	30	15	15	38	1.88
3787823--3787886	32	2.0	33	87	3	94	28	12	15	43	1.83
3790619--3790644	13	2.0	13	100	0	52	30	15	15	38	1.88
3790704--3790776	20	3.6	20	81	3	101	31	19	13	35	1.91

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   28   29   30