genome.fa.s29.2.7.7.80.10.50.1000.23.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: Scaffold29
Parameters: 2 7 7 80 10 50 1000
Length:  5511024

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   31   32   
          33   34   

This is table  23  of  34  ( 4030 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)
3534885--3535070	52	3.6	51	81	7	205	30	25	10	33	1.90
3535051--3535102	27	2.0	25	82	10	61	28	28	17	25	1.97
3535289--3535365	28	2.8	28	82	7	86	23	35	19	22	1.96
3535319--3535541	79	2.8	79	79	4	254	26	27	14	30	1.95
3534951--3535454	237	2.1	239	82	5	617	27	26	14	32	1.94
3537185--3537257	20	3.6	20	81	3	101	35	13	19	31	1.91
3537203--3537278	21	3.7	21	80	3	100	42	11	17	28	1.84
3537185--3537278	41	2.3	41	98	0	179	39	12	18	29	1.88
3537317--3537342	13	2.0	13	100	0	52	38	15	15	30	1.88
3543058--3543151	1	94.0	1	78	0	80	0	7	5	87	0.68
3543058--3543152	34	2.8	35	93	4	167	0	8	5	86	0.71
3551764--3551794	15	2.1	15	93	0	53	48	16	22	12	1.80
3553808--3553886	20	3.7	21	75	15	72	26	13	15	44	1.84
3553873--3553911	13	3.0	13	96	0	69	30	17	15	35	1.91
3556380--3556452	20	3.6	20	81	3	101	35	13	19	31	1.91
3556398--3556473	21	3.7	21	80	3	100	42	11	17	28	1.84
3556380--3556473	41	2.3	41	98	0	179	39	12	18	29	1.88
3556512--3556537	13	2.0	13	100	0	52	38	15	15	30	1.88
3557990--3558022	4	8.2	4	93	0	57	24	0	3	72	0.98
3564180--3564641	55	8.4	55	90	1	662	29	29	20	20	1.98
3564182--3565243	165	6.5	164	83	7	1201	27	28	21	22	1.99
3564659--3565243	55	10.4	55	83	8	655	26	28	21	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3564712--3564790	26	3.0	25	67	15	68	29	30	20	20	1.97
3564515--3564792	149	1.9	149	87	3	407	26	29	21	22	1.99
3566050--3566099	19	2.5	21	90	6	77	38	12	16	34	1.85
3566154--3566179	13	2.0	13	100	0	52	30	15	15	38	1.88
3568539--3568723	51	3.6	51	80	4	228	29	24	11	34	1.90
3568657--3568861	107	1.9	107	86	5	288	29	27	15	27	1.96
3568844--3568960	51	2.3	51	80	0	135	29	26	13	29	1.94
3568943--3569019	28	2.7	30	86	7	99	23	33	19	23	1.97
3568895--3569098	107	1.9	107	82	4	259	25	27	16	30	1.97
3568973--3569207	79	3.0	78	80	6	285	26	27	14	31	1.95
3568605--3569108	237	2.1	239	87	2	719	27	26	14	31	1.95
3574001--3574114	52	2.2	51	81	4	131	21	22	14	40	1.90
3574875--3574940	20	3.7	20	73	26	83	27	15	15	42	1.86
3574894--3574922	13	2.2	13	100	0	58	27	13	17	41	1.87
3574875--3574940	33	2.0	33	100	0	132	27	15	15	42	1.86
3578089--3578375	52	5.5	52	74	8	203	25	21	16	36	1.94
3578095--3578351	103	2.5	104	82	3	286	24	21	16	36	1.94
3578406--3578518	52	2.2	52	78	0	118	25	26	15	31	1.96
3578418--3578530	52	2.2	52	78	0	127	25	27	15	30	1.96
3578526--3578664	61	2.3	61	83	7	167	29	20	11	38	1.88
3579308--3579400	21	4.7	20	73	7	82	40	12	13	32	1.83
3579306--3579431	19	6.7	19	71	15	102	38	12	14	34	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3579306--3579432	40	3.4	37	84	14	165	38	12	14	34	1.84
3579388--3579445	13	4.0	13	76	23	62	36	13	15	34	1.87
3579367--3579444	32	2.4	32	100	0	156	35	12	15	35	1.86
3579483--3579566	20	4.2	19	76	14	71	36	15	7	40	1.75
3583048--3583899	155	5.5	155	80	5	782	23	17	20	38	1.93
3583050--3583899	309	2.8	308	81	5	900	24	17	20	38	1.93
3600944--3600991	10	4.6	10	82	10	51	85	4	8	2	0.80
3601669--3601694	13	2.0	13	100	0	52	38	15	15	30	1.88
3603920--3603964	21	2.1	21	84	8	56	53	4	20	22	1.63
3606481--3606568	29	3.1	28	82	4	115	30	29	17	22	1.96
3606545--3606874	102	3.2	101	84	4	439	19	31	12	36	1.89
3606549--3606873	34	9.5	34	84	4	386	19	31	12	36	1.88
3606850--3606933	29	3.1	26	80	10	78	25	34	17	22	1.96
3606880--3606986	29	3.7	29	77	11	103	31	30	20	16	1.95
3607097--3607302	87	2.4	87	81	2	252	23	25	22	28	2.00
3608124--3608213	13	6.0	13	70	26	54	34	13	16	35	1.88
3608137--3608199	19	3.7	18	76	24	73	33	12	17	36	1.88
3608123--3608212	32	2.8	32	94	0	153	33	13	16	36	1.88
3608230--3608281	20	2.6	21	87	6	72	28	17	15	38	1.90
3609054--3609079	13	2.0	13	100	0	52	30	15	15	38	1.88
3609034--3609098	33	2.0	33	87	6	96	27	13	16	41	1.87
3612609--3612745	53	2.6	53	94	1	238	27	18	18	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3612715--3612785	20	3.5	20	77	11	74	29	14	16	39	1.88
3612825--3612865	21	2.0	21	85	9	57	39	9	12	39	1.76
3616195--3616350	85	1.8	85	88	0	240	36	13	22	27	1.92
3618723--3618833	51	2.2	52	88	4	163	43	16	14	26	1.86
3620613--3620641	13	2.3	13	94	5	51	68	24	0	6	1.13
3624194--3624265	36	2.0	36	94	0	126	23	23	12	40	1.89
3624194--3624251	19	3.2	19	64	26	52	27	22	13	36	1.92
3627849--3628214	33	11.0	33	75	8	269	30	30	15	23	1.96
3627849--3628122	103	2.7	99	81	8	286	29	30	16	23	1.96
3627849--3628139	67	4.4	67	77	9	247	30	30	15	23	1.96
3627958--3628206	65	3.8	65	78	7	218	30	30	15	22	1.95
3627960--3628214	97	2.6	97	82	5	282	30	30	16	22	1.96
3628344--3628713	52	7.1	52	69	11	186	26	21	14	37	1.92
3628972--3629043	26	2.8	26	97	0	135	22	44	12	20	1.85
3633463--3633488	13	2.0	13	100	0	52	38	15	15	30	1.88
3635703--3635747	21	2.1	21	84	8	56	53	4	17	24	1.62
3637551--3637581	15	2.1	15	93	0	53	48	16	22	12	1.80
3639641--3639665	13	1.9	13	100	0	50	32	16	16	36	1.90
3642180--3642205	13	2.0	13	100	0	52	38	15	15	30	1.88
3646597--3646663	12	5.6	12	68	19	50	76	1	0	22	0.87
3646860--3646928	23	3.0	23	84	2	75	47	13	17	21	1.81
3646884--3646945	23	2.6	23	84	5	70	51	14	14	19	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3656761--3656831	34	2.1	34	91	0	115	53	2	26	16	1.57
3657512--3657563	19	2.7	19	87	3	68	34	19	9	36	1.84
3661519--3661572	20	2.6	21	88	2	74	37	16	7	38	1.77
3662490--3662680	52	3.5	52	73	12	157	35	16	24	24	1.95
3662291--3662621	183	1.8	181	83	1	437	39	13	22	24	1.90
3662472--3662677	113	1.8	113	84	0	286	37	14	23	24	1.92
3662768--3663207	33	13.7	33	78	7	408	22	17	30	30	1.96
3662768--3663207	98	4.6	96	82	7	462	22	17	30	30	1.96
3663247--3663460	29	6.9	30	73	19	138	41	13	24	21	1.89
3663198--3663464	93	2.8	94	83	6	301	43	12	23	20	1.86
3663314--3663583	64	4.3	62	80	9	262	37	13	27	21	1.91
3663314--3663464	29	5.0	29	82	10	187	41	13	23	21	1.89
3663377--3663554	33	5.4	32	78	15	150	37	11	28	22	1.89
3663352--3663583	65	3.6	62	81	9	216	37	12	28	22	1.90
3663217--3663583	64	5.8	63	77	12	261	38	13	27	21	1.90
3663500--3663598	29	3.2	29	82	7	99	30	13	33	23	1.92
3663548--3663746	30	6.5	30	71	8	132	31	13	29	26	1.93
3672365--3672420	20	2.7	21	81	10	62	30	16	14	39	1.88
3672700--3672863	70	2.3	71	82	5	226	52	10	22	14	1.72
3673068--3673127	21	2.9	21	80	9	68	76	10	10	3	1.12
3673255--3673299	23	2.0	23	90	0	72	51	28	15	4	1.63
3674229--3674691	159	2.9	156	83	8	515	39	9	10	40	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3680204--3680229	13	2.0	13	100	0	52	30	15	15	38	1.88
3680899--3680942	21	2.1	21	83	8	54	25	31	4	38	1.76
3683895--3683925	15	2.1	15	93	0	53	12	22	16	48	1.80
3685729--3685773	21	2.1	21	88	8	65	22	17	4	55	1.60
3687990--3688044	24	2.6	19	75	24	65	29	20	14	36	1.92
3687998--3688044	24	2.0	24	100	0	94	29	21	12	36	1.91
3691015--3691473	166	2.8	163	79	8	484	30	9	8	51	1.64
3692120--3692169	22	2.3	21	86	10	66	78	2	18	2	0.95
3692124--3692170	20	2.3	21	88	3	69	76	4	17	2	1.04
3698409--3698451	15	2.9	15	86	6	61	79	11	6	2	1.02

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   31   32   
          33   34