genome.fa.s196.2.7.7.80.10.50.1000.34.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: Scaffold196
Parameters: 2 7 7 80 10 50 1000
Length:  7488280

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   35   36   37   38   39   40   41   42   43   44   45   46   47   

This is table  34  of  47  ( 5587 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)
5577506--5577580	20	3.8	20	80	3	80	40	12	13	34	1.81
5577503--5577580	40	2.0	39	87	2	111	39	12	12	34	1.82
5577841--5577966	51	2.5	50	87	5	182	33	11	27	27	1.91
5580319--5580360	21	2.0	21	95	0	75	28	16	9	45	1.79
5580377--5580460	13	5.5	13	68	28	51	34	17	14	33	1.90
5580385--5580479	19	5.7	18	70	27	84	34	17	13	33	1.90
5580377--5580481	32	3.3	32	95	0	192	34	18	13	34	1.89
5580448--5580509	19	3.2	19	71	13	54	27	14	14	43	1.84
5581940--5581980	20	2.1	19	95	4	73	39	9	7	43	1.65
5582417--5582546	34	3.9	33	81	12	151	32	13	24	30	1.93
5584175--5584226	21	2.4	22	81	15	72	57	1	25	15	1.48
5585041--5585065	13	1.9	13	100	0	50	36	16	16	32	1.90
5585018--5585085	33	2.1	33	89	8	104	32	14	16	36	1.89
5587517--5587566	25	2.0	25	88	3	75	54	0	28	18	1.44
5588132--5588197	33	2.0	32	85	2	87	25	15	15	43	1.85
5588165--5588215	19	2.7	19	87	0	75	21	13	15	49	1.79
5588772--5588902	34	3.9	34	82	12	157	34	11	23	30	1.90
5590444--5590476	16	2.2	16	89	10	52	63	9	12	15	1.51
5591859--5591905	13	3.5	13	85	2	67	2	23	0	74	0.93
5591853--5591905	26	2.0	27	92	3	90	3	22	0	73	0.99
5592459--5592966	168	3.1	165	81	6	589	49	9	9	31	1.67
5593913--5594461	304	1.8	304	82	4	721	33	20	14	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5598762--5598812	2	25.5	2	95	0	93	50	1	0	47	1.12
5600231--5600607	79	4.8	77	72	9	285	35	11	22	30	1.89
5600229--5600609	158	2.4	159	82	4	468	35	11	22	30	1.89
5604751--5604778	13	2.2	13	100	0	56	39	17	14	28	1.89
5604732--5604798	33	2.0	33	88	5	100	40	13	16	29	1.87
5604830--5604882	21	2.6	21	88	5	74	33	16	13	35	1.88
5606628--5606681	21	2.6	21	88	5	74	31	16	12	38	1.87
5608383--5608497	30	3.7	31	81	5	126	40	4	4	50	1.42
5608832--5608919	18	5.0	17	76	15	90	52	0	1	46	1.08
5608847--5608935	16	5.2	16	73	17	63	55	0	2	42	1.12
5608832--5608919	34	2.5	34	85	10	115	52	0	1	46	1.08
5609434--5609466	15	2.2	15	94	0	57	18	3	24	54	1.57
5620491--5620515	13	1.9	13	100	0	50	56	16	0	28	1.41
5627451--5627517	28	2.4	27	82	5	71	35	10	2	50	1.52
5628214--5628259	23	2.0	24	86	4	67	80	2	13	4	0.95
5628224--5628268	19	2.4	19	85	7	56	82	4	11	2	0.91
5628534--5628617	26	3.4	26	70	21	81	23	8	4	63	1.42
5628528--5628619	47	2.0	47	93	0	157	25	7	5	61	1.44
5630664--5630845	77	2.4	77	77	4	186	26	14	16	42	1.86
5631197--5631268	20	3.6	20	80	0	90	33	13	11	41	1.80
5641741--5641768	13	2.2	13	100	0	56	32	7	14	46	1.71
5641829--5641853	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5655360--5655426	6	11.2	6	77	17	68	86	13	0	0	0.57
5655360--5655428	25	2.8	24	89	8	102	85	14	0	0	0.60
5655362--5655427	18	3.7	18	86	8	91	87	12	0	0	0.53
5655362--5655428	17	3.9	17	83	14	84	86	13	0	0	0.57
5655362--5655427	1	66.0	1	75	0	60	87	12	0	0	0.53
5655858--5655882	13	1.9	13	100	0	50	32	12	16	40	1.84
5655839--5655903	32	2.0	33	87	3	96	36	10	13	38	1.80
5655946--5655970	13	1.9	13	100	0	50	32	16	16	36	1.90
5655979--5656107	52	2.5	52	94	0	231	37	17	16	28	1.92
5662991--5663042	10	5.1	10	83	4	61	86	7	1	3	0.76
5663003--5663042	15	2.6	15	88	4	62	90	7	2	0	0.55
5664296--5665221	28	32.5	28	84	6	1082	27	31	18	22	1.97
5665055--5665220	30	5.6	31	85	9	116	27	36	16	19	1.93
5665832--5665906	20	3.8	20	80	0	96	33	13	12	41	1.81
5665832--5665909	40	2.0	39	89	2	120	33	12	12	41	1.82
5673781--5673833	19	2.9	19	83	5	74	52	0	7	39	1.30
5673915--5673947	13	2.4	14	90	5	50	48	3	0	48	1.17
5674128--5674190	31	2.0	31	87	6	92	47	11	1	39	1.49
5674205--5674276	38	1.9	38	82	2	92	52	11	1	34	1.45
5674278--5674303	8	3.2	8	100	0	52	53	0	0	46	1.00
5677483--5677538	27	2.1	26	83	9	69	46	0	1	51	1.11
5677506--5677552	21	2.3	21	81	3	51	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5677527--5677569	15	3.1	13	83	6	50	44	4	0	51	1.22
5677490--5677691	72	2.7	72	71	17	173	44	3	3	48	1.38
5677711--5677775	24	2.6	24	83	9	69	43	3	0	53	1.16
5678161--5678352	103	1.9	103	90	2	305	56	3	5	34	1.39
5678261--5678429	79	2.2	77	92	2	275	59	2	3	34	1.28
5678331--5678364	13	2.8	12	91	8	52	67	0	0	32	0.91
5678331--5678464	24	5.3	26	70	18	88	61	0	2	35	1.13
5678415--5678466	7	7.1	7	75	16	52	63	1	0	34	1.06
5678401--5678462	26	2.6	24	82	10	74	61	1	0	37	1.06
5678247--5678440	79	2.5	78	85	8	263	58	2	3	36	1.25
5678342--5678554	101	2.1	103	91	3	342	59	2	4	33	1.29
5678436--5678465	13	2.2	14	94	5	53	63	3	0	33	1.11
5678157--5678532	180	2.1	181	89	2	578	57	2	5	34	1.33
5688669--5688736	32	2.1	32	86	0	91	47	8	10	33	1.69
5690251--5690281	3	10.3	3	92	0	53	0	29	0	70	0.87
5692027--5692090	26	2.5	26	87	5	87	56	12	6	25	1.59
5692040--5692091	26	2.0	26	96	0	95	50	13	7	28	1.69
5700953--5701015	31	2.0	31	87	6	92	23	4	33	38	1.76
5704077--5704167	45	2.0	45	100	0	182	38	10	13	37	1.80
5708832--5708859	10	2.8	10	100	0	56	0	46	21	32	1.52
5710697--5710732	2	19.0	2	88	11	58	0	0	50	50	1.00
5710697--5710735	12	3.2	13	89	10	64	0	0	51	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5711178--5711219	22	1.9	22	100	0	84	42	0	19	38	1.51
5711285--5711336	2	26.0	2	100	0	104	50	0	0	50	1.00
5712380--5712427	24	2.1	21	85	11	60	47	18	0	33	1.49
5718117--5718163	20	2.3	21	78	10	53	51	0	4	44	1.21
5719186--5719221	18	2.0	18	88	0	54	52	8	13	25	1.68
5719212--5719236	13	1.9	13	100	0	50	64	0	8	28	1.22
5719221--5719329	47	2.3	45	79	11	112	46	6	11	35	1.65
5720150--5720193	22	2.0	22	81	4	52	43	4	11	40	1.61
5720300--5720355	19	2.9	19	81	2	67	30	17	14	37	1.90
5722046--5722070	9	2.8	9	100	0	50	44	0	24	32	1.54
5726609--5726687	33	2.4	33	84	0	113	30	12	15	41	1.84
5729841--5730361	79	6.6	78	82	4	530	28	23	13	34	1.93
5729841--5730359	158	3.3	158	83	3	618	28	23	13	34	1.93
5729841--5730361	237	2.2	235	84	2	668	28	23	13	34	1.93
5730295--5730456	51	3.2	51	85	1	209	28	22	14	34	1.93
5741691--5741744	22	2.5	22	82	8	58	85	3	9	1	0.80
5741693--5741747	18	3.1	18	84	10	60	83	3	10	1	0.84
5742711--5743041	61	5.4	61	86	0	448	25	26	19	28	1.99
5743029--5743164	42	3.2	43	78	8	129	22	23	15	38	1.92
5743141--5743230	33	2.7	34	89	1	128	22	25	15	36	1.93
5746376--5746432	28	1.9	29	83	16	73	28	24	12	35	1.91
5746262--5746783	158	3.3	157	83	3	672	27	24	14	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5746237--5746783	79	6.9	79	81	2	573	27	24	15	32	1.95
5746768--5746941	79	2.2	79	78	9	194	26	25	16	32	1.96
5750673--5750705	7	4.7	7	96	0	57	48	39	0	12	1.40
5755091--5755181	30	3.1	31	76	7	91	26	27	13	32	1.93
5755236--5755298	27	2.3	27	83	0	81	19	31	14	34	1.91
5755269--5755542	68	4.2	65	79	6	248	19	26	10	42	1.84
5755240--5755542	32	9.4	33	78	6	259	19	27	11	41	1.85
5755269--5755529	100	2.6	99	83	5	312	19	26	11	42	1.84
5755730--5755812	32	2.6	32	92	1	132	30	33	16	19	1.94
5755639--5755865	104	2.1	107	84	5	284	25	28	17	27	1.98

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   35   36   37   38   39   40   41   42   43   44   45   46   47