genome.fa.s15.2.7.7.80.10.50.1000.12.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: Scaffold15
Parameters: 2 7 7 80 10 50 1000
Length:  4011073

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  12  of  25  ( 2909 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)
1831400--1831508	42	2.6	42	75	7	112	39	16	25	18	1.91
1831528--1831666	42	3.3	42	76	8	138	33	15	30	20	1.94
1831601--1831837	42	5.6	42	70	9	137	29	16	32	21	1.95
1831549--1831709	84	1.9	84	79	2	180	31	15	31	21	1.95
1831654--1831838	84	2.2	84	78	5	194	29	16	31	22	1.96
1831776--1831856	42	1.9	42	82	5	101	28	19	32	19	1.97
1832039--1832230	44	4.4	45	74	11	146	39	16	24	20	1.92
1832079--1832439	88	4.1	87	82	4	354	40	14	23	21	1.90
1832130--1832270	44	3.2	44	70	8	126	44	15	18	21	1.86
1832294--1832620	44	7.5	43	70	11	184	40	14	22	22	1.90
1832291--1832620	88	3.8	87	76	10	282	40	14	22	22	1.90
1832674--1832786	46	2.4	46	82	10	131	43	17	15	23	1.87
1833683--1833884	88	2.3	88	76	4	203	43	15	17	22	1.87
1834678--1834704	13	2.1	13	100	0	54	29	14	14	40	1.86
1834711--1834766	23	2.6	22	83	10	71	26	14	23	35	1.93
1834832--1834862	13	2.4	13	94	0	53	35	16	12	35	1.87
1834816--1834884	33	2.1	33	86	5	95	33	11	18	36	1.87
1842399--1842429	15	2.1	15	93	0	53	12	22	16	48	1.80
1844233--1844277	21	2.1	21	84	8	56	22	20	4	53	1.63
1846496--1846521	13	2.0	13	100	0	52	30	15	15	38	1.88
1852798--1853246	79	5.7	79	83	4	477	33	14	24	27	1.94
1852768--1853246	158	3.0	153	81	6	534	34	13	24	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1852768--1853284	237	2.2	235	84	4	641	34	13	24	28	1.93
1853222--1853389	51	3.3	51	78	8	139	32	11	26	29	1.91
1853251--1853386	50	2.7	50	81	3	130	32	9	26	31	1.88
1855670--1855695	13	2.0	13	100	0	52	38	15	15	30	1.88
1855651--1855719	32	2.1	33	91	2	113	40	13	18	27	1.88
1855631--1855757	20	6.8	20	80	13	128	40	13	17	28	1.87
1856471--1856550	42	1.9	42	87	5	117	42	17	22	17	1.89
1856597--1856806	61	3.5	61	80	10	231	28	20	27	24	1.99
1856851--1857014	58	2.9	57	80	8	199	25	20	26	26	1.99
1856672--1856963	152	1.9	152	83	9	380	25	19	30	25	1.98
1857030--1857218	56	3.4	55	80	2	211	25	20	24	29	1.99
1857291--1857729	55	8.0	55	93	2	695	24	20	26	28	1.99
1857229--1857767	110	4.8	110	89	4	724	26	19	26	27	1.99
1857237--1857767	165	3.1	165	88	5	744	25	19	26	27	1.99
1858738--1858814	16	4.9	15	81	7	82	0	5	10	84	0.77
1858740--1858800	28	2.2	27	82	2	68	0	6	9	83	0.80
1858759--1858815	12	4.8	12	85	14	82	0	0	15	84	0.63
1858754--1858814	8	7.5	8	85	12	81	0	1	13	85	0.68
1871150--1871403	79	3.2	79	84	1	339	33	14	24	28	1.94
1871335--1871453	51	2.3	51	92	0	193	33	12	25	28	1.92
1871256--1871522	130	2.1	126	85	2	345	34	12	25	27	1.92
1871544--1871710	51	3.3	50	85	6	203	32	11	26	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1871386--1871608	75	2.9	75	80	9	225	31	13	27	26	1.94
1871215--1871658	205	2.1	207	83	3	556	34	12	25	27	1.92
1873982--1874088	53	2.0	53	85	7	146	42	14	15	28	1.86
1874002--1874071	33	2.1	33	100	0	140	40	14	18	27	1.89
1873982--1874172	20	9.8	19	69	26	109	40	15	16	27	1.88
1874021--1874051	13	2.4	13	100	0	62	38	16	16	29	1.90
1874108--1874132	13	1.9	13	100	0	50	40	16	8	36	1.77
1876033--1876059	13	2.1	13	100	0	54	29	14	14	40	1.86
1876014--1876077	32	2.0	32	87	9	94	28	15	15	40	1.88
1876043--1876099	19	2.9	19	84	2	78	33	15	17	33	1.92
1877448--1877488	14	2.9	14	81	0	55	4	4	7	82	0.93
1883339--1883692	167	2.2	162	80	9	366	54	7	9	29	1.59
1883439--1883844	167	2.5	166	81	6	423	52	7	10	30	1.62
1884316--1884366	13	4.0	13	74	2	50	0	23	1	74	0.92
1884312--1884361	24	2.2	23	86	10	68	0	20	2	78	0.86
1887434--1887501	20	3.5	19	85	4	82	32	16	13	38	1.87
1890431--1890479	15	3.3	15	69	25	50	55	0	8	36	1.30
1890432--1890497	29	2.2	30	89	5	98	48	0	15	36	1.45
1899113--1899152	20	2.0	20	100	0	80	20	5	15	60	1.53
1899305--1899340	13	2.8	13	91	0	54	36	19	11	33	1.87
1899461--1899506	21	2.2	20	81	11	58	32	19	4	43	1.71
1901921--1901946	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1901902--1901966	33	2.0	33	87	6	96	41	16	13	27	1.87
1906026--1906152	64	2.0	64	90	0	200	39	8	13	38	1.75
1906601--1906625	13	1.9	13	100	0	50	40	20	16	24	1.91
1906694--1906749	19	3.3	19	65	27	52	37	16	14	32	1.88
1906693--1906788	32	3.0	32	87	4	131	37	15	16	30	1.90
1913437--1913478	15	2.8	16	82	10	61	30	11	2	54	1.49
1913904--1913947	3	14.7	3	95	0	79	29	34	0	36	1.58
1917448--1917511	13	5.4	13	66	21	50	34	12	17	35	1.87
1917447--1917526	33	2.4	33	95	0	142	33	15	16	35	1.90
1917556--1917669	20	5.8	20	89	4	178	35	18	14	31	1.91
1917556--1917669	39	2.9	39	96	1	201	35	18	14	31	1.91
1917556--1917670	59	2.0	58	94	1	203	34	18	15	31	1.92
1917655--1917681	13	2.1	13	100	0	54	40	14	14	29	1.86
1923015--1923083	35	2.0	35	94	2	122	30	24	11	33	1.91
1930728--1930974	79	3.1	78	81	6	293	34	14	23	27	1.94
1930904--1931025	51	2.4	50	83	4	145	36	12	22	29	1.90
1930835--1931104	130	2.1	130	83	2	337	34	14	22	28	1.93
1930959--1931136	79	2.3	79	86	2	241	34	15	23	26	1.94
1930752--1931135	209	1.8	209	82	6	501	35	13	22	28	1.92
1931256--1931399	51	2.8	51	79	8	175	34	11	22	31	1.90
1933779--1933841	13	5.3	13	78	21	84	41	14	14	30	1.85
1933790--1933827	20	1.9	20	100	0	76	44	15	10	28	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1933779--1933858	33	2.4	33	95	0	142	43	15	12	28	1.82
1933790--1933858	20	3.8	19	73	25	69	44	15	11	27	1.81
1939857--1939898	15	2.6	16	81	11	50	57	7	4	30	1.47
1939862--1939904	15	2.8	15	85	3	50	53	4	9	32	1.53
1945411--1945942	270	2.0	270	87	1	780	32	20	20	26	1.97
1954163--1954197	15	2.3	15	90	0	52	80	20	0	0	0.72
1955511--1956204	28	24.6	28	82	4	747	29	30	16	24	1.96
1957268--1957327	30	2.0	31	90	3	95	26	20	8	45	1.79
1969615--1969668	27	2.0	27	100	0	108	29	7	11	51	1.64
1969619--1969676	27	2.1	27	90	0	89	31	10	12	46	1.74
1971601--1971694	30	3.3	27	72	21	75	40	1	1	57	1.13
1971633--1971749	39	3.0	39	80	9	116	41	0	0	58	1.04
1971675--1971736	14	4.5	15	72	25	57	46	0	0	53	1.00
1971789--1971839	21	2.6	19	82	14	68	35	1	0	62	1.06
1971799--1971844	21	2.2	20	92	7	83	36	0	0	63	0.95
1972329--1972360	12	2.6	13	90	9	50	65	0	0	34	0.93
1972322--1972360	13	3.0	13	85	11	53	69	0	0	30	0.89
1977560--1977589	15	1.9	16	93	6	53	33	6	13	46	1.69
1977683--1977764	29	2.8	30	81	9	98	46	0	0	53	1.00
1977683--1977765	30	2.9	29	77	10	89	45	0	0	54	0.99
1978644--1978698	23	2.4	24	82	14	71	49	0	1	49	1.11
1978680--1978730	16	3.0	17	83	16	54	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1978697--1978727	16	2.0	16	93	6	55	41	0	0	58	0.98
1979040--1979112	21	3.3	21	79	12	60	49	0	0	50	1.00
1979064--1979112	20	2.5	19	81	15	55	51	0	0	48	1.00
1979220--1979248	14	2.0	15	93	6	51	37	0	0	62	0.96
1979394--1979448	27	2.0	27	89	0	83	21	20	32	25	1.97
1979696--1979724	5	5.8	5	100	0	58	20	0	0	79	0.74
1979956--1980008	24	2.3	23	86	3	70	60	1	1	35	1.19
1979956--1980008	11	4.5	11	77	11	52	60	1	1	35	1.19
1984456--1984584	52	2.5	52	89	5	206	28	18	17	35	1.93
1984593--1984617	13	1.9	13	100	0	50	36	16	16	32	1.90

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