genome.fa.s187.2.7.7.80.10.50.1000.12.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: Scaffold187
Parameters: 2 7 7 80 10 50 1000
Length:  2169796

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  12  of  13  ( 1529 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)
1857392--1857416	13	1.9	13	100	0	50	36	16	16	32	1.90
1864909--1864977	28	2.5	28	92	0	111	28	15	27	27	1.96
1864926--1865514	79	7.5	76	76	5	406	35	12	23	28	1.92
1864936--1865501	237	2.4	236	83	4	669	34	12	24	28	1.92
1865314--1865373	28	2.0	30	84	9	79	36	15	20	28	1.92
1865005--1865501	158	3.1	156	79	5	514	35	13	23	27	1.92
1865462--1865565	51	2.0	51	83	3	129	41	10	18	29	1.84
1865411--1865644	130	1.8	130	85	3	337	36	10	23	29	1.88
1865304--1865695	209	1.9	210	83	4	515	36	10	23	29	1.88
1865513--1865695	79	2.3	79	82	2	215	36	10	24	27	1.89
1868049--1868165	51	2.3	51	86	1	164	40	13	17	28	1.88
1868991--1869024	12	3.0	12	91	8	54	32	0	0	67	0.91
1869165--1869219	3	18.3	3	100	0	110	32	0	0	67	0.91
1872430--1872511	41	2.0	41	92	0	137	32	25	13	28	1.93
1876205--1876394	68	2.8	68	77	7	174	23	11	23	41	1.86
1876228--1876399	68	2.5	69	80	10	192	23	9	25	41	1.84
1881019--1881065	19	2.5	18	86	13	60	78	10	2	8	1.04
1881383--1881484	45	2.3	45	94	0	177	53	15	25	4	1.62
1881444--1881480	17	2.1	18	90	5	58	54	13	27	5	1.61
1881694--1881775	40	2.0	40	88	0	119	26	39	19	14	1.90
1882900--1882958	3	19.7	3	100	0	118	67	0	0	32	0.91
1891745--1893084	84	15.9	84	78	5	852	18	28	17	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1891703--1893127	42	33.8	42	70	9	630	19	28	17	34	1.95
1891694--1892831	211	5.4	211	76	7	673	19	28	17	34	1.95
1891745--1893084	169	7.9	169	78	6	744	18	28	17	34	1.95
1894044--1894168	45	2.8	45	87	7	182	55	12	24	7	1.63
1894319--1894391	31	2.4	31	83	4	94	27	41	13	17	1.88
1896324--1896422	47	2.1	47	83	7	121	36	13	13	37	1.83
1899781--1899874	47	2.0	47	97	0	179	30	19	13	36	1.91
1901274--1901300	13	2.1	13	100	0	54	29	14	14	40	1.86
1901284--1901340	19	2.9	19	89	2	87	31	15	17	35	1.92
1901370--1901501	20	7.7	20	63	31	81	33	12	18	36	1.88
1901385--1901514	13	11.4	13	67	26	62	33	12	16	36	1.87
1901369--1901515	33	4.5	33	100	0	294	32	12	18	36	1.88
1901468--1901779	162	1.9	162	97	0	588	33	14	17	35	1.90
1901630--1901698	33	2.1	33	86	5	95	33	10	17	39	1.83
1903914--1903956	21	2.1	20	83	12	52	53	6	13	25	1.65
1903914--1903956	20	2.1	21	83	12	54	53	6	13	25	1.65
1907817--1907843	13	2.1	13	100	0	54	29	14	14	40	1.86
1909711--1909752	22	1.9	22	95	0	75	38	4	35	21	1.75
1913755--1914325	101	5.9	101	84	4	567	31	18	25	23	1.97
1913852--1914422	182	2.9	192	84	7	568	31	18	26	23	1.98
1914049--1914368	43	7.1	43	82	10	363	29	18	25	25	1.98
1914049--1914408	91	3.9	93	89	4	534	29	19	26	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1913997--1914368	134	2.7	131	83	9	406	30	18	25	25	1.98
1914498--1914596	37	2.7	37	98	0	189	35	9	35	20	1.84
1914560--1914679	31	3.9	31	81	6	145	30	15	30	23	1.96
1916479--1916535	13	3.9	13	76	24	60	35	14	17	33	1.90
1916459--1916556	32	3.0	32	96	1	178	34	12	17	35	1.87
1916457--1916554	19	5.8	18	71	28	90	33	12	17	36	1.87
1916597--1916621	13	1.9	13	100	0	50	32	16	16	36	1.90
1916610--1916758	52	2.9	50	86	7	201	33	16	17	32	1.93
1927002--1927135	55	2.4	56	90	4	202	26	29	23	20	1.99
1927450--1927502	21	2.5	21	96	0	97	33	11	16	37	1.85
1927561--1927623	19	3.7	18	72	24	64	31	12	19	36	1.89
1927559--1927631	32	2.3	32	95	0	128	32	12	19	35	1.89
1927648--1927689	21	2.0	21	90	0	66	42	9	16	30	1.80
1929979--1930004	13	2.0	13	100	0	52	30	15	15	38	1.88
1930043--1930118	21	3.7	21	82	3	109	28	18	11	40	1.86
1930063--1930136	20	3.7	20	81	3	103	31	20	13	35	1.91
1930043--1930136	41	2.3	41	100	0	188	29	19	12	38	1.89
1932568--1932606	13	3.0	13	96	0	69	35	15	17	30	1.91
1932592--1932670	20	3.7	20	75	18	70	45	15	13	25	1.83
1936519--1936563	21	2.1	21	84	8	56	22	20	4	53	1.63
1938768--1938793	13	2.0	13	100	0	52	30	15	15	38	1.88
1938832--1938907	21	3.7	21	82	3	109	28	18	11	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1938852--1938925	20	3.7	20	81	3	103	31	20	13	35	1.91
1938832--1938925	41	2.3	41	100	0	188	29	19	12	38	1.89
1940057--1940178	51	2.3	52	87	5	167	33	22	11	31	1.90
1940057--1940178	53	2.4	51	87	5	165	33	22	11	31	1.90
1940189--1940363	79	2.2	79	83	4	219	26	26	15	32	1.96
1940349--1940463	51	2.3	51	84	3	142	27	26	13	31	1.94
1940523--1940575	27	2.0	27	96	0	97	24	32	18	24	1.97
1940528--1940598	27	2.6	26	86	10	90	25	36	19	18	1.94
1940587--1940803	51	4.2	51	83	4	229	30	23	10	35	1.88
1940786--1940865	28	2.8	30	85	7	105	26	31	16	26	1.96
1946589--1946647	30	2.0	30	93	0	100	67	5	8	18	1.35
1949602--1949668	33	2.0	33	88	0	98	34	11	13	40	1.81
1949622--1949646	13	1.9	13	100	0	50	36	16	16	32	1.90
1949713--1949737	13	1.9	13	100	0	50	32	16	16	36	1.90
1949746--1949865	51	2.3	52	97	1	224	34	18	18	29	1.95
1958212--1958275	3	21.3	3	90	0	101	31	29	0	39	1.57
1959952--1959988	13	2.8	13	100	0	74	37	8	16	37	1.78
1971414--1971457	23	1.9	23	95	0	79	45	15	0	38	1.47
1972185--1972221	2	18.5	2	94	0	65	0	51	0	48	1.00
1972674--1972765	32	2.9	32	83	3	87	40	4	7	47	1.52
1972698--1972757	16	3.8	16	69	8	50	40	3	5	51	1.40
1976767--1976907	71	2.0	71	88	2	212	39	12	10	38	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1983261--1983309	25	2.0	25	84	8	64	51	2	0	46	1.12
1984345--1984408	29	2.2	29	83	2	85	60	3	14	21	1.47
1984761--1984785	5	5.0	5	100	0	50	80	0	20	0	0.72
1986563--1986597	17	2.2	16	90	10	54	60	2	0	37	1.12
1987399--1987440	22	1.9	22	85	0	57	50	4	2	42	1.36
1996798--1996829	2	16.0	2	100	0	64	50	0	0	50	1.00
1997618--1997703	26	3.3	26	82	4	93	19	4	23	52	1.65
1997627--1997703	27	2.9	27	86	1	93	19	5	25	49	1.69
1998169--1998218	26	1.9	26	84	8	66	32	0	6	62	1.20
1998427--1998462	16	2.2	17	90	5	56	27	5	2	63	1.30
1999822--1999855	17	2.1	15	89	10	50	35	0	0	64	0.94
1999817--1999855	18	2.2	18	90	4	62	33	0	0	66	0.92
2005519--2005561	22	2.0	22	90	0	68	39	11	11	37	1.78
2005705--2005749	24	1.9	23	95	4	81	44	0	2	53	1.13
2007135--2007185	22	2.3	22	80	6	59	60	0	0	39	0.97
2018711--2018827	51	2.3	51	82	5	130	32	18	6	41	1.77
2019209--2019242	17	2.0	17	88	11	52	50	0	0	50	1.00
2019197--2019295	49	2.0	47	81	9	110	40	0	2	57	1.10
2019355--2019392	15	2.6	14	84	15	51	76	0	7	15	1.01
2019360--2019412	23	2.4	22	83	3	61	77	1	5	15	1.04
2019891--2019934	22	2.0	22	82	13	54	40	0	0	59	0.98
2020158--2020205	18	2.7	19	84	12	66	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)
2020746--2020779	6	5.7	6	92	0	59	17	20	26	35	1.95
2021152--2021208	26	2.2	26	81	6	62	47	0	3	49	1.18
2036011--2036120	47	2.3	47	88	4	157	41	2	2	52	1.30
2038692--2038943	139	1.8	139	85	1	353	37	13	16	32	1.87
2042753--2042881	52	2.5	52	97	0	249	27	18	18	34	1.95
2042890--2042914	13	1.9	13	100	0	50	36	16	16	32	1.90
2042959--2043010	13	3.5	13	73	26	50	34	19	13	32	1.90
2042967--2043049	19	4.7	19	82	17	124	36	19	12	32	1.88
2042959--2043029	32	2.2	32	100	0	142	35	19	12	32	1.90
2049424--2049491	17	3.8	17	75	19	66	0	25	0	75	0.81

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13