genome.fa.s113.2.7.7.80.10.50.1000.12.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: Scaffold113
Parameters: 2 7 7 80 10 50 1000
Length:  3764034

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  12  of  23  ( 2678 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)
1834792--1834848	16	3.6	16	72	9	53	33	22	19	24	1.97
1836129--1836161	16	2.0	17	88	5	50	33	0	0	66	0.92
1836257--1836304	20	2.6	18	90	6	69	27	8	0	64	1.22
1836494--1836545	20	2.5	21	78	3	61	44	1	0	53	1.11
1836835--1836870	14	2.7	13	87	8	54	19	0	0	80	0.71
1843461--1843493	3	11.0	3	100	0	66	33	0	0	66	0.92
1849009--1849064	21	2.7	21	83	10	78	46	3	14	35	1.62
1852406--1852465	21	2.9	21	80	5	59	36	5	23	35	1.77
1852428--1852471	21	2.1	21	82	0	52	36	6	18	38	1.77
1855485--1855600	51	2.3	51	85	8	148	32	24	11	31	1.90
1855535--1855736	79	2.6	78	81	6	255	27	25	13	33	1.94
1867724--1867761	20	1.9	20	94	0	67	92	5	2	0	0.47
1867724--1867761	12	3.2	12	88	3	51	92	5	2	0	0.47
1868818--1868908	39	2.3	39	90	0	146	25	32	15	26	1.95
1868911--1869452	61	9.1	61	79	7	569	25	28	18	27	1.98
1868890--1869452	177	3.2	179	78	9	557	25	27	19	27	1.98
1868891--1869452	115	4.8	116	82	5	619	25	27	19	27	1.99
1869422--1869516	37	2.5	38	76	6	113	18	27	17	35	1.94
1869487--1869621	42	3.1	42	75	10	137	17	22	14	45	1.85
1870338--1870389	20	2.6	20	96	0	95	28	15	11	44	1.81
1872811--1872926	51	2.3	51	90	0	178	31	25	12	31	1.92
1872910--1872978	28	2.5	28	85	4	86	26	27	17	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1872938--1873190	79	3.2	79	83	7	273	27	24	15	31	1.96
1878150--1878199	20	2.5	20	93	6	84	40	24	4	32	1.73
1886355--1886399	22	2.0	22	86	0	63	55	0	0	44	0.99
1886371--1886449	31	2.5	31	76	15	81	44	0	0	55	0.99
1889620--1890292	151	4.4	146	75	13	447	41	20	12	26	1.88
1889541--1890292	303	2.5	302	79	8	709	40	19	12	27	1.88
1889733--1890340	308	2.0	297	80	7	663	40	19	12	26	1.88
1889469--1890352	157	5.7	156	76	11	723	40	18	13	27	1.88
1892340--1892381	22	2.0	21	86	13	61	47	0	9	42	1.36
1893719--1893819	32	3.1	32	72	13	98	49	18	17	13	1.79
1893606--1893763	66	2.4	66	75	6	167	44	21	18	15	1.87
1893653--1894288	65	9.8	64	74	7	351	47	16	19	17	1.84
1893685--1894288	259	2.3	259	82	3	689	47	16	19	17	1.83
1894857--1895156	76	3.9	77	72	9	197	44	8	15	31	1.77
1896409--1896441	16	2.1	16	88	11	50	3	0	9	87	0.63
1897373--1897428	22	2.5	21	76	23	53	10	14	1	73	1.18
1899016--1899070	18	3.1	17	78	19	58	29	1	0	69	0.99
1899015--1899090	36	2.2	35	81	11	93	30	2	0	67	1.05
1899363--1899410	2	24.5	2	95	4	89	52	0	0	47	1.00
1899550--1899871	175	1.8	176	85	2	461	43	8	15	32	1.76
1902299--1902336	9	4.1	9	81	18	51	0	15	0	84	0.63
1902302--1902336	12	3.0	11	88	12	52	0	14	0	85	0.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1902302--1902333	17	1.9	17	93	6	57	0	12	0	87	0.54
1903513--1903537	2	12.5	2	100	0	50	52	0	0	48	1.00
1904724--1904749	13	2.0	13	100	0	52	15	7	15	61	1.55
1904875--1904900	11	2.4	11	100	0	52	23	0	30	46	1.53
1906168--1906195	2	14.0	2	100	0	56	50	0	0	50	1.00
1909577--1909622	21	2.1	21	84	11	58	41	6	13	39	1.70
1909741--1909765	13	1.9	13	100	0	50	32	16	16	36	1.90
1909753--1909805	20	2.6	21	82	8	65	37	15	16	30	1.90
1909854--1909879	13	2.0	13	100	0	52	38	15	15	30	1.88
1909836--1909899	33	2.0	32	90	3	101	39	20	14	26	1.90
1910204--1910271	19	3.9	19	78	21	85	35	11	14	38	1.83
1910206--1910268	32	2.0	32	96	0	117	34	12	15	36	1.86
1910225--1910249	13	1.9	13	100	0	50	36	16	16	32	1.90
1910311--1910369	13	5.0	13	73	23	67	28	15	16	38	1.89
1910291--1910390	33	3.0	33	94	0	164	26	15	17	42	1.88
1910323--1910389	20	3.7	20	74	25	85	26	14	17	40	1.89
1911026--1911966	59	16.3	59	86	5	1132	26	27	20	24	1.99
1911282--1911370	29	3.2	29	66	18	89	29	32	17	20	1.96
1911257--1911341	25	3.2	25	66	18	73	31	32	16	18	1.94
1912738--1912805	19	3.9	19	78	21	85	35	10	14	39	1.80
1912740--1912800	32	1.9	32	96	0	113	34	9	16	39	1.82
1912845--1912870	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1912825--1912891	33	2.0	33	88	0	98	25	14	16	43	1.86
1915225--1915566	52	6.5	53	68	15	208	29	25	12	32	1.92
1915288--1915681	107	3.7	105	72	13	327	27	26	14	31	1.95
1915230--1915565	104	3.2	102	72	14	313	29	25	12	32	1.93
1915550--1915626	28	2.8	28	87	0	100	23	33	19	23	1.97
1915228--1915633	212	1.9	212	89	3	629	27	26	13	32	1.94
1919856--1919967	50	2.2	50	96	1	206	40	13	23	23	1.90
1923386--1923424	13	3.0	13	96	0	69	35	15	15	33	1.89
1925734--1925779	21	2.1	21	84	11	58	41	6	13	39	1.70
1925993--1926044	20	2.7	20	90	3	79	38	21	13	26	1.90
1927029--1927165	51	2.7	51	87	1	186	29	13	13	43	1.82
1932048--1932183	21	6.5	21	66	18	77	57	7	1	33	1.36
1932251--1932302	20	2.5	21	87	6	70	57	1	0	40	1.10
1933321--1933381	11	5.9	11	75	12	58	34	1	0	63	1.04
1934321--1934368	3	16.3	3	95	4	89	64	0	0	35	0.94
1936951--1936994	21	2.1	21	86	0	61	50	0	0	50	1.00
1937840--1937869	2	15.0	2	100	0	60	50	0	0	50	1.00
1939065--1939113	18	2.9	16	80	14	53	44	2	0	53	1.12
1939844--1939886	17	2.5	17	85	11	52	48	0	0	51	1.00
1939837--1939883	18	2.6	19	77	19	55	46	0	0	53	1.00
1943077--1943114	15	2.6	15	87	4	51	55	0	0	44	0.99
1944410--1944459	17	3.2	16	81	13	50	66	4	0	30	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1944418--1944461	15	2.9	15	83	13	54	68	4	0	27	1.09
1952320--1952365	8	5.9	8	82	5	58	0	15	2	82	0.76
1953152--1953229	30	2.6	31	76	9	92	33	0	2	64	1.08
1953138--1953229	10	9.3	10	68	11	55	33	0	2	64	1.06
1953965--1954000	17	2.0	20	84	15	51	27	5	0	66	1.13
1955999--1956042	24	2.0	21	86	13	61	81	9	0	9	0.87
1956051--1956097	14	3.4	14	79	5	51	2	23	2	72	1.06
1956082--1956122	21	2.0	21	85	0	55	0	36	2	60	1.10
1957236--1957287	19	2.6	21	73	8	56	46	0	1	51	1.12
1969187--1969276	13	6.0	13	69	26	54	34	13	16	35	1.88
1969200--1969262	19	3.7	18	76	24	73	33	11	17	38	1.85
1969186--1969275	32	2.8	32	93	0	153	33	13	16	36	1.88
1969348--1969476	52	2.5	52	92	0	222	34	16	18	30	1.93
1977468--1977505	16	2.3	17	86	4	51	44	23	5	26	1.74
1977605--1977885	32	8.9	31	81	10	277	22	30	16	31	1.95
1977610--1977823	62	3.5	62	90	3	326	22	29	17	29	1.97
1977797--1978245	34	13.8	34	73	14	349	20	32	13	33	1.92
1977829--1978077	61	3.9	62	85	4	295	22	32	13	31	1.93
1978054--1978173	61	2.0	62	93	1	206	22	35	13	28	1.92
1977836--1978245	164	2.5	164	85	5	543	20	32	13	33	1.91
1977993--1978242	130	1.9	129	83	7	319	20	33	12	32	1.91
1978246--1978407	33	5.0	33	87	4	195	29	32	17	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1978261--1978407	32	4.5	33	88	5	194	29	30	19	21	1.97
1978247--1978407	65	2.5	65	86	3	227	29	31	17	21	1.96
1978414--1979589	49	24.8	49	80	9	1235	24	24	18	32	1.97
1978414--1979534	92	11.9	93	88	5	1067	24	24	18	32	1.97
1978667--1978734	21	3.2	21	63	19	50	25	26	17	30	1.97
1980352--1980409	13	4.0	13	74	23	53	34	17	17	31	1.93
1980448--1980472	13	1.9	13	100	0	50	32	16	16	36	1.90
1980481--1980609	52	2.5	52	92	0	213	34	15	18	31	1.92
1985414--1985964	33	17.8	33	72	15	308	23	28	11	36	1.90
1985577--1985657	27	3.0	27	85	1	108	28	35	12	23	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