genome.fa.s10.2.7.7.80.10.50.1000.13.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: Scaffold10
Parameters: 2 7 7 80 10 50 1000
Length:  3842500

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  13  of  25  ( 2970 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)
1798218--1798292	35	2.1	35	97	0	141	42	2	41	13	1.58
1800040--1800069	2	15.0	2	100	0	60	50	0	0	50	1.00
1800956--1801025	21	3.7	20	77	21	71	57	1	0	41	1.08
1801277--1801313	15	2.4	16	78	17	51	45	13	0	40	1.43
1802950--1803036	44	2.0	44	97	0	165	45	14	8	31	1.74
1803370--1803399	13	2.3	13	100	0	60	50	0	0	50	1.00
1806647--1806687	19	2.2	19	86	8	57	53	0	0	46	1.00
1806648--1806700	22	2.5	22	79	11	65	52	0	0	47	1.00
1807478--1807510	3	11.0	3	93	0	57	0	33	3	63	1.10
1819357--1819457	51	2.0	51	90	0	157	35	19	15	28	1.93
1820027--1820067	21	2.0	21	85	4	57	51	2	0	46	1.14
1823689--1823765	23	3.4	21	74	13	55	29	2	15	51	1.57
1823706--1823765	22	2.7	23	76	5	61	31	1	16	50	1.55
1823757--1823818	22	2.9	22	74	16	67	43	0	0	56	0.99
1829970--1830018	24	2.2	24	82	10	59	46	8	4	40	1.52
1831845--1832094	32	7.8	32	93	0	394	17	17	33	31	1.94
1832077--1833253	27	43.0	27	91	2	1832	28	14	34	22	1.93
1832077--1833253	164	7.2	163	91	2	1822	28	14	34	22	1.93
1834304--1834337	17	2.0	17	100	0	68	0	0	11	88	0.52
1841113--1841167	24	2.4	22	77	19	58	10	16	0	72	1.11
1843168--1843638	239	2.0	233	92	2	789	28	17	22	31	1.96
1844501--1844528	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1848586--1848708	61	2.0	61	95	0	219	46	12	3	38	1.58
1849909--1849935	2	13.5	2	100	0	54	0	51	0	48	1.00
1850649--1850682	11	3.1	11	91	0	59	41	8	2	47	1.50
1852138--1852191	28	1.9	28	92	0	90	25	16	22	35	1.95
1855441--1855465	4	6.2	4	100	0	50	24	52	24	0	1.48
1855802--1855871	18	3.9	18	75	15	74	34	0	1	64	1.03
1857085--1857137	16	3.4	15	73	17	54	43	0	0	56	0.99
1857093--1857143	14	3.4	14	75	19	57	47	0	0	52	1.00
1857076--1857178	25	3.8	26	72	20	79	38	0	0	61	0.96
1857079--1857173	32	3.2	30	81	11	106	40	0	0	60	0.97
1857079--1857186	41	2.6	43	78	12	118	39	0	0	59	1.04
1857079--1857190	21	5.4	20	70	13	75	40	0	0	58	1.04
1857343--1857430	19	4.8	17	74	18	79	70	0	0	29	0.88
1857383--1857419	11	3.5	11	82	14	51	78	0	0	21	0.75
1857346--1857423	39	2.0	39	82	5	95	69	0	0	30	0.89
1857336--1857417	20	4.2	20	77	10	62	69	0	0	30	0.89
1857378--1857444	26	2.6	25	79	6	80	70	0	0	29	0.88
1857420--1857470	15	3.2	16	74	15	52	54	0	0	45	0.99
1857420--1857491	33	2.2	33	87	4	103	55	0	0	44	0.99
1858495--1858519	2	12.5	2	100	0	50	48	0	0	52	1.00
1858770--1858873	40	2.6	40	75	13	106	50	0	0	49	1.07
1859093--1859151	27	2.2	26	85	11	75	52	0	3	44	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1859291--1859349	27	2.2	26	85	11	75	52	0	3	44	1.17
1859042--1859641	198	3.0	198	96	2	1096	43	2	10	44	1.49
1860952--1860985	14	2.3	15	90	5	52	38	0	2	58	1.13
1863660--1863692	17	1.9	17	93	0	57	45	0	3	51	1.16
1863785--1863830	24	2.0	24	82	4	58	58	0	0	41	0.98
1863795--1863869	36	2.1	35	87	7	107	50	0	0	49	1.00
1864400--1864609	107	2.0	107	83	7	266	37	8	3	50	1.50
1865346--1865424	30	2.6	30	84	4	97	39	5	0	55	1.22
1866876--1866910	8	4.4	8	86	13	54	22	0	0	77	0.78
1866998--1867038	16	2.5	17	88	4	57	82	2	0	14	0.76
1868106--1868152	22	2.0	24	88	8	71	46	2	6	44	1.40
1869605--1869633	3	9.7	3	100	0	58	68	0	0	31	0.89
1875319--1875397	29	2.6	31	80	11	85	54	0	0	45	0.99
1875346--1875405	29	2.1	27	82	11	68	53	0	0	46	1.00
1875528--1875563	2	18.0	2	94	0	63	47	0	52	0	1.00
1880953--1880996	2	22.5	2	86	4	63	45	2	0	52	1.13
1881173--1881207	16	2.3	15	90	5	52	54	0	17	28	1.43
1881804--1881839	18	2.0	18	88	0	54	41	0	2	55	1.14
1882152--1882209	24	2.4	24	82	0	62	77	10	10	1	1.06
1883651--1884032	206	1.9	206	84	2	525	31	19	17	31	1.94
1888272--1888313	19	2.0	20	86	13	59	26	2	0	71	0.98
1888301--1888333	16	2.0	17	88	5	50	39	3	0	57	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1891549--1891628	16	4.9	16	71	10	56	42	20	13	23	1.88
1892768--1892826	19	3.2	19	72	11	59	54	0	0	45	0.99
1893019--1893044	2	13.0	2	100	0	52	50	0	0	50	1.00
1894067--1894091	2	12.5	2	100	0	50	52	0	0	48	1.00
1896282--1896314	8	4.0	8	96	4	57	60	0	0	39	0.97
1896282--1896353	16	4.0	17	73	23	67	52	0	0	47	1.00
1896295--1896370	39	2.0	37	89	5	116	46	0	0	53	1.00
1896339--1896392	25	2.2	25	83	12	67	38	0	0	61	0.96
1896259--1896377	47	2.5	49	76	15	126	47	0	0	52	1.00
1898234--1898286	16	3.2	15	76	21	52	66	7	0	26	1.18
1898246--1898293	21	2.4	19	82	6	60	68	4	0	27	1.07
1900339--1900376	18	2.1	19	95	5	69	44	2	0	52	1.14
1901172--1901216	25	2.0	22	83	16	56	48	8	2	40	1.47
1902592--1902623	2	16.5	2	93	6	57	53	0	0	46	1.00
1903694--1903886	99	1.9	99	90	2	307	38	11	18	31	1.86
1905918--1905977	28	2.1	28	100	0	120	30	25	3	41	1.71
1907332--1907395	31	2.1	31	85	5	85	48	1	0	50	1.10
1913292--1913335	21	2.0	22	82	4	54	43	2	0	54	1.12
1917960--1918003	21	2.0	22	82	4	54	43	2	0	54	1.12
1919974--1920020	20	2.5	20	74	19	55	61	12	2	23	1.42
1920320--1920356	19	1.9	19	88	0	56	43	0	2	54	1.14
1920320--1920356	13	2.9	13	84	15	51	43	0	2	54	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1920752--1920790	20	2.0	20	95	5	71	56	0	10	33	1.33
1922387--1922422	13	2.8	13	87	4	56	83	0	16	0	0.65
1923528--1923583	27	2.0	28	89	3	87	44	12	5	37	1.65
1924141--1924181	2	21.0	2	90	5	66	48	0	2	48	1.14
1927084--1927119	17	2.1	17	89	0	54	50	2	0	47	1.15
1934532--1934603	17	4.3	16	72	22	51	40	0	2	56	1.13
1934607--1934648	17	2.5	17	88	7	59	33	2	2	61	1.21
1934614--1934697	39	2.2	38	79	10	89	39	0	1	59	1.05
1934668--1934786	36	3.3	35	71	14	100	46	3	0	50	1.18
1934625--1934774	69	2.2	68	84	5	196	42	2	0	54	1.19
1934765--1934798	2	17.0	2	100	0	68	50	0	0	50	1.00
1934667--1934783	32	3.5	33	70	17	96	46	3	0	50	1.18
1935552--1935586	15	2.2	16	90	5	54	14	2	8	74	1.17
1940154--1940198	2	23.0	2	90	4	74	48	0	0	51	1.00
1941499--1941585	29	3.0	27	79	15	77	60	2	1	35	1.17
1943377--1943401	2	12.5	2	100	0	50	52	0	0	48	1.00
1945250--1945277	2	14.0	2	100	0	56	50	0	0	50	1.00
1945778--1945818	21	2.0	20	85	4	55	39	2	0	58	1.11
1946160--1946219	29	2.1	29	81	12	70	33	3	3	60	1.30
1948763--1948794	17	2.0	17	88	11	50	34	0	3	62	1.11
1949526--1949588	11	5.9	11	75	14	51	63	0	4	31	1.15
1949555--1949615	28	2.2	29	82	8	74	55	3	1	39	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1949555--1949618	27	2.3	27	82	10	76	54	3	1	40	1.25
1950366--1950423	28	2.0	28	86	10	80	68	5	1	24	1.19
1951303--1951362	16	3.7	16	75	16	52	48	5	5	41	1.47
1951316--1951378	33	1.9	32	84	9	83	49	4	3	42	1.39
1953430--1953470	21	2.0	21	90	9	66	43	0	0	56	0.99
1953975--1954001	2	13.5	2	100	0	54	48	0	0	51	1.00
1955496--1955541	15	3.0	15	80	3	56	43	0	0	56	0.99
1956048--1956072	4	6.2	4	100	0	50	24	0	0	76	0.80
1962637--1962673	3	12.7	3	94	5	67	0	35	0	64	0.94
1963172--1963220	23	2.1	23	81	7	55	46	4	4	44	1.41

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