genome.fa.s78.2.7.7.80.10.50.1000.13.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: Scaffold78
Parameters: 2 7 7 80 10 50 1000
Length:  2238306

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  13  of  15  ( 1751 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)
1759864--1759931	28	2.4	28	88	7	102	32	16	25	26	1.96
1759790--1759994	107	1.9	109	85	6	283	34	13	23	28	1.93
1759889--1760220	79	4.2	77	79	9	305	34	12	23	29	1.91
1759890--1760203	158	2.0	159	83	5	395	35	11	23	28	1.90
1760163--1760273	51	2.2	51	85	3	152	36	12	21	29	1.91
1760078--1760350	130	2.1	130	88	1	395	35	12	22	29	1.90
1759999--1760412	209	2.0	209	82	4	514	35	11	23	29	1.90
1760213--1760414	79	2.6	79	80	4	237	36	13	22	27	1.92
1760692--1760741	19	2.6	19	93	0	82	34	12	16	38	1.85
1760835--1760906	37	1.9	37	94	0	126	38	15	15	30	1.88
1780089--1780114	13	2.0	13	100	0	52	38	15	15	30	1.88
1782333--1782377	21	2.1	21	84	8	56	53	4	20	22	1.63
1784181--1784211	15	2.1	15	93	0	53	48	16	22	12	1.80
1786291--1786329	13	3.0	13	100	0	78	30	15	15	38	1.88
1788865--1788890	13	2.0	13	100	0	52	38	15	15	30	1.88
1789951--1790083	66	2.0	66	97	0	248	39	13	10	36	1.79
1791875--1791923	18	2.8	17	75	6	53	38	20	8	32	1.82
1793342--1793392	21	2.5	20	81	6	66	33	0	23	43	1.54
1793499--1793526	13	2.2	13	100	0	56	50	14	7	28	1.69
1793706--1793779	22	3.5	22	73	17	57	60	20	1	17	1.43
1797680--1797732	19	2.7	20	88	5	72	32	15	16	35	1.90
1798524--1798598	21	3.5	21	76	8	71	21	14	2	61	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1798849--1798881	15	2.1	16	88	5	50	6	15	15	63	1.49
1799065--1799090	3	8.7	3	100	0	52	30	34	0	34	1.58
1800657--1800710	21	2.6	21	85	2	65	40	9	11	38	1.73
1803441--1803483	2	22.0	2	95	4	79	48	0	0	51	1.00
1807044--1807224	99	1.8	99	83	4	240	39	13	14	33	1.85
1807781--1807925	30	5.2	30	67	24	127	26	7	18	46	1.76
1807790--1807925	26	5.0	26	69	19	107	27	8	18	46	1.77
1807760--1807925	55	3.0	55	97	0	314	27	8	18	45	1.78
1807765--1807907	29	5.1	29	69	16	122	26	8	18	46	1.77
1811563--1811589	13	2.1	13	100	0	54	40	14	14	29	1.86
1812824--1813275	226	2.0	226	98	0	877	35	19	9	34	1.85
1817845--1817888	19	2.2	21	88	8	65	38	4	18	38	1.71
1818371--1818408	20	1.9	20	94	0	67	28	13	10	47	1.76
1818395--1818469	32	2.3	32	88	0	105	36	16	8	40	1.77
1819628--1819717	46	2.0	46	93	0	153	25	10	6	57	1.55
1823974--1824039	2	33.0	2	90	0	105	45	0	0	54	0.99
1827037--1827062	2	13.0	2	100	0	52	50	0	0	50	1.00
1828453--1828599	56	2.6	57	72	6	133	37	6	2	54	1.37
1830832--1830882	2	25.5	2	100	0	102	49	0	0	50	1.00
1831248--1831290	17	2.4	18	80	7	52	32	2	2	62	1.20
1832117--1832187	22	3.2	22	79	0	79	33	8	19	38	1.82
1833132--1833175	21	2.1	21	82	0	52	50	15	15	18	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1833149--1833215	21	3.2	21	69	0	53	46	20	16	16	1.84
1833602--1833645	21	2.1	21	91	4	72	50	22	11	15	1.76
1834311--1834380	22	3.2	22	93	2	115	52	14	0	32	1.41
1834566--1834635	22	3.2	22	81	0	77	41	14	7	37	1.73
1835448--1835483	15	2.2	17	90	9	58	58	2	5	33	1.36
1835437--1835478	23	1.9	22	85	9	59	57	2	7	33	1.39
1841455--1841513	21	2.7	23	82	10	72	45	0	0	54	0.99
1841466--1841535	32	2.2	31	85	10	88	45	1	0	52	1.09
1841456--1841535	31	2.5	31	82	13	85	46	1	0	52	1.08
1842743--1842882	19	7.2	18	67	21	68	57	0	0	42	0.99
1842820--1842889	22	3.1	22	73	20	65	57	0	0	42	0.99
1842843--1842889	19	2.5	19	89	3	69	59	0	0	40	0.97
1843228--1843266	20	2.0	20	89	0	60	53	0	0	46	1.00
1844710--1844754	18	2.3	20	78	17	51	62	6	0	31	1.21
1845508--1845550	20	2.1	21	82	4	52	39	4	20	34	1.74
1845640--1845680	20	2.0	20	85	0	55	21	14	17	46	1.84
1848383--1848435	20	2.6	21	82	11	74	39	11	18	30	1.86
1854203--1854409	105	2.0	105	91	0	333	33	19	11	35	1.87
1858644--1858710	20	3.3	20	80	0	80	40	11	14	32	1.83
1859302--1859344	2	21.5	2	100	0	86	48	0	0	51	1.00
1859449--1859498	19	2.6	18	81	12	55	28	0	4	68	1.08
1869974--1870012	2	20.0	2	84	5	53	51	5	0	43	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1871649--1871696	24	1.9	24	87	8	69	47	2	0	50	1.12
1872689--1872722	17	2.0	17	88	0	50	29	0	2	67	1.05
1872825--1872866	17	2.5	17	77	14	52	54	2	0	42	1.13
1876739--1876863	54	2.3	54	81	0	151	33	15	24	27	1.95
1880474--1880536	19	3.6	19	76	24	84	39	15	15	28	1.89
1880492--1880549	13	4.0	13	74	23	53	41	15	13	29	1.86
1880474--1880553	32	2.5	32	97	0	151	42	16	13	27	1.86
1884626--1884656	15	2.1	15	93	0	53	41	16	25	16	1.88
1886735--1886773	13	3.0	13	92	0	60	30	15	15	38	1.88
1887109--1887150	17	2.5	17	100	0	84	33	28	4	33	1.78
1889360--1889385	13	2.0	13	100	0	52	38	15	15	30	1.88
1889342--1889440	34	3.0	34	94	2	166	44	15	13	27	1.83
1889395--1889419	13	1.9	13	100	0	50	36	16	16	32	1.90
1893412--1893469	27	2.3	25	85	8	73	51	1	3	43	1.28
1894142--1894193	19	2.7	20	90	3	79	30	15	13	40	1.86
1894242--1894272	13	2.4	13	94	0	53	35	16	9	38	1.81
1906803--1906833	13	2.4	13	100	0	62	38	16	16	29	1.90
1906788--1906850	33	1.9	33	90	6	101	42	14	14	28	1.84
1906884--1906944	19	3.5	19	68	25	62	37	19	6	36	1.78
1906869--1906947	32	2.5	32	89	0	122	34	17	10	37	1.84
1907680--1907730	20	2.5	21	87	3	68	39	13	17	29	1.88
1907783--1907808	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)
1907765--1907828	33	2.0	32	90	3	101	39	20	12	28	1.89
1913726--1913751	8	3.2	8	100	0	52	15	0	23	61	1.33
1914398--1914449	20	2.4	21	84	9	61	21	50	25	3	1.65
1915821--1915865	22	2.0	22	91	8	74	35	0	28	35	1.58
1916434--1916484	20	2.5	21	87	3	68	39	13	17	29	1.88
1916537--1916562	13	2.0	13	100	0	52	38	15	15	30	1.88
1916519--1916582	33	2.0	32	90	3	101	39	20	12	28	1.89
1917999--1918055	13	3.9	13	76	24	60	35	14	15	35	1.88
1917977--1918074	19	5.7	19	71	27	94	33	12	16	37	1.86
1917979--1918079	32	3.1	32	97	1	184	34	11	16	36	1.86
1918117--1918141	13	1.9	13	100	0	50	32	16	16	36	1.90
1922759--1922875	59	2.0	60	89	1	182	17	24	15	41	1.88
1923731--1923755	7	3.6	7	100	0	50	60	0	0	40	0.97
1926415--1926441	2	13.5	2	100	0	54	48	0	0	51	1.00
1928003--1928155	75	2.0	77	87	2	220	35	16	17	30	1.92
1929984--1930027	2	23.0	2	90	9	74	50	0	0	50	1.00
1930205--1930269	34	1.9	34	90	0	103	47	15	13	23	1.81
1932674--1932711	15	2.6	15	83	4	51	28	7	23	39	1.83
1932762--1932806	16	2.9	15	77	9	54	40	0	4	55	1.20
1940619--1940700	26	3.3	26	68	25	86	40	10	0	48	1.38
1940606--1940704	48	2.1	48	98	0	189	40	12	0	47	1.41
1941308--1941345	16	2.3	17	81	4	51	15	26	34	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1944161--1944236	22	3.4	22	87	10	93	44	0	0	55	0.99
1944161--1944236	21	3.3	24	87	10	83	44	0	0	55	0.99
1947665--1947723	25	2.3	25	85	8	75	35	5	3	55	1.38
1947690--1947759	36	1.9	36	83	11	90	37	1	5	55	1.32
1947769--1947830	27	2.3	26	81	15	65	43	0	1	54	1.09
1960587--1960619	14	2.4	14	94	0	57	48	0	0	51	1.00
1961093--1961119	2	13.5	2	100	0	54	51	0	0	48	1.00
1961342--1961370	2	14.5	2	100	0	58	48	0	0	51	1.00
1961689--1961728	15	2.6	15	88	4	53	22	0	12	65	1.26
1962058--1962104	22	2.1	22	100	0	94	31	19	8	40	1.81

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15