genome.fa.s174.2.7.7.80.10.50.1000.14.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: Scaffold174
Parameters: 2 7 7 80 10 50 1000
Length:  2085601

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

This is table  14  of  15  ( 1687 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)
1817208--1817234	14	1.9	14	100	0	54	29	18	29	22	1.97
1823662--1823698	6	6.2	6	87	0	56	51	16	32	0	1.45
1824271--1824308	18	2.1	18	85	9	51	65	0	0	34	0.93
1824484--1824537	15	3.3	15	75	14	54	50	0	0	50	1.00
1825967--1826020	25	2.3	23	83	6	72	70	9	0	20	1.14
1826117--1826168	22	2.4	22	83	6	61	71	9	1	17	1.22
1826887--1826939	24	2.2	24	96	0	97	35	0	20	43	1.52
1828932--1828967	2	18.0	2	100	0	72	50	0	50	0	1.00
1830140--1830185	3	15.3	3	100	0	92	32	0	0	67	0.91
1831928--1831968	2	20.5	2	100	0	82	51	0	0	48	1.00
1832790--1832814	2	12.5	2	100	0	50	48	0	0	52	1.00
1835741--1835779	18	2.2	18	100	0	78	38	5	17	38	1.72
1838244--1838311	34	2.0	34	94	0	118	36	13	10	39	1.78
1840713--1840924	107	2.0	105	91	1	343	41	16	8	32	1.79
1841309--1841333	3	8.3	3	100	0	50	32	0	0	68	0.90
1841564--1841599	13	2.8	12	88	12	54	44	0	2	52	1.15
1841564--1841599	6	5.7	6	90	9	54	44	0	2	52	1.15
1851436--1851479	16	2.9	15	83	9	54	47	0	0	52	1.00
1851909--1851955	22	2.3	20	85	10	60	55	0	2	42	1.12
1852018--1852070	27	2.0	26	88	3	79	71	1	0	26	0.96
1856491--1856521	5	6.2	5	96	0	53	19	19	38	22	1.93
1856521--1856598	36	2.2	36	88	0	111	21	21	17	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1858665--1858699	2	17.5	2	100	0	70	0	48	0	51	1.00
1860011--1860050	2	20.0	2	94	0	71	52	0	0	47	1.00
1860268--1860367	48	2.1	48	92	0	164	35	9	18	38	1.82
1862457--1862488	2	16.0	2	100	0	64	50	0	50	0	1.00
1862771--1862805	18	1.9	18	88	0	52	48	45	2	2	1.32
1867891--1867930	3	13.3	3	89	0	62	60	2	2	35	1.24
1868927--1868956	8	3.8	8	100	0	60	50	13	0	36	1.42
1870410--1870466	28	2.1	28	80	9	64	43	0	1	54	1.10
1873720--1873785	23	2.8	22	82	13	69	48	1	4	45	1.32
1873980--1874014	13	2.7	13	90	0	52	65	0	0	34	0.93
1874394--1874432	18	2.2	17	86	4	51	58	2	2	35	1.25
1875113--1875139	1	27.0	1	100	0	54	0	0	0	100	0.00
1877889--1877918	10	3.0	10	90	0	51	86	0	13	0	0.57
1888614--1888649	18	2.0	18	100	0	72	55	0	0	44	0.99
1888616--1888675	18	3.3	19	81	13	65	55	0	1	43	1.10
1888797--1888907	16	6.9	16	78	3	98	60	5	0	33	1.26
1888797--1888907	31	3.5	31	80	5	105	60	5	0	33	1.26
1892285--1892310	2	13.0	2	100	0	52	50	0	0	50	1.00
1893327--1893378	20	2.7	19	76	23	56	69	0	0	30	0.89
1898800--1898837	2	19.0	2	100	0	76	50	0	0	50	1.00
1903686--1903711	2	13.0	2	100	0	52	50	0	0	50	1.00
1903653--1903700	25	1.9	25	95	0	87	52	6	6	35	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1904169--1904193	2	12.5	2	100	0	50	0	0	52	48	1.00
1907956--1908000	2	22.5	2	95	0	81	46	0	2	51	1.13
1909564--1909605	10	4.2	10	81	6	50	0	14	0	85	0.59
1912432--1912458	2	13.5	2	100	0	54	51	0	0	48	1.00
1913092--1913121	5	6.0	5	92	0	51	23	20	40	16	1.91
1913799--1913824	6	4.3	6	100	0	52	50	15	0	34	1.45
1914369--1914397	2	14.5	2	100	0	58	48	0	0	51	1.00
1915988--1916021	2	17.5	2	87	6	52	50	2	0	47	1.16
1916577--1916611	3	11.7	3	100	0	70	0	34	0	65	0.93
1921327--1921355	13	2.1	14	93	6	51	55	0	0	44	0.99
1926545--1926593	21	2.6	17	75	22	53	48	0	6	44	1.27
1937315--1937357	3	14.3	3	100	0	86	32	32	0	34	1.58
1946326--1946381	25	2.1	27	84	12	73	37	3	0	58	1.15
1946453--1946492	20	2.1	20	86	9	57	60	0	0	40	0.97
1947536--1947562	4	6.8	4	100	0	54	77	0	0	22	0.76
1953307--1953350	3	14.7	3	100	0	88	68	0	0	31	0.90
1957322--1957423	48	2.1	48	98	0	195	38	1	32	27	1.68
1957740--1957765	2	13.0	2	100	0	52	50	0	0	50	1.00
1958238--1958270	5	6.6	5	100	0	66	39	0	18	42	1.50
1960600--1960630	3	10.3	3	100	0	62	0	32	0	67	0.91
1964922--1964960	2	19.5	2	100	0	78	0	51	0	48	1.00
1968328--1968355	2	14.0	2	100	0	56	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1969421--1969605	34	5.5	34	86	3	248	40	25	7	26	1.82
1974021--1974204	34	5.4	34	83	3	228	40	25	7	26	1.81
1974358--1974387	2	15.0	2	100	0	60	0	50	0	50	1.00
1974924--1974962	20	2.0	20	85	5	53	2	12	15	69	1.30
1976149--1976215	33	2.0	33	97	0	125	32	22	10	34	1.88
1980290--1980334	6	7.5	6	87	0	63	35	4	13	46	1.63
1980351--1980390	19	2.1	19	95	0	71	32	15	27	25	1.95
1987948--1987972	2	12.5	2	100	0	50	52	0	0	48	1.00
1990765--1990791	2	13.5	2	100	0	54	51	48	0	0	1.00
1994240--1994271	5	6.8	5	96	3	50	0	12	0	87	0.54
1994421--1994458	3	12.7	3	94	0	67	28	0	2	68	1.03
1996028--1996069	2	21.0	2	100	0	84	0	50	0	50	1.00
1996400--1996424	9	2.8	9	100	0	50	28	0	0	72	0.86
1996490--1996560	23	3.1	22	80	8	79	35	0	12	52	1.40
1996540--1996570	16	1.9	16	93	0	53	41	0	12	45	1.42
1996698--1996729	14	2.2	15	94	5	57	56	0	0	43	0.99
1997963--1998002	15	2.5	16	88	8	55	57	0	0	42	0.98
1997963--1998005	16	2.6	17	85	10	63	55	0	0	44	0.99
1998067--1998128	20	3.0	22	68	18	69	54	3	3	38	1.32
1998053--1998128	40	1.9	40	100	0	152	53	2	2	40	1.28
1998566--1998595	15	1.9	16	93	6	53	0	23	0	76	0.78
1998727--1998762	16	2.2	16	90	0	54	36	0	2	61	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1998736--1998767	16	2.0	16	93	0	55	31	3	0	65	1.08
1998958--1999008	25	2.1	23	85	7	66	74	1	0	23	0.92
1998951--1999015	11	5.4	12	74	17	55	69	3	1	26	1.12
1999101--1999134	17	1.9	17	88	5	50	2	23	0	73	0.97
1999470--1999555	28	3.0	27	71	14	75	65	0	2	32	1.06
2000054--2000100	4	11.8	4	84	8	60	19	25	0	55	1.43
2003849--2003882	17	2.0	17	88	0	50	50	35	5	8	1.58
2015318--2015363	20	2.2	21	84	3	58	65	0	0	34	0.93
2015315--2015371	21	2.8	20	81	5	60	61	0	0	38	0.96
2016861--2016886	5	5.2	5	100	0	52	42	38	0	19	1.51
2017427--2017454	5	5.6	5	100	0	56	60	21	0	17	1.36
2023296--2023615	159	2.0	160	94	3	565	32	10	30	26	1.89
2030920--2030951	6	5.3	6	100	0	64	0	0	15	84	0.63
2032833--2032893	3	20.0	3	96	3	113	65	0	1	32	1.02
2032889--2032916	4	7.0	4	100	0	56	75	0	0	25	0.81
2041197--2041257	33	2.0	32	84	12	83	36	22	13	27	1.92
2043050--2043080	2	15.5	2	100	0	62	51	0	0	48	1.00
2045109--2045522	75	5.5	75	81	2	375	27	17	25	30	1.97
2045324--2045553	75	3.1	75	83	5	198	26	18	26	28	1.98
2045986--2046482	78	6.4	78	78	2	444	23	17	33	25	1.96
2045986--2046495	156	3.3	154	77	3	531	24	16	33	25	1.96
2047848--2048177	75	4.4	75	78	3	281	25	17	24	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2047995--2048231	75	3.1	76	77	7	191	29	14	23	32	1.94
2049527--2049554	2	14.0	2	100	0	56	0	50	0	50	1.00
2050581--2050617	2	18.5	2	100	0	74	0	0	48	51	1.00
2056773--2056904	52	2.5	52	83	2	176	46	11	13	28	1.77
2061033--2061075	22	1.9	22	85	4	59	46	2	2	48	1.27
2061739--2061776	11	3.5	11	96	0	67	34	0	0	65	0.93
2061750--2061806	17	3.4	17	80	4	62	42	0	1	56	1.10
2061848--2061889	18	2.3	19	91	4	68	33	7	0	59	1.25
2061854--2061897	18	2.5	17	78	10	52	31	6	0	61	1.22
2062214--2062255	16	2.7	15	79	13	50	54	0	0	45	0.99

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