genome.fa.s189.2.7.7.80.10.50.1000.8.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: Scaffold189
Parameters: 2 7 7 80 10 50 1000
Length:  2243555

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 1067 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)
1830492--1830707	34	6.4	34	85	5	278	40	27	7	24	1.83
1830490--1830707	67	3.2	67	88	1	319	40	27	7	24	1.82
1838402--1838444	21	2.0	21	90	0	68	32	2	4	60	1.30
1838813--1838883	34	2.1	34	91	0	115	42	32	0	25	1.55
1843558--1843673	34	3.4	34	79	5	117	39	33	0	25	1.62
1843628--1843674	23	2.1	22	84	7	60	40	38	2	19	1.63
1852180--1852220	2	20.5	2	84	0	55	43	2	0	53	1.13
1852337--1852370	13	2.7	13	90	4	52	47	0	2	50	1.16
1856204--1856234	2	15.5	2	93	0	53	48	0	0	51	1.00
1865326--1865394	34	2.0	34	100	0	138	39	11	8	40	1.72
1866097--1866144	24	2.0	24	100	0	96	54	16	16	12	1.72
1867306--1867367	32	1.9	32	90	6	99	40	1	3	54	1.26
1867380--1867418	19	2.1	19	85	9	53	23	0	0	76	0.78
1867380--1867418	14	2.8	14	85	11	53	23	0	0	76	0.78
1867776--1867813	18	2.1	19	85	9	53	47	2	0	50	1.15
1870038--1870065	3	9.3	3	100	0	56	67	0	0	32	0.91
1877292--1877355	26	2.5	26	82	9	80	42	4	1	51	1.32
1877292--1877355	25	2.6	25	82	9	78	42	4	1	51	1.32
1877358--1877407	19	2.6	19	84	6	57	62	12	2	24	1.40
1881884--1881922	18	2.2	18	90	0	60	43	5	33	17	1.72
1888642--1888667	6	4.3	6	100	0	52	30	0	0	69	0.89
1888696--1888725	13	2.3	13	94	0	51	73	0	0	26	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1888738--1888785	15	3.4	14	83	13	62	52	0	0	47	1.00
1888703--1888827	55	2.3	53	86	4	162	51	0	0	48	1.06
1888791--1888825	16	2.3	15	90	5	52	40	0	0	60	0.97
1888735--1888827	14	6.6	14	70	14	57	47	0	0	52	1.00
1888904--1888935	3	10.7	3	93	0	55	68	0	31	0	0.90
1892184--1892263	29	2.8	29	80	3	90	48	3	3	43	1.38
1896140--1896168	2	14.5	2	100	0	58	48	0	0	51	1.00
1898897--1898931	2	17.5	2	100	0	70	48	0	0	51	1.00
1899757--1899787	2	15.5	2	93	0	53	48	0	3	48	1.17
1903187--1903235	19	2.5	19	76	3	53	55	0	2	42	1.11
1907498--1907547	19	2.7	18	81	9	55	22	18	2	58	1.49
1910761--1910793	16	2.1	16	94	0	57	45	18	12	24	1.83
1912331--1912383	24	2.2	24	79	0	61	11	37	9	41	1.73
1914572--1914611	21	2.0	21	85	5	55	25	15	27	32	1.95
1920494--1920518	5	5.0	5	100	0	50	20	40	20	20	1.92
1920939--1920973	12	2.8	13	86	8	54	74	0	14	11	1.08
1921161--1921188	3	9.3	3	100	0	56	67	0	0	32	0.91
1923683--1923746	31	2.0	31	82	8	76	50	15	17	17	1.79
1936989--1937037	24	2.0	24	92	0	80	18	40	4	36	1.70
1937824--1937864	2	20.5	2	100	0	82	0	48	0	51	1.00
1941816--1941856	2	20.5	2	100	0	82	48	0	0	51	1.00
1945714--1945785	2	36.0	2	82	0	81	50	9	0	40	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1946816--1946864	18	2.7	17	75	12	53	51	0	2	46	1.12
1947806--1947845	3	13.3	3	100	0	80	65	0	35	0	0.93
1949378--1949404	2	13.5	2	100	0	54	51	0	0	48	1.00
1949854--1949889	2	17.5	2	88	5	54	44	2	0	52	1.15
1953511--1953542	3	11.0	3	93	6	57	65	0	0	34	0.93
1954001--1954034	3	11.3	3	100	0	68	32	0	0	67	0.91
1954077--1954146	29	2.4	29	83	7	88	45	1	11	41	1.49
1956331--1956356	2	13.0	2	100	0	52	50	0	0	50	1.00
1957977--1958027	15	3.5	14	84	7	57	37	5	9	47	1.61
1958004--1958043	14	2.8	14	88	11	55	42	12	7	37	1.71
1977459--1977700	78	3.0	77	86	4	313	17	30	23	29	1.97
1977468--1977714	84	3.0	83	86	5	344	17	30	23	28	1.97
1983670--1983800	32	4.2	31	78	11	106	51	4	2	41	1.35
1983814--1983858	20	2.2	20	84	11	56	37	0	2	60	1.09
1983896--1983934	18	2.2	18	90	4	62	48	0	0	51	1.00
1983900--1983961	28	2.2	30	75	21	71	53	1	0	45	1.10
1989263--1989306	21	2.2	20	91	4	70	47	0	0	52	1.00
1992209--1992234	2	13.0	2	100	0	52	50	0	0	50	1.00
1993752--1993785	13	2.8	12	86	8	50	35	0	0	64	0.94
1994675--1994736	17	3.8	16	75	16	56	37	1	3	58	1.24
1994675--1994875	16	12.0	16	73	14	81	36	0	3	58	1.21
1994825--1994877	6	8.5	6	83	8	70	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1994823--1994885	19	3.3	19	97	2	117	42	0	0	57	0.99
1994819--1994873	13	4.5	12	82	8	58	41	0	0	58	0.98
1994825--1994877	25	2.1	25	86	6	72	39	0	0	60	0.97
1995015--1995040	11	2.4	11	100	0	52	50	0	0	50	1.00
1996948--1997018	15	4.5	16	75	10	65	32	5	2	59	1.35
1999522--1999546	2	12.5	2	100	0	50	52	0	0	48	1.00
2000958--2001003	23	2.0	23	100	0	92	39	13	21	26	1.90
2001099--2001166	23	3.0	23	80	6	66	54	5	1	38	1.34
2001252--2001299	24	2.0	24	91	0	78	60	6	2	31	1.33
2001245--2001297	24	2.4	22	76	14	54	64	5	1	28	1.27
2006082--2006125	15	2.9	15	83	13	54	61	0	0	38	0.96
2011018--2011046	6	4.8	6	100	0	58	17	17	34	31	1.93
2014566--2014591	6	4.3	6	100	0	52	30	15	19	34	1.93
2015791--2015859	12	5.4	13	71	25	58	27	2	2	66	1.20
2016164--2016226	32	1.9	33	84	9	85	38	3	3	55	1.32
2018516--2018555	19	2.1	19	100	0	80	40	15	25	20	1.90
2018800--2018824	6	4.2	6	100	0	50	84	0	16	0	0.63
2020423--2020449	6	4.5	6	100	0	54	70	14	14	0	1.17
2023444--2023483	3	13.3	3	94	0	71	65	2	0	32	1.06
2023725--2023757	3	11.0	3	100	0	66	33	0	0	66	0.92
2024036--2024069	7	4.9	7	89	10	52	82	0	0	17	0.67
2024033--2024063	13	2.4	13	100	0	62	83	0	0	16	0.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2024204--2024241	19	2.1	18	85	14	51	36	0	2	60	1.11
2025228--2025291	24	2.6	25	82	9	78	62	0	6	31	1.20
2031299--2031329	15	2.0	15	93	6	53	0	6	3	90	0.55
2032917--2032996	38	2.1	38	97	0	151	28	11	26	33	1.91
2033662--2033696	2	17.5	2	100	0	70	51	0	0	48	1.00
2043388--2043422	2	17.5	2	100	0	70	51	0	48	0	1.00
2045851--2045880	2	15.0	2	92	0	51	53	0	46	0	1.00
2047029--2047068	4	10.0	4	83	0	53	25	30	27	17	1.97
2047334--2047369	6	5.8	6	90	3	54	47	0	0	52	1.00
2048940--2048991	19	2.8	18	78	16	54	32	0	1	65	1.04
2048918--2048981	24	2.7	24	75	2	58	34	3	1	60	1.22
2048940--2048985	19	2.4	19	85	7	58	32	0	2	65	1.05
2049663--2049695	2	16.5	2	100	0	66	51	0	0	48	1.00
2054143--2054188	21	2.1	22	84	4	58	19	30	19	30	1.97
2056641--2056686	20	2.3	20	84	0	56	32	4	52	10	1.56
2056743--2056802	25	2.4	25	97	0	111	46	13	5	35	1.65
2062245--2062279	4	8.8	4	93	0	61	22	0	28	48	1.51
2063550--2063582	7	4.7	7	96	0	57	15	15	54	15	1.71
2066212--2066246	3	11.7	3	100	0	70	68	31	0	0	0.90
2067562--2067598	2	18.5	2	100	0	74	51	48	0	0	1.00
2069103--2069152	25	2.0	25	92	0	82	54	6	14	26	1.63
2072883--2072910	13	2.2	13	100	0	56	39	28	7	25	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2083511--2083540	2	15.0	2	92	0	51	50	3	0	46	1.18
2090221--2090247	3	9.0	3	100	0	54	33	0	0	66	0.92
2091956--2092003	20	2.2	22	85	10	64	64	4	8	22	1.38
2096370--2096399	2	15.0	2	92	0	51	46	0	0	53	1.00
2096370--2096407	12	3.2	12	92	0	58	42	0	2	55	1.14
2102858--2103072	112	1.9	112	85	3	299	37	15	14	32	1.88
2110780--2110821	16	2.7	16	85	3	50	76	0	21	2	0.90
2112641--2112675	2	17.5	2	93	0	61	45	2	0	51	1.16
2120026--2120061	6	6.3	6	87	12	58	33	0	66	0	0.92
2120028--2120061	10	3.2	10	91	8	50	32	0	67	0	0.91

Tables:   1   2   3   4   5   6   7   8   9