genome.fa.s132.2.7.7.80.10.50.1000.12.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: Scaffold132
Parameters: 2 7 7 80 10 50 1000
Length:  2458301

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

This is table  12  of  15  ( 1722 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)
1888227--1888280	27	2.1	25	89	6	81	51	1	0	46	1.11
1888223--1888264	21	2.0	21	81	9	50	50	2	0	47	1.14
1889551--1889590	19	2.2	19	90	4	64	67	0	0	32	0.91
1893899--1893939	20	2.0	21	85	9	57	58	4	2	34	1.32
1895578--1895622	21	2.1	23	88	12	69	51	0	0	48	1.00
1898179--1898234	27	2.2	24	78	9	58	62	3	1	32	1.23
1905935--1905979	3	15.0	3	95	0	81	66	2	0	31	1.04
1907133--1907176	22	2.0	22	86	8	63	38	0	0	61	0.96
1907715--1907750	3	12.3	3	91	5	56	63	2	0	33	1.08
1908066--1908120	18	2.9	19	81	13	69	50	5	0	43	1.25
1908681--1908719	14	2.9	14	92	3	62	30	0	0	69	0.89
1909038--1909078	20	2.2	20	86	8	59	48	7	0	43	1.30
1912388--1912421	17	2.0	17	88	0	50	32	0	2	64	1.08
1912405--1912434	13	2.2	13	94	5	51	30	0	0	70	0.88
1912421--1912457	18	1.9	19	89	10	58	51	0	0	48	1.00
1915162--1915208	22	2.0	24	84	8	62	57	0	0	42	0.98
1915163--1915208	14	3.1	15	78	18	51	56	0	0	43	0.99
1919730--1919756	3	9.0	3	100	0	54	33	0	0	66	0.92
1922821--1922866	15	3.0	15	78	6	56	30	0	0	69	0.89
1922812--1922863	19	2.8	18	77	8	52	32	0	0	67	0.91
1924692--1924758	32	2.2	30	81	10	73	41	2	7	47	1.47
1927433--1927505	22	3.6	21	71	19	57	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1928505--1928571	19	3.2	21	76	20	68	31	0	0	68	0.90
1928505--1928558	10	5.0	11	77	8	58	29	0	0	70	0.88
1932382--1932581	68	3.2	63	77	14	173	52	0	2	45	1.18
1932408--1932494	22	4.2	21	66	21	58	49	0	1	49	1.08
1932411--1932581	68	2.7	63	79	14	181	50	0	2	46	1.21
1932467--1932570	34	3.2	31	67	16	75	49	0	2	47	1.23
1933311--1933382	37	2.0	36	86	2	99	29	6	4	59	1.42
1933949--1933976	3	9.3	3	100	0	56	67	0	32	0	0.91
1938345--1938397	26	2.0	27	96	3	99	47	11	3	37	1.58
1938442--1938512	28	2.6	28	76	10	67	56	2	0	40	1.14
1941836--1941882	16	2.9	16	78	9	51	55	2	0	42	1.12
1941874--1941921	2	24.0	2	100	0	96	50	0	0	50	1.00
1944093--1944119	2	13.5	2	100	0	54	51	0	0	48	1.00
1944103--1944171	26	2.7	26	78	13	79	47	10	5	36	1.61
1947251--1947307	15	3.6	15	77	17	62	35	0	0	64	0.93
1948843--1948883	22	1.9	21	90	5	64	65	17	0	17	1.27
1949024--1949088	20	3.2	20	80	0	76	40	4	0	55	1.21
1951304--1951565	141	1.9	141	92	0	443	26	15	22	35	1.94
1960545--1960601	24	2.5	22	76	15	62	52	0	0	47	1.00
1960559--1960603	16	2.7	17	75	6	56	55	0	0	44	0.99
1963132--1963165	13	2.8	12	86	8	50	35	0	0	64	0.94
1965321--1965364	23	1.9	23	90	0	70	81	0	2	15	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1965331--1965368	16	2.4	16	95	0	67	84	0	0	15	0.63
1965457--1965506	19	2.5	20	83	9	66	42	14	14	30	1.84
1967941--1968084	51	2.8	51	84	4	175	31	27	9	31	1.88
1968020--1968502	79	6.2	79	85	4	644	27	27	13	31	1.94
1968067--1968502	155	2.8	153	90	5	671	27	27	13	32	1.94
1970172--1970204	2	17.0	2	87	6	50	48	3	0	48	1.17
1970244--1970276	2	16.5	2	93	0	57	45	0	3	51	1.16
1971150--1971196	20	2.3	20	78	10	51	51	0	2	46	1.13
1971935--1971967	14	2.4	14	94	0	57	39	6	0	54	1.25
1974539--1974568	13	2.4	12	89	10	51	0	0	10	90	0.47
1978771--1978849	28	2.9	26	73	16	70	50	0	0	49	1.00
1980041--1980081	2	21.0	2	90	5	66	46	0	2	51	1.14
1981807--1981891	38	2.2	39	83	10	113	44	0	2	52	1.13
1981907--1981933	12	2.2	12	100	0	54	55	7	0	37	1.28
1984386--1984432	13	3.5	14	80	8	53	0	10	6	82	0.82
1984386--1984440	13	4.1	13	76	21	51	1	9	7	81	0.93
1984392--1984425	18	1.9	17	88	5	50	0	5	8	85	0.75
1989665--1989713	2	24.5	2	83	8	64	48	4	2	44	1.33
1991519--1991563	2	22.5	2	100	0	90	48	0	0	51	1.00
1992669--1992706	12	3.2	12	85	7	51	47	0	0	52	1.00
1992668--1992702	12	2.8	13	86	4	54	42	0	0	57	0.99
1993791--1993860	34	1.9	35	83	13	88	55	0	4	40	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1993811--1993857	16	2.8	17	74	9	51	55	0	4	40	1.19
1994479--1994540	21	2.9	21	80	11	72	45	0	4	50	1.23
1995651--1995681	13	2.4	13	94	0	53	41	3	0	54	1.16
1995674--1995708	12	2.7	13	91	8	54	45	0	0	54	0.99
1998208--1998262	8	6.9	8	93	0	92	41	0	7	50	1.30
1998208--1998262	24	2.3	24	100	0	110	41	0	7	50	1.30
2003027--2003070	22	2.0	22	95	0	79	31	15	13	38	1.87
2003196--2003345	74	2.0	74	94	0	264	27	18	14	40	1.89
2004092--2004141	21	2.4	20	86	6	64	56	0	4	40	1.18
2004985--2005049	22	3.0	21	71	20	55	56	0	0	43	0.99
2010229--2010281	23	2.3	24	78	15	58	43	7	3	45	1.50
2026256--2026288	2	16.5	2	100	0	66	48	0	0	51	1.00
2027972--2027997	3	8.7	3	100	0	52	30	0	0	69	0.89
2028501--2028577	40	1.9	41	84	12	106	58	0	1	40	1.06
2028539--2028594	17	3.3	16	77	22	53	57	0	0	42	0.99
2028548--2028584	16	2.2	17	90	4	58	62	0	0	37	0.96
2028491--2028589	40	2.5	40	77	11	105	57	0	1	41	1.05
2029107--2029157	13	4.0	13	71	5	50	66	0	5	27	1.14
2030593--2030634	16	2.6	16	92	0	66	42	2	0	54	1.13
2031113--2031153	2	20.5	2	94	0	73	48	0	2	48	1.14
2031745--2031828	2	43.0	2	83	9	93	48	0	3	47	1.19
2032031--2032285	139	1.9	136	96	2	474	56	7	11	24	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2032584--2032616	15	2.1	16	88	5	50	51	0	0	48	1.00
2035795--2035864	24	2.8	25	89	6	99	44	25	8	21	1.80
2035849--2035919	27	2.6	27	88	6	99	46	23	7	22	1.76
2035797--2035922	24	4.9	24	77	12	92	46	25	7	21	1.77
2040389--2040458	24	2.8	25	89	6	99	44	25	8	21	1.80
2040443--2040513	27	2.6	27	88	6	99	46	23	7	22	1.76
2040391--2040516	24	4.9	24	77	12	92	46	25	7	21	1.77
2044954--2045005	9	5.4	10	78	13	56	80	0	11	7	0.89
2046647--2046692	11	4.4	11	81	10	60	19	0	4	76	0.96
2046650--2046692	20	2.2	20	100	0	86	18	0	4	76	0.95
2049618--2049687	32	2.2	32	86	0	95	37	12	12	37	1.82
2050961--2050987	3	9.0	3	100	0	54	66	0	0	33	0.92
2052710--2052749	9	4.2	9	87	6	53	25	0	7	67	1.16
2053249--2053334	43	2.0	43	86	8	122	53	0	0	46	1.00
2053249--2053348	43	2.3	42	83	10	121	53	0	0	47	1.00
2053404--2053454	19	2.7	19	81	6	68	52	1	0	45	1.12
2054011--2054035	13	1.9	13	100	0	50	52	0	0	48	1.00
2054210--2054255	23	2.0	25	87	12	71	54	0	0	45	0.99
2055149--2055182	17	1.9	17	94	5	59	52	0	0	47	1.00
2055373--2055448	40	1.9	40	97	0	143	32	17	25	25	1.96
2055895--2055942	18	2.8	18	90	6	73	31	0	6	62	1.20
2055913--2055959	22	2.2	22	85	11	62	34	0	4	61	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2055958--2056040	28	3.2	26	80	11	89	61	0	3	34	1.13
2055961--2056018	28	2.0	29	90	3	91	62	0	3	34	1.12
2055993--2056040	24	2.0	25	84	12	64	62	0	4	33	1.14
2055969--2056057	38	2.3	39	77	14	94	59	0	4	35	1.18
2058203--2058231	11	2.7	11	94	5	51	65	0	6	27	1.18
2059225--2059273	25	2.0	25	88	4	73	53	0	0	46	1.00
2059644--2059742	50	2.0	50	100	0	198	47	16	2	34	1.58
2059772--2059876	35	3.0	34	78	10	97	44	0	0	54	1.06
2059848--2059887	21	1.9	21	90	10	64	60	0	0	40	0.97
2062154--2062183	15	2.1	14	93	6	51	70	0	0	30	0.88

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