genome.fa.s173.2.7.7.80.10.50.1000.15.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: Scaffold173
Parameters: 2 7 7 80 10 50 1000
Length:  2040036

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  15  of  16  ( 1814 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)
1922578--1922725	59	2.5	58	80	11	151	54	2	4	38	1.33
1923385--1923467	22	3.8	21	74	17	80	43	0	0	56	0.99
1923388--1923468	33	2.5	33	77	0	90	44	0	0	55	0.99
1923440--1923500	32	1.9	32	83	6	79	52	1	0	45	1.10
1928047--1928086	17	2.4	16	84	12	53	40	5	2	52	1.37
1928503--1928531	14	2.1	14	93	6	51	31	0	0	68	0.89
1928712--1928751	20	2.0	20	95	0	71	47	5	5	42	1.47
1931864--1931906	21	2.1	21	91	4	70	27	0	6	65	1.18
1931939--1931968	16	1.9	15	93	6	51	80	0	0	20	0.72
1932342--1932399	30	1.9	31	86	10	84	44	0	0	55	0.99
1933098--1933195	16	5.9	16	71	14	65	44	2	1	52	1.19
1935147--1935192	21	2.2	20	84	3	56	52	4	0	43	1.21
1935387--1935482	31	3.1	31	75	16	92	45	1	1	52	1.14
1936214--1936336	14	8.8	14	73	16	78	38	0	0	60	1.02
1936229--1936279	20	2.6	19	79	11	50	41	1	0	56	1.10
1936208--1936337	49	2.6	50	77	14	135	38	0	0	60	1.02
1938341--1938382	11	3.7	11	79	17	50	50	2	0	47	1.14
1939380--1939411	5	6.2	5	92	7	55	18	0	0	81	0.70
1939380--1939413	16	2.1	16	100	0	68	20	0	0	79	0.73
1941147--1941187	11	3.7	11	83	0	55	26	0	14	58	1.37
1941142--1941196	22	2.6	20	72	13	56	29	0	12	58	1.35
1943496--1943529	16	2.0	17	88	11	52	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)
1943751--1943776	2	13.0	2	100	0	52	50	0	0	50	1.00
1944209--1944252	18	2.3	19	80	15	54	47	2	0	50	1.13
1944215--1944252	18	2.1	18	90	5	58	47	0	0	52	1.00
1944739--1944818	2	39.5	2	71	7	54	45	7	3	43	1.50
1946259--1946317	30	2.0	30	83	6	75	55	0	3	40	1.16
1946418--1946474	28	2.0	28	86	6	80	54	3	0	42	1.17
1946710--1946740	16	1.9	16	93	0	53	12	9	19	58	1.62
1947500--1947588	32	2.8	32	92	0	142	47	6	5	40	1.54
1949834--1949866	15	2.1	16	88	5	50	36	0	9	54	1.32
1950366--1950436	33	2.1	35	84	5	92	57	1	4	36	1.27
1950773--1950807	13	2.6	14	86	13	56	57	0	0	42	0.99
1951028--1951076	15	3.2	15	75	16	55	53	2	2	42	1.24
1952831--1952914	14	5.4	14	70	24	62	40	1	1	57	1.14
1952812--1952924	16	7.1	15	69	22	54	42	0	0	55	1.12
1952876--1952927	14	3.5	15	79	10	54	44	0	0	55	0.99
1953675--1953743	24	3.0	24	70	14	56	49	1	0	49	1.09
1954499--1954565	29	2.3	29	80	14	77	49	0	0	50	1.00
1954662--1954701	19	2.3	16	87	12	53	70	0	0	30	0.88
1954952--1955011	5	12.0	5	72	13	52	30	0	5	65	1.14
1954947--1955004	27	2.2	27	87	9	84	25	0	5	68	1.10
1955950--1955996	24	2.0	23	84	12	60	59	4	4	31	1.36
1957272--1957296	13	1.9	13	100	0	50	56	0	8	36	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1960186--1960246	13	4.6	14	82	12	67	62	0	0	37	0.96
1960213--1960247	12	2.8	12	91	4	52	62	0	0	37	0.95
1960229--1960269	19	2.1	20	86	4	57	56	2	0	41	1.13
1960229--1960270	18	2.2	20	83	8	52	57	2	0	40	1.12
1960366--1960405	21	1.9	21	89	0	62	57	0	5	37	1.21
1962539--1962588	17	3.1	16	71	21	50	52	6	0	42	1.26
1962510--1963038	266	2.0	266	90	0	835	46	10	5	37	1.62
1963415--1963461	21	2.4	19	82	10	58	48	0	0	51	1.00
1963662--1963708	8	5.6	8	76	18	51	59	0	0	40	0.97
1963608--1963717	18	5.9	19	68	20	63	56	0	0	42	1.05
1963641--1963718	27	2.8	28	81	14	83	56	0	0	43	0.99
1963662--1963724	19	3.6	18	80	8	67	58	0	1	39	1.07
1963936--1963977	16	2.7	16	88	3	59	66	0	0	33	0.92
1963938--1964011	24	3.2	24	80	14	75	60	1	0	37	1.05
1963938--1963989	6	9.0	6	79	12	56	65	0	0	34	0.93
1965186--1965259	29	2.6	29	91	0	121	24	14	25	35	1.94
1966041--1966084	5	8.6	5	92	2	61	38	0	4	56	1.20
1966095--1966123	15	2.0	15	93	6	51	58	0	0	41	0.98
1966095--1966135	15	2.8	15	82	10	50	51	2	0	46	1.14
1966114--1966166	22	2.4	21	84	9	70	47	1	0	50	1.12
1966162--1966219	15	3.7	16	78	17	59	56	0	0	43	0.99
1966152--1966219	32	2.2	32	83	2	84	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1966174--1966233	10	5.8	10	75	11	50	53	1	1	43	1.20
1967459--1967555	31	3.1	32	82	8	110	58	1	1	39	1.12
1967504--1967595	31	3.0	29	81	10	78	54	1	1	43	1.14
1967547--1967586	20	2.0	20	85	0	53	62	0	0	37	0.95
1967751--1967794	22	2.1	22	83	8	56	27	0	2	70	0.99
1968646--1968678	2	16.5	2	100	0	66	51	0	0	48	1.00
1969154--1969220	16	4.2	16	75	17	59	56	0	0	43	0.99
1969133--1969210	32	2.4	32	85	6	104	57	1	1	39	1.15
1970985--1971014	9	3.3	9	95	0	51	86	0	3	10	0.67
1971374--1971449	31	2.5	31	82	6	93	30	5	7	56	1.50
1971856--1971902	16	2.9	16	79	14	53	68	2	0	29	1.02
1973097--1973196	36	2.9	32	77	12	83	57	0	0	43	0.99
1973119--1973196	9	8.8	9	71	20	58	56	0	0	43	0.99
1973118--1973214	28	3.5	27	78	13	83	57	0	1	41	1.05
1973141--1973214	28	2.6	29	80	18	91	58	0	1	40	1.07
1973185--1973209	13	1.9	13	100	0	50	56	0	4	40	1.18
1973045--1973214	20	8.4	20	69	21	81	56	0	2	40	1.16
1974564--1974599	18	2.1	18	89	5	56	47	8	0	44	1.33
1978803--1978917	41	2.8	41	88	5	153	56	0	3	39	1.22
1979373--1979422	18	2.7	18	87	9	66	42	2	2	54	1.23
1979712--1979752	21	1.9	21	85	14	57	58	2	0	39	1.11
1979806--1979841	12	2.8	13	91	4	56	52	8	0	38	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1979808--1979841	13	2.8	12	90	4	50	55	5	0	38	1.24
1981445--1981499	17	3.4	17	72	25	55	56	1	0	41	1.10
1981517--1981556	19	2.2	19	95	4	73	65	5	0	30	1.14
1982921--1982954	3	11.3	3	100	0	68	64	0	0	35	0.94
1983674--1983713	20	2.0	21	90	5	64	52	5	5	37	1.45
1984073--1984116	22	1.9	24	90	9	74	45	4	4	45	1.44
1984111--1984153	11	3.8	11	87	12	61	27	2	0	69	1.00
1984109--1984166	17	3.5	16	80	15	57	31	1	0	67	1.01
1989414--1989455	16	2.7	15	85	10	57	52	0	0	47	1.00
1989417--1989451	17	2.1	17	89	10	54	51	0	0	48	1.00
1989414--1989455	15	2.9	15	82	7	50	52	0	0	47	1.00
1990088--1990119	16	2.1	16	88	11	50	50	3	0	46	1.17
1990086--1990130	17	2.5	19	75	13	51	48	2	0	48	1.13
1997167--1997345	90	2.0	90	100	0	358	35	25	15	23	1.94
1999899--1999947	22	2.3	21	89	6	73	67	6	6	20	1.35
2000847--2000921	20	3.8	20	80	3	80	40	12	13	34	1.81
2000844--2000921	40	2.0	39	87	2	111	39	12	12	34	1.82
2005009--2005040	13	2.5	13	94	0	55	62	3	0	34	1.11
2005035--2005071	12	3.2	12	88	11	60	64	0	0	35	0.94
2005137--2005177	16	2.5	17	81	14	50	63	0	0	36	0.95
2005445--2005514	5	14.2	5	72	14	56	54	2	2	40	1.30
2006116--2006175	20	3.2	17	80	17	59	41	0	1	56	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2006106--2006175	21	3.5	20	86	5	79	40	0	1	58	1.07
2007072--2007108	6	6.2	6	90	9	58	48	2	0	48	1.15
2007072--2007108	17	2.1	18	90	10	58	48	2	0	48	1.15
2007136--2007175	20	2.0	21	90	5	64	40	2	0	57	1.12
2007240--2007265	12	2.2	12	100	0	52	19	15	7	57	1.62
2008385--2008433	16	3.1	15	80	14	55	42	0	2	55	1.11
2008421--2008469	21	2.3	22	75	3	55	42	0	0	57	0.99
2013877--2013932	22	2.5	23	97	2	105	62	8	10	17	1.52
2014843--2014917	20	3.8	20	78	3	71	40	13	13	33	1.83
2014840--2014917	40	2.0	39	84	2	102	39	14	12	33	1.84

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16