genome.fa.s59.2.7.7.80.10.50.1000.12.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: Scaffold59
Parameters: 2 7 7 80 10 50 1000
Length:  3999109

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   

This is table  12  of  25  ( 2913 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)
1876816--1876865	4	12.5	4	91	0	55	44	10	0	46	1.37
1876816--1876865	10	5.0	10	80	0	55	44	10	0	46	1.37
1878655--1878698	15	2.9	15	82	3	52	38	0	2	59	1.10
1878661--1878713	27	2.0	27	82	14	65	45	0	1	52	1.11
1878688--1878774	10	8.4	10	71	16	52	49	0	0	50	1.00
1878720--1878805	22	4.2	21	73	14	72	51	0	0	48	1.00
1878736--1878774	20	1.9	20	94	5	69	51	0	0	48	1.00
1878723--1878805	30	2.8	30	77	12	89	50	0	0	49	1.00
1879133--1879184	16	3.2	17	82	17	58	48	0	0	51	1.00
1879144--1879198	16	3.5	15	81	16	51	49	0	0	50	1.00
1879761--1879814	18	3.0	19	82	15	62	53	0	0	46	1.00
1880010--1880060	27	1.9	26	84	11	68	41	0	0	58	0.98
1880030--1880064	16	2.2	16	89	0	52	37	0	0	62	0.95
1880082--1880160	24	3.2	24	78	10	81	34	2	0	63	1.08
1880427--1880469	21	2.0	22	90	4	70	48	2	0	48	1.14
1881750--1881795	12	3.8	12	82	5	56	56	13	0	30	1.37
1886862--1886932	20	3.5	20	70	16	56	52	0	1	46	1.09
1890549--1890583	18	1.9	17	88	11	52	40	0	0	60	0.97
1897494--1897538	23	2.1	22	84	15	60	42	0	2	55	1.12
1898317--1898361	20	2.2	20	88	0	63	62	0	0	37	0.96
1898332--1898417	37	2.4	34	76	16	86	52	0	1	46	1.08
1898360--1898429	37	1.9	36	82	8	88	54	0	1	44	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1899358--1899390	15	2.2	15	89	10	50	27	3	0	69	1.03
1899360--1899409	12	4.5	11	76	19	50	34	4	0	62	1.14
1900572--1900621	19	2.7	18	85	14	66	58	0	0	42	0.98
1900692--1900726	9	3.7	9	92	7	52	40	0	0	60	0.97
1901090--1901178	27	3.4	27	77	13	89	47	2	3	47	1.31
1901100--1901171	23	3.0	23	82	10	72	45	1	4	48	1.30
1901232--1901296	27	2.4	27	78	17	73	56	1	0	41	1.08
1901503--1901613	18	5.7	18	66	26	57	61	0	0	37	1.02
1901492--1901598	28	3.7	28	68	19	76	60	0	0	38	1.03
1901559--1901619	23	2.8	22	78	9	72	65	0	0	34	0.93
1901559--1901624	21	3.1	20	80	10	69	65	1	0	33	1.02
1902738--1902788	23	2.2	23	82	10	59	50	5	3	39	1.45
1905213--1905281	27	2.5	28	88	6	106	36	13	27	23	1.92
1909065--1909108	17	2.5	18	85	10	56	68	4	2	25	1.20
1909288--1909351	24	3.0	20	75	18	56	64	1	1	32	1.13
1909734--1909796	29	2.2	28	80	2	72	39	1	0	58	1.07
1910086--1910146	21	2.9	21	71	24	56	50	0	0	49	1.00
1911965--1911994	13	2.2	14	94	5	53	70	0	3	26	1.03
1913773--1913859	43	2.0	43	88	0	129	40	10	11	37	1.76
1913800--1914299	165	3.0	165	98	0	973	36	9	8	45	1.68
1914643--1914677	4	8.8	4	93	0	61	74	2	0	22	0.95
1915444--1915478	3	12.0	3	87	6	54	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1915472--1915538	33	2.0	34	82	2	82	50	2	1	44	1.26
1915518--1915555	20	1.9	20	88	0	58	50	0	0	50	1.00
1916100--1916161	22	2.8	22	80	9	72	41	1	0	56	1.09
1917410--1917451	18	2.2	20	87	12	61	7	9	66	16	1.42
1918792--1918823	2	16.0	2	100	0	64	50	0	0	50	1.00
1919124--1919198	22	3.2	22	67	26	55	62	4	9	24	1.42
1919107--1919201	48	2.0	47	93	2	163	62	4	11	22	1.46
1920416--1920454	16	2.4	16	91	4	60	46	2	0	51	1.14
1921835--1921873	17	2.3	17	86	8	53	43	0	0	56	0.99
1921810--1921873	9	7.9	9	70	22	52	42	0	0	57	0.98
1923504--1923573	18	4.1	18	70	28	62	48	0	1	50	1.09
1923497--1923570	32	2.3	33	86	11	100	48	0	1	50	1.09
1923497--1923570	16	4.6	16	72	23	57	48	0	1	50	1.09
1923686--1923734	18	2.7	18	83	0	62	65	4	2	28	1.22
1927387--1927419	17	1.9	17	93	0	57	24	3	0	72	0.98
1928783--1928836	19	2.6	22	86	13	71	57	0	0	42	0.98
1930936--1931021	42	2.1	41	87	8	122	31	20	2	45	1.64
1935221--1935285	18	3.6	19	72	12	57	55	0	0	44	0.99
1936868--1936913	23	2.0	22	83	4	56	39	4	0	56	1.19
1936957--1936999	15	2.8	16	79	10	54	39	0	0	60	0.97
1939673--1939792	5	24.2	5	71	13	54	54	1	0	43	1.16
1939737--1939801	32	2.1	31	85	2	85	56	1	0	41	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1940307--1940331	2	12.5	2	100	0	50	52	0	0	48	1.00
1943799--1943860	31	2.0	31	100	0	124	61	12	9	16	1.56
1946655--1946704	17	3.1	16	78	16	59	42	2	0	56	1.11
1946673--1946716	17	2.5	17	85	7	52	45	0	0	54	0.99
1947162--1947198	12	3.2	12	77	14	51	51	18	0	29	1.47
1947170--1947204	18	1.9	18	94	0	61	51	25	0	22	1.48
1947164--1947205	22	1.9	22	90	0	66	50	26	0	23	1.50
1947246--1947291	20	2.6	17	80	19	51	71	0	0	28	0.86
1947260--1947288	14	2.0	15	93	6	51	75	0	0	24	0.80
1949819--1949849	2	15.5	2	93	0	53	54	0	45	0	0.99
1950937--1951001	17	4.0	17	76	23	61	58	0	0	41	0.98
1950974--1951027	22	2.5	21	80	11	56	61	0	0	38	0.96
1951117--1951182	21	3.2	20	84	4	69	43	0	1	54	1.09
1952953--1953009	23	2.5	24	80	5	64	50	0	0	49	1.00
1953326--1953364	7	5.6	7	93	0	60	0	2	23	74	0.94
1953460--1953517	24	2.5	23	77	5	62	68	1	1	27	1.08
1953822--1953882	21	3.0	20	79	15	65	62	0	1	36	1.05
1953842--1953898	28	2.0	28	86	6	80	57	0	1	40	1.09
1954210--1954244	18	2.1	17	89	10	54	31	8	0	60	1.27
1954376--1954420	18	2.4	18	85	3	54	55	0	0	44	0.99
1954402--1954454	15	3.5	15	76	0	52	54	1	0	43	1.11
1954436--1954482	24	2.0	25	83	8	62	59	0	2	38	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1954629--1954656	14	2.0	14	100	0	56	35	0	0	64	0.94
1955091--1955141	21	2.5	20	84	9	68	58	1	0	39	1.09
1955121--1955193	32	2.2	33	83	11	96	52	1	0	46	1.09
1955101--1955165	28	2.5	25	77	18	69	53	1	0	44	1.09
1955449--1955506	10	5.9	10	77	4	55	36	0	0	63	0.94
1955450--1955506	20	2.9	20	84	2	62	36	0	0	63	0.95
1955772--1956076	152	2.0	153	89	2	470	30	7	12	48	1.70
1957960--1957989	13	2.3	13	94	0	51	50	0	0	50	1.00
1958515--1958545	2	15.5	2	93	0	53	45	0	0	54	0.99
1960359--1960386	2	14.0	2	100	0	56	50	0	0	50	1.00
1962530--1962561	15	2.1	15	94	0	55	46	0	0	53	1.00
1962561--1962603	21	2.0	22	81	4	52	39	0	0	60	0.97
1964763--1964898	18	6.9	18	69	23	71	42	0	0	56	1.04
1964764--1964816	26	2.0	26	82	13	65	39	0	0	60	0.97
1964762--1964891	43	3.3	38	78	16	126	43	0	0	56	1.04
1964768--1964841	20	3.5	20	69	16	60	45	0	0	54	1.00
1964790--1964912	57	2.2	57	82	11	146	40	0	0	58	1.04
1964831--1964920	11	7.4	13	67	21	52	38	1	0	60	1.04
1965679--1965715	2	18.5	2	100	0	74	51	0	0	48	1.00
1970468--1970550	14	5.4	14	79	20	94	49	0	0	50	1.00
1970468--1970551	32	2.6	32	100	0	168	48	0	0	51	1.00
1971021--1971072	2	26.5	2	92	3	88	50	0	1	48	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1973803--1974049	123	2.0	123	100	0	494	34	16	12	36	1.87
1976820--1976861	20	2.2	19	83	8	50	73	0	2	23	0.94
1981688--1981751	30	2.1	30	82	5	76	50	0	0	50	1.00
1981705--1981797	43	2.3	41	83	7	109	51	0	0	48	1.00
1981742--1981828	36	2.3	38	80	9	99	54	2	0	43	1.13
1981963--1982028	15	4.4	16	72	18	61	57	0	0	42	0.98
1982860--1982906	21	2.2	23	74	18	55	36	6	6	51	1.53
1982868--1982906	21	1.9	20	89	5	60	33	5	7	53	1.51
1983799--1983860	21	3.0	20	78	17	74	40	1	0	58	1.08
1984911--1984961	13	3.8	13	77	10	50	37	0	0	62	0.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25