genome.fa.s65.2.7.7.80.10.50.1000.9.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: Scaffold65
Parameters: 2 7 7 80 10 50 1000
Length:  3097370

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  9  of  17  ( 1956 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)
1854405--1854490	38	2.3	37	80	6	102	54	0	1	44	1.07
1854754--1854807	26	2.3	23	77	20	58	37	1	5	55	1.34
1855188--1855223	19	1.9	19	88	5	56	19	2	22	55	1.56
1855370--1855419	17	3.1	16	75	13	57	40	0	2	58	1.10
1855691--1855722	15	2.1	15	94	0	55	46	3	0	50	1.17
1856103--1856197	44	2.2	44	94	0	163	27	21	12	38	1.89
1865941--1866014	32	2.4	32	88	4	116	40	8	12	39	1.72
1865941--1866025	32	2.7	32	83	7	104	43	8	10	37	1.69
1881007--1881083	36	2.1	36	82	0	91	35	18	24	22	1.96
1884386--1884419	18	1.9	17	88	5	50	73	0	5	20	1.04
1884544--1884599	24	2.3	24	78	6	60	41	0	1	57	1.09
1884902--1884926	7	3.6	7	100	0	50	32	0	0	68	0.90
1885459--1885505	15	3.2	15	81	6	60	36	2	0	61	1.08
1885698--1885760	30	2.0	32	84	6	85	49	1	0	49	1.10
1885701--1885765	19	3.4	18	72	15	51	44	1	0	53	1.09
1885786--1885830	8	6.0	8	76	23	53	62	0	0	37	0.96
1885787--1885830	15	3.0	15	78	18	56	61	0	0	38	0.96
1886149--1886210	12	5.2	12	84	11	74	67	0	0	32	0.91
1886166--1886284	14	8.3	15	69	20	60	51	0	0	47	1.06
1886825--1886853	15	1.9	15	100	0	58	20	0	0	79	0.74
1886993--1887082	47	2.0	45	82	12	112	52	0	0	47	1.00
1887078--1887135	15	3.8	15	74	17	57	34	1	0	63	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1887640--1887700	21	2.8	22	82	12	72	42	0	0	57	0.98
1887876--1887925	19	2.6	19	80	0	64	38	12	10	40	1.76
1888053--1888089	19	1.9	19	88	0	56	35	0	10	54	1.36
1889020--1889069	24	2.0	25	88	7	75	42	2	4	52	1.31
1893030--1893075	15	3.1	15	93	0	74	26	36	2	34	1.69
1895916--1895969	23	2.3	24	84	15	78	38	0	0	61	0.96
1895928--1895988	7	8.9	7	73	22	58	44	0	0	55	0.99
1896016--1896079	18	3.6	17	76	12	58	45	0	0	54	0.99
1896037--1896083	6	8.0	6	77	13	53	38	0	0	61	0.96
1896033--1896082	25	2.0	25	84	7	66	40	0	0	60	0.97
1895903--1896081	57	3.0	62	69	24	154	44	0	0	54	1.08
1896654--1896730	18	4.3	18	70	18	63	62	0	0	37	0.96
1896673--1896713	20	2.0	20	85	0	55	58	0	0	41	0.98
1896654--1896729	27	2.9	26	70	16	66	63	0	0	36	0.95
1897546--1897601	15	3.7	15	81	9	51	50	0	0	50	1.00
1897568--1897601	5	6.6	5	96	3	59	44	0	0	55	0.99
1897574--1897607	15	2.3	15	89	0	50	41	2	2	52	1.31
1903780--1903809	2	15.5	2	93	6	53	0	46	0	53	1.00
1907835--1907894	30	2.0	30	96	0	111	48	23	8	20	1.76
1909755--1909787	3	11.0	3	100	0	66	0	33	0	66	0.92
1910159--1910184	9	2.9	9	100	0	52	0	0	7	92	0.39
1910158--1910186	9	3.0	10	90	10	51	0	0	10	89	0.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1915711--1915844	64	2.1	65	85	1	180	46	17	6	29	1.74
1920345--1920421	38	2.0	38	100	0	154	38	7	18	35	1.79
1922551--1922588	2	19.0	2	100	0	76	50	0	0	50	1.00
1924744--1924796	14	3.7	14	80	5	61	35	0	0	64	0.94
1924734--1924812	29	2.7	30	73	11	74	46	0	0	53	1.00
1924755--1924796	22	1.9	22	85	9	59	38	0	0	61	0.96
1924739--1924804	29	2.3	29	79	5	82	45	0	0	54	0.99
1924804--1924835	10	3.1	11	86	13	50	62	0	0	37	0.95
1924933--1924987	24	2.3	24	81	9	67	41	1	1	54	1.21
1925179--1925227	24	2.0	24	88	8	71	34	0	4	61	1.15
1925450--1925492	22	1.9	23	86	13	63	34	2	0	62	1.08
1926125--1926158	11	3.0	11	86	4	50	61	8	0	29	1.26
1926930--1926963	17	2.0	17	88	0	50	35	2	0	61	1.11
1928420--1928453	6	5.5	6	89	3	50	61	0	0	38	0.96
1929687--1929723	4	9.5	4	83	16	51	27	0	0	72	0.84
1931265--1931325	20	2.8	21	74	20	63	26	1	8	63	1.31
1931264--1931329	21	3.1	20	71	25	55	25	1	7	65	1.28
1931376--1931441	26	2.4	26	82	10	78	54	1	0	43	1.09
1931447--1931501	14	3.9	15	81	9	55	56	0	0	43	0.99
1938150--1938201	24	2.2	25	82	6	63	51	0	3	44	1.19
1938361--1938414	20	2.7	20	74	5	56	51	0	1	46	1.11
1938881--1938989	12	8.8	12	71	20	50	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1938917--1938989	24	2.9	24	75	15	67	53	0	0	46	1.00
1940291--1940327	15	2.5	15	86	0	56	32	0	0	67	0.91
1940853--1940908	17	3.4	16	79	16	60	42	3	0	53	1.18
1940853--1940921	33	2.2	33	82	10	81	44	5	0	49	1.26
1941178--1941244	33	2.0	33	82	0	80	37	19	11	31	1.88
1944967--1945034	17	4.1	16	72	22	52	39	2	13	44	1.59
1944962--1945029	34	2.1	32	86	10	93	41	1	14	42	1.55
1946680--1946704	2	12.5	2	100	0	50	48	0	0	52	1.00
1947406--1947446	18	2.4	17	88	12	57	70	0	2	26	0.99
1955299--1955360	23	2.7	22	85	5	70	27	0	1	70	0.96
1955302--1955389	11	7.8	12	75	15	64	29	0	1	69	0.96
1955297--1955389	39	2.6	34	79	15	105	30	0	1	68	0.96
1955302--1955365	28	2.3	28	79	12	69	28	0	1	70	0.97
1955330--1955389	17	4.0	14	76	23	52	31	0	0	68	0.90
1955380--1955428	26	1.9	25	83	4	62	34	4	2	59	1.28
1955370--1955532	82	2.0	80	84	4	211	36	3	3	55	1.35
1956755--1956806	21	2.3	23	83	6	63	44	0	5	50	1.26
1956754--1956814	23	2.6	25	77	15	67	45	0	4	49	1.23
1958109--1958148	2	20.0	2	100	0	80	50	0	0	50	1.00
1960184--1960214	2	15.5	2	100	0	62	48	0	0	51	1.00
1960630--1960666	2	18.5	2	100	0	74	48	0	0	51	1.00
1961702--1961733	2	16.0	2	100	0	64	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)
1961902--1961944	22	2.0	22	90	4	70	32	0	9	58	1.30
1961952--1961990	20	2.0	20	84	0	51	41	0	7	51	1.31
1963746--1963772	12	2.2	12	100	0	54	81	0	18	0	0.69
1964871--1964907	17	2.1	18	90	5	58	48	0	0	51	1.00
1971926--1971963	2	19.0	2	100	0	76	50	0	0	50	1.00
1977712--1977740	2	14.5	2	100	0	58	51	0	0	48	1.00
1977998--1978045	24	2.0	24	91	0	78	43	18	27	10	1.82
1978718--1978761	23	2.0	22	81	4	52	36	4	2	56	1.32
1981816--1981851	2	18.0	2	88	0	54	50	5	0	44	1.25
1982034--1982081	19	2.5	19	82	3	51	75	2	2	20	1.02
1983820--1983871	21	2.5	22	84	9	72	55	0	0	44	0.99
1984564--1984619	24	2.3	23	76	11	58	32	3	17	46	1.66
1984672--1984727	12	4.4	12	75	18	51	21	1	5	71	1.15
1985716--1985754	19	2.0	20	85	5	53	69	2	0	28	1.02
1985750--1985880	26	4.7	27	71	20	94	56	0	0	41	1.10
1985787--1985868	19	4.4	18	69	13	51	60	0	0	39	0.96
1985750--1985813	31	2.0	31	84	6	83	54	0	1	43	1.09
1985772--1985868	10	10.8	9	68	17	51	60	0	0	39	0.97
1985817--1985865	19	2.5	19	80	12	55	65	0	0	34	0.93
1985820--1985868	18	2.7	18	87	9	64	67	0	0	32	0.91
1985711--1985872	57	2.9	56	75	19	174	58	0	0	40	1.07
1986041--1986138	46	2.0	50	80	7	114	41	0	1	57	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1986106--1986164	26	2.3	25	81	18	61	54	0	1	44	1.10
1987178--1987206	2	14.5	2	100	0	58	48	0	0	51	1.00
1990440--1990481	2	21.0	2	100	0	84	50	0	0	50	1.00
1990886--1990937	22	2.5	22	82	14	65	34	0	0	65	0.93
1992594--1992674	23	3.5	22	74	14	72	29	3	1	65	1.17
1992582--1992663	26	2.9	28	82	10	96	32	3	1	62	1.21
1995724--1995774	2	25.5	2	100	0	102	50	0	0	49	1.00
1996241--1996266	13	2.0	13	100	0	52	61	0	23	15	1.33
1996488--1996541	21	2.5	21	74	14	56	50	0	1	48	1.11
2001390--2001453	21	3.0	21	90	0	92	39	17	3	40	1.65

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17