genome.fa.s412.2.7.7.80.10.50.1000.14.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: Scaffold412
Parameters: 2 7 7 80 10 50 1000
Length:  4645160

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   26   27   28   29   30   31   32   

This is table  14  of  32  ( 3728 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)
1896364--1896469	27	3.6	28	78	17	92	66	0	0	33	0.92
1896365--1896471	20	5.4	20	73	17	82	67	0	0	32	0.91
1896421--1896463	12	3.6	12	81	9	52	67	0	0	32	0.91
1896378--1896489	30	3.4	33	73	19	92	64	0	0	35	0.94
1896708--1896767	25	2.6	23	82	10	61	40	0	1	58	1.08
1896722--1896820	40	2.4	41	77	14	107	46	2	0	51	1.12
1899751--1899808	17	3.4	17	73	4	55	50	1	1	46	1.22
1901177--1901222	23	1.9	24	86	8	67	67	4	0	28	1.10
1901163--1901223	29	2.1	30	81	9	72	63	4	0	31	1.15
1904853--1904907	16	3.4	16	76	16	60	41	0	5	52	1.24
1904853--1904892	15	2.5	17	80	15	50	40	0	7	52	1.30
1904896--1905006	16	6.6	16	70	19	59	40	0	5	54	1.24
1904930--1904979	22	2.3	21	83	6	64	40	0	10	50	1.36
1904981--1905036	22	2.5	23	78	16	64	50	1	0	48	1.11
1905006--1905039	16	2.2	15	89	5	50	52	2	0	44	1.16
1904983--1905039	15	3.9	15	76	17	57	49	1	0	49	1.11
1905079--1905118	19	2.0	19	85	9	53	62	2	0	35	1.09
1906238--1906278	21	2.0	22	85	9	59	53	0	0	46	1.00
1906242--1906309	36	2.0	35	82	8	86	51	0	0	48	1.00
1906239--1906318	36	2.2	34	77	12	79	52	0	1	46	1.08
1907753--1907777	3	8.3	3	100	0	50	32	0	0	68	0.90
1908301--1908349	2	26.0	2	82	12	59	53	2	0	44	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1908302--1908355	16	3.2	16	78	5	54	53	1	1	42	1.22
1913943--1913977	18	2.1	17	89	10	54	48	0	2	48	1.16
1914339--1914422	22	3.7	22	78	13	82	52	0	0	47	1.00
1914334--1914410	16	4.9	16	70	17	63	51	0	0	48	1.00
1914334--1914407	7	9.3	9	71	21	51	52	0	0	47	1.00
1914337--1914421	14	6.3	14	67	22	56	51	0	0	48	1.00
1914389--1914442	23	2.4	22	75	9	54	42	0	1	55	1.10
1914548--1914595	15	3.0	15	79	11	51	77	0	16	6	0.97
1916255--1916321	35	1.9	35	81	6	82	41	0	2	55	1.15
1919293--1919362	28	2.3	30	83	13	83	47	0	8	44	1.34
1920131--1920155	13	1.9	13	100	0	50	0	16	0	84	0.63
1922801--1922839	21	1.9	20	89	5	60	51	0	2	46	1.14
1926056--1926094	21	1.9	21	89	5	62	76	7	5	10	1.13
1927784--1927827	21	2.1	21	83	8	54	65	2	0	31	1.05
1928121--1928152	2	17.0	2	87	12	50	46	0	0	53	1.00
1928456--1928519	27	2.5	26	80	14	71	50	0	0	50	1.00
1929152--1929283	42	3.2	42	65	14	119	21	6	9	62	1.47
1929118--1929288	83	2.1	83	95	0	306	20	9	8	61	1.53
1932917--1932950	2	17.0	2	100	0	68	0	50	0	50	1.00
1935518--1935550	3	11.0	3	100	0	66	66	0	0	33	0.92
1935947--1936000	4	13.5	4	92	0	81	25	3	22	48	1.67
1938541--1938575	2	17.5	2	100	0	70	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1938614--1938674	32	1.9	32	83	6	79	62	3	0	34	1.12
1938629--1938681	16	3.3	16	94	0	88	60	1	0	37	1.08
1943690--1943732	2	21.5	2	85	0	59	44	2	2	51	1.27
1945692--1945727	17	2.1	17	89	0	54	33	0	0	66	0.92
1948274--1948318	17	2.6	18	79	13	58	46	0	4	48	1.22
1949573--1949669	38	2.5	40	83	5	117	45	0	2	52	1.12
1950522--1950552	2	16.0	2	93	6	55	48	0	0	51	1.00
1951132--1951175	22	2.0	21	87	12	63	40	0	0	59	0.98
1952138--1952201	29	2.2	29	77	0	74	31	17	18	32	1.94
1952974--1953064	18	5.0	19	73	17	77	41	0	0	58	0.98
1952995--1953083	40	2.2	40	82	11	103	35	1	0	62	1.02
1953025--1953081	11	5.1	11	80	16	64	31	1	0	66	1.02
1953017--1953083	11	6.8	10	76	20	54	32	1	0	65	1.02
1953041--1953089	16	2.8	19	76	17	52	28	2	0	69	1.00
1953961--1954014	12	5.0	11	76	19	60	42	0	0	57	0.98
1954002--1954047	24	1.9	24	81	0	56	39	4	6	50	1.48
1954091--1954145	21	2.7	20	71	17	51	56	1	0	41	1.10
1954994--1955029	19	1.9	18	88	5	54	47	11	0	41	1.39
1955335--1955372	12	3.2	12	85	7	60	28	0	0	71	0.87
1955560--1955585	2	13.0	2	100	0	52	50	0	0	50	1.00
1956570--1956604	18	1.9	18	88	0	52	54	2	0	42	1.15
1956681--1956749	28	2.4	30	76	16	74	59	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1960387--1960444	14	4.1	14	76	10	55	58	1	1	37	1.18
1964888--1964933	10	4.6	10	80	0	56	4	50	0	45	1.21
1966447--1966475	13	2.2	13	100	0	58	0	6	0	93	0.36
1968496--1968534	15	2.6	14	80	11	51	53	28	0	17	1.44
1968934--1969001	19	3.3	19	67	25	57	51	22	1	25	1.56
1968925--1969008	43	2.0	43	100	0	168	52	19	2	26	1.58
1969015--1969065	2	26.5	2	92	7	88	52	47	0	0	1.00
1969017--1969065	19	2.6	19	100	0	98	53	46	0	0	1.00
1969337--1969391	2	27.5	2	96	0	101	52	0	47	0	1.00
1972493--1972555	29	2.1	30	88	2	92	36	26	6	30	1.81
1973943--1973990	6	8.2	6	88	4	71	50	2	0	47	1.12
1973943--1973990	17	2.7	18	87	6	71	50	2	0	47	1.12
1974059--1974113	27	2.0	27	82	6	67	49	3	0	47	1.19
1974236--1974392	79	2.0	79	100	0	314	22	15	7	54	1.66
1974269--1974393	40	3.2	40	61	19	98	24	14	8	53	1.67
1974380--1974446	15	4.5	15	73	14	66	38	1	0	59	1.06
1974515--1974577	33	1.9	33	84	12	85	30	1	1	66	1.10
1974886--1974937	15	3.2	16	71	17	54	44	3	1	50	1.31
1974944--1975015	23	3.2	21	75	16	65	34	1	0	63	1.03
1974965--1975007	12	3.4	12	78	12	50	32	0	0	67	0.91
1974940--1975015	21	3.7	20	74	19	66	35	1	0	63	1.03
1974947--1975017	11	6.5	11	75	15	67	35	1	0	63	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1975238--1975303	23	2.9	23	81	2	71	50	16	1	31	1.55
1975259--1975309	23	2.2	22	80	10	57	52	13	1	31	1.51
1975294--1975357	27	2.2	30	86	10	89	67	7	3	21	1.31
1975334--1975394	24	2.6	25	82	10	67	72	6	3	18	1.21
1975449--1975483	9	3.9	9	100	0	70	42	0	0	57	0.99
1975457--1975508	18	2.9	17	78	16	52	48	0	0	51	1.00
1975404--1975522	27	4.6	25	72	16	73	42	2	0	53	1.20
1976189--1976238	17	3.1	17	70	21	52	50	4	0	46	1.20
1991351--1991426	27	2.8	26	74	16	73	57	2	0	39	1.12
1991381--1991441	25	2.5	24	80	17	63	62	3	0	34	1.12
1991569--1991608	14	2.9	14	84	0	53	45	2	0	52	1.14
1992450--1992506	28	2.0	28	86	0	78	31	10	5	52	1.58
1992466--1992528	28	2.4	25	84	10	72	36	3	6	53	1.42
1992488--1992551	26	2.6	24	76	13	60	37	0	3	59	1.13
1992489--1992557	25	2.8	23	77	18	68	39	0	4	56	1.19
1992857--1992890	18	1.9	18	94	5	61	50	0	0	50	1.00
1994570--1994602	12	2.6	13	85	9	50	54	3	0	42	1.15
1994649--1994690	22	1.9	22	90	9	68	38	0	0	61	0.96
1998154--1998209	23	2.4	23	73	5	60	35	0	0	64	0.94
2000029--2000062	17	1.9	18	88	5	52	50	0	2	47	1.16
2001339--2001398	15	4.4	14	74	18	54	43	0	0	56	0.99
2001383--2001426	22	2.0	22	82	8	54	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)
2002151--2002193	2	21.5	2	90	9	70	48	2	0	48	1.14
2005421--2005447	2	13.5	2	100	0	54	48	0	0	51	1.00
2006309--2006346	2	19.0	2	100	0	76	50	0	0	50	1.00
2008318--2008342	11	2.3	11	100	0	50	72	0	0	28	0.86
2008660--2008687	2	14.0	2	100	0	56	50	0	0	50	1.00
2011335--2011369	2	18.0	2	94	5	63	51	0	0	48	1.00
2011778--2011822	2	22.5	2	95	0	81	46	2	0	51	1.13
2012036--2012062	2	13.5	2	100	0	54	51	0	0	48	1.00
2012064--2012292	121	1.9	120	92	0	386	39	7	13	38	1.74
2012755--2012797	2	21.5	2	100	0	86	48	0	0	51	1.00

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   26   27   28   29   30   31   32