genome.fa.s320.2.7.7.80.10.50.1000.13.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: Scaffold320
Parameters: 2 7 7 80 10 50 1000
Length:  2598547

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

This is table  13  of  17  ( 1971 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)
1845857--1845906	13	3.6	14	76	15	50	10	22	0	68	1.19
1845860--1845913	28	2.0	27	82	10	65	11	20	0	68	1.19
1845901--1845940	19	2.1	19	85	0	53	7	20	0	72	1.08
1849350--1849405	23	2.4	23	79	5	69	14	3	5	76	1.09
1851101--1851931	277	3.0	277	91	2	1370	38	9	9	41	1.71
1853060--1853113	28	2.0	28	85	3	74	44	1	0	53	1.11
1853764--1853789	2	13.0	2	100	0	52	50	0	0	50	1.00
1854832--1854872	2	20.5	2	100	0	82	48	0	0	51	1.00
1855433--1855468	14	2.5	15	91	8	58	30	0	2	66	1.06
1855660--1855699	20	2.0	21	85	14	57	70	0	2	27	1.01
1856219--1856262	4	10.8	4	83	13	54	75	4	0	20	0.98
1856224--1856284	21	3.0	20	80	20	65	75	8	0	16	1.03
1858802--1858873	29	2.4	29	81	9	83	72	11	11	5	1.28
1859676--1859720	22	2.1	21	87	4	63	66	0	0	33	0.92
1859673--1859833	6	27.3	6	64	20	56	60	0	0	38	1.06
1859730--1859783	22	2.5	22	81	6	65	59	0	0	40	0.98
1859723--1859820	37	2.6	37	83	12	105	59	0	0	40	0.98
1859768--1859841	29	2.6	28	83	12	89	60	1	0	37	1.05
1862057--1862082	2	13.0	2	100	0	52	50	0	0	50	1.00
1864038--1864098	29	2.1	29	81	6	70	50	0	1	47	1.10
1864055--1864136	29	2.8	28	81	9	83	53	0	1	45	1.08
1865280--1865450	50	3.4	50	86	1	236	29	17	19	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1869386--1869523	50	2.8	49	88	3	197	28	20	18	33	1.96
1869390--1869553	50	3.3	50	82	6	190	31	18	16	32	1.94
1870653--1870694	2	21.0	2	100	0	84	50	0	0	50	1.00
1871798--1871822	12	2.1	12	100	0	50	56	0	0	44	0.99
1872431--1872565	71	1.9	71	81	6	166	40	17	3	39	1.67
1872653--1872732	33	2.5	33	77	6	83	42	21	20	16	1.89
1872877--1872913	2	18.5	2	100	0	74	48	0	0	51	1.00
1878351--1878375	10	2.5	10	100	0	50	8	0	0	92	0.40
1892486--1892512	2	13.5	2	100	0	54	51	0	0	48	1.00
1892579--1892616	10	3.5	11	89	7	51	42	0	2	55	1.14
1892571--1892629	6	9.8	6	81	9	59	44	0	1	54	1.10
1893114--1893152	20	2.0	20	100	0	78	51	0	0	48	1.00
1896080--1896135	25	2.2	25	96	0	103	26	5	37	30	1.79
1896080--1896146	25	2.7	25	90	0	89	28	4	35	31	1.77
1896136--1896261	63	2.0	63	92	0	207	26	5	11	55	1.58
1897423--1897472	24	2.0	24	84	3	64	40	14	0	46	1.44
1899103--1899131	10	3.0	10	95	5	51	62	0	0	37	0.96
1899126--1899188	27	2.3	27	75	2	63	47	0	1	50	1.10
1900963--1901008	2	23.0	2	100	0	92	50	0	0	50	1.00
1902072--1902102	13	2.3	14	94	5	55	51	0	0	48	1.00
1902640--1902683	19	2.3	19	80	7	54	34	0	0	65	0.93
1902974--1903361	194	2.0	192	89	4	593	38	10	3	47	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1903888--1903955	30	2.3	30	84	0	91	50	7	7	35	1.58
1905028--1905100	32	2.3	30	81	9	83	43	2	0	53	1.15
1904992--1905072	36	2.2	38	84	4	103	39	1	1	58	1.14
1905046--1905096	16	3.2	16	72	8	50	45	1	0	52	1.12
1905292--1905323	3	10.7	3	100	0	64	65	0	0	34	0.93
1907831--1907873	21	2.0	21	86	8	61	39	0	0	60	0.97
1907822--1907877	23	2.5	22	82	5	69	46	0	0	53	1.00
1908800--1908892	25	3.6	25	75	11	71	48	0	1	50	1.07
1908802--1908872	25	2.8	26	75	14	76	47	0	1	50	1.09
1908824--1908882	22	2.5	23	83	8	66	45	0	0	54	0.99
1910042--1910121	36	2.2	37	84	8	101	35	0	1	63	1.02
1910479--1910515	2	18.5	2	100	0	74	48	0	0	51	1.00
1911514--1911584	34	2.1	34	84	5	90	40	0	0	59	0.98
1912377--1912402	13	2.0	13	100	0	52	76	0	23	0	0.78
1912736--1912778	17	2.6	16	81	3	50	51	0	2	46	1.13
1913020--1913053	16	2.1	16	88	0	50	14	2	2	79	0.97
1914370--1914421	21	2.5	21	90	0	77	40	0	3	55	1.18
1916675--1916720	2	23.0	2	86	0	65	43	0	2	54	1.12
1918245--1918285	22	1.9	22	85	5	57	46	2	0	51	1.14
1921374--1921426	27	1.9	28	85	11	74	56	0	1	41	1.10
1921478--1921584	20	5.2	20	72	17	76	44	1	1	51	1.23
1921530--1921585	21	2.7	21	84	10	71	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)
1921509--1921593	20	4.1	20	75	11	73	43	2	2	51	1.27
1921838--1921903	33	2.0	33	85	5	89	57	3	4	34	1.34
1922711--1922745	14	2.5	14	90	0	52	17	2	17	62	1.44
1924264--1924295	2	16.0	2	93	0	55	50	0	3	46	1.17
1924593--1924627	3	11.7	3	100	0	70	34	31	34	0	1.58
1926731--1926769	2	19.5	2	100	0	78	51	0	0	48	1.00
1927914--1927943	15	1.9	16	93	6	53	56	3	0	40	1.16
1928093--1928155	20	3.2	20	73	8	65	36	0	0	63	0.95
1928909--1928942	17	1.9	18	88	5	52	55	0	0	44	0.99
1928926--1928976	19	2.6	19	84	6	66	50	0	1	47	1.12
1929061--1929104	16	2.6	16	85	10	52	72	2	0	25	0.96
1929813--1929882	23	2.9	24	69	23	58	34	1	4	60	1.25
1929813--1929934	48	2.5	48	81	9	124	36	0	3	59	1.20
1935089--1935146	19	2.8	20	79	12	64	65	6	27	0	1.18
1935089--1935132	19	2.2	21	88	8	65	63	6	29	0	1.20
1938289--1938314	4	6.5	4	100	0	52	53	23	23	0	1.46
1940811--1940858	17	2.9	16	75	6	51	18	0	8	72	1.08
1943269--1943296	2	14.0	2	100	0	56	50	0	0	50	1.00
1945598--1945627	13	2.2	14	94	5	53	53	0	3	43	1.17
1950314--1950842	101	5.2	100	75	7	451	48	11	8	30	1.70
1950311--1950849	203	2.7	201	81	5	653	48	12	8	30	1.70
1952111--1952139	6	5.0	6	91	8	51	0	0	17	82	0.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1953415--1953445	2	15.5	2	100	0	62	51	0	0	48	1.00
1954029--1954062	9	3.9	9	84	7	52	47	8	23	20	1.78
1954414--1954453	21	2.0	21	95	5	73	37	0	0	62	0.95
1954617--1954647	11	2.7	12	90	10	55	64	9	0	25	1.24
1969797--1969878	21	4.0	21	73	24	77	34	1	0	64	1.01
1969780--1969870	10	9.0	10	69	23	57	37	0	0	62	0.95
1969799--1969868	10	7.3	9	77	15	61	32	0	0	67	0.91
1969813--1969868	29	2.0	30	86	10	82	30	0	0	69	0.89
1969799--1969870	38	1.9	37	88	8	110	33	0	0	66	0.92
1969800--1969878	22	4.0	21	79	17	80	32	1	0	65	1.00
1969798--1969881	13	6.8	12	68	26	52	33	1	0	65	1.00
1970230--1970285	23	2.5	23	82	2	69	64	0	0	35	0.94
1970220--1970285	22	3.0	22	78	6	71	62	1	0	36	1.05
1970319--1970361	18	2.5	17	80	3	59	41	2	0	55	1.12
1971511--1971547	2	18.5	2	94	0	65	54	0	0	45	1.00
1973764--1973831	19	3.2	22	82	14	81	61	2	0	35	1.11
1974749--1974792	23	2.0	22	86	13	63	72	4	2	20	1.13
1974936--1974994	2	29.5	2	96	0	109	50	0	0	49	1.00
1977603--1977641	21	1.9	19	85	10	51	48	2	5	43	1.38
1978382--1978422	4	10.2	4	100	0	82	75	0	24	0	0.80
1981863--1981918	17	3.3	18	70	22	50	55	0	1	42	1.10
1982393--1982434	20	2.0	20	82	13	50	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1983067--1983128	27	2.2	28	83	8	74	38	1	1	58	1.18
1983191--1983234	22	2.0	22	86	8	63	34	2	0	63	1.07
1983187--1983236	11	4.5	11	78	12	57	36	2	0	62	1.07
1985161--1985239	35	2.2	36	82	8	90	53	0	1	45	1.08
1986370--1986399	2	15.5	2	93	6	53	53	0	0	46	1.00
1986540--1986586	20	2.3	21	81	3	60	48	6	0	44	1.28
1986819--1986869	20	2.6	19	75	9	57	43	0	1	54	1.11
1988544--1988589	14	3.2	14	78	6	56	34	0	0	65	0.93
1988544--1988602	29	2.0	31	86	6	86	38	0	0	61	0.96
1988541--1988588	21	2.3	21	89	7	71	39	0	0	60	0.97

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