genome.fa.s63.2.7.7.80.10.50.1000.13.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: Scaffold63
Parameters: 2 7 7 80 10 50 1000
Length:  2211945

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

This is table  13  of  16  ( 1834 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)
1850722--1850755	11	3.1	11	91	0	59	35	0	0	64	0.94
1850729--1850764	19	2.0	17	89	10	54	33	0	0	66	0.92
1851125--1851164	17	2.4	16	91	4	62	32	2	0	65	1.06
1851829--1851863	17	2.1	16	89	5	52	48	0	0	51	1.00
1852508--1852571	20	3.1	20	79	14	76	54	0	0	45	0.99
1852513--1852558	23	2.0	23	82	0	56	56	0	0	43	0.99
1852608--1852759	14	10.5	14	69	21	57	38	0	0	61	1.01
1852559--1852738	98	1.8	96	81	11	213	41	0	0	57	1.07
1852568--1852674	56	1.9	57	81	9	130	40	0	0	58	1.04
1852540--1852767	119	1.9	127	80	13	280	40	0	0	57	1.08
1852688--1852769	7	12.4	7	77	11	59	34	1	1	63	1.10
1853432--1853462	16	1.9	16	93	0	53	45	0	0	54	0.99
1855576--1855647	24	2.8	28	74	20	84	43	0	0	56	0.99
1856551--1856595	22	2.1	22	83	4	56	35	4	0	60	1.17
1856928--1856970	20	2.2	20	86	0	59	44	0	0	55	0.99
1857727--1857778	28	2.0	26	85	11	70	63	1	0	34	1.06
1862105--1862163	6	9.8	6	92	0	64	6	79	0	13	0.92
1862105--1862163	18	3.3	18	82	0	73	6	79	0	13	0.92
1862256--1862368	54	2.1	54	85	6	149	20	53	7	18	1.69
1862308--1862410	42	2.5	42	83	0	125	19	51	9	19	1.74
1862249--1862442	96	2.0	96	85	2	264	20	48	10	20	1.78
1862580--1862825	39	5.9	39	81	10	240	16	52	10	19	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1862597--1862825	42	5.5	42	83	9	272	17	51	11	20	1.76
1862658--1862825	81	2.1	80	92	1	273	17	52	10	18	1.72
1862575--1862844	42	6.5	42	80	10	266	16	53	10	19	1.72
1862834--1862907	30	2.3	32	84	6	89	9	54	13	22	1.68
1863048--1863111	27	2.4	27	89	0	101	10	46	21	20	1.81
1871826--1871873	20	2.5	20	86	3	62	25	0	10	64	1.25
1871822--1871875	26	2.1	25	82	3	63	31	0	9	59	1.29
1875882--1875919	2	19.5	2	94	5	69	50	0	0	50	1.00
1876113--1876149	14	2.6	14	87	12	58	40	0	0	59	0.97
1876289--1876332	2	22.0	2	90	9	72	47	0	2	50	1.13
1876289--1876332	13	3.1	14	87	12	72	47	0	2	50	1.13
1876722--1876748	6	4.5	6	100	0	54	51	0	0	48	1.00
1877947--1877982	2	18.5	2	88	5	56	44	0	2	52	1.15
1878258--1878294	2	18.5	2	100	0	74	51	0	0	48	1.00
1878542--1878579	16	2.3	17	86	4	51	42	2	0	55	1.14
1878859--1878905	16	2.9	16	82	14	53	42	2	0	55	1.12
1878872--1878919	15	3.1	15	85	8	53	41	2	0	56	1.11
1878367--1879047	335	2.0	339	94	2	1212	43	6	6	43	1.57
1880210--1880286	34	2.2	35	81	11	95	41	0	1	57	1.07
1880661--1880736	35	2.2	34	81	13	84	50	0	1	48	1.09
1881245--1881321	18	4.2	19	77	11	63	41	0	0	58	0.98
1881255--1881321	18	3.8	17	77	11	64	40	0	0	59	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1881593--1881650	18	2.9	19	73	16	55	34	0	0	65	0.93
1881590--1881653	20	3.3	19	75	14	67	34	0	0	65	0.93
1881725--1881767	21	2.0	23	90	9	72	51	4	0	44	1.22
1885311--1885344	12	2.8	12	95	0	59	23	70	0	5	1.09
1886451--1886521	28	2.6	27	79	18	76	49	0	1	49	1.09
1886526--1886556	6	5.2	6	100	0	62	48	0	0	51	1.00
1886569--1886645	22	3.3	23	74	13	77	45	0	1	53	1.08
1886654--1886691	11	3.3	12	78	14	53	57	0	0	42	0.98
1886629--1886697	19	3.4	19	73	19	59	55	0	0	44	0.99
1886874--1886910	2	19.0	2	94	5	67	48	0	0	51	1.00
1891059--1891119	15	3.9	16	78	10	72	50	0	0	49	1.00
1891453--1891509	27	2.2	26	87	3	78	63	0	0	36	0.95
1891965--1892041	15	5.0	15	73	14	68	55	0	2	41	1.13
1891965--1891999	5	7.0	5	86	0	52	60	0	0	40	0.97
1892022--1892065	19	2.2	20	80	15	56	56	0	2	40	1.11
1892251--1892300	14	3.8	14	72	22	54	50	0	0	50	1.00
1892248--1892345	24	3.9	25	76	16	87	48	0	0	51	1.00
1892316--1892381	22	3.0	21	77	16	71	57	0	0	42	0.98
1894034--1894084	23	2.2	24	85	3	68	56	0	0	43	0.99
1894250--1894286	12	3.0	12	88	7	56	62	0	0	37	0.96
1894264--1894335	20	3.5	20	76	10	65	63	1	1	33	1.11
1894275--1894318	21	2.0	22	91	4	72	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1894278--1894354	28	3.2	24	76	18	79	63	1	1	33	1.11
1906601--1906636	16	2.2	16	90	0	54	38	0	2	58	1.13
1914722--1914846	61	2.0	61	93	3	216	42	16	14	26	1.87
1914813--1915106	147	2.0	147	99	0	579	38	20	13	28	1.90
1916186--1916239	27	2.0	27	82	7	65	42	3	0	53	1.18
1917388--1917434	16	2.9	16	81	6	51	59	0	0	40	0.97
1917392--1917481	30	3.0	31	73	13	75	56	0	0	43	0.99
1917816--1917862	23	2.0	23	83	8	58	42	6	6	44	1.55
1918754--1918785	2	16.0	2	100	0	64	50	0	0	50	1.00
1918785--1918825	2	20.5	2	94	0	73	48	0	51	0	1.00
1924326--1924399	20	3.8	20	79	15	93	36	1	0	62	1.04
1924351--1924401	11	4.8	11	78	9	61	37	0	0	62	0.95
1924503--1924621	31	3.8	31	93	2	195	15	25	24	35	1.94
1926579--1926608	13	2.2	14	94	5	53	40	0	6	53	1.27
1927263--1927294	16	1.9	17	93	6	57	56	0	9	34	1.32
1930721--1930746	2	13.0	2	100	0	52	50	0	0	50	1.00
1930746--1930806	2	30.5	2	100	0	122	50	0	49	0	1.00
1932254--1932281	2	14.0	2	100	0	56	50	0	0	50	1.00
1932281--1932305	2	12.5	2	100	0	50	52	0	48	0	1.00
1932918--1932944	14	1.9	14	100	0	54	37	0	3	59	1.15
1934503--1934547	13	3.2	14	87	9	65	44	0	0	55	0.99
1936245--1936295	24	2.1	24	92	0	84	39	0	3	56	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1936245--1936313	24	2.8	24	86	2	75	40	1	5	52	1.34
1939994--1940039	24	1.9	24	90	0	74	56	2	8	32	1.42
1940148--1940213	17	3.9	17	73	13	57	53	0	1	45	1.09
1941294--1941318	3	8.3	3	100	0	50	32	0	0	68	0.90
1941982--1942065	5	16.8	5	76	14	84	36	0	0	63	0.95
1944551--1944603	18	3.1	18	72	10	56	54	0	0	45	0.99
1945392--1945431	20	2.0	21	90	5	64	65	0	0	35	0.93
1945736--1945806	11	6.2	12	76	20	64	40	2	0	56	1.14
1945735--1945785	23	2.3	23	86	10	70	39	3	0	56	1.18
1945741--1945805	29	2.3	28	84	10	80	41	3	0	55	1.15
1947907--1947948	19	2.2	19	91	0	66	45	0	11	42	1.41
1947956--1947990	15	2.2	16	90	5	54	71	0	0	28	0.86
1947958--1947993	18	1.9	19	94	5	65	72	0	0	27	0.85
1950099--1950182	43	2.0	43	87	0	123	26	0	33	40	1.56
1954965--1955004	21	1.9	21	94	0	71	35	0	30	35	1.58
1955445--1955489	22	2.0	22	83	8	56	57	0	0	42	0.98
1956596--1956638	20	2.2	20	87	4	61	46	0	0	53	1.00
1956769--1956864	44	2.2	45	94	5	178	27	22	0	50	1.50
1957023--1957060	2	19.0	2	100	0	76	50	0	0	50	1.00
1957551--1957592	21	2.0	21	85	0	57	52	2	2	42	1.27
1957673--1957717	21	2.1	21	88	8	65	68	0	0	31	0.89
1957668--1957717	22	2.3	21	80	13	57	68	0	0	32	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1960264--1960295	16	1.9	17	93	6	57	40	0	0	59	0.97
1962038--1962064	2	13.5	2	100	0	54	48	0	0	51	1.00
1965605--1965630	2	13.0	2	100	0	52	50	0	0	50	1.00
1967073--1967138	27	2.4	28	78	14	73	42	0	3	54	1.15
1967224--1967266	18	2.3	19	80	4	52	58	0	0	41	0.98
1967318--1967373	20	2.8	19	71	15	51	58	1	0	39	1.08
1967406--1967441	2	18.0	2	94	0	63	47	0	0	52	1.00
1967817--1967889	32	2.2	34	83	11	98	52	2	0	45	1.15
1967834--1967901	32	2.1	34	91	5	113	51	4	0	44	1.21
1968219--1968247	13	2.2	13	100	0	58	37	0	0	62	0.96

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