genome.fa.s407.2.7.7.80.10.50.1000.13.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: Scaffold407
Parameters: 2 7 7 80 10 50 1000
Length:  4418299

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   

This is table  13  of  28  ( 3302 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)
1806535--1806919	49	8.0	49	82	9	418	31	17	26	24	1.97
1806535--1806914	140	2.6	144	90	4	588	31	18	26	24	1.97
1806907--1807183	32	8.5	32	87	7	382	19	18	34	27	1.95
1806907--1807180	33	8.4	33	88	7	375	20	18	34	27	1.95
1806914--1807183	65	4.1	67	89	6	403	20	18	34	27	1.95
1807190--1807892	33	21.7	33	72	14	364	32	13	33	21	1.92
1807219--1807892	64	10.4	63	73	16	266	31	13	33	21	1.92
1807414--1807523	27	3.7	28	77	17	107	31	13	35	19	1.90
1807321--1807633	61	4.9	62	84	7	362	30	13	34	21	1.92
1807641--1807700	27	2.2	26	85	8	84	31	13	33	21	1.92
1807221--1807892	223	3.0	222	84	8	796	31	13	33	21	1.92
1808846--1808880	9	3.9	9	89	10	54	0	0	8	91	0.42
1808848--1808878	16	1.9	16	100	0	62	0	0	9	90	0.46
1808846--1808883	19	2.1	18	90	5	58	0	0	10	89	0.49
1816154--1816230	32	2.4	32	95	0	136	27	19	19	33	1.96
1816121--1816281	84	1.9	84	96	0	295	27	18	18	34	1.95
1816186--1816302	52	2.2	52	90	3	182	29	17	19	34	1.94
1816342--1816462	13	7.9	13	71	28	80	33	18	13	34	1.89
1816325--1816482	32	4.9	32	98	0	298	35	18	12	34	1.88
1824994--1825052	21	2.8	21	81	0	64	62	0	20	16	1.32
1826200--1826225	13	2.0	13	100	0	52	30	0	15	53	1.42
1829080--1829175	36	2.9	32	83	11	108	32	13	23	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1833804--1833854	20	2.6	20	84	3	68	33	17	11	37	1.86
1833800--1833853	19	2.8	19	85	2	72	33	16	11	38	1.84
1837266--1837319	20	2.6	21	91	2	83	31	18	11	38	1.86
1840659--1840685	13	2.1	13	100	0	54	29	14	14	40	1.86
1840640--1840704	32	2.0	33	90	3	105	29	15	13	41	1.86
1840669--1840731	20	3.3	19	85	10	85	36	14	14	34	1.86
1840755--1840819	33	2.0	33	87	0	94	33	13	20	32	1.91
1842857--1842929	20	3.7	19	83	5	74	30	16	15	38	1.89
1842897--1842950	19	2.8	19	88	2	72	29	16	14	38	1.89
1843000--1843024	13	1.9	13	100	0	50	36	16	16	32	1.90
1842982--1843044	33	1.9	33	84	12	85	38	15	15	30	1.89
1846196--1846241	23	2.0	23	95	0	83	41	21	10	26	1.86
1846202--1846252	23	2.2	23	82	6	59	45	19	13	21	1.85
1846634--1846694	20	2.8	22	73	9	63	3	14	4	77	1.07
1847273--1847313	21	2.0	21	95	0	73	29	17	14	39	1.89
1847270--1847347	21	3.7	22	77	3	54	34	16	12	35	1.87
1847676--1847794	58	2.1	58	96	0	220	47	7	15	29	1.74
1848821--1848851	16	1.9	16	93	0	53	51	9	9	29	1.66
1848860--1848902	19	2.3	19	88	4	61	46	13	18	20	1.83
1858123--1858159	19	1.9	19	89	10	58	75	2	2	18	1.04
1864466--1864585	51	2.3	52	97	1	224	29	18	18	34	1.95
1864594--1864618	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1864684--1864708	13	1.9	13	100	0	50	32	16	16	36	1.90
1865636--1867762	49	43.3	52	81	8	1062	32	17	26	24	1.96
1865707--1865886	43	4.0	43	81	12	225	30	18	26	25	1.98
1865907--1866373	43	10.1	43	78	13	439	31	17	25	25	1.97
1865909--1867755	49	38.0	49	82	6	2126	32	17	26	24	1.97
1865909--1866279	92	4.0	92	92	4	598	31	17	25	25	1.97
1865909--1867755	98	19.0	98	92	4	2925	32	17	26	24	1.97
1867852--1868443	34	18.1	34	80	13	603	33	12	33	21	1.90
1867859--1868434	233	2.5	225	83	9	707	31	12	33	21	1.91
1867851--1868412	199	2.8	199	92	4	883	33	12	33	20	1.90
1868414--1868558	31	4.7	30	82	6	157	28	17	28	24	1.98
1868556--1868581	1	26.0	1	100	0	52	0	0	0	100	0.00
1869526--1869552	1	27.0	1	100	0	54	0	0	0	100	0.00
1876812--1876931	51	2.3	52	95	1	215	30	18	17	34	1.94
1876940--1876964	13	1.9	13	100	0	50	36	16	16	32	1.90
1877030--1877054	13	1.9	13	100	0	50	32	16	16	36	1.90
1877536--1877577	12	3.6	12	87	3	59	2	7	0	90	0.53
1877535--1877577	19	2.2	20	92	8	72	2	9	0	88	0.60
1877541--1877579	13	3.0	13	85	11	53	5	10	0	84	0.76
1888234--1888463	97	2.4	95	86	2	307	26	28	13	31	1.93
1892786--1892870	44	1.9	44	95	0	152	37	10	7	44	1.66
1893065--1893103	18	2.1	19	85	4	53	41	12	5	41	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1893085--1893150	30	2.3	29	84	10	82	46	15	10	27	1.78
1895952--1895989	19	2.1	19	85	9	53	78	2	7	10	1.04
1896108--1896150	19	2.3	19	88	8	61	79	0	20	0	0.74
1897092--1897143	20	2.6	21	87	6	72	32	13	9	44	1.76
1899760--1899824	33	2.0	33	90	0	103	38	18	16	26	1.92
1899782--1899806	13	1.9	13	100	0	50	32	16	16	36	1.90
1903867--1903908	15	2.8	16	82	10	61	30	16	2	50	1.58
1904339--1904375	3	12.3	3	94	0	65	29	32	0	37	1.58
1920778--1920849	10	7.1	10	77	13	76	83	12	2	1	0.82
1920778--1920849	11	7.0	11	73	10	55	83	12	2	1	0.82
1920785--1920849	29	2.2	29	84	13	80	83	12	3	1	0.84
1920769--1920849	26	2.9	27	82	10	85	81	14	2	1	0.86
1922062--1922887	28	28.7	28	81	6	771	28	30	16	23	1.97
1922068--1922887	85	9.5	85	83	4	905	28	30	17	23	1.97
1922068--1922887	113	7.1	113	81	5	880	28	30	17	23	1.97
1922981--1923089	49	2.3	47	84	7	141	21	27	20	31	1.98
1923068--1923181	52	2.2	52	100	0	228	21	22	20	35	1.96
1923832--1923903	20	3.6	20	83	3	92	31	15	12	40	1.84
1927687--1928004	155	2.1	154	83	3	388	22	18	20	38	1.94
1932476--1932532	21	2.7	21	97	0	105	33	10	19	36	1.86
1932588--1932655	19	3.9	19	78	21	85	35	11	14	38	1.83
1932609--1932633	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1932590--1932652	32	2.0	32	96	0	117	34	12	15	36	1.86
1932695--1932720	13	2.0	13	100	0	52	30	15	15	38	1.88
1932675--1932741	33	2.0	33	88	0	98	25	14	16	43	1.86
1935036--1935112	28	2.8	28	85	0	91	23	32	19	24	1.97
1947597--1947679	9	8.9	9	79	10	62	84	6	9	0	0.78
1947596--1947683	11	8.2	10	79	10	86	84	5	10	0	0.78
1947594--1947683	15	5.9	15	75	10	67	84	5	10	0	0.77
1947596--1947667	21	3.5	20	83	9	92	86	6	6	0	0.72
1947594--1947665	1	72.0	1	76	0	63	87	6	5	0	0.67
1948649--1949433	55	14.3	55	94	1	1298	28	29	20	21	1.98
1950166--1950222	21	2.7	21	97	0	105	33	10	19	36	1.86
1950278--1950345	19	3.9	19	76	21	76	33	11	14	39	1.83
1950299--1950323	13	1.9	13	100	0	50	36	16	16	32	1.90
1950280--1950342	32	2.0	32	93	0	108	33	12	15	38	1.86
1950385--1950410	13	2.0	13	100	0	52	30	15	15	38	1.88
1950365--1950431	33	2.0	33	88	0	98	25	14	16	43	1.86
1952865--1952941	28	2.8	28	85	0	91	23	32	19	24	1.97
1954298--1954357	20	3.0	20	90	2	84	31	20	10	38	1.85
1954992--1955173	48	3.8	47	75	3	141	39	18	6	35	1.77
1956364--1956409	22	2.1	22	100	0	92	36	26	4	32	1.76
1957458--1957493	16	2.2	16	90	9	56	72	0	5	22	1.05
1959217--1959359	20	7.2	20	64	20	75	39	9	3	47	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1962479--1962607	52	2.5	52	98	0	249	27	18	18	34	1.95
1962702--1962726	13	1.9	13	100	0	50	32	16	16	36	1.90
1962681--1962746	32	2.0	33	94	2	116	36	15	12	36	1.84
1963487--1963856	49	7.7	49	81	5	432	30	19	25	24	1.98
1963444--1963855	98	4.2	98	86	4	550	30	18	26	24	1.98
1963735--1963802	22	3.1	22	62	19	52	29	17	29	23	1.97
1963909--1964171	29	9.0	29	82	10	304	23	18	30	27	1.98
1963909--1964171	89	3.0	90	86	6	353	23	18	30	27	1.98
1965618--1965687	1	70.0	1	72	0	50	1	7	5	85	0.79
1965594--1965685	22	4.4	21	72	8	71	1	5	11	81	0.91

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