genome.fa.s106.2.7.7.80.10.50.1000.12.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: Scaffold106
Parameters: 2 7 7 80 10 50 1000
Length:  4928209

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   

This is table  12  of  27  ( 3135 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)
1831526--1831599	35	2.1	36	85	9	100	43	0	0	56	0.99
1831517--1831599	35	2.2	36	81	14	89	40	1	0	57	1.06
1831542--1831618	36	2.2	36	81	6	95	46	1	0	51	1.09
1833655--1833863	55	3.7	58	84	7	261	22	10	13	53	1.70
1836939--1836991	22	2.4	22	83	0	61	39	7	7	45	1.61
1837592--1837620	14	2.1	14	100	0	58	41	6	6	44	1.58
1840971--1841006	3	12.0	3	100	0	72	66	0	0	33	0.92
1841999--1842031	2	16.5	2	100	0	66	51	0	0	48	1.00
1843337--1843405	33	2.1	33	86	5	95	37	18	11	31	1.87
1843434--1843489	20	2.8	20	89	2	78	35	17	16	30	1.92
1844553--1844584	2	16.0	2	100	0	64	50	0	0	50	1.00
1845054--1845103	17	2.9	18	83	16	70	60	0	0	40	0.97
1845192--1845273	39	2.1	38	80	14	89	40	2	1	56	1.20
1845441--1845496	30	1.9	30	88	3	87	51	0	0	48	1.00
1845446--1845506	30	2.1	29	84	3	77	54	0	0	45	1.00
1845845--1845874	5	6.0	5	92	0	51	0	23	0	76	0.78
1847494--1847660	55	3.0	55	86	0	235	22	10	13	53	1.69
1863771--1863817	3	16.0	3	77	4	51	34	0	4	61	1.15
1864677--1864723	3	15.7	3	100	0	94	31	0	0	68	0.90
1868321--1868386	33	2.0	33	85	5	89	40	13	16	28	1.87
1868407--1868470	19	3.7	19	74	23	77	32	18	14	34	1.91
1868428--1868452	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1868409--1868470	32	1.9	32	96	0	115	32	19	14	33	1.92
1869551--1869737	92	2.0	93	96	1	349	30	11	18	39	1.86
1870313--1870345	16	2.0	17	88	5	50	42	48	0	9	1.35
1875280--1875304	2	12.5	2	100	0	50	48	0	0	52	1.00
1878548--1878618	35	2.0	35	100	0	142	45	2	14	38	1.59
1878983--1879020	2	19.0	2	100	0	76	0	50	0	50	1.00
1879692--1879754	2	31.5	2	81	0	72	39	7	1	50	1.41
1879692--1879754	12	5.2	12	90	0	81	39	7	1	50	1.41
1882107--1882142	2	18.0	2	100	0	72	50	0	0	50	1.00
1883377--1883505	42	3.1	42	64	14	106	39	4	9	46	1.57
1883357--1883527	81	2.1	83	91	3	274	40	4	8	46	1.56
1883496--1883540	19	2.5	17	86	10	63	57	2	0	40	1.11
1883496--1883540	17	2.5	18	83	16	58	57	2	0	40	1.11
1885902--1885995	46	2.0	47	91	2	154	25	11	9	53	1.67
1886623--1886685	4	15.8	4	84	0	63	49	7	1	41	1.42
1886623--1886684	8	7.8	8	85	0	70	50	8	1	40	1.42
1895644--1895680	2	18.5	2	94	0	65	45	0	2	51	1.15
1898080--1898105	2	13.0	2	100	0	52	50	0	0	50	1.00
1899313--1899364	21	2.5	21	78	3	61	50	0	0	50	1.00
1902100--1902135	18	1.9	18	88	5	54	22	2	13	61	1.46
1909916--1909946	2	15.5	2	100	0	62	0	0	48	51	1.00
1917578--1917616	12	3.2	12	85	7	53	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1919553--1919606	26	2.1	26	82	6	65	48	1	1	48	1.23
1919782--1919817	19	2.0	18	89	10	56	61	0	0	38	0.96
1919766--1919863	45	2.2	45	83	5	128	56	2	0	41	1.11
1919836--1919872	19	1.9	19	89	10	58	64	0	0	35	0.94
1920045--1920098	13	3.9	13	81	11	63	44	0	0	55	0.99
1920053--1920098	13	3.4	13	82	11	65	39	0	0	60	0.97
1920043--1920119	28	2.7	30	86	8	115	50	0	0	49	1.00
1920022--1920114	28	2.9	33	72	22	81	47	1	1	50	1.15
1928938--1928972	2	17.5	2	100	0	70	0	48	0	51	1.00
1932423--1932508	14	5.2	16	71	23	63	38	0	1	60	1.04
1932427--1932511	16	5.1	16	72	15	57	38	0	1	60	1.05
1932427--1932515	15	5.5	15	70	25	58	38	0	1	60	1.04
1932543--1932617	25	3.0	25	79	13	66	64	0	2	33	1.08
1932575--1932617	12	3.3	12	78	15	50	67	0	2	30	1.03
1932820--1932844	5	5.0	5	100	0	50	80	0	0	20	0.72
1936549--1936656	54	2.0	54	100	0	216	31	16	12	38	1.87
1941500--1941535	17	2.1	19	85	15	51	63	5	8	22	1.43
1947585--1947617	17	1.9	18	88	11	52	45	0	0	54	0.99
1947576--1947630	28	2.0	28	82	7	67	40	1	0	58	1.09
1947771--1947808	20	2.0	20	89	5	60	28	0	0	71	0.87
1951439--1951469	12	2.6	12	94	0	53	41	0	0	58	0.98
1952895--1952948	27	2.0	28	88	3	83	77	0	7	14	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1952959--1952987	2	14.5	2	100	0	58	51	0	48	0	1.00
1953083--1953142	24	2.6	23	78	2	66	30	3	3	63	1.27
1953078--1953151	23	3.2	23	75	9	71	29	2	4	63	1.26
1964435--1964461	1	27.0	1	100	0	54	0	0	0	100	0.00
1974700--1974746	25	1.9	24	87	12	69	31	2	0	65	1.04
1975025--1975060	14	2.4	14	90	9	54	55	0	0	44	0.99
1975025--1975060	5	7.2	5	90	9	56	55	0	0	44	0.99
1976023--1976059	2	19.0	2	94	5	67	51	0	0	48	1.00
1985278--1985395	17	6.9	17	70	18	68	44	0	0	55	0.99
1985277--1985340	26	2.5	26	100	0	128	40	0	0	59	0.97
1985278--1985337	9	6.7	9	80	5	68	38	0	0	61	0.96
1985571--1985621	26	1.9	27	84	11	70	58	0	1	39	1.09
1985579--1985620	22	1.9	22	90	9	68	57	0	0	42	0.99
1990761--1990829	32	2.1	32	84	13	86	47	4	0	47	1.21
1990854--1990900	24	2.0	22	84	8	58	38	2	0	59	1.09
1996878--1996926	3	16.3	3	100	0	98	67	0	0	32	0.91
1997123--1997151	2	14.5	2	100	0	58	51	0	0	48	1.00
1999226--1999261	18	1.9	19	88	5	56	47	0	0	52	1.00
2000009--2000054	16	2.9	16	75	18	51	45	0	0	54	0.99
2000062--2000104	14	2.9	14	86	13	59	51	2	0	46	1.13
2000541--2000597	18	3.3	18	68	26	52	43	0	0	56	0.99
2000524--2000635	20	5.9	20	67	27	59	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2001802--2001831	2	15.0	2	92	0	51	46	0	3	50	1.18
2004045--2004227	34	5.4	34	82	3	201	24	6	27	42	1.79
2004045--2004227	68	2.7	68	88	0	260	24	6	27	42	1.79
2008638--2008822	34	5.5	34	85	2	248	24	7	26	41	1.82
2008638--2008822	68	2.7	67	90	2	289	24	7	26	41	1.82
2009829--2009873	17	2.6	17	78	0	63	51	0	0	48	1.00
2010738--2010762	13	1.9	13	100	0	50	8	8	0	84	0.79
2011598--2011656	26	2.3	25	80	13	66	40	1	0	57	1.09
2013706--2013733	14	2.0	14	100	0	56	42	7	21	28	1.79
2015604--2015665	15	4.1	14	72	12	52	32	1	16	50	1.55
2016219--2016259	21	2.0	21	85	0	55	36	2	2	58	1.24
2016463--2016503	2	20.5	2	100	0	82	48	0	0	51	1.00
2019028--2019055	2	14.0	2	100	0	56	50	0	0	50	1.00
2024974--2025072	50	2.0	50	95	0	180	26	17	11	45	1.81
2026331--2026355	11	2.3	11	100	0	50	36	0	8	56	1.29
2030312--2030605	144	2.0	144	98	0	570	34	23	17	24	1.96
2034034--2034058	12	2.1	12	100	0	50	16	0	0	84	0.63
2035418--2035460	21	2.0	21	81	0	50	39	0	16	44	1.48
2035965--2035993	8	3.8	8	90	9	51	75	0	0	24	0.80
2042029--2042323	147	2.0	147	83	1	376	36	14	23	25	1.93
2043239--2043590	174	2.0	174	99	0	695	30	15	23	31	1.95
2044300--2044334	18	1.9	18	94	0	61	34	5	25	34	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2055288--2055367	14	5.1	16	73	20	55	43	0	1	55	1.08
2055325--2055376	13	3.7	14	76	16	54	46	0	0	53	1.00
2055301--2055409	30	3.5	31	75	18	88	43	0	0	55	1.05
2055311--2055400	29	3.0	30	80	12	87	42	0	1	56	1.06
2055267--2055400	16	8.9	16	67	25	62	41	0	0	57	1.04
2056122--2056159	3	12.7	3	100	0	76	34	0	0	65	0.93
2064718--2064787	20	3.5	20	74	12	65	28	10	20	41	1.84
2064757--2064935	92	1.9	92	83	6	229	30	17	15	36	1.91
2074111--2074138	2	14.0	2	100	0	56	50	0	0	50	1.00
2074920--2074965	19	2.5	19	85	3	58	58	0	0	41	0.98

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