genome.fa.s51.2.7.7.80.10.50.1000.13.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: Scaffold51
Parameters: 2 7 7 80 10 50 1000
Length:  3712191

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  13  of  23  ( 2647 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)
1818903--1819048	48	3.0	48	80	9	154	36	8	23	30	1.86
1818927--1819068	49	2.9	48	81	5	144	38	8	23	28	1.84
1821353--1821407	20	2.8	20	91	0	92	43	12	14	29	1.82
1822709--1822734	13	2.0	13	100	0	52	30	15	15	38	1.88
1825281--1825319	13	3.0	13	100	0	78	38	15	15	30	1.88
1827391--1827428	15	2.5	15	91	0	58	13	21	15	50	1.78
1829039--1829083	21	2.1	21	84	8	56	22	20	4	53	1.63
1837443--1837494	18	2.8	18	82	11	61	25	13	17	44	1.85
1839623--1839664	15	2.8	16	82	10	52	52	2	14	30	1.54
1845073--1845159	20	4.4	20	77	11	99	29	14	17	37	1.90
1845130--1845191	33	1.9	32	90	3	97	29	12	17	40	1.87
1846367--1846917	141	3.9	141	86	0	717	42	9	12	35	1.75
1846930--1846961	16	2.1	16	94	5	57	25	0	0	75	0.81
1850769--1850837	33	2.1	32	89	10	104	37	18	11	31	1.87
1850799--1850836	20	1.9	20	94	0	67	39	18	10	31	1.85
1850769--1850816	13	4.2	13	70	29	54	37	18	12	31	1.88
1851476--1851549	21	3.5	22	83	5	89	28	31	2	37	1.71
1853568--1853609	20	2.2	20	87	8	61	47	21	2	28	1.63
1853589--1853651	30	2.1	32	88	8	96	57	20	0	22	1.41
1859432--1859500	33	2.1	33	83	5	86	37	17	11	33	1.86
1859529--1859601	20	3.7	19	87	7	85	38	17	15	28	1.90
1860275--1860316	20	2.1	20	90	0	66	45	21	4	28	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1862993--1863039	18	2.7	18	83	12	62	36	2	2	59	1.21
1866904--1866976	36	2.0	36	100	0	146	32	26	2	38	1.71
1867298--1867351	20	2.7	20	91	2	81	38	9	18	33	1.83
1867430--1867507	32	2.4	32	97	0	147	29	17	14	38	1.89
1870649--1870746	33	3.0	33	89	0	142	32	17	14	35	1.90
1870806--1870862	21	2.7	21	100	0	114	36	10	14	38	1.80
1871302--1871437	35	4.0	33	82	7	157	33	8	25	32	1.85
1871303--1871437	69	2.0	69	85	8	186	34	8	25	32	1.85
1874123--1874159	19	2.0	18	94	5	65	37	10	16	35	1.83
1876699--1876763	33	2.0	33	90	0	103	30	15	15	38	1.88
1876830--1876885	20	2.8	20	97	0	103	42	14	10	32	1.80
1877307--1877407	35	2.9	35	88	1	159	31	10	25	31	1.90
1878129--1878179	21	2.5	21	81	9	61	39	17	15	27	1.90
1884181--1884211	8	3.8	8	95	4	53	12	0	25	61	1.32
1884866--1884906	20	2.0	21	85	9	57	17	39	31	12	1.86
1886270--1886310	20	2.0	20	90	9	66	31	0	29	39	1.57
1886877--1886929	20	2.6	21	82	8	65	37	16	16	28	1.91
1888292--1888342	19	2.7	20	79	11	63	45	11	15	27	1.81
1888607--1888654	20	2.4	20	92	0	78	47	16	12	22	1.80
1893176--1893210	15	2.3	15	95	0	61	28	28	0	42	1.56
1894794--1894858	33	2.0	33	84	6	87	32	20	13	33	1.91
1905624--1905648	13	1.9	13	100	0	50	40	16	20	24	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1906388--1906458	22	3.4	21	77	15	67	30	30	1	36	1.66
1908212--1908245	10	3.3	10	88	8	50	50	0	20	29	1.49
1914524--1914548	13	1.9	13	100	0	50	44	16	8	32	1.76
1914637--1914661	13	1.9	13	100	0	50	32	16	20	32	1.94
1914670--1914708	20	1.9	21	89	5	62	25	12	15	46	1.81
1916253--1916295	18	2.4	18	81	14	54	0	20	0	79	0.74
1916260--1916293	11	3.1	11	91	8	52	0	17	0	82	0.67
1916254--1916302	25	1.9	26	87	4	73	0	22	0	77	0.77
1920973--1921091	51	2.3	51	89	0	193	30	14	27	27	1.95
1920874--1921222	130	2.7	130	79	5	368	32	14	25	27	1.94
1921023--1921170	79	1.9	79	85	2	208	29	15	28	27	1.96
1921106--1921328	51	4.4	51	89	2	315	31	11	26	30	1.91
1923747--1923798	19	2.7	20	87	6	79	28	13	19	38	1.89
1923747--1923804	19	3.0	18	82	12	71	25	12	22	39	1.89
1926327--1926352	13	2.0	13	100	0	52	38	15	15	30	1.88
1928430--1928460	15	2.1	15	93	0	53	12	22	16	48	1.80
1932505--1932556	19	2.7	20	87	6	79	28	13	19	38	1.89
1932505--1932562	19	3.0	18	82	12	71	25	12	22	39	1.89
1933769--1933824	21	2.7	21	97	0	103	35	16	10	37	1.83
1934114--1934204	20	4.6	20	88	2	103	32	13	17	36	1.88
1934150--1934204	20	2.8	20	100	0	110	38	10	18	32	1.85
1936872--1937192	79	4.1	79	77	4	281	27	23	13	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1938674--1938740	33	2.0	33	88	0	98	32	17	13	35	1.89
1938694--1938719	13	2.0	13	100	0	52	38	15	15	30	1.88
1938769--1938864	19	4.8	21	77	10	110	34	15	13	36	1.87
1938769--1938864	40	2.4	40	92	0	165	34	15	13	36	1.87
1938850--1938876	13	2.1	13	100	0	54	40	14	14	29	1.86
1941320--1941347	13	2.2	13	100	0	56	39	17	14	28	1.89
1950268--1950294	13	2.1	13	100	0	54	29	14	14	40	1.86
1951735--1951801	33	2.0	33	85	5	91	26	31	14	26	1.95
1952129--1952171	21	2.0	21	86	8	61	39	4	20	34	1.74
1952757--1952813	19	2.9	19	84	2	78	33	15	15	35	1.90
1952843--1952907	33	2.0	32	88	11	96	33	15	18	32	1.92
1952863--1952887	13	1.9	13	100	0	50	36	16	16	32	1.90
1961282--1961339	19	2.9	19	76	5	62	36	13	13	36	1.85
1963619--1963658	21	1.9	21	84	0	53	55	7	15	22	1.65
1967555--1967583	13	2.2	13	100	0	58	27	13	17	41	1.87
1972375--1972419	21	2.1	21	84	8	56	53	4	20	22	1.63
1974223--1974261	15	2.6	15	91	0	60	51	15	20	12	1.76
1976325--1976363	13	3.0	13	100	0	78	30	15	15	38	1.88
1979732--1979757	13	2.0	13	100	0	52	30	15	15	38	1.88
1979712--1979775	32	2.0	33	90	3	103	28	14	15	42	1.86
1981650--1981707	19	3.1	18	85	11	80	34	17	13	34	1.89
1981672--1981735	32	2.0	33	87	3	94	40	15	14	29	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1984237--1984276	20	2.0	21	95	5	73	32	15	12	40	1.84
1990310--1990384	33	2.3	33	90	4	116	30	17	16	36	1.91
1990416--1990473	19	3.1	18	85	11	80	32	15	15	36	1.89
1990438--1990500	32	1.9	32	87	3	90	39	14	14	31	1.86
2007388--2007439	27	1.9	27	92	0	86	65	0	0	34	0.93
2008094--2008156	33	2.0	30	84	9	81	52	7	3	36	1.47
2010288--2010537	78	3.2	78	78	7	256	39	11	16	32	1.84
2010186--2010450	147	1.8	146	79	6	311	38	13	16	31	1.88
2010687--2010840	78	2.0	77	83	3	193	38	12	16	32	1.86
2011956--2011992	3	12.0	3	94	5	65	32	0	0	67	0.91
2014116--2014186	30	2.4	29	76	9	72	38	15	12	33	1.85
2016338--2016579	97	2.5	98	80	3	274	32	12	26	28	1.93
2018374--2018424	20	2.5	20	83	3	66	43	11	17	27	1.84
2023671--2024072	79	5.1	77	75	9	296	35	11	22	29	1.90
2023671--2024072	159	2.5	158	80	6	438	35	11	22	29	1.90
2026450--2026521	19	3.7	19	84	12	92	33	13	16	36	1.89
2026625--2026678	20	2.7	20	80	13	67	35	12	14	37	1.85
2026552--2026690	72	1.9	73	86	4	201	34	16	15	33	1.91
2040461--2040550	28	3.1	28	80	13	101	83	12	3	1	0.83
2040459--2040549	18	5.4	17	73	21	59	82	13	3	1	0.85
2040461--2040538	40	1.9	41	78	17	83	84	10	3	1	0.80
2040459--2040550	24	3.8	24	79	12	89	82	13	3	1	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2040461--2040550	30	3.0	29	87	12	121	83	12	3	1	0.83
2041988--2042338	57	6.2	56	79	7	327	31	33	17	17	1.93
2041978--2042338	29	12.7	29	81	6	359	31	34	16	18	1.93
2042407--2042633	49	4.6	48	74	8	172	23	26	17	32	1.97
2043390--2043452	19	3.7	18	76	24	73	33	12	17	36	1.88
2043409--2043433	13	1.9	13	100	0	50	36	16	16	32	1.90
2043390--2043454	32	2.0	32	96	0	121	33	12	16	36	1.87
2048912--2048949	13	2.8	13	81	18	51	7	0	31	60	1.25
2050721--2050768	20	2.5	20	82	3	62	35	14	20	29	1.93
2057557--2057838	28	9.6	31	72	13	111	24	18	29	27	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23