genome.fa.s117.2.7.7.80.10.50.1000.11.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: Scaffold117
Parameters: 2 7 7 80 10 50 1000
Length:  3231771

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

This is table  11  of  18  ( 2101 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)
1809262--1809722	188	2.4	187	81	7	493	42	11	7	37	1.70
1809853--1809905	22	2.4	22	80	0	61	43	3	3	49	1.38
1810073--1810170	45	2.2	44	83	5	117	42	1	1	55	1.13
1810672--1810704	9	3.7	9	95	0	57	3	33	18	45	1.65
1810767--1810817	12	3.9	12	78	16	57	39	11	5	43	1.66
1815453--1815485	9	3.7	9	95	0	57	3	33	18	45	1.65
1815548--1815593	12	3.6	12	78	16	56	39	13	4	43	1.63
1816567--1816600	2	17.0	2	100	0	68	50	0	0	50	1.00
1817077--1817103	2	13.5	2	100	0	54	51	0	0	48	1.00
1818295--1818374	27	3.0	27	90	0	124	50	21	8	20	1.75
1822762--1822840	27	2.9	27	90	0	131	46	24	6	22	1.75
1822971--1823000	14	2.1	14	93	0	51	60	3	0	36	1.14
1823236--1823280	20	2.2	21	88	4	65	40	0	2	57	1.11
1824266--1824308	23	1.9	23	85	4	61	51	2	0	46	1.13
1825267--1825312	21	2.1	22	88	4	67	34	17	26	21	1.95
1826769--1826826	13	4.0	13	76	23	62	37	13	15	32	1.87
1826782--1826845	19	3.7	19	76	23	86	37	12	15	34	1.85
1826767--1826852	32	2.7	32	100	0	172	34	12	16	36	1.87
1826927--1827055	52	2.5	52	93	0	222	35	16	17	30	1.92
1829922--1830003	27	3.0	27	80	7	103	23	4	21	50	1.68
1830756--1830781	13	2.0	13	100	0	52	30	15	15	38	1.88
1831480--1831523	21	2.1	21	83	8	54	25	31	4	38	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1833325--1833363	13	3.0	13	100	0	78	38	15	15	30	1.88
1835444--1835474	15	2.1	15	93	0	53	12	22	16	48	1.80
1837279--1837323	21	2.1	21	88	8	65	22	17	4	55	1.60
1839541--1839565	13	1.9	13	100	0	50	32	16	16	36	1.90
1840566--1840610	16	2.8	17	83	9	60	53	0	0	46	1.00
1840557--1840605	24	2.0	24	84	0	62	53	0	0	46	1.00
1840565--1840610	15	3.0	15	82	14	58	54	0	0	45	0.99
1840679--1840716	19	2.0	20	85	15	53	57	2	7	31	1.41
1842047--1842085	3	13.0	3	100	0	78	66	0	0	33	0.92
1842346--1842398	17	3.3	16	74	15	56	45	0	1	52	1.11
1843224--1843269	24	1.9	25	91	8	78	45	26	8	19	1.79
1848840--1848881	18	2.3	18	83	0	57	47	11	4	35	1.61
1850750--1850783	2	17.0	2	100	0	68	50	0	0	50	1.00
1851368--1851419	27	2.0	26	96	3	95	44	11	3	40	1.59
1851371--1851420	12	3.9	13	76	19	52	44	10	6	40	1.63
1856132--1856183	27	2.0	26	96	3	95	44	11	3	40	1.59
1856135--1856184	12	3.9	13	76	19	52	44	10	6	40	1.63
1858097--1858149	3	18.0	3	96	3	99	66	0	0	33	0.92
1858425--1858470	22	2.1	22	88	8	67	36	0	2	60	1.09
1858434--1858478	22	2.0	23	82	4	56	46	0	0	53	1.00
1859719--1859744	2	13.0	2	100	0	52	50	0	0	50	1.00
1860278--1860321	14	3.1	14	86	3	52	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1860771--1860831	28	2.2	29	88	8	99	60	1	0	37	1.07
1860789--1860834	19	2.3	20	78	17	51	60	2	0	36	1.09
1863500--1863568	26	2.7	26	78	12	65	43	0	0	56	0.99
1863491--1863570	20	3.5	22	73	23	76	43	0	0	56	0.99
1863924--1863971	16	3.1	16	87	3	62	47	0	0	52	1.00
1863910--1863971	27	2.3	27	78	10	65	45	0	1	53	1.10
1871042--1871107	27	2.3	31	79	12	77	59	1	1	37	1.16
1872075--1872130	20	2.7	21	83	10	62	58	0	0	41	0.98
1875231--1875275	14	3.1	15	81	12	58	40	0	4	55	1.20
1875808--1875840	2	16.5	2	100	0	66	51	0	0	48	1.00
1876419--1876476	30	1.9	30	89	0	89	41	17	12	29	1.85
1893352--1893422	27	2.6	27	88	6	99	22	7	23	46	1.76
1894039--1894105	35	1.9	35	96	3	127	40	5	34	19	1.76
1894104--1894155	22	2.4	22	96	0	95	46	5	30	17	1.71
1894076--1894216	26	5.2	26	71	23	119	44	5	31	17	1.72
1894036--1894219	84	2.2	82	89	7	282	44	5	31	18	1.72
1895443--1895569	53	2.5	50	79	13	141	29	26	13	30	1.94
1895499--1895886	79	4.9	79	93	0	641	27	26	14	31	1.95
1895818--1895964	51	2.9	51	79	9	156	27	22	12	38	1.90
1895818--1895964	53	2.9	51	80	9	165	27	22	12	38	1.90
1902016--1902158	60	2.4	61	90	2	234	26	27	20	25	1.99
1902172--1902500	60	5.4	61	90	2	495	24	26	20	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1902017--1902315	160	1.9	160	93	1	519	25	28	20	26	1.99
1902169--1902500	121	2.7	121	88	3	508	24	27	20	28	1.99
1902514--1902896	60	6.4	60	91	4	591	24	27	20	26	1.99
1902514--1902896	121	3.2	120	91	4	618	24	27	20	26	1.99
1902540--1902893	181	2.0	182	92	2	588	24	27	20	27	1.99
1902781--1903060	155	1.8	154	95	1	508	23	29	18	28	1.98
1902910--1903530	60	10.4	60	90	3	886	25	27	19	27	1.99
1903515--1903658	45	3.4	42	81	8	141	19	25	15	39	1.91
1903515--1903658	40	3.4	41	80	8	139	19	25	15	39	1.91
1903556--1903679	42	3.0	41	78	8	110	18	21	15	44	1.86
1904426--1904500	35	2.3	32	82	13	91	49	6	26	17	1.71
1904444--1904574	35	4.0	34	79	18	152	43	6	32	18	1.74
1904481--1904599	26	4.2	26	77	21	130	45	6	31	16	1.74
1904446--1904607	62	2.6	62	86	7	249	43	6	32	17	1.74
1904546--1904616	26	2.6	26	82	10	81	49	5	30	14	1.66
1905826--1905952	53	2.5	50	81	13	150	29	27	13	29	1.94
1905882--1906268	79	4.9	79	92	0	621	28	26	13	31	1.94
1906201--1906348	53	2.8	50	79	10	163	27	20	12	38	1.90
1908487--1908531	2	22.5	2	100	0	90	0	48	0	51	1.00
1914690--1914742	27	2.0	27	84	0	70	49	16	9	24	1.76
1917495--1917550	23	2.3	24	82	11	62	26	5	33	33	1.79
1917535--1917655	34	3.6	34	95	0	215	26	0	32	41	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1917516--1917665	68	2.2	68	86	1	219	26	1	32	39	1.65
1922370--1922424	25	2.2	25	80	6	67	23	1	32	41	1.65
1922393--1922441	23	2.2	22	82	7	64	18	2	38	40	1.62
1922411--1922535	34	3.7	34	92	0	205	28	0	29	42	1.56
1922396--1922545	68	2.2	68	85	1	210	27	0	31	40	1.61
1928426--1928468	3	14.3	3	100	0	86	34	0	0	65	0.93
1928503--1928549	23	2.1	23	88	4	69	51	4	0	44	1.21
1928510--1928555	22	2.0	23	83	4	58	50	6	0	43	1.28
1929468--1929493	6	4.3	6	100	0	52	53	15	0	30	1.42
1931777--1931827	20	2.5	20	90	0	75	54	0	9	35	1.33
1936206--1936278	28	2.7	27	77	8	76	28	8	15	47	1.73
1938462--1938507	21	2.1	22	88	4	67	32	19	28	19	1.96
1943538--1943590	27	2.0	27	84	0	70	49	16	9	24	1.76
1946343--1946398	23	2.3	24	85	11	71	26	3	33	35	1.74
1946361--1946409	23	2.2	22	82	7	64	18	2	38	40	1.62
1946379--1946503	34	3.7	34	95	0	223	27	0	31	41	1.56
1946364--1946513	68	2.2	68	87	1	228	26	0	32	40	1.61
1951219--1951273	25	2.2	25	80	6	67	23	1	32	41	1.65
1951242--1951290	23	2.2	22	82	7	64	18	2	38	40	1.62
1951260--1951384	34	3.7	34	92	0	205	28	0	29	42	1.56
1951245--1951394	68	2.2	68	85	1	210	27	0	31	40	1.61
1957320--1957368	3	16.3	3	100	0	98	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1957403--1957449	23	2.1	23	88	4	69	51	4	0	44	1.21
1957410--1957455	22	2.0	23	83	4	58	50	6	0	43	1.28
1958365--1958396	6	5.3	6	100	0	64	53	15	0	31	1.43
1960027--1960186	50	3.2	50	93	1	277	29	21	19	29	1.98
1964579--1964738	50	3.2	50	93	1	277	29	21	19	29	1.98
1965654--1965705	20	2.5	20	81	3	59	51	0	11	36	1.38
1976070--1976153	1	84.0	1	75	0	60	85	5	8	0	0.73
1976068--1976151	27	3.0	27	91	5	132	83	5	10	0	0.81
1976073--1976160	27	3.2	25	74	25	79	81	5	11	1	0.90
1976888--1977019	66	2.0	66	100	0	264	28	6	27	37	1.80

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