genome.fa.s11.2.7.7.80.10.50.1000.13.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: Scaffold11
Parameters: 2 7 7 80 10 50 1000
Length:  5230303

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   29   

This is table  13  of  29  ( 3461 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)
1775564--1775590	14	1.9	14	100	0	54	37	0	3	59	1.15
1782499--1782540	16	2.6	16	84	3	57	69	0	0	30	0.89
1782771--1782833	28	2.2	29	91	2	101	33	0	1	65	1.03
1782984--1783059	24	2.9	27	78	15	86	44	2	1	51	1.23
1782964--1783079	26	4.3	29	68	18	79	40	2	1	55	1.24
1785985--1786048	27	2.4	27	94	0	110	29	3	7	59	1.41
1786698--1786769	27	2.7	27	91	4	110	47	20	5	26	1.72
1788652--1788697	21	2.1	22	84	4	58	19	30	19	30	1.97
1791263--1791333	27	2.6	27	82	4	90	52	12	4	30	1.58
1793152--1793190	17	2.3	17	86	0	51	51	5	0	43	1.24
1794545--1794580	17	2.1	17	94	0	63	50	8	16	25	1.73
1795117--1795189	13	5.6	13	76	0	65	36	6	38	17	1.77
1795116--1795197	26	3.2	26	67	11	60	39	6	37	17	1.74
1795273--1795346	27	2.7	27	80	0	85	45	14	8	31	1.74
1796607--1796645	15	2.4	16	83	12	53	0	20	7	71	1.10
1798236--1798269	13	2.6	13	90	0	50	29	8	47	14	1.75
1798348--1798421	27	2.8	26	81	4	94	47	20	5	27	1.72
1802799--1802844	13	3.5	13	81	0	56	34	8	41	15	1.78
1802925--1802996	27	2.8	25	79	8	90	50	15	2	31	1.58
1804045--1804132	38	2.3	38	76	9	90	61	6	2	29	1.34
1804194--1804240	2	24.0	2	87	12	71	51	0	2	46	1.13
1804466--1804502	19	1.9	19	94	0	65	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1804464--1804530	24	2.6	26	72	9	66	50	1	0	47	1.10
1804797--1804855	18	3.4	18	70	25	63	27	10	1	61	1.38
1804794--1804859	34	1.9	34	93	6	116	28	9	1	60	1.36
1805392--1805438	2	23.5	2	100	0	94	48	0	0	51	1.00
1805787--1805846	23	2.7	22	82	12	70	35	5	6	53	1.49
1807372--1807422	23	2.2	23	89	3	75	52	1	0	45	1.12
1808260--1808353	27	3.5	26	76	9	93	29	5	17	47	1.69
1812754--1812843	28	3.4	27	80	8	87	25	7	21	45	1.78
1816192--1816238	22	2.2	21	84	3	58	48	0	2	48	1.13
1817222--1817283	27	2.2	29	85	5	83	30	0	0	69	0.89
1817376--1817410	19	1.9	19	88	11	56	54	5	8	31	1.54
1817427--1817509	26	3.1	26	83	11	114	43	2	0	54	1.13
1817418--1817515	26	3.8	25	80	11	101	43	2	0	54	1.12
1817461--1817515	26	2.1	26	100	0	110	47	0	0	52	1.00
1817681--1817724	22	2.0	23	82	13	56	36	27	4	31	1.77
1818841--1818880	21	2.0	21	85	5	55	55	2	0	42	1.13
1818869--1818911	12	3.6	12	81	9	52	69	0	0	30	0.88
1818869--1818911	18	2.4	18	88	0	59	69	0	0	30	0.88
1818867--1818909	16	2.7	16	85	0	50	69	0	0	30	0.88
1818855--1819013	48	3.3	46	76	9	149	55	0	0	43	1.09
1818894--1818969	32	2.4	32	86	8	93	52	0	0	47	1.00
1818917--1818971	17	3.4	17	70	25	55	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1821825--1821866	14	3.1	13	83	12	57	35	2	0	61	1.09
1821884--1821928	23	2.0	23	84	16	60	53	0	2	44	1.13
1825494--1825519	6	4.3	6	100	0	52	19	0	0	80	0.71
1825795--1825829	14	2.5	14	86	13	54	48	0	0	51	1.00
1826212--1826273	29	2.2	26	76	15	61	40	0	0	59	0.97
1826220--1826362	75	1.9	73	80	10	166	41	1	0	55	1.13
1826333--1826377	21	2.1	21	88	8	65	31	0	2	66	1.04
1826426--1826455	13	2.3	13	94	0	51	66	0	3	30	1.07
1826444--1826493	21	2.3	22	82	3	66	62	2	2	34	1.18
1828410--1828530	54	2.3	53	83	9	142	45	22	10	21	1.82
1828425--1828530	27	3.9	27	90	2	151	44	23	10	21	1.83
1828744--1828783	20	2.1	19	85	4	53	60	5	0	35	1.19
1829426--1829491	9	7.2	9	75	14	64	42	0	0	57	0.98
1829428--1829486	18	3.3	18	81	11	77	42	0	0	57	0.98
1830203--1830235	13	2.4	14	90	5	50	42	0	0	57	0.98
1832985--1833025	11	3.5	11	81	12	55	2	19	0	78	0.87
1832985--1833039	24	2.3	22	77	17	56	9	20	0	70	1.13
1833411--1833436	1	26.0	1	100	0	52	0	0	0	100	0.00
1834209--1834259	25	2.2	24	86	10	70	35	0	0	64	0.94
1834397--1834444	14	3.3	15	82	5	64	60	0	0	39	0.97
1834687--1834719	15	2.1	16	88	11	50	24	3	0	72	0.98
1835325--1835364	21	2.0	20	85	5	53	32	0	22	45	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1835966--1835992	14	1.9	14	100	0	54	0	7	7	85	0.75
1836141--1836174	17	2.0	17	94	0	59	52	14	11	20	1.73
1837129--1837169	17	2.5	16	84	7	55	53	2	2	41	1.27
1837522--1837564	20	2.2	19	88	12	61	48	0	0	51	1.00
1837522--1837564	19	2.2	20	88	12	63	48	0	0	51	1.00
1837930--1837964	17	2.1	18	89	10	56	57	0	0	42	0.99
1837899--1837986	45	2.0	43	82	8	106	50	0	0	50	1.00
1838801--1838841	2	20.5	2	100	0	82	51	0	0	48	1.00
1842262--1842325	25	2.6	24	78	14	69	60	3	0	35	1.12
1848068--1848122	25	2.1	25	83	6	65	45	1	1	50	1.22
1848089--1848143	23	2.4	22	84	9	65	41	0	0	58	0.98
1848083--1848121	13	3.1	12	82	10	51	48	0	0	51	1.00
1848189--1848283	32	3.1	32	71	11	83	54	0	0	45	0.99
1848230--1848271	12	3.6	12	80	6	59	50	0	0	50	1.00
1848189--1848262	37	1.9	40	83	8	100	55	0	0	44	0.99
1848223--1848283	23	2.7	23	95	5	108	54	0	0	45	1.00
1848230--1848279	12	4.2	12	79	5	57	50	0	0	50	1.00
1848524--1848556	17	1.9	17	88	11	50	45	15	18	21	1.85
1849362--1849400	19	2.2	17	86	9	51	48	0	0	51	1.00
1849891--1849925	15	2.2	16	90	5	54	0	20	5	74	1.02
1849890--1849929	16	2.5	16	84	12	55	0	20	5	75	0.99
1852110--1852149	21	1.9	21	90	10	64	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1852115--1852159	22	2.0	22	83	8	56	44	4	0	51	1.21
1852369--1852399	15	2.1	15	94	5	55	58	0	0	41	0.98
1852496--1852535	17	2.2	19	86	8	57	50	2	0	47	1.14
1852811--1852843	6	5.8	6	96	3	52	54	0	0	45	0.99
1853702--1853810	2	57.5	2	73	17	72	48	2	1	46	1.27
1853706--1853809	30	3.5	30	70	12	81	48	2	1	47	1.28
1857334--1857383	12	4.1	12	82	12	57	30	2	2	66	1.14
1859432--1859479	12	4.0	12	77	0	51	54	6	33	6	1.51
1859791--1859815	6	4.2	6	100	0	50	68	0	0	32	0.90
1859903--1859943	18	2.4	17	91	4	64	29	2	0	68	1.03
1859937--1859984	22	2.1	23	84	3	62	54	0	2	43	1.12
1860325--1860367	17	2.6	17	92	3	70	32	16	4	46	1.67
1860914--1860943	2	14.5	2	93	6	51	50	3	0	46	1.18
1861265--1861305	15	2.4	18	76	15	52	36	0	0	63	0.95
1862270--1862363	43	2.2	43	83	9	111	35	1	1	62	1.09
1862277--1862367	41	2.2	43	79	13	100	34	1	1	63	1.09
1862529--1862602	26	2.8	26	75	19	71	33	1	1	63	1.11
1862585--1862627	18	2.3	19	88	8	61	51	0	0	48	1.00
1862932--1862979	24	2.0	24	84	8	62	58	0	0	41	0.98
1863541--1863584	18	2.3	20	78	21	51	52	0	0	47	1.00
1862864--1864210	666	2.0	663	83	6	1713	45	7	4	42	1.54
1864759--1864819	30	2.0	30	87	6	88	42	1	3	52	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1866836--1866884	19	2.5	19	77	12	55	59	0	0	40	0.98
1866836--1866891	9	5.9	9	74	17	51	58	0	0	41	0.98
1866836--1866891	19	2.9	18	73	19	51	58	0	0	41	0.98
1867784--1867864	16	5.1	16	79	5	92	40	0	3	55	1.17
1871448--1871512	25	2.8	22	78	15	67	40	1	0	58	1.07
1871464--1871511	18	2.7	18	86	0	60	37	2	0	60	1.09
1872356--1872399	23	2.0	23	86	4	63	61	0	0	38	0.96
1872728--1872767	22	1.9	20	85	10	53	55	0	0	45	0.99
1872782--1872863	35	2.3	35	85	2	101	41	4	4	48	1.46
1872842--1872879	2	19.0	2	100	0	76	50	0	0	50	1.00

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   29