genome.fa.s412.2.7.7.80.10.50.1000.13.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: Scaffold412
Parameters: 2 7 7 80 10 50 1000
Length:  4645160

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   30   31   32   

This is table  13  of  32  ( 3728 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)
1773242--1773269	2	14.0	2	100	0	56	50	0	0	50	1.00
1775405--1775433	14	2.1	14	100	0	58	48	0	0	51	1.00
1778938--1779007	10	7.2	10	70	12	56	37	0	1	61	1.05
1778949--1778990	21	2.0	22	85	4	59	38	0	2	59	1.10
1778952--1779021	27	3.0	23	77	16	56	42	0	1	55	1.08
1778975--1779054	28	2.7	30	75	18	78	43	1	0	55	1.08
1778944--1779070	49	2.6	50	79	11	138	40	1	0	56	1.14
1779026--1779069	20	2.2	20	84	8	54	36	4	0	59	1.18
1779044--1779073	15	1.9	16	93	6	53	33	3	0	63	1.11
1781027--1781053	2	13.5	2	100	0	54	48	0	0	51	1.00
1782350--1782382	13	2.5	13	86	13	50	45	3	3	48	1.33
1789894--1789930	2	18.5	2	94	0	65	45	0	0	54	1.00
1790620--1790663	19	2.1	21	88	12	65	68	0	4	27	1.09
1791058--1791103	2	22.5	2	91	4	74	50	4	0	45	1.21
1791933--1791962	2	15.0	2	100	0	60	50	0	0	50	1.00
1792383--1792715	167	2.0	167	93	0	567	29	19	12	38	1.88
1797457--1797546	29	2.9	31	73	17	80	55	0	1	43	1.07
1797740--1797825	45	1.9	45	83	4	111	44	0	0	55	0.99
1801181--1801223	20	2.0	20	86	8	59	37	0	2	60	1.10
1807849--1807962	51	2.2	51	93	0	192	17	51	9	21	1.73
1807852--1808007	51	3.4	42	72	17	123	16	50	10	22	1.75
1808148--1808250	39	2.7	39	88	4	158	17	51	15	15	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1810307--1810360	25	2.2	25	82	0	63	22	27	22	27	1.99
1815902--1815942	2	21.5	2	85	9	59	46	0	0	53	1.00
1815902--1815942	21	2.0	21	90	0	64	46	0	0	53	1.00
1816799--1816835	15	2.5	15	90	0	56	51	5	43	0	1.24
1818574--1818635	19	3.2	20	82	8	67	61	6	3	29	1.37
1818610--1818659	18	3.0	17	75	22	52	54	0	2	44	1.11
1821767--1821812	14	3.1	14	82	11	65	43	10	6	39	1.66
1821760--1821812	16	3.5	15	82	12	72	45	9	7	37	1.65
1821996--1822035	20	1.9	20	90	10	62	65	2	0	32	1.06
1822950--1822978	3	9.7	3	100	0	58	65	0	0	34	0.93
1822977--1823014	3	12.7	3	100	0	76	34	0	0	65	0.93
1823579--1823638	13	4.6	14	69	22	51	50	0	0	50	1.00
1823939--1823969	2	15.5	2	100	0	62	48	0	0	51	1.00
1824044--1824095	3	17.7	3	84	11	72	32	0	1	65	1.04
1824458--1824492	2	17.5	2	93	0	61	48	2	0	48	1.16
1827568--1827975	205	2.0	203	89	2	631	37	18	17	26	1.93
1830087--1830121	12	2.9	12	95	0	61	45	51	2	0	1.16
1830087--1830121	18	1.9	18	94	0	61	45	51	2	0	1.16
1831505--1831535	15	2.1	15	93	0	53	41	0	0	58	0.98
1832618--1832650	16	2.0	17	88	5	50	54	0	0	45	0.99
1833247--1833272	2	13.0	2	100	0	52	50	0	0	50	1.00
1835788--1835817	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1837358--1837409	18	2.9	18	82	8	70	36	0	0	63	0.95
1837758--1837810	2	26.5	2	100	0	106	49	0	0	50	1.00
1837952--1838039	20	4.4	19	72	14	63	38	0	0	61	0.96
1837943--1838053	5	23.6	5	68	18	53	36	0	0	62	1.02
1837955--1838035	41	2.0	41	83	7	103	37	0	0	62	0.95
1839470--1839574	19	5.5	19	69	17	65	57	0	0	41	1.05
1839450--1839592	13	11.2	13	68	25	76	60	0	0	39	1.02
1840183--1840222	20	1.9	22	90	10	66	45	0	5	50	1.23
1840184--1840244	32	1.9	31	83	12	79	45	0	1	52	1.10
1840191--1840288	47	2.1	48	81	9	112	47	0	1	51	1.07
1840293--1840323	13	2.4	13	94	0	53	64	0	0	35	0.94
1840295--1840335	13	2.9	15	86	10	52	65	0	0	34	0.93
1847521--1847615	46	2.1	46	97	0	181	53	14	12	18	1.72
1849209--1849250	14	3.0	14	85	0	57	40	0	0	59	0.97
1849731--1849776	19	2.4	19	82	7	58	58	0	0	41	0.98
1849732--1849772	22	2.0	20	85	9	55	56	0	0	43	0.99
1849746--1849782	19	1.9	19	88	0	56	56	0	0	43	0.99
1850401--1850452	18	2.9	18	78	13	54	67	1	0	30	1.02
1850570--1850607	19	2.1	18	95	5	67	36	0	0	63	0.95
1854055--1854127	2	36.5	2	83	0	83	42	1	4	52	1.29
1854169--1854210	21	2.0	20	86	4	57	52	0	0	47	1.00
1854769--1854807	14	2.8	14	88	11	62	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1854769--1854812	13	3.3	13	87	12	63	54	0	0	45	0.99
1855133--1855187	23	2.4	24	79	14	62	50	0	0	49	1.00
1855202--1855241	19	2.0	20	90	4	64	57	0	0	42	0.98
1855291--1855321	14	2.3	14	94	5	55	12	12	38	35	1.82
1855480--1855546	16	4.1	16	73	21	59	44	0	0	55	0.99
1855521--1855571	25	2.1	24	85	7	68	41	0	0	58	0.98
1859235--1859282	17	2.8	17	81	6	53	43	0	0	56	0.99
1859263--1859304	14	2.9	14	89	7	57	40	2	0	57	1.12
1859251--1859293	14	2.7	17	79	20	65	39	0	0	60	0.97
1859499--1859548	20	2.5	20	76	0	55	46	4	0	50	1.20
1863324--1863366	22	2.0	22	86	9	61	58	0	0	41	0.98
1864342--1864451	53	2.1	54	81	5	125	37	27	13	21	1.91
1864430--1864505	16	4.8	16	91	6	127	38	30	18	13	1.89
1864550--1864580	16	1.9	16	100	0	62	48	38	0	12	1.42
1864739--1864811	34	2.1	36	87	5	105	39	21	12	26	1.89
1868469--1868499	15	2.1	15	93	0	53	61	12	9	16	1.56
1870779--1870821	20	2.1	20	82	4	50	53	0	2	44	1.13
1870851--1870890	21	1.9	21	90	10	64	40	0	0	60	0.97
1871392--1871423	17	1.9	16	93	6	55	21	3	0	75	0.95
1871657--1871702	15	2.9	16	72	18	51	39	4	0	56	1.19
1871712--1871930	34	6.5	34	87	1	289	25	8	26	40	1.83
1871712--1871932	67	3.3	66	86	2	307	24	8	26	40	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1871712--1871930	101	2.2	101	90	2	350	25	8	26	40	1.83
1872237--1872299	19	3.3	19	90	0	90	28	17	19	34	1.94
1876365--1876582	34	6.5	34	88	1	296	24	7	27	40	1.82
1876365--1876584	67	3.3	67	88	1	323	24	7	27	40	1.82
1876978--1877013	18	2.0	18	88	0	54	50	0	0	50	1.00
1877756--1877826	18	4.1	18	73	10	58	39	1	0	59	1.06
1877780--1877839	31	1.9	31	93	0	102	43	1	0	55	1.10
1877991--1878033	22	2.0	22	90	9	70	41	0	0	58	0.98
1878314--1878380	22	3.0	22	75	14	64	32	1	1	64	1.12
1878584--1878640	20	2.7	22	79	17	68	59	1	3	35	1.25
1878779--1878808	12	2.4	13	94	5	53	80	0	0	20	0.72
1879118--1879174	22	2.6	22	82	0	78	36	0	8	54	1.32
1879452--1879491	2	20.0	2	100	0	80	50	0	0	50	1.00
1879688--1879726	13	3.5	11	83	16	53	25	0	0	74	0.82
1880219--1880267	21	2.2	23	85	7	66	42	0	0	57	0.99
1880309--1880352	7	6.0	7	82	10	52	43	0	0	56	0.99
1880797--1880857	15	3.9	16	76	23	67	49	0	0	50	1.00
1884358--1884388	16	1.9	16	93	0	53	54	12	0	32	1.38
1884725--1884758	2	17.0	2	100	0	68	50	0	0	50	1.00
1885246--1885314	34	2.0	35	81	13	81	47	2	0	49	1.16
1889008--1889038	3	10.3	3	100	0	62	32	0	35	32	1.58
1889677--1889726	19	2.7	19	85	11	68	42	0	2	56	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1891034--1891075	14	3.1	14	83	6	52	61	0	0	38	0.96
1891891--1891921	2	15.5	2	100	0	62	48	0	0	51	1.00
1892575--1892619	2	22.5	2	100	0	90	51	0	0	48	1.00
1893176--1893200	2	12.5	2	100	0	50	48	0	0	52	1.00
1894070--1894111	21	2.0	21	85	0	57	66	2	0	30	1.04
1894120--1894202	6	13.0	6	72	16	60	43	0	0	56	0.99
1894167--1894210	20	2.2	20	88	4	63	38	0	0	61	0.96
1896337--1896386	26	2.0	25	84	11	66	58	0	2	40	1.10
1896366--1896456	18	4.7	18	70	22	69	65	0	0	34	0.93
1896365--1896469	30	3.5	29	76	18	99	66	0	0	33	0.92

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   30   31   32