genome.fa.s103.2.7.7.80.10.50.1000.16.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: Scaffold103
Parameters: 2 7 7 80 10 50 1000
Length:  2633873

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

This is table  16  of  21  ( 2458 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)
1801478--1801571	18	5.2	18	68	25	56	58	1	0	40	1.05
1802419--1802463	19	2.4	19	85	10	58	28	0	2	68	1.01
1802876--1802977	25	4.0	24	75	15	89	31	2	0	64	1.15
1802917--1802952	16	2.2	17	90	5	56	36	0	2	61	1.11
1802880--1802977	17	5.6	17	70	19	69	31	3	1	64	1.16
1802872--1802977	9	12.0	9	70	21	73	32	2	0	64	1.15
1803182--1803208	9	3.0	9	100	0	54	22	0	0	77	0.76
1803397--1803430	9	3.6	9	85	14	50	44	0	0	55	0.99
1803454--1803488	5	7.0	5	100	0	70	20	0	0	80	0.72
1807855--1807894	2	20.0	2	100	0	80	50	0	0	50	1.00
1808175--1808391	108	2.0	108	100	0	434	37	18	18	24	1.93
1809006--1809040	2	17.5	2	100	0	70	48	0	0	51	1.00
1810068--1810094	14	1.9	14	100	0	54	51	0	7	40	1.30
1811229--1811288	24	2.4	25	78	13	61	43	0	0	56	0.99
1811739--1811777	20	1.9	21	84	5	53	51	5	2	41	1.38
1811955--1811989	2	17.5	2	100	0	70	51	0	0	48	1.00
1814416--1814475	24	2.5	24	83	5	68	61	5	5	28	1.38
1820002--1820041	14	2.7	15	80	11	55	50	0	0	50	1.00
1824894--1824976	29	2.8	30	80	9	89	42	2	0	55	1.13
1824895--1825028	31	4.4	30	80	10	123	37	5	0	57	1.21
1824982--1825028	24	2.0	24	86	0	67	34	8	0	57	1.29
1825442--1825504	24	2.7	23	80	7	72	46	0	3	50	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1825800--1825825	13	2.0	13	100	0	52	30	46	7	15	1.74
1826249--1826611	181	2.0	181	96	1	674	34	11	13	39	1.81
1827322--1827460	19	7.7	18	72	18	78	38	0	0	60	1.02
1827347--1827414	16	4.2	16	71	26	54	41	0	0	58	0.98
1827357--1827438	33	2.5	33	82	7	87	42	0	0	57	0.98
1827360--1827466	16	6.2	16	68	21	56	39	0	0	59	1.04
1827811--1827855	20	2.3	18	85	11	54	62	0	0	37	0.96
1827829--1827862	17	2.0	17	88	11	52	52	0	0	47	1.00
1827820--1827865	20	2.4	19	89	7	67	50	0	0	50	1.00
1827846--1827932	39	2.2	40	80	11	101	49	0	1	49	1.08
1830595--1830655	28	2.2	28	100	0	122	36	3	6	54	1.43
1832830--1832866	17	2.1	19	85	10	51	75	2	10	10	1.14
1836665--1836704	2	20.0	2	100	0	80	0	50	0	50	1.00
1839372--1839419	18	2.6	18	80	9	53	45	0	0	54	0.99
1839788--1839831	14	3.2	14	83	3	54	52	2	0	45	1.13
1840010--1840117	53	2.0	54	96	1	200	23	7	15	53	1.67
1840323--1840394	27	2.7	27	95	4	130	41	0	0	58	0.98
1840296--1840395	27	4.0	25	82	10	109	41	1	0	58	1.05
1840345--1840391	12	3.2	16	72	27	59	42	0	0	57	0.98
1840414--1840478	25	2.7	26	82	15	70	41	1	1	55	1.18
1840650--1840700	20	2.7	20	82	8	63	52	0	3	43	1.19
1840657--1840715	18	3.2	17	79	15	57	54	1	1	42	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1840720--1840758	17	2.3	17	86	8	53	41	2	0	56	1.13
1840825--1840878	28	2.0	27	82	10	65	50	1	0	48	1.11
1841136--1841190	23	2.5	21	80	8	65	49	0	0	50	1.00
1841217--1841250	16	2.1	17	88	5	52	50	0	0	50	1.00
1844639--1844677	6	6.5	6	85	11	53	30	0	0	69	0.89
1844639--1844677	11	3.2	12	82	10	53	30	0	0	69	0.89
1845221--1845275	25	2.2	26	75	21	64	50	1	0	47	1.11
1845202--1845256	19	2.9	19	74	17	51	52	1	0	45	1.11
1845371--1845409	20	2.0	19	85	5	51	61	0	0	38	0.96
1845765--1845832	14	4.3	16	73	15	61	54	0	0	45	0.99
1845895--1845935	2	20.5	2	100	0	82	51	0	0	48	1.00
1846053--1846094	13	3.2	13	83	9	59	35	0	0	64	0.94
1847154--1847262	30	3.6	30	77	4	103	14	60	7	17	1.56
1849087--1849130	17	2.6	17	85	0	52	40	0	2	56	1.11
1850653--1850694	16	2.7	15	85	10	57	54	0	2	42	1.13
1850948--1850983	15	2.4	15	85	0	54	61	0	0	38	0.96
1850946--1850991	15	2.8	17	74	12	51	58	0	0	41	0.98
1850998--1851048	20	2.5	21	75	12	61	54	0	0	45	0.99
1850993--1851039	16	2.9	17	78	9	53	51	0	0	48	1.00
1853565--1853615	25	2.0	25	88	0	75	54	0	1	43	1.11
1854186--1854222	2	18.5	2	94	0	65	45	0	2	51	1.15
1855386--1855427	15	2.9	14	83	13	50	42	0	0	57	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1855917--1855954	19	2.0	19	85	10	51	52	0	2	44	1.14
1856330--1856358	12	2.3	13	94	5	51	44	0	3	51	1.18
1858135--1858178	21	2.2	20	83	4	52	38	2	2	56	1.24
1858135--1858191	10	6.0	10	73	19	50	40	1	1	56	1.20
1858152--1858189	20	1.9	20	88	0	58	39	0	0	60	0.97
1858759--1858797	20	2.0	20	90	10	62	38	0	2	58	1.12
1860491--1860553	20	3.0	20	77	13	65	47	4	0	47	1.23
1870403--1870444	2	21.0	2	90	0	66	0	45	4	50	1.23
1870630--1870674	18	2.5	19	82	10	58	53	0	2	44	1.13
1873792--1873869	40	1.9	41	84	7	106	52	1	0	46	1.08
1876929--1876968	21	2.0	21	85	5	55	25	15	20	40	1.90
1877018--1877046	2	14.5	2	100	0	58	48	0	0	51	1.00
1880404--1880428	3	8.3	3	100	0	50	68	0	32	0	0.90
1881093--1881317	40	5.3	39	68	22	118	49	4	2	42	1.38
1881159--1881234	20	4.1	17	75	18	55	47	6	2	43	1.43
1881089--1881235	19	7.2	19	70	22	84	46	6	2	44	1.42
1881089--1881317	86	2.7	85	79	11	243	49	4	2	43	1.37
1881246--1881301	20	2.9	19	81	5	67	60	0	0	39	0.97
1881275--1881365	48	1.9	48	88	2	139	54	5	2	37	1.36
1881213--1881368	67	2.3	68	80	8	169	52	4	1	41	1.33
1881332--1881383	19	2.7	20	81	6	70	55	3	1	38	1.29
1881599--1881662	15	3.9	16	71	19	51	70	1	3	25	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1883659--1883690	16	2.0	16	93	0	55	9	25	25	40	1.85
1885538--1885579	18	2.4	18	80	4	50	57	7	4	30	1.47
1886193--1886246	17	3.1	17	81	10	56	57	0	3	38	1.17
1886192--1886252	16	3.7	16	78	10	61	54	0	3	42	1.17
1888247--1888328	42	2.0	41	85	9	112	58	0	0	41	0.98
1888422--1888463	17	2.5	17	76	11	50	35	0	0	64	0.94
1888422--1888483	32	1.9	33	87	9	92	40	0	0	59	0.97
1888674--1888719	19	2.3	19	85	11	56	60	2	0	36	1.09
1889052--1889087	16	2.2	16	90	0	54	52	0	0	47	1.00
1889041--1889081	19	2.1	20	86	4	57	60	0	0	39	0.96
1889195--1889264	19	3.1	24	67	28	64	47	0	0	52	1.00
1889201--1889251	24	2.1	25	82	10	61	47	0	0	52	1.00
1889194--1889252	22	2.8	20	78	16	66	45	0	0	54	0.99
1889862--1889935	23	3.1	23	71	13	69	39	0	2	58	1.13
1890281--1890310	14	2.1	14	93	0	51	36	0	0	63	0.95
1890299--1890351	27	2.0	27	85	7	72	50	0	0	49	1.00
1890870--1890910	21	1.9	22	85	5	57	48	0	0	51	1.00
1890875--1890928	26	2.1	26	82	6	65	46	0	0	53	1.00
1891003--1891065	29	2.1	31	85	5	85	52	4	0	42	1.22
1894696--1894721	6	4.3	6	100	0	52	53	0	0	46	1.00
1894770--1894814	19	2.4	19	80	0	54	46	2	0	51	1.13
1897761--1897832	35	2.1	35	86	0	99	45	9	15	29	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1898353--1898409	23	2.5	23	77	8	64	43	0	1	54	1.10
1899056--1899088	15	2.2	15	94	0	57	30	6	39	24	1.79
1899721--1899759	18	2.1	17	86	13	51	82	10	2	5	0.93
1900960--1900985	3	8.7	3	100	0	52	34	0	0	65	0.93
1901677--1901717	20	2.0	20	100	0	82	60	0	0	39	0.96
1901779--1901842	27	2.4	27	87	7	87	46	1	0	51	1.10
1901759--1901839	21	3.8	21	77	11	67	49	1	1	48	1.17
1901805--1901837	17	2.0	17	88	5	50	45	0	0	54	0.99
1902557--1902666	6	19.5	6	70	19	60	30	4	1	63	1.24
1902635--1902664	16	1.9	15	93	6	51	30	3	0	66	1.07

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