genome.fa.s27.2.7.7.80.10.50.1000.11.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: Scaffold27
Parameters: 2 7 7 80 10 50 1000
Length:  2789374

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

This is table  11  of  16  ( 1898 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)
1785417--1785478	32	1.9	33	86	3	90	41	17	12	27	1.86
1785513--1785551	20	1.9	21	94	5	71	43	10	10	35	1.73
1794408--1794444	2	18.5	2	100	0	74	51	0	0	48	1.00
1797892--1797917	13	2.0	13	100	0	52	38	15	15	30	1.88
1797874--1797937	32	2.0	33	90	3	103	42	15	14	28	1.86
1800136--1800185	21	2.3	21	80	10	57	56	4	18	22	1.58
1801983--1802013	15	2.1	15	93	0	53	48	16	22	12	1.80
1806666--1806691	13	2.0	13	100	0	52	38	15	15	30	1.88
1806650--1806711	32	1.9	33	86	3	90	41	17	12	27	1.86
1807464--1807495	12	2.7	12	95	0	55	18	37	25	18	1.94
1807494--1807546	27	2.0	27	88	7	81	43	5	11	39	1.64
1808127--1808190	19	3.7	19	76	23	86	32	12	18	35	1.89
1808147--1808171	13	1.9	13	100	0	50	36	16	16	32	1.90
1808128--1808203	32	2.4	32	95	0	134	32	14	19	32	1.92
1810608--1810742	52	2.6	51	83	3	180	31	27	10	31	1.90
1810755--1810975	51	4.3	51	79	4	212	29	24	12	33	1.92
1810624--1810872	130	1.9	132	87	1	367	29	25	12	32	1.92
1810793--1810975	52	3.5	52	81	3	199	30	25	10	33	1.90
1810991--1811211	79	2.8	77	79	6	228	26	27	14	32	1.94
1812447--1812521	8	9.1	8	80	16	75	72	5	1	21	1.13
1812442--1812533	41	2.2	42	84	9	109	72	6	1	19	1.12
1812447--1812521	17	4.6	16	78	18	75	72	5	1	21	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1816413--1816438	13	2.0	13	100	0	52	30	15	15	38	1.88
1819012--1819050	13	3.0	13	92	0	60	35	12	17	33	1.88
1819500--1819528	14	2.1	14	100	0	58	34	0	27	37	1.57
1825161--1825225	32	2.0	34	87	6	98	29	13	16	40	1.88
1825850--1825883	15	2.2	16	89	5	52	82	0	0	17	0.67
1831587--1831769	50	3.7	50	91	2	296	27	16	12	43	1.84
1834179--1834296	51	2.3	51	86	2	157	33	23	7	34	1.83
1834230--1834609	157	2.4	158	83	7	477	30	23	11	34	1.90
1834228--1834609	79	4.8	78	81	5	403	30	23	11	34	1.90
1834545--1834662	51	2.3	50	86	5	157	31	26	10	32	1.89
1834466--1834750	130	2.2	128	82	9	346	28	25	12	33	1.92
1834594--1834851	79	3.3	78	80	5	297	27	25	13	33	1.94
1834313--1834845	287	1.9	287	84	3	725	28	24	12	34	1.92
1834387--1834817	208	2.1	208	82	2	517	28	24	12	33	1.92
1846879--1846925	21	2.2	21	78	17	53	80	2	10	6	0.96
1847898--1848619	61	11.8	61	86	1	809	25	27	18	27	1.98
1847960--1848058	32	3.2	31	66	18	80	27	27	16	29	1.97
1847991--1848087	29	3.2	29	64	18	72	25	28	18	26	1.98
1848581--1848655	36	2.1	36	89	0	114	32	28	16	24	1.96
1848520--1848716	97	2.0	97	87	0	277	28	27	17	25	1.97
1848459--1848773	158	2.0	157	88	0	468	27	28	18	26	1.98
1848617--1849003	61	6.4	61	81	5	430	27	28	17	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1848398--1848835	219	2.0	216	87	1	633	27	27	18	26	1.98
1848630--1848983	120	2.9	119	86	5	455	27	28	17	26	1.98
1856282--1856435	77	2.0	77	98	0	299	29	24	18	27	1.98
1860915--1860962	16	2.9	15	82	17	60	85	12	2	0	0.69
1860922--1860962	12	3.3	12	83	6	55	85	12	2	0	0.70
1862149--1862188	14	2.9	14	84	0	53	45	10	15	30	1.78
1862171--1862233	26	2.4	27	76	7	67	34	15	14	34	1.88
1862313--1862411	28	3.6	27	80	5	99	31	30	16	22	1.95
1873636--1873854	109	2.0	109	93	1	377	31	16	17	34	1.92
1874460--1874498	8	4.9	8	84	12	53	87	0	12	0	0.55
1874459--1874498	9	4.8	9	84	12	50	87	0	12	0	0.54
1875609--1876067	43	10.7	43	73	6	302	18	24	18	38	1.92
1875669--1875844	42	4.2	42	78	4	156	17	26	18	38	1.92
1875623--1876037	85	4.8	86	74	7	254	18	25	18	38	1.92
1875853--1876057	88	2.3	88	83	2	241	18	20	18	42	1.89
1876069--1876394	85	3.9	84	81	4	361	15	27	15	41	1.87
1876164--1876282	43	2.8	43	74	6	116	12	28	15	42	1.84
1876072--1876393	169	1.9	169	84	5	427	15	27	15	41	1.87
1876072--1876461	84	4.6	85	80	4	337	15	27	15	41	1.87
1876072--1876464	168	2.3	170	81	5	404	15	27	15	41	1.87
1881109--1881139	12	2.5	13	89	10	55	80	12	6	0	0.89
1886545--1886582	11	3.5	11	85	7	51	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1886566--1886627	20	3.1	20	75	13	65	58	0	0	41	0.98
1886587--1886644	14	3.9	14	76	12	62	51	0	0	48	1.00
1886552--1886645	31	3.0	31	86	7	118	56	0	0	43	0.99
1886819--1886893	37	2.1	36	82	2	87	56	2	0	41	1.13
1887115--1887145	13	2.3	14	94	5	55	41	0	0	58	0.98
1887113--1887147	14	2.5	15	86	13	56	42	0	0	57	0.99
1887199--1887253	21	2.6	22	77	11	62	49	1	0	49	1.11
1887575--1887718	16	9.2	15	69	10	56	36	2	4	55	1.36
1887573--1887721	47	3.1	48	78	8	128	36	2	4	56	1.34
1888901--1888942	18	2.3	18	95	0	75	40	26	4	28	1.76
1890655--1890708	28	1.9	28	92	7	92	37	16	22	24	1.94
1890666--1891277	79	7.7	79	78	9	509	34	12	25	27	1.92
1890668--1891298	237	2.6	238	81	9	730	34	12	24	28	1.92
1893659--1893764	50	2.1	50	87	0	149	37	12	19	30	1.89
1894294--1894866	61	9.5	60	78	6	500	30	17	24	26	1.97
1894294--1894866	122	4.7	120	80	7	572	30	17	24	26	1.97
1894298--1894865	183	3.1	180	82	6	625	30	17	24	27	1.97
1901144--1901232	18	4.6	19	69	21	60	56	1	1	41	1.14
1901147--1901244	21	4.5	22	74	14	87	56	1	1	41	1.13
1901516--1901604	22	3.9	22	69	15	72	52	1	3	42	1.25
1901629--1901657	9	3.0	10	90	10	51	31	0	0	68	0.89
1903240--1903302	3	21.0	3	93	0	81	66	7	0	25	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1904384--1904415	2	16.0	2	100	0	64	50	0	0	50	1.00
1911933--1911990	20	2.9	20	84	0	71	37	13	15	32	1.87
1911976--1912001	13	2.0	13	100	0	52	30	15	15	38	1.88
1918735--1918786	20	2.4	21	87	9	70	19	50	26	3	1.65
1920315--1920340	13	2.0	13	100	0	52	30	15	15	38	1.88
1920985--1921088	47	2.4	39	75	23	118	36	22	4	36	1.75
1921000--1921096	47	2.1	47	100	0	194	34	22	6	37	1.79
1921003--1921078	25	3.2	25	64	17	70	32	25	5	36	1.78
1922911--1922948	13	2.9	13	96	0	67	31	15	18	34	1.92
1925031--1925061	15	2.1	15	93	0	53	12	22	16	48	1.80
1926864--1926908	21	2.1	21	84	8	56	22	20	4	53	1.63
1929128--1929153	13	2.0	13	100	0	52	30	15	15	38	1.88
1930762--1930790	13	2.2	13	100	0	58	31	17	13	37	1.89
1930882--1930907	13	2.0	13	100	0	52	30	15	15	38	1.88
1934864--1934989	20	5.8	20	72	18	108	41	13	15	29	1.86
1935835--1936024	28	6.4	29	83	6	215	24	17	30	27	1.98
1936051--1936538	28	17.2	28	87	2	654	21	17	30	29	1.96
1936051--1936534	142	3.4	140	87	2	680	21	17	30	29	1.96
1937757--1937846	1	90.0	1	73	0	63	4	1	8	85	0.77
1937757--1937846	23	3.8	24	77	14	89	4	1	8	85	0.77
1953135--1953177	13	3.1	14	90	6	61	4	9	2	83	0.87
1956323--1956467	72	2.0	72	98	0	281	32	20	22	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1961381--1961942	79	7.1	76	78	8	218	34	14	23	27	1.93
1961299--1961961	157	4.2	157	78	7	608	35	13	23	27	1.92
1961332--1961961	78	7.9	78	78	8	483	34	13	24	27	1.93
1964278--1964392	50	2.3	50	90	0	176	42	16	17	23	1.88
1968278--1968317	15	2.6	15	88	4	53	30	5	17	47	1.69
1971010--1971389	58	6.6	57	68	12	170	28	11	12	47	1.75
1971020--1971397	116	3.3	114	73	8	313	28	11	12	47	1.76
1973823--1974043	57	3.8	58	81	4	209	27	12	15	44	1.82
1973866--1974108	58	4.2	56	76	8	195	25	11	16	46	1.80
1975033--1975058	13	2.0	13	100	0	52	30	15	15	38	1.88

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