genome.fa.s215.2.7.7.80.10.50.1000.15.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: Scaffold215
Parameters: 2 7 7 80 10 50 1000
Length:  2124891

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

This is table  15  of  16  ( 1860 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)
1836859--1837618	248	3.1	247	89	2	1145	31	19	25	23	1.98
1838619--1838656	11	3.5	11	85	3	51	0	10	5	84	0.77
1838639--1838683	13	3.1	16	78	21	62	4	0	13	82	0.82
1838650--1838686	13	2.7	14	91	8	67	5	0	13	81	0.86
1838614--1838693	13	5.7	13	73	15	61	3	5	8	82	0.93
1850973--1851386	79	5.3	78	81	3	391	31	14	25	27	1.95
1851341--1851417	28	2.8	28	93	0	127	25	19	29	24	1.98
1851369--1851621	79	3.2	78	83	3	319	31	13	26	28	1.94
1851105--1851622	264	2.0	264	83	4	668	31	14	26	27	1.95
1853975--1854004	13	2.3	13	94	0	51	40	10	16	33	1.82
1853930--1854054	62	2.0	63	92	1	207	40	14	16	28	1.87
1853946--1854051	30	3.5	30	73	8	106	40	15	16	28	1.88
1862285--1862328	21	2.2	20	83	4	52	38	18	0	43	1.50
1864908--1864948	13	3.2	13	86	6	57	31	14	21	31	1.94
1870837--1870926	21	4.3	20	90	4	92	38	8	16	35	1.80
1870851--1870926	21	3.6	21	94	0	134	38	7	15	38	1.77
1870760--1871021	134	2.0	133	82	8	327	37	12	14	35	1.84
1873423--1873448	13	2.0	13	100	0	52	38	15	15	30	1.88
1873498--1873552	19	2.8	20	83	5	76	32	18	18	30	1.95
1873538--1873597	13	5.1	13	71	22	60	40	16	15	28	1.89
1873538--1873615	33	2.4	33	97	0	147	39	16	15	28	1.89
1873550--1873615	20	3.7	20	73	26	74	40	16	15	27	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1875436--1875514	28	2.9	27	72	12	70	11	20	6	62	1.50
1877436--1877467	12	2.6	12	95	5	55	59	6	18	15	1.57
1878713--1878737	13	1.9	13	100	0	50	32	16	16	36	1.90
1878692--1878756	32	2.0	33	90	3	105	30	15	13	40	1.86
1878803--1878829	13	2.1	13	100	0	54	29	14	14	40	1.86
1880146--1880171	13	2.0	13	100	0	52	30	15	15	38	1.88
1882246--1882288	20	2.1	20	86	4	59	9	25	44	20	1.81
1882729--1882767	13	3.0	13	96	0	69	35	15	17	30	1.91
1882729--1882832	46	2.3	46	84	3	129	39	15	16	28	1.89
1884830--1884870	15	2.7	15	84	3	55	17	19	17	46	1.85
1886671--1886715	22	2.1	21	84	8	56	22	15	6	55	1.63
1886660--1886715	21	2.7	21	75	13	62	23	14	7	55	1.63
1888946--1888971	13	2.0	13	100	0	52	30	15	15	38	1.88
1890431--1890464	3	11.3	3	93	0	50	41	0	32	26	1.56
1892840--1892870	16	1.9	16	93	0	53	41	0	16	41	1.48
1894287--1894314	13	2.2	13	100	0	56	28	14	14	42	1.84
1895645--1895671	13	2.1	13	100	0	54	29	14	14	40	1.86
1895626--1895690	32	2.0	32	90	3	103	29	15	15	40	1.88
1895655--1895712	19	3.1	18	88	11	89	34	15	17	32	1.91
1895656--1895711	20	2.8	20	92	7	89	32	16	17	33	1.92
1897320--1897355	18	2.0	18	88	0	54	36	2	33	27	1.72
1899788--1899819	16	2.0	17	88	11	50	53	18	18	9	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1901815--1901869	20	2.8	20	100	0	110	34	10	23	30	1.89
1901903--1901929	13	2.1	13	100	0	54	29	14	14	40	1.86
1902050--1902091	22	2.0	22	86	13	63	33	21	0	45	1.52
1902046--1902091	20	2.3	20	82	17	60	30	21	0	47	1.51
1903783--1903863	28	2.8	29	90	5	119	33	8	25	32	1.86
1904553--1904577	13	1.9	13	100	0	50	36	16	16	32	1.90
1904534--1904597	32	2.0	32	90	9	103	34	14	18	32	1.91
1906918--1906972	19	2.8	20	80	5	67	30	9	16	43	1.79
1907015--1907074	13	5.1	13	77	22	78	31	13	16	38	1.87
1907027--1907094	20	3.8	20	74	25	87	33	11	17	36	1.86
1907015--1907094	33	2.4	33	100	0	160	32	12	17	37	1.87
1909010--1910201	159	7.5	158	70	9	663	36	13	18	31	1.90
1908964--1910199	476	2.6	476	90	1	1926	36	13	18	31	1.90
1913783--1913851	13	6.0	12	73	20	67	31	14	20	33	1.92
1917681--1917787	42	2.5	41	86	5	126	15	41	0	42	1.54
1917711--1917790	12	7.3	11	72	16	51	13	43	1	41	1.52
1919437--1919490	20	2.8	19	86	5	72	31	12	20	35	1.90
1919518--1919571	20	2.7	20	91	5	83	31	12	18	37	1.89
1923625--1923656	16	2.0	17	88	11	50	53	18	18	9	1.71
1925672--1925697	13	2.0	13	100	0	52	30	15	15	38	1.88
1931444--1931469	13	2.0	13	100	0	52	38	15	15	30	1.88
1931517--1931542	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1932280--1932890	49	12.6	48	75	11	466	31	17	26	25	1.97
1932720--1932895	88	2.0	87	86	3	246	28	18	26	26	1.98
1932888--1932965	33	2.5	32	80	10	90	17	15	37	29	1.91
1932966--1933065	32	3.1	32	85	5	137	37	12	31	20	1.89
1933104--1933203	33	3.1	33	82	5	132	36	12	34	18	1.87
1933105--1933622	31	17.0	29	75	10	146	30	15	31	22	1.94
1933229--1933723	61	8.1	60	83	7	418	30	15	30	23	1.95
1933139--1933714	30	19.0	30	79	7	533	30	15	31	22	1.95
1933267--1933712	153	2.9	153	85	6	618	29	16	31	23	1.96
1934653--1934700	5	9.8	5	80	13	55	2	4	12	81	0.93
1934653--1934700	16	3.3	15	85	8	55	2	4	12	81	0.93
1934948--1935003	20	2.8	20	82	17	80	0	8	10	80	0.91
1934948--1935009	18	3.3	18	86	8	79	1	9	9	79	1.02
1941526--1941551	13	2.0	13	100	0	52	38	15	15	30	1.88
1941599--1941624	13	2.0	13	100	0	52	38	15	15	30	1.88
1941955--1941981	13	2.1	13	100	0	54	29	14	14	40	1.86
1947778--1947802	3	8.3	3	100	0	50	32	36	0	32	1.58
1949415--1949445	13	2.4	13	94	0	53	35	12	16	35	1.87
1949395--1949461	33	2.0	33	88	5	100	34	17	11	35	1.87
1949529--1949555	13	2.1	13	100	0	54	40	14	14	29	1.86
1949512--1949574	33	1.9	32	87	3	90	41	14	17	26	1.88
1949862--1972799	475	48.2	474	78	7	14439	36	13	18	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1949862--1972799	951	24.1	950	77	8	13729	36	13	18	31	1.90
1950781--1958526	159	49.1	157	65	14	588	36	13	18	31	1.90
1960410--1961085	341	2.0	340	87	2	964	35	13	19	31	1.90
1962589--1963429	158	5.3	157	68	11	462	35	14	17	32	1.90
1960743--1963237	952	2.6	948	85	3	3220	35	13	18	31	1.90
1963342--1963562	112	2.0	112	94	0	388	33	14	21	30	1.93
1963282--1964600	586	2.3	571	84	4	1680	35	13	19	31	1.90
1968904--1969559	158	4.1	158	69	12	405	37	13	17	31	1.88
1972804--1973543	339	2.2	338	91	0	1185	37	15	16	31	1.89
1973207--1974118	476	1.9	478	85	4	1268	37	15	16	30	1.90
1974374--1974440	37	1.9	35	88	11	102	29	25	11	32	1.92
1976597--1976621	13	1.9	13	100	0	50	32	16	16	36	1.90
1977206--1977252	23	2.0	24	84	12	62	59	19	4	17	1.53
1979832--1979898	37	1.9	35	88	11	102	29	25	11	32	1.92
1981153--1982438	338	3.8	338	91	1	2031	37	14	17	30	1.90
1982434--1984842	477	5.1	475	85	2	3140	36	15	17	29	1.91
1985134--1985209	20	3.6	20	73	13	80	39	13	17	30	1.87
1985134--1985230	44	2.3	41	91	5	149	41	12	17	28	1.86
1985269--1985294	13	2.0	13	100	0	52	38	15	15	30	1.88
1985251--1985314	32	2.0	33	87	3	94	42	14	15	28	1.86
1989356--1989386	15	2.1	15	93	0	53	48	16	22	12	1.80
1991412--1991508	20	4.6	20	81	12	106	24	14	14	46	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1991497--1991521	13	1.9	13	100	0	50	32	20	16	32	1.94
1993362--1993457	48	2.0	48	97	0	183	38	8	28	25	1.84
1994008--1994081	20	3.6	20	78	7	94	37	13	17	31	1.89
1994008--1994102	42	2.3	42	94	1	165	40	12	17	29	1.87
1994141--1994166	13	2.0	13	100	0	52	38	15	15	30	1.88
1994123--1994186	32	2.0	33	87	3	94	42	14	15	28	1.86
1995445--1998705	477	6.9	477	84	2	4104	36	14	18	30	1.91
1999843--1999938	47	2.0	47	93	0	165	35	22	12	29	1.91
1999890--2009042	476	19.2	475	81	4	9379	36	14	17	31	1.90
2008199--2008283	41	2.1	41	86	0	116	31	10	24	32	1.89

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