genome.fa.s228.2.7.7.80.10.50.1000.13.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: Scaffold228
Parameters: 2 7 7 80 10 50 1000
Length:  4123243

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   

This is table  13  of  27  ( 3133 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)
1825788--1826488	126	5.5	125	80	4	440	37	17	28	15	1.92
1825782--1826488	84	8.3	85	81	4	599	37	18	28	16	1.92
1825789--1826488	171	4.1	170	79	5	603	37	18	28	16	1.92
1838965--1839004	20	2.0	21	85	5	55	17	5	2	75	1.10
1843782--1843816	15	2.2	16	90	10	54	25	0	0	74	0.82
1844884--1844913	2	15.0	2	100	0	60	50	0	0	50	1.00
1845620--1845651	2	15.5	2	93	6	55	46	0	3	50	1.17
1845825--1845869	16	2.8	16	86	3	54	28	8	13	48	1.72
1847462--1847491	2	15.0	2	92	0	51	46	0	3	50	1.18
1857739--1857825	41	2.1	41	93	0	147	40	9	2	48	1.48
1858150--1858298	73	2.0	74	90	1	237	41	12	10	35	1.77
1860232--1860268	2	18.5	2	100	0	74	51	0	0	48	1.00
1861334--1861378	23	2.0	23	86	0	63	48	4	0	46	1.22
1862149--1862250	40	2.5	40	77	15	102	58	0	0	41	0.98
1862160--1862213	24	2.3	23	78	9	56	57	0	0	42	0.98
1862160--1862242	31	2.5	33	79	11	100	57	0	0	42	0.98
1862148--1862250	14	7.2	14	69	18	61	59	0	0	40	0.98
1864545--1864592	23	2.1	23	92	0	78	25	8	10	56	1.61
1867435--1867476	21	2.0	21	86	9	59	23	0	2	73	0.94
1870981--1871005	8	3.1	8	100	0	50	64	0	0	36	0.94
1871004--1871048	20	2.2	20	88	8	63	40	0	0	60	0.97
1871016--1871073	28	2.2	26	84	6	71	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1870991--1871050	22	2.6	24	80	17	74	45	0	0	55	0.99
1871707--1871751	16	2.8	16	89	3	63	35	11	8	44	1.71
1871693--1871844	72	2.1	70	81	2	178	39	8	8	43	1.66
1875694--1875763	24	2.8	25	89	6	99	44	25	8	21	1.80
1875748--1875818	27	2.6	27	86	6	90	46	22	7	23	1.76
1880081--1880150	25	2.8	25	87	6	90	42	25	10	21	1.84
1880140--1880205	27	2.4	27	85	7	89	46	18	7	27	1.75
1880973--1881034	30	2.1	30	100	0	124	19	12	17	50	1.78
1881186--1881281	48	2.0	48	97	0	183	37	17	17	27	1.93
1886392--1886422	16	1.9	16	93	0	53	16	0	3	80	0.83
1886787--1886880	46	2.0	46	100	0	188	29	23	6	40	1.79
1887771--1887824	24	2.2	24	84	12	67	20	1	1	75	0.98
1887793--1887826	16	2.1	16	88	0	50	23	2	0	73	0.97
1888330--1888540	42	5.0	42	82	6	135	39	19	27	12	1.88
1888353--1889008	42	15.5	42	85	3	780	36	19	32	11	1.87
1901440--1901470	16	1.9	16	93	0	53	16	0	3	80	0.83
1901832--1901925	46	2.0	46	97	0	179	29	22	6	41	1.78
1902162--1902189	13	2.2	13	100	0	56	0	21	0	78	0.75
1902843--1902899	24	2.3	25	85	11	73	28	0	1	70	0.98
1902841--1902897	16	3.4	16	75	18	53	26	0	1	71	0.95
1904635--1904669	18	2.0	18	88	5	54	45	2	0	51	1.16
1904861--1904907	20	2.5	18	78	18	51	38	2	2	57	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1904859--1904903	24	1.9	23	82	13	56	37	4	2	55	1.32
1905145--1905193	23	2.1	23	85	11	64	55	0	2	42	1.11
1905269--1905299	16	1.9	16	93	0	53	48	3	0	48	1.17
1905645--1905673	7	4.1	7	100	0	58	68	0	0	31	0.89
1905757--1905782	13	2.0	13	100	0	52	53	7	0	38	1.30
1911123--1911198	20	3.8	20	83	0	107	42	11	11	34	1.78
1911756--1912631	28	30.3	28	81	5	842	23	17	30	28	1.97
1911775--1912788	200	5.1	198	81	8	1004	23	17	30	28	1.97
1911775--1912626	57	14.8	56	81	6	825	23	17	30	28	1.97
1912587--1912673	44	2.0	42	88	4	129	25	14	32	27	1.95
1912631--1912788	28	5.6	28	87	4	194	22	17	33	26	1.96
1912631--1912788	56	2.8	56	86	3	219	22	17	33	26	1.96
1912631--1912788	84	1.9	84	90	0	253	22	17	33	26	1.96
1913756--1913782	2	13.5	2	100	0	54	48	0	0	51	1.00
1920722--1920760	19	2.1	19	85	0	51	38	17	15	28	1.91
1924983--1925031	2	24.5	2	80	0	53	55	4	0	40	1.19
1925263--1925297	2	17.5	2	100	0	70	51	0	0	48	1.00
1927183--1927214	2	17.0	2	87	12	50	50	0	0	50	1.00
1927177--1927214	12	3.2	12	85	11	51	52	0	0	47	1.00
1930559--1930656	50	1.9	51	85	2	135	27	14	13	44	1.82
1931097--1931137	18	2.3	18	87	8	57	63	0	0	36	0.95
1931139--1931196	20	3.2	20	69	23	63	34	6	3	55	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1932424--1932793	167	2.2	163	81	5	413	31	11	8	48	1.69
1932348--1933014	166	4.0	163	77	8	478	30	10	8	49	1.68
1936099--1936124	13	2.0	13	100	0	52	30	15	15	38	1.88
1936199--1936259	20	3.1	19	74	6	59	36	11	16	36	1.85
1936303--1936333	13	2.4	13	94	0	53	35	16	9	38	1.81
1936774--1936824	23	2.2	23	86	6	68	39	23	1	35	1.66
1936784--1936830	23	2.0	23	100	0	94	36	25	4	34	1.76
1941330--1941427	37	2.7	35	82	6	106	41	14	12	31	1.82
1941593--1941626	17	2.0	17	88	0	50	47	20	8	23	1.78
1943298--1943359	30	2.1	29	82	14	74	40	19	6	33	1.77
1943337--1943400	28	2.3	27	81	10	74	37	20	7	34	1.81
1946478--1946546	17	4.3	17	74	18	67	52	7	0	40	1.29
1951562--1951877	50	6.3	50	94	0	508	29	17	20	32	1.95
1956312--1956493	50	3.6	50	91	2	276	28	21	20	29	1.98
1956867--1956894	14	2.0	14	100	0	56	64	0	0	35	0.94
1957512--1957555	20	2.2	20	87	0	61	45	0	2	52	1.13
1957552--1957604	21	2.5	21	81	6	54	60	0	0	39	0.97
1959268--1959295	2	14.0	2	100	0	56	50	0	0	50	1.00
1962813--1962845	6	5.5	6	92	0	57	33	45	18	3	1.65
1964602--1964677	27	2.8	26	84	5	89	32	18	26	22	1.97
1964518--1964769	123	2.0	123	80	3	274	34	13	24	28	1.93
1965091--1965117	10	2.7	10	100	0	54	55	18	7	18	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1970120--1970171	13	3.5	13	73	26	50	34	19	13	32	1.90
1971231--1972134	49	18.8	49	77	9	853	32	17	25	25	1.96
1971095--1972134	92	11.0	92	82	8	1048	32	17	25	25	1.97
1971099--1972348	184	6.7	184	79	10	1158	32	16	24	26	1.96
1971337--1972139	149	5.6	148	79	10	760	32	16	24	25	1.96
1972140--1972302	43	3.7	43	74	9	146	31	16	24	27	1.96
1972171--1972343	49	3.7	48	73	9	167	31	16	24	27	1.96
1972162--1972348	92	2.0	92	90	0	293	32	15	24	28	1.95
1972348--1972414	33	2.0	33	94	0	116	22	14	32	29	1.94
1972481--1972533	27	2.0	26	88	3	79	30	15	33	20	1.93
1972527--1972630	31	3.3	31	85	6	120	33	15	27	23	1.95
1972561--1972638	31	2.6	29	86	9	88	37	15	25	21	1.93
1973841--1973908	27	2.5	28	84	11	88	1	0	20	77	0.84
1977394--1977456	19	3.6	19	76	24	84	39	15	15	28	1.89
1977412--1977469	13	4.0	13	76	23	62	39	15	15	29	1.88
1977394--1977473	32	2.5	32	100	0	160	41	16	15	27	1.88
1979399--1979473	20	3.8	20	78	0	87	34	13	12	40	1.81
1979399--1979476	40	2.0	39	87	2	111	34	12	12	39	1.82
1987597--1988090	27	18.0	27	91	1	763	23	35	14	26	1.94
1987597--1988090	82	6.0	81	91	2	754	23	35	14	26	1.94
1987597--1988090	110	4.5	109	90	3	780	23	35	14	26	1.94
1988073--1989582	32	47.3	32	95	0	2600	31	35	18	14	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1988073--1991086	64	47.4	64	94	1	5118	31	35	18	14	1.91
1988073--1991086	96	31.6	96	94	1	5109	31	35	18	14	1.91
1989585--1990694	32	34.7	32	96	0	1977	31	35	18	14	1.91
1990699--1991086	32	12.1	32	94	0	659	31	34	18	15	1.92
1991569--1991643	20	3.8	20	78	0	87	34	13	12	40	1.81
1991569--1991646	40	2.0	39	87	2	111	34	12	12	39	1.82
1997134--1997164	15	2.1	15	93	0	53	48	16	22	12	1.80
1999235--1999272	13	2.9	13	92	0	58	34	15	15	34	1.90
2001158--2001196	18	2.2	18	95	0	69	41	7	15	35	1.76
2001804--2001855	19	2.7	20	87	6	79	42	15	13	28	1.85

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