genome.fa.s24.2.7.7.80.10.50.1000.12.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: Scaffold24
Parameters: 2 7 7 80 10 50 1000
Length:  3006277

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

This is table  12  of  19  ( 2215 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)
1838896--1838939	23	2.0	23	82	13	56	36	0	11	52	1.38
1841078--1841128	21	2.5	20	77	20	61	37	1	1	58	1.20
1842002--1842027	5	5.2	5	100	0	52	61	0	0	38	0.96
1842335--1842367	17	2.0	17	88	5	50	39	33	6	21	1.78
1845016--1845046	2	15.5	2	100	0	62	48	0	0	51	1.00
1848440--1848469	12	2.5	12	100	0	60	46	20	10	23	1.80
1849413--1849463	26	2.0	26	84	7	68	60	5	0	33	1.21
1849692--1849728	15	2.5	15	84	16	51	59	0	0	40	0.97
1849765--1849829	14	4.5	14	72	14	51	36	10	10	41	1.75
1851039--1851072	17	2.0	17	88	0	50	23	0	0	76	0.79
1851073--1851109	19	2.0	19	85	15	51	64	8	0	27	1.21
1854160--1854186	13	2.1	13	100	0	54	55	7	7	29	1.55
1858085--1858125	21	2.0	21	90	9	66	17	36	14	31	1.90
1858101--1858251	74	2.0	74	100	0	302	30	37	13	18	1.90
1863432--1863483	26	2.0	27	92	3	88	42	13	5	38	1.68
1863477--1864794	317	4.2	315	77	11	1096	42	8	5	43	1.58
1865412--1865462	18	2.7	19	84	6	59	39	1	5	52	1.37
1866518--1866655	72	1.9	75	82	7	176	44	3	10	42	1.55
1867334--1867383	22	2.3	22	83	12	68	24	0	4	72	1.02
1867334--1867383	23	2.3	22	86	10	68	24	0	4	72	1.02
1867358--1867415	17	3.5	16	75	13	55	25	3	5	65	1.29
1867332--1867400	20	3.5	21	65	25	51	27	0	4	68	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1868014--1868057	20	2.1	21	83	4	54	70	0	4	25	1.06
1868698--1868768	22	3.2	22	76	7	63	57	1	1	39	1.16
1870286--1870340	26	2.1	27	82	3	67	60	1	1	36	1.18
1870514--1870553	21	1.9	21	84	0	53	42	5	7	45	1.54
1870967--1871010	19	2.2	20	80	15	56	40	2	0	56	1.11
1872033--1872085	19	2.8	19	74	2	54	49	0	3	47	1.19
1872872--1872914	11	4.1	10	85	8	59	39	0	2	58	1.11
1872870--1872921	22	2.4	21	90	6	77	40	0	1	57	1.10
1875097--1875126	2	15.0	2	100	0	60	50	0	0	50	1.00
1876373--1876413	2	21.0	2	90	5	66	48	2	0	48	1.14
1877150--1877190	18	2.2	18	86	4	55	51	0	0	48	1.00
1877530--1877588	18	3.2	18	72	9	57	50	0	0	49	1.00
1878398--1878435	19	2.0	20	89	5	60	47	2	0	50	1.15
1878893--1878956	31	2.1	32	82	11	80	45	0	0	54	0.99
1878931--1878968	19	2.1	18	85	9	51	50	0	0	50	1.00
1882077--1882134	29	2.0	29	86	3	82	50	1	5	43	1.35
1887408--1887445	19	2.1	19	90	5	60	31	0	0	68	0.90
1891187--1891222	18	2.1	18	94	5	65	41	0	0	58	0.98
1891187--1891236	18	2.7	18	81	12	57	40	0	2	58	1.10
1891767--1891851	23	3.6	23	74	16	68	44	0	0	55	0.99
1892036--1892077	21	2.0	21	86	9	59	52	0	0	47	1.00
1892241--1892279	2	19.0	2	89	5	60	46	0	5	48	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1892682--1892723	7	6.0	7	86	13	52	54	0	0	45	0.99
1892681--1892744	15	4.1	16	70	13	53	56	0	1	42	1.09
1892658--1892723	27	2.4	27	83	14	75	53	0	0	46	1.00
1893885--1893911	2	13.5	2	100	0	54	51	0	0	48	1.00
1894735--1894762	3	9.3	3	100	0	56	32	0	0	67	0.91
1897057--1897081	4	6.2	4	100	0	50	72	0	0	28	0.86
1898005--1898060	2	28.0	2	96	0	103	48	0	1	50	1.11
1898492--1898554	8	7.9	8	77	8	58	61	1	0	36	1.05
1902130--1902234	54	1.9	54	80	3	122	44	10	8	36	1.69
1905563--1905598	16	2.2	17	90	5	56	52	0	0	47	1.00
1906283--1906315	2	17.0	2	93	6	59	48	0	0	51	1.00
1907550--1907622	27	2.7	27	85	4	94	26	9	16	47	1.77
1907555--1907639	27	3.1	27	79	5	73	24	8	17	49	1.74
1907707--1907753	13	3.6	13	91	0	67	19	38	6	36	1.77
1909400--1909470	29	2.4	32	80	15	75	43	1	0	54	1.08
1909419--1909456	17	2.3	17	86	13	53	44	0	0	55	0.99
1909448--1909534	46	1.9	46	81	11	108	35	1	2	60	1.17
1909448--1909536	11	7.8	12	74	16	66	35	1	2	60	1.16
1912127--1912190	33	1.9	34	87	9	96	56	3	1	39	1.25
1914034--1914094	16	3.8	16	75	12	61	42	3	3	50	1.34
1914069--1914118	21	2.4	21	86	0	64	50	2	0	48	1.12
1914260--1914332	9	8.1	9	73	11	51	60	1	1	36	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1914260--1914298	14	2.7	14	84	4	51	69	0	0	30	0.89
1914276--1914348	34	2.2	34	82	4	96	56	1	2	39	1.22
1914369--1914423	26	2.1	27	82	3	67	43	0	0	56	0.99
1914369--1914429	27	2.1	27	82	14	68	44	0	0	55	0.99
1914749--1914783	18	1.9	18	88	11	54	60	0	0	40	0.97
1914749--1914794	20	2.3	20	85	10	60	58	0	0	41	0.98
1914912--1914947	2	18.5	2	94	5	65	50	0	0	50	1.00
1924788--1924814	2	13.5	2	100	0	54	0	48	0	51	1.00
1924814--1924850	2	18.5	2	100	0	74	48	0	0	51	1.00
1925318--1925355	17	2.2	17	100	0	76	34	0	0	65	0.93
1925952--1926039	36	2.4	36	83	7	99	34	2	1	62	1.15
1928610--1928673	19	3.2	19	82	8	65	65	0	1	32	1.02
1928629--1928675	22	2.2	21	92	7	78	68	0	0	31	0.90
1928629--1928675	11	4.5	10	80	15	51	68	0	0	31	0.90
1928639--1928676	11	3.5	11	86	13	60	71	0	0	28	0.87
1928639--1928693	22	2.5	22	84	3	65	70	0	5	23	1.07
1929894--1930027	18	7.6	17	73	14	87	58	0	1	39	1.13
1929894--1930027	6	22.8	6	65	19	52	58	0	1	39	1.13
1929964--1929999	16	2.2	17	95	5	65	58	0	0	41	0.98
1929927--1930019	37	2.4	38	79	10	102	56	1	1	40	1.13
1930216--1930278	12	5.3	12	67	17	51	57	0	0	42	0.99
1930972--1931004	10	3.4	10	83	8	50	66	6	0	27	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1930999--1931049	19	2.5	20	75	21	52	54	1	0	43	1.11
1931385--1931431	22	2.1	22	84	0	58	48	0	0	51	1.00
1933274--1933312	16	2.5	16	87	4	53	58	0	0	41	0.98
1933547--1933580	3	11.3	3	93	0	59	32	2	0	64	1.08
1933549--1933593	12	3.8	12	87	0	63	35	6	0	57	1.25
1939195--1939225	16	1.9	16	100	0	62	32	16	19	32	1.94
1941258--1941290	15	2.3	15	90	10	52	69	0	0	30	0.88
1942469--1942526	2	29.0	2	85	0	80	43	5	0	51	1.24
1942655--1942684	2	15.5	2	93	6	53	50	0	0	50	1.00
1945323--1945413	32	2.7	34	80	13	107	59	1	1	38	1.12
1945360--1945414	18	3.2	16	76	19	58	60	1	0	38	1.08
1945363--1945414	17	3.1	15	82	17	59	59	1	0	38	1.08
1947041--1947072	13	2.5	13	94	0	55	43	12	0	43	1.42
1947184--1947210	13	2.1	13	100	0	54	70	7	0	22	1.12
1954969--1955001	10	3.0	11	86	13	50	63	9	18	9	1.49
1955345--1955393	27	1.9	26	84	12	66	42	4	0	53	1.20
1955759--1955803	2	22.5	2	88	8	65	46	0	4	48	1.22
1960090--1960156	26	2.6	26	75	17	68	47	1	1	49	1.19
1960146--1960184	15	2.7	15	92	4	62	61	0	0	38	0.96
1960146--1960189	15	3.1	14	84	12	54	59	0	0	40	0.98
1960317--1960366	14	3.4	14	78	15	57	44	0	0	56	0.99
1960550--1960595	24	1.9	24	86	8	67	30	0	2	67	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1960717--1960774	9	6.1	9	78	11	62	46	0	0	53	1.00
1960719--1960775	19	2.9	19	86	2	78	49	0	0	50	1.00
1964279--1964367	43	2.1	43	84	0	115	41	23	12	22	1.87
1967163--1967212	21	2.4	21	86	0	64	48	0	0	52	1.00
1968415--1968474	25	2.3	26	83	8	79	56	0	0	43	0.99
1975685--1975715	2	15.5	2	100	0	62	0	48	0	51	1.00
1979718--1979770	2	26.5	2	92	7	90	49	1	0	49	1.12
1983296--1983339	20	2.2	20	91	0	70	50	4	0	45	1.22
1986835--1986877	15	2.9	15	82	0	50	34	0	0	65	0.93
1987129--1987167	12	3.0	13	85	11	53	41	0	0	58	0.98

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