genome.fa.s94.2.7.7.80.10.50.1000.11.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: Scaffold94
Parameters: 2 7 7 80 10 50 1000
Length:  2274668

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

This is table  11  of  13  ( 1461 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)
1865459--1865499	2	20.5	2	100	0	82	48	0	0	51	1.00
1865683--1865726	20	2.2	20	88	8	63	52	0	2	45	1.13
1865777--1865821	22	2.1	21	83	4	54	55	6	0	37	1.26
1865904--1865948	14	3.1	15	81	15	58	44	0	0	55	0.99
1865915--1865981	25	2.5	26	75	18	75	46	0	1	52	1.09
1866081--1866144	16	4.0	16	78	11	60	51	0	0	48	1.00
1866096--1866137	13	3.2	13	81	18	52	47	0	0	52	1.00
1866092--1866149	16	3.6	16	77	9	64	51	0	0	48	1.00
1866184--1866222	17	2.4	16	86	4	51	51	0	0	48	1.00
1869259--1869445	39	4.7	39	87	2	239	24	13	9	52	1.69
1871138--1871344	112	1.8	112	81	4	256	38	5	6	49	1.52
1871312--1871351	15	2.9	15	85	14	59	30	0	0	70	0.88
1872201--1872230	15	2.0	15	93	0	51	43	0	0	56	0.99
1884963--1884997	2	17.5	2	100	0	70	51	0	48	0	1.00
1888030--1888091	27	2.3	27	97	0	115	38	12	35	12	1.82
1889219--1889280	5	11.4	5	80	16	70	1	19	1	77	0.94
1889220--1889280	16	3.7	16	81	12	70	1	19	1	77	0.95
1890765--1890834	5	13.4	5	72	24	56	58	1	0	40	1.07
1890801--1890840	20	2.0	20	85	0	53	60	2	0	37	1.11
1891955--1892011	26	2.3	25	88	11	91	47	0	0	52	1.00
1892025--1892156	69	1.9	69	96	0	246	37	1	8	53	1.41
1892213--1892289	30	2.6	28	76	11	75	29	0	3	66	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1892560--1892589	3	10.3	3	92	7	53	30	0	0	70	0.88
1892563--1892589	14	1.9	14	100	0	54	29	0	0	70	0.88
1892541--1892589	17	2.9	17	82	11	66	32	0	2	65	1.04
1896071--1896207	39	3.5	38	72	11	109	27	24	21	27	1.99
1896203--1896281	39	2.0	39	85	0	104	21	12	26	39	1.89
1896253--1896327	39	1.9	39	86	0	105	21	21	22	34	1.97
1898707--1898740	15	2.3	15	90	5	52	64	2	0	32	1.08
1898977--1899024	22	2.2	21	82	10	60	56	4	4	35	1.38
1898986--1899027	22	1.9	22	95	0	75	52	4	2	40	1.35
1899909--1899969	18	3.4	18	75	8	63	60	0	0	39	0.97
1899902--1899973	16	4.6	16	73	19	53	59	0	0	40	0.97
1900661--1900725	20	3.6	20	66	32	56	36	1	3	58	1.23
1900659--1900730	32	2.2	32	92	0	117	36	1	2	59	1.20
1900671--1900724	18	3.2	17	71	28	53	37	1	3	57	1.27
1901203--1901263	29	2.1	29	87	6	88	31	0	27	40	1.57
1914574--1914712	52	2.7	51	80	5	136	44	10	13	30	1.78
1914768--1914821	20	2.7	20	88	2	72	33	18	9	38	1.83
1915245--1915292	21	2.3	21	79	10	55	54	4	0	41	1.20
1915374--1915472	49	2.0	49	98	0	189	47	6	2	44	1.39
1915614--1915687	24	3.2	23	75	14	64	63	0	0	36	0.95
1916068--1916143	29	2.6	30	75	8	75	42	1	7	48	1.40
1917062--1917089	13	2.2	13	100	0	56	28	14	17	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1925426--1926408	199	4.9	199	89	1	1486	31	22	12	34	1.91
1925426--1926408	399	2.5	397	90	1	1504	31	22	12	34	1.91
1926355--1926478	62	2.0	62	93	3	214	44	15	16	24	1.85
1926416--1929264	199	14.3	198	88	1	3966	31	22	11	33	1.90
1929264--1929714	199	2.3	198	87	0	650	31	21	13	33	1.92
1928805--1930172	459	3.0	459	90	0	2088	31	21	13	33	1.92
1928407--1931689	658	5.0	658	86	4	4445	31	21	12	33	1.91
1929723--1930370	199	3.3	199	86	0	902	31	21	12	34	1.91
1929922--1930830	459	2.0	460	87	0	1300	32	21	12	33	1.91
1930381--1931028	199	3.3	198	87	1	893	31	21	12	34	1.91
1929723--1932934	857	3.8	857	75	8	2929	31	21	12	34	1.91
1930580--1931470	459	1.9	460	87	0	1309	31	20	12	34	1.91
1931039--1932284	199	6.3	198	85	3	1593	31	21	12	34	1.91
1931039--1932284	388	3.2	391	85	4	1596	31	21	12	34	1.91
1931036--1932275	587	2.1	589	87	3	1785	31	21	12	34	1.91
1932284--1934439	199	10.9	198	86	3	2964	30	21	12	35	1.90
1935194--1935218	13	1.9	13	100	0	50	36	16	16	32	1.90
1935171--1935238	33	2.1	33	88	2	102	32	14	17	35	1.91
1935270--1935323	20	2.7	20	85	8	74	31	12	12	42	1.81
1935291--1935356	33	2.0	32	85	11	89	30	12	16	40	1.85
1935322--1935376	20	2.8	18	86	13	74	25	10	16	47	1.79
1935889--1935932	21	2.0	21	82	4	52	29	31	2	36	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1937293--1937344	21	2.5	22	78	12	63	3	25	51	19	1.63
1937608--1937648	22	2.0	21	86	13	59	41	4	21	31	1.74
1944044--1944134	20	4.6	19	79	5	74	29	15	14	40	1.86
1944405--1950052	199	28.4	199	88	0	7745	31	21	11	35	1.89
1950548--1950649	39	2.7	39	79	10	104	54	0	0	45	0.99
1950584--1950641	26	2.2	25	77	14	64	51	0	0	48	1.00
1950645--1950685	20	2.0	21	85	4	57	51	7	4	36	1.51
1950827--1950877	25	2.1	23	89	7	75	72	1	3	21	1.11
1951246--1951295	22	2.2	23	89	7	75	62	0	0	38	0.96
1951686--1951737	17	3.4	17	72	25	60	36	3	1	57	1.28
1951673--1951737	29	2.2	29	91	2	103	40	4	1	53	1.31
1959964--1960003	21	1.9	21	90	10	64	40	0	0	60	0.97
1960826--1960878	25	2.2	24	82	3	61	52	9	3	33	1.52
1961789--1961830	18	2.4	18	84	4	50	73	0	0	26	0.83
1966368--1966453	37	2.4	36	76	9	86	53	4	1	40	1.29
1973037--1973131	44	2.2	44	100	0	190	29	10	15	44	1.80
1977235--1977265	14	2.2	14	94	0	53	48	6	3	41	1.45
1985532--1986155	57	10.9	57	72	9	333	31	20	13	34	1.91
1985604--1986154	114	4.8	115	84	5	541	30	20	13	35	1.91
1986249--1986400	56	2.7	56	81	4	153	30	19	13	36	1.90
1990567--1990604	20	2.0	20	89	5	60	63	5	0	31	1.17
2003172--2003233	31	2.0	30	84	12	81	54	11	3	30	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2003675--2003719	2	22.5	2	90	0	63	51	2	2	44	1.26
2004542--2004572	2	15.5	2	100	0	62	51	0	0	48	1.00
2007113--2007138	2	13.0	2	100	0	52	50	0	0	50	1.00
2008599--2008637	16	2.4	16	91	0	60	38	5	0	56	1.22
2008956--2008992	2	18.5	2	94	0	65	51	0	0	48	1.00
2009110--2009199	32	2.9	32	80	9	80	43	2	0	54	1.12
2009214--2009263	5	10.0	5	75	16	50	40	2	0	58	1.10
2009139--2009248	58	1.9	58	81	10	136	43	0	0	55	1.06
2009971--2010029	28	2.1	28	84	6	75	50	0	0	49	1.00
2010007--2010059	27	2.0	27	81	7	63	49	0	5	45	1.26
2010270--2010304	12	2.9	12	91	8	54	65	0	0	34	0.93
2011214--2011259	24	2.0	24	82	4	58	47	21	4	26	1.69
2011247--2011308	28	2.2	27	83	8	88	54	19	6	19	1.65
2014857--2015075	34	6.5	34	87	0	287	25	7	26	40	1.81
2014857--2015077	102	2.2	101	90	3	345	24	7	27	40	1.81
2018516--2018597	34	2.4	34	83	4	94	26	4	23	45	1.73
2020347--2020428	34	2.4	34	83	4	94	26	4	23	45	1.73
2024886--2024969	34	2.5	34	90	0	123	23	5	27	42	1.77
2026357--2026393	14	2.5	16	83	16	53	54	5	2	37	1.38
2026843--2026919	27	2.8	26	79	14	93	44	1	0	54	1.08
2026880--2026958	32	2.5	33	81	8	92	40	0	0	59	0.97
2028294--2028386	29	3.2	29	73	11	82	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2028298--2028359	17	3.6	17	78	6	54	59	0	0	40	0.97
2028300--2028373	6	13.0	6	68	16	50	59	0	0	40	0.97
2028361--2028451	5	19.2	5	67	15	50	40	1	1	57	1.13
2028331--2028389	14	4.1	14	77	14	57	50	0	0	49	1.00
2028291--2028376	40	2.2	39	85	10	113	56	0	0	43	0.99
2030412--2030443	16	1.9	17	93	6	57	59	6	0	34	1.23
2030491--2030579	15	5.8	16	82	12	98	62	0	1	35	1.02
2030491--2030579	31	2.9	32	83	8	96	62	0	1	35	1.02
2032511--2032558	2	24.0	2	100	0	96	50	0	0	50	1.00
2034683--2034793	56	2.0	57	83	1	143	26	18	10	44	1.83

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