genome.fa.s4.2.7.7.80.10.50.1000.8.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: Scaffold4
Parameters: 2 7 7 80 10 50 1000
Length:  5986281

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   28   29   30   31   

This is table  8  of  31  ( 3628 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)
1891044--1891077	2	17.0	2	100	0	68	50	0	0	50	1.00
1891896--1891953	19	2.9	20	70	17	57	53	1	37	6	1.38
1892499--1892537	11	3.7	10	86	10	51	41	0	0	58	0.98
1892499--1892537	5	7.4	5	83	11	51	41	0	0	58	0.98
1892499--1892537	16	2.4	16	95	0	69	41	0	0	58	0.98
1892793--1892861	10	6.7	10	70	18	52	36	0	2	60	1.11
1893085--1893116	3	10.7	3	93	0	55	3	34	28	34	1.73
1893936--1893964	2	14.5	2	100	0	58	51	0	0	48	1.00
1895242--1895287	10	4.4	10	84	10	65	50	8	0	41	1.33
1895242--1895289	4	12.0	4	86	0	60	50	8	0	41	1.33
1895242--1895289	18	2.7	18	93	0	78	50	8	0	41	1.33
1898636--1898683	19	2.6	18	81	12	62	68	2	0	29	1.01
1901900--1901931	2	16.5	2	93	6	57	53	0	46	0	1.00
1901899--1901950	13	4.0	13	80	14	63	51	0	44	3	1.19
1902128--1902176	5	9.8	5	86	0	71	2	20	2	75	1.00
1911029--1911201	91	1.9	87	81	11	206	34	35	9	20	1.86
1912016--1912060	2	22.5	2	100	0	90	51	0	0	48	1.00
1920495--1920543	21	2.3	20	80	10	53	38	0	0	61	0.96
1920489--1920585	33	2.9	33	73	16	85	37	0	0	62	0.95
1920530--1920554	4	6.2	4	100	0	50	24	0	0	76	0.80
1920675--1920717	18	2.4	18	84	3	52	51	2	0	46	1.13
1920708--1920773	25	2.7	24	81	11	71	31	4	0	63	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1920715--1920777	26	2.5	26	82	10	76	30	4	0	65	1.13
1924614--1924641	2	14.0	2	100	0	56	50	0	0	50	1.00
1930627--1930774	73	2.0	73	100	0	296	24	9	20	45	1.80
1931106--1931166	31	2.0	31	96	0	113	24	14	19	40	1.89
1932932--1932967	16	2.2	16	90	0	54	44	8	16	30	1.77
1933042--1933074	17	2.0	17	88	5	50	63	6	6	24	1.40
1933461--1933492	15	2.0	17	88	11	50	0	31	0	68	0.90
1936236--1936271	18	2.0	18	88	0	54	61	0	2	36	1.11
1940424--1940464	15	2.7	15	80	0	55	2	41	19	36	1.65
1942531--1942559	2	14.5	2	100	0	58	48	0	0	51	1.00
1947527--1947554	13	2.2	13	100	0	56	0	7	0	92	0.37
1947519--1947554	19	1.9	18	88	5	54	0	11	0	88	0.50
1948563--1948597	11	3.1	11	91	4	52	17	2	0	80	0.84
1948563--1948589	12	2.2	12	100	0	54	14	0	0	85	0.61
1951216--1951274	30	1.9	32	82	6	77	10	30	3	55	1.49
1957309--1957340	2	16.0	2	93	0	55	50	3	0	46	1.17
1961369--1961450	35	2.3	35	89	0	128	62	1	1	35	1.11
1964107--1964133	3	9.0	3	100	0	54	0	0	33	66	0.92
1971582--1971615	17	1.9	18	94	5	61	32	0	0	67	0.91
1971582--1971633	17	3.2	17	82	15	58	34	0	0	65	0.93
1971765--1974706	738	4.0	738	97	0	5559	34	18	14	33	1.91
1979225--1979278	22	2.4	23	76	11	58	44	1	7	46	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1984699--1984786	11	7.5	11	67	18	52	48	0	2	48	1.13
1984725--1984784	24	2.5	23	79	15	77	50	0	0	50	1.00
1984731--1984798	29	2.4	28	74	11	75	51	0	0	48	1.00
1988794--1988835	2	21.0	2	100	0	84	50	0	0	50	1.00
1993223--1993268	22	2.0	25	83	12	62	58	0	0	41	0.98
1997293--1997341	22	2.2	21	83	16	64	46	0	0	53	1.00
1997287--1997366	15	5.4	15	73	20	62	42	0	1	56	1.07
1997330--1997380	21	2.4	22	86	3	68	41	0	0	58	0.98
2002258--2002282	12	2.1	12	100	0	50	52	0	8	40	1.31
2007377--2007436	29	2.0	30	84	9	79	63	0	1	35	1.05
2007535--2007603	29	2.3	30	82	9	88	44	0	0	55	0.99
2007768--2007805	7	5.7	7	87	9	53	89	0	10	0	0.49
2008305--2008809	251	2.0	251	98	0	974	32	20	16	31	1.94
2015073--2015101	11	2.6	11	100	0	58	0	20	0	79	0.74
2017018--2017048	16	1.9	16	93	0	53	38	16	12	32	1.86
2024353--2024425	35	2.1	35	94	0	128	47	13	5	32	1.66
2025564--2025628	14	4.4	14	78	17	69	61	0	0	38	0.96
2025561--2025620	29	2.0	31	84	12	81	58	0	0	41	0.98
2034350--2034379	7	4.3	7	100	0	60	13	0	0	86	0.57
2036211--2036241	2	15.5	2	100	0	62	48	0	0	51	1.00
2038267--2038295	13	2.2	13	100	0	58	68	0	0	31	0.89
2038370--2038423	21	2.6	21	87	0	72	57	0	5	37	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2040869--2040894	2	13.0	2	100	0	52	50	0	50	0	1.00
2041856--2041897	3	14.0	3	100	0	84	33	0	0	66	0.92
2042347--2042409	18	3.7	18	69	30	57	46	1	1	50	1.20
2042352--2042414	31	2.0	31	87	0	90	42	1	1	53	1.19
2042470--2042506	2	19.0	2	84	15	51	48	2	0	48	1.15
2047347--2047377	2	16.0	2	93	6	55	48	0	51	0	1.00
2048566--2048608	6	7.3	6	92	2	70	48	32	16	2	1.58
2049131--2049155	1	25.0	1	100	0	50	100	0	0	0	0.00
2049253--2049306	22	2.7	20	77	8	56	44	5	0	50	1.25
2049811--2049840	2	15.0	2	92	0	51	50	0	3	46	1.18
2049981--2050016	4	9.5	4	93	6	58	0	25	47	27	1.52
2050235--2050264	2	15.0	2	100	0	60	50	0	0	50	1.00
2050264--2050308	2	22.5	2	100	0	90	51	0	48	0	1.00
2055825--2055886	18	3.3	18	72	18	54	35	0	3	61	1.12
2056866--2056905	2	20.0	2	100	0	80	50	0	0	50	1.00
2059904--2059950	2	23.5	2	100	0	94	51	0	0	48	1.00
2060351--2060389	17	2.4	17	86	4	62	53	0	0	46	1.00
2060881--2060953	39	1.9	37	83	10	94	56	0	1	42	1.08
2060910--2060970	26	2.5	26	79	12	67	50	1	1	45	1.21
2061382--2061422	3	13.7	3	100	0	82	31	0	0	68	0.90
2063506--2063531	2	13.0	2	100	0	52	50	0	0	50	1.00
2064910--2064951	2	21.0	2	95	0	75	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2069883--2069928	23	2.0	23	87	4	67	39	0	15	45	1.46
2073584--2073624	2	21.0	2	95	5	75	51	0	0	48	1.00
2084999--2085446	232	1.9	233	92	2	758	29	19	20	30	1.97
2090490--2090527	1	38.0	1	94	0	58	0	5	0	94	0.30
2090802--2090864	33	1.9	33	96	0	117	33	15	19	31	1.93
2101149--2101182	2	17.0	2	100	0	68	50	0	50	0	1.00
2102809--2102878	32	2.3	30	80	11	79	37	1	2	58	1.22
2103541--2103581	14	3.1	14	79	6	50	46	0	0	53	1.00
2108385--2108456	32	2.3	32	95	2	128	25	23	8	43	1.81
2110936--2110960	4	6.2	4	100	0	50	0	24	0	76	0.80
2113107--2113141	2	17.5	2	100	0	70	51	0	48	0	1.00
2121637--2121662	2	13.0	2	100	0	52	50	0	0	50	1.00
2123132--2123567	219	2.0	219	86	2	617	26	20	17	35	1.95
2133406--2133441	2	18.0	2	100	0	72	50	0	0	50	1.00
2133443--2133472	14	2.1	15	93	6	53	50	0	20	30	1.49
2139544--2139639	49	1.9	49	87	6	140	55	2	2	40	1.23
2139616--2139680	6	12.0	6	71	21	54	66	1	1	30	1.10
2139562--2139700	40	3.4	40	74	19	110	59	1	1	37	1.15
2139618--2139674	11	4.9	11	76	17	53	66	0	1	31	1.02
2140591--2140652	30	2.2	27	82	8	70	79	0	8	12	0.94
2140897--2140978	10	8.5	10	74	20	61	43	0	0	56	0.99
2140902--2140978	25	3.4	23	75	24	67	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2140924--2140979	25	2.3	23	82	14	69	46	0	0	53	1.00
2152806--2152850	23	2.0	23	86	8	65	82	0	15	2	0.77
2153725--2153805	21	3.7	23	74	14	62	25	3	6	64	1.34
2154579--2154629	26	1.9	25	84	11	66	45	0	0	54	0.99
2154607--2154663	17	3.5	16	81	9	62	47	0	0	52	1.00
2155161--2155204	15	2.8	16	89	6	72	54	0	0	45	0.99
2157376--2157424	22	2.2	22	79	13	57	46	0	2	51	1.12
2158241--2158275	14	2.5	14	90	0	52	51	2	42	2	1.31
2163930--2163971	2	21.0	2	100	0	84	50	0	0	50	1.00
2167019--2167071	18	2.7	19	82	11	63	22	0	5	71	1.06

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   28   29   30   31