genome.fa.s59.2.7.7.80.10.50.1000.13.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: Scaffold59
Parameters: 2 7 7 80 10 50 1000
Length:  3999109

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   

This is table  13  of  25  ( 2913 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)
1984921--1984968	13	3.4	14	82	8	62	41	0	0	58	0.98
1985220--1985257	18	2.1	19	95	5	69	50	5	0	44	1.24
1987091--1987143	22	2.5	21	73	11	54	60	7	0	32	1.25
1993522--1993581	25	2.6	23	80	14	70	56	0	0	43	0.99
1994891--1994924	15	2.2	16	89	5	52	67	0	0	32	0.91
1994891--1994924	8	4.4	8	88	7	52	67	0	0	32	0.91
1995110--1995138	15	1.9	15	100	0	58	55	0	0	44	0.99
1995827--1995875	19	2.7	18	80	3	53	26	0	2	71	0.97
1997396--1997439	19	2.4	19	84	3	54	65	0	0	34	0.93
1998118--1998181	2	33.5	2	73	20	57	48	1	1	48	1.20
1998102--1998181	28	3.0	25	73	20	72	46	2	1	50	1.23
1998522--1998588	33	2.1	32	82	2	80	62	4	0	32	1.15
1998535--1998644	20	5.6	21	69	21	78	60	0	0	38	1.10
1999248--1999296	17	3.1	16	77	22	50	32	0	0	67	0.91
1999257--1999309	17	3.2	17	82	10	58	30	1	0	67	1.01
1999657--1999704	18	2.5	20	83	12	66	54	0	0	45	0.99
1999665--1999704	19	2.2	19	90	4	64	52	0	0	47	1.00
1999657--1999710	18	2.9	19	78	10	51	53	0	0	46	1.00
2000143--2000174	3	10.7	3	100	0	64	0	34	0	65	0.93
2001907--2001975	34	2.1	32	82	12	79	43	0	0	56	0.99
2003222--2003313	44	2.1	42	80	13	98	53	0	0	46	1.00
2003655--2003692	15	2.6	15	84	15	53	26	2	0	71	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2003845--2003942	21	4.8	21	70	15	62	56	0	0	43	0.99
2003890--2003937	13	3.5	13	74	20	53	62	0	0	37	0.95
2003894--2003952	28	2.0	30	93	6	104	61	0	0	38	0.96
2009424--2009484	29	2.0	31	84	6	81	52	0	0	47	1.00
2009455--2009496	17	2.3	19	84	12	61	57	0	0	42	0.99
2009730--2009777	22	2.3	22	85	7	64	45	0	0	54	0.99
2009758--2009793	18	2.1	17	89	5	54	58	0	0	41	0.98
2010585--2010619	2	17.5	2	100	0	70	51	0	0	48	1.00
2010882--2010909	2	14.0	2	100	0	56	50	0	0	50	1.00
2011468--2011524	28	2.0	27	86	10	78	59	1	0	38	1.08
2011948--2012048	14	6.9	14	68	10	51	58	0	0	41	0.98
2011975--2012023	19	2.5	20	80	12	57	65	0	0	34	0.93
2011983--2012022	20	2.0	20	85	9	55	62	0	0	37	0.95
2011986--2012039	23	2.4	21	75	22	56	62	0	0	37	0.95
2011942--2012046	37	2.8	37	72	20	101	60	0	0	40	0.97
2011942--2012078	74	1.9	74	86	11	203	58	0	0	41	0.98
2012768--2012798	13	2.5	13	94	5	55	61	0	0	38	0.96
2016687--2016721	6	5.8	6	100	0	70	0	51	14	34	1.42
2023260--2023323	28	2.3	27	84	10	85	35	1	0	62	1.05
2023260--2023333	28	2.6	27	78	17	80	37	1	1	59	1.14
2025669--2025717	22	2.3	22	79	6	57	61	0	0	38	0.96
2025957--2026003	16	2.9	17	81	12	55	42	0	2	55	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2026622--2026655	18	1.9	17	94	5	59	73	0	0	26	0.83
2026680--2026712	14	2.3	15	89	5	50	66	0	0	33	0.92
2027046--2027130	30	2.7	31	76	7	91	41	1	0	57	1.06
2027334--2027378	17	2.4	19	85	10	58	2	8	4	84	0.84
2028519--2028563	2	23.0	2	95	4	83	48	0	0	51	1.00
2031238--2031270	17	1.9	17	88	11	50	54	15	27	3	1.55
2034876--2034939	21	2.8	21	81	11	56	51	0	0	48	1.00
2034921--2034949	14	2.0	15	93	6	51	58	0	0	41	0.98
2035213--2035281	21	3.2	20	73	19	50	39	2	1	56	1.23
2035319--2035386	17	4.0	17	77	5	66	57	0	0	42	0.98
2035593--2035643	16	3.1	16	83	8	66	50	0	0	49	1.00
2035604--2035657	25	2.1	27	82	6	67	46	0	0	53	1.00
2035574--2035651	16	4.9	16	73	17	56	47	0	1	51	1.09
2035921--2036008	29	3.1	28	74	13	74	56	0	0	43	0.99
2035940--2036008	13	5.0	13	67	19	50	56	0	0	43	0.99
2035938--2036000	24	2.7	23	83	14	76	53	0	0	46	1.00
2036204--2036228	5	5.0	5	100	0	50	80	20	0	0	0.72
2045755--2045798	22	2.0	22	95	0	79	29	18	6	45	1.75
2046849--2046876	2	14.0	2	100	0	56	50	0	50	0	1.00
2047211--2047260	25	2.0	25	84	7	66	54	0	0	46	1.00
2048426--2048453	14	2.0	14	100	0	56	35	7	21	35	1.81
2050897--2050923	2	13.5	2	100	0	54	51	48	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2055667--2055743	25	2.8	26	76	9	75	50	1	0	48	1.09
2055703--2055749	22	2.3	22	86	13	66	48	0	0	51	1.00
2056117--2056204	21	4.3	21	71	16	69	62	1	0	36	1.03
2056116--2056164	17	3.0	17	80	19	52	67	0	0	32	0.91
2056127--2056210	6	14.8	6	74	16	56	63	1	0	35	1.03
2056128--2056216	15	6.1	15	68	17	62	62	1	0	35	1.02
2056127--2056216	21	4.3	20	68	20	69	63	1	0	35	1.02
2056600--2056676	21	3.7	22	74	19	60	55	0	0	44	0.99
2057319--2057350	2	16.0	2	93	0	55	50	3	0	46	1.17
2057498--2057588	11	8.1	11	75	11	71	62	0	4	32	1.15
2057501--2057662	15	11.5	14	69	21	83	61	0	3	35	1.12
2057578--2057673	8	12.0	8	69	16	56	60	1	1	37	1.11
2057585--2057636	26	2.0	26	85	7	70	51	0	0	48	1.00
2057588--2057644	26	2.2	26	81	6	62	56	0	1	42	1.10
2057624--2057666	17	2.5	17	85	14	61	69	0	2	27	1.00
2058938--2059010	27	2.7	27	78	14	80	50	0	0	49	1.00
2058954--2058993	21	1.9	21	90	10	64	45	0	0	55	0.99
2058938--2059001	28	2.3	27	82	10	76	50	0	0	50	1.00
2060095--2060201	32	3.6	29	71	14	76	54	0	0	44	1.06
2060137--2060187	21	2.5	20	81	15	59	47	0	0	52	1.00
2065074--2065114	17	2.3	18	91	4	66	56	0	0	43	0.99
2066369--2066423	18	2.9	19	75	22	62	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2066688--2066721	15	2.2	16	89	5	52	47	0	2	50	1.16
2067364--2067409	24	2.0	23	87	8	67	39	0	2	58	1.10
2071846--2071870	1	25.0	1	100	0	50	0	0	0	100	0.00
2074573--2074601	13	2.2	13	100	0	58	48	0	6	44	1.29
2075038--2075081	2	22.0	2	85	0	61	43	0	6	50	1.29
2081372--2081461	33	2.7	35	75	13	91	61	0	1	37	1.04
2082401--2082443	21	2.0	21	91	8	70	58	0	0	41	0.98
2083582--2083666	15	6.7	12	72	21	50	52	0	0	47	1.00
2083589--2083651	21	3.3	21	72	19	57	52	0	0	47	1.00
2083581--2083673	34	2.8	33	84	9	102	53	0	0	46	1.00
2083618--2083713	48	2.0	48	80	11	108	58	1	0	40	1.05
2084326--2084386	32	1.9	32	86	0	86	57	1	1	39	1.18
2084722--2084767	17	2.7	17	82	0	56	43	0	4	52	1.21
2086714--2086742	13	2.1	14	93	6	51	51	0	0	48	1.00
2086880--2086913	2	17.0	2	93	0	59	52	0	47	0	1.00
2087557--2087620	17	3.9	17	74	9	53	37	0	0	62	0.95
2093767--2093806	15	2.6	16	88	4	55	65	7	2	25	1.32
2095744--2095771	2	14.0	2	100	0	56	50	0	0	50	1.00
2096121--2096161	12	3.2	13	80	13	50	73	2	0	24	0.96
2100913--2100949	14	2.4	16	86	8	51	43	8	0	48	1.32
2103228--2103260	2	16.5	2	93	0	57	0	45	0	54	0.99
2104216--2104254	11	3.6	11	89	6	62	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2104698--2104731	13	2.7	13	90	4	52	67	0	0	32	0.91
2104750--2104819	19	3.6	19	74	12	61	34	0	1	64	1.03
2104837--2104918	16	5.2	16	71	12	62	52	0	1	46	1.08
2105164--2105238	27	2.5	31	79	14	86	57	1	0	41	1.07
2105164--2105253	28	3.0	29	75	15	87	55	1	0	43	1.07
2108997--2109039	19	2.4	17	88	7	59	39	0	2	58	1.11
2119850--2119888	20	1.9	21	89	5	62	53	0	0	46	1.00
2120161--2120186	2	13.0	2	100	0	52	50	0	0	50	1.00
2121574--2121602	15	1.9	15	100	0	58	34	13	24	27	1.93
2124034--2124065	11	2.8	12	90	9	57	71	0	0	28	0.86

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