genome.fa.s64.2.7.7.80.10.50.1000.10.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: Scaffold64
Parameters: 2 7 7 80 10 50 1000
Length:  7997333

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   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   

This is table  10  of  45  ( 5312 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)
1937787--1937822	18	2.0	18	94	0	63	69	0	5	25	1.10
1938618--1938663	23	2.0	23	87	8	67	30	4	6	58	1.43
1942244--1942281	9	4.1	9	86	6	58	76	0	0	23	0.79
1942241--1942278	19	2.0	19	100	0	76	78	0	0	21	0.74
1943436--1943474	17	2.3	16	86	8	51	51	0	2	46	1.14
1948145--1948176	9	3.7	9	95	4	57	84	0	6	9	0.78
1949771--1949814	21	2.2	20	88	12	63	27	0	2	70	0.99
1952662--1952687	5	5.2	5	100	0	52	19	0	0	80	0.71
1956202--1956239	3	12.7	3	100	0	76	65	0	0	34	0.93
1956380--1956418	20	1.9	20	84	5	51	82	2	15	0	0.79
1956616--1956673	30	1.9	30	82	6	73	36	1	0	62	1.06
1957520--1957570	25	2.0	25	85	14	68	50	0	1	47	1.12
1957775--1957799	3	8.3	3	100	0	50	68	0	32	0	0.90
1960724--1960764	2	20.5	2	100	0	82	0	51	0	48	1.00
1961262--1961301	2	20.0	2	100	0	80	0	50	0	50	1.00
1961301--1961327	2	13.5	2	100	0	54	48	0	0	51	1.00
1963937--1963980	22	1.9	22	86	9	61	52	0	0	47	1.00
1963954--1964003	18	2.8	18	76	14	50	50	0	0	50	1.00
1963917--1964003	40	2.3	39	83	15	103	54	0	0	45	1.00
1963970--1964023	23	2.3	23	79	17	58	48	0	0	51	1.00
1965323--1965397	26	3.1	24	76	12	66	50	0	0	49	1.00
1965350--1965454	18	5.3	19	70	24	67	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1965356--1965447	17	6.0	15	67	21	57	56	0	0	43	0.99
1965366--1965494	27	4.5	27	67	23	77	55	0	0	44	0.99
1965346--1965475	63	2.1	62	98	1	251	56	0	0	43	0.99
1965412--1965495	25	3.2	26	86	8	109	55	0	0	44	0.99
1965376--1965470	19	4.8	17	70	26	55	55	0	0	44	0.99
1965619--1965645	14	1.9	14	100	0	54	18	0	0	81	0.69
1968211--1968249	19	2.1	19	85	4	53	51	0	0	48	1.00
1970484--1970674	96	2.0	96	93	1	330	28	10	18	42	1.83
1972592--1972734	72	2.0	71	88	1	214	29	18	11	40	1.85
1973419--1973460	14	3.1	14	80	19	54	42	0	2	54	1.13
1974022--1974060	15	2.4	17	83	12	55	43	0	0	56	0.99
1974255--1974304	7	7.1	7	78	17	59	66	0	0	34	0.92
1974253--1974304	13	3.7	14	87	10	79	63	0	0	36	0.95
1974250--1974304	29	2.0	28	89	7	85	63	0	0	36	0.95
1974394--1974460	3	22.7	3	74	19	52	62	0	1	35	1.04
1974393--1974460	27	2.6	27	83	2	93	61	0	1	36	1.05
1974400--1974456	21	2.7	22	81	10	75	61	0	1	36	1.07
1974904--1974988	29	2.9	28	73	22	77	61	3	2	32	1.26
1981743--1981770	2	14.0	2	100	0	56	50	0	0	50	1.00
1981987--1982050	32	1.9	34	87	12	98	56	0	1	42	1.09
1982005--1982055	18	3.1	18	71	28	58	52	0	0	47	1.00
1982005--1982072	32	2.1	32	83	5	84	51	0	2	45	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1991103--1991145	21	2.0	22	82	13	54	58	0	0	41	0.98
1992133--1992188	24	2.3	25	79	14	64	42	0	1	55	1.10
1992136--1992207	18	3.4	21	70	18	60	50	0	1	48	1.09
1998447--1998505	31	1.9	30	83	16	77	47	0	0	52	1.00
1998492--1998536	17	2.6	17	76	13	56	64	0	0	35	0.94
1998485--1998550	26	2.5	27	75	2	71	60	0	1	37	1.06
1998973--1999000	2	14.0	2	100	0	56	50	0	0	50	1.00
1999378--1999500	21	5.9	20	69	18	65	47	1	0	49	1.16
1999420--1999483	29	2.4	28	78	19	73	50	1	0	48	1.10
1999424--1999486	25	2.5	26	82	7	67	50	1	0	47	1.10
1999626--1999656	2	15.5	2	93	0	53	54	0	0	45	0.99
2000054--2000087	2	16.5	2	93	6	59	50	2	0	47	1.16
2002053--2002083	15	2.1	15	100	0	62	48	0	19	32	1.49
2007610--2007636	2	13.5	2	100	0	54	0	48	0	51	1.00
2008758--2008793	19	1.9	19	94	5	65	33	0	2	63	1.08
2008811--2008884	32	2.2	34	83	11	100	47	1	1	50	1.18
2008897--2008946	22	2.3	23	83	10	61	32	0	6	62	1.20
2011819--2011856	18	2.1	18	90	0	58	47	0	0	52	1.00
2014931--2014979	21	2.3	21	96	0	89	16	18	10	55	1.69
2016356--2016388	2	16.5	2	100	0	66	51	0	0	48	1.00
2022508--2022538	2	15.5	2	100	0	62	48	0	0	51	1.00
2022877--2022908	4	8.0	4	100	0	64	50	25	0	25	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2022921--2022946	2	13.0	2	100	0	52	50	50	0	0	1.00
2023353--2023379	2	13.5	2	100	0	54	51	0	0	48	1.00
2024701--2024745	15	2.9	16	83	6	58	53	6	37	2	1.40
2025550--2025659	55	2.0	55	90	0	175	27	9	25	38	1.86
2027319--2027351	16	2.1	16	94	0	57	54	6	9	30	1.56
2031321--2031398	18	4.2	18	66	18	52	46	0	3	50	1.20
2036743--2036833	45	2.0	45	91	0	146	30	13	15	40	1.85
2037080--2037341	130	2.0	129	88	2	391	47	15	13	24	1.81
2037638--2037668	3	10.7	3	93	6	55	35	0	32	32	1.58
2038379--2038431	27	2.0	27	96	0	97	26	1	16	54	1.53
2042636--2042669	14	2.5	13	86	9	50	41	2	0	55	1.15
2051112--2051151	21	2.0	21	90	5	64	60	0	0	40	0.97
2052308--2052348	15	2.7	16	85	7	50	56	2	0	41	1.13
2063220--2063271	25	2.1	25	100	0	104	42	11	7	38	1.70
2064605--2064641	3	12.3	3	94	0	65	35	2	0	62	1.10
2070675--2070722	17	2.9	17	82	14	64	50	0	0	50	1.00
2074319--2074372	20	2.8	20	77	11	58	33	9	0	57	1.31
2077253--2077288	3	12.0	3	100	0	72	33	0	0	66	0.92
2081433--2081468	2	18.0	2	94	0	63	47	0	0	52	1.00
2082586--2082610	3	8.3	3	100	0	50	68	0	0	32	0.90
2083143--2083193	19	2.9	18	88	8	70	35	1	0	62	1.06
2083268--2083331	26	2.5	26	75	22	73	40	4	0	54	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2083876--2083918	22	2.0	22	86	9	61	62	0	2	34	1.08
2085179--2085232	2	27.0	2	92	0	90	46	0	3	50	1.19
2087043--2087077	2	18.0	2	94	5	63	48	0	0	51	1.00
2088887--2088922	16	2.1	18	90	10	58	63	0	0	36	0.94
2089204--2089238	2	18.0	2	94	5	63	48	0	0	51	1.00
2089845--2089883	10	3.9	10	86	0	60	2	28	5	64	1.28
2089845--2089883	20	2.0	20	94	0	69	2	28	5	64	1.28
2089850--2089892	20	2.2	20	87	8	61	2	25	6	65	1.30
2098438--2098470	17	2.0	17	88	5	50	18	0	3	78	0.87
2099116--2099216	14	7.4	14	70	19	63	40	0	1	57	1.10
2099128--2099216	19	4.7	20	72	14	64	39	0	2	58	1.11
2099153--2099220	25	2.6	27	79	13	79	38	0	1	60	1.06
2099208--2099241	15	2.2	16	89	5	52	47	0	0	52	1.00
2099988--2100172	34	5.5	34	86	3	248	40	25	7	26	1.82
2104588--2104770	34	5.4	34	84	3	235	39	25	7	26	1.83
2108644--2108683	2	20.0	2	100	0	80	50	0	0	50	1.00
2108857--2108925	26	2.6	25	84	11	77	57	0	0	42	0.98
2110054--2110122	8	8.5	8	71	15	52	52	0	0	47	1.00
2110052--2110144	34	2.9	33	72	19	81	52	0	0	47	1.00
2110063--2110130	16	4.0	18	78	14	65	50	0	0	50	1.00
2110182--2110233	25	2.1	25	85	7	70	44	0	0	55	0.99
2113885--2113909	1	25.0	1	100	0	50	100	0	0	0	0.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2114803--2114839	2	18.5	2	100	0	74	51	0	0	48	1.00
2117980--2118008	2	14.5	2	100	0	58	51	0	0	48	1.00
2120218--2120272	25	2.1	27	90	6	87	45	0	1	52	1.11
2123042--2123095	15	3.3	17	77	15	51	40	1	1	55	1.21
2123041--2123083	15	2.7	16	82	17	54	39	0	2	58	1.11
2126187--2126236	25	1.9	27	92	8	86	18	12	10	60	1.59
2132768--2132803	2	18.5	2	88	5	56	47	0	52	0	1.00
2133207--2133248	20	2.2	19	87	12	59	64	0	0	35	0.94
2133548--2133574	14	1.9	14	100	0	54	55	0	0	44	0.99
2134443--2134467	3	8.3	3	100	0	50	32	36	32	0	1.58

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   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45