genome.fa.s127.2.7.7.80.10.50.1000.11.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: Scaffold127
Parameters: 2 7 7 80 10 50 1000
Length:  4281254

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   

This is table  11  of  26  ( 3103 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)
1878374--1878408	17	2.1	17	94	0	61	65	0	0	34	0.93
1878683--1878730	25	1.9	25	83	8	62	66	2	2	29	1.14
1879323--1879361	2	20.0	2	89	5	62	51	0	48	0	1.00
1879779--1879807	3	9.7	3	100	0	58	0	0	65	34	0.93
1885016--1885050	2	17.5	2	100	0	70	48	0	0	51	1.00
1885897--1885943	11	4.5	11	76	10	53	55	0	0	44	0.99
1888623--1888647	11	2.3	11	100	0	50	0	8	44	48	1.32
1890509--1890545	16	2.4	16	90	4	58	59	0	0	40	0.97
1890533--1890566	17	2.1	16	88	5	50	55	0	0	44	0.99
1890522--1890568	15	3.0	16	82	11	53	59	0	0	40	0.97
1890541--1890594	20	2.6	21	88	5	74	53	0	0	46	1.00
1890556--1890601	15	3.1	15	83	0	56	52	0	0	47	1.00
1893812--1893839	3	9.3	3	100	0	56	67	0	0	32	0.91
1894198--1894279	28	2.9	28	75	14	78	42	1	1	54	1.15
1894229--1894280	14	3.7	14	75	7	52	44	0	0	55	0.99
1897258--1897300	21	2.0	22	86	9	61	53	2	0	44	1.13
1897637--1897683	9	4.6	10	82	17	53	68	0	0	31	0.90
1898084--1898116	17	2.0	17	88	5	50	87	0	12	0	0.53
1898085--1898110	11	2.4	11	100	0	52	92	0	7	0	0.39
1898231--1898275	19	2.5	19	86	10	60	60	0	0	40	0.97
1898963--1898991	3	9.7	3	100	0	58	31	0	0	68	0.89
1903955--1904000	21	2.2	21	96	3	85	45	0	4	50	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1903950--1903995	21	2.1	22	80	19	60	45	0	4	50	1.21
1903955--1904009	21	2.8	20	89	8	76	47	0	3	49	1.19
1904575--1904613	5	8.2	5	91	5	55	58	0	0	41	0.98
1904773--1904831	5	12.2	5	75	20	54	61	0	1	37	1.07
1904771--1904931	11	14.7	11	67	19	61	57	1	1	39	1.14
1904861--1904916	27	2.1	27	86	6	78	58	0	0	41	0.98
1911127--1911225	46	2.2	46	92	0	162	55	0	2	42	1.11
1911411--1911466	24	2.4	24	90	3	87	64	1	0	33	1.04
1911473--1911560	31	2.8	31	87	3	131	53	10	1	35	1.42
1912145--1912188	2	22.0	2	100	0	88	50	0	0	50	1.00
1917784--1917880	47	2.1	46	81	11	110	56	1	0	42	1.06
1917954--1917980	2	13.5	2	100	0	54	51	0	0	48	1.00
1923389--1923442	26	2.0	27	82	7	65	57	0	0	42	0.98
1923664--1923741	11	6.7	11	73	16	68	60	1	3	34	1.23
1924183--1924220	17	2.2	17	90	0	58	31	2	0	65	1.06
1932528--1932594	31	2.2	31	81	13	84	52	1	0	46	1.09
1933226--1933268	10	4.2	10	79	5	50	69	2	0	27	1.00
1933217--1933265	25	1.9	26	95	4	91	71	2	0	26	0.97
1933229--1933269	21	2.0	20	90	4	64	70	2	0	26	0.99
1942713--1942741	12	2.3	13	94	5	51	24	0	0	75	0.80
1943114--1943146	9	3.7	9	92	8	50	51	0	0	48	1.00
1943116--1943215	28	3.5	28	71	18	71	47	1	1	51	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1943174--1943223	19	2.6	19	75	12	57	50	0	0	50	1.00
1947159--1947290	67	2.0	67	86	5	187	36	9	3	50	1.51
1952315--1952357	3	14.3	3	100	0	86	34	0	0	65	0.93
1953691--1953721	2	15.5	2	100	0	62	48	0	0	51	1.00
1954778--1954818	2	21.0	2	95	5	75	48	0	0	51	1.00
1956183--1956214	2	16.0	2	100	0	64	50	0	0	50	1.00
1959732--1959765	3	11.3	3	100	0	68	32	0	0	67	0.91
1961219--1961299	30	2.8	28	75	17	85	54	0	0	45	0.99
1961673--1961705	16	2.0	17	94	5	59	60	0	0	39	0.97
1961804--1961858	22	2.5	22	85	8	67	47	0	0	52	1.00
1964295--1964319	10	2.5	10	100	0	50	64	8	0	28	1.22
1964554--1964581	2	14.0	2	100	0	56	50	0	0	50	1.00
1966729--1966947	108	2.0	108	98	0	420	32	19	26	21	1.97
1969655--1969687	15	2.3	15	89	5	50	21	12	33	33	1.90
1970679--1970708	2	15.0	2	100	0	60	0	0	50	50	1.00
1973692--1973734	23	1.9	22	85	4	59	51	0	2	46	1.13
1974559--1974616	24	2.4	23	83	11	73	65	0	0	34	0.93
1974561--1974622	18	3.3	18	84	10	81	67	0	0	32	0.91
1974561--1974619	19	3.1	19	88	9	77	69	0	0	30	0.89
1974550--1974646	15	6.3	15	70	20	58	60	2	0	37	1.08
1975776--1975805	2	15.0	2	100	0	60	50	0	0	50	1.00
1979210--1979267	29	2.0	29	86	6	82	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1979311--1979378	24	2.8	24	72	16	68	35	4	1	58	1.27
1982150--1982190	13	2.9	14	85	7	57	39	0	0	60	0.96
1982210--1982253	16	2.5	19	78	17	58	63	0	0	36	0.95
1982741--1982779	18	2.2	18	86	9	53	38	0	0	61	0.96
1983755--1983787	3	11.0	3	100	0	66	66	0	0	33	0.92
1985194--1985247	13	4.2	13	75	11	58	57	0	0	42	0.98
1985190--1985242	24	2.3	23	86	3	70	56	0	0	43	0.99
1985981--1986019	18	2.2	18	86	4	53	58	2	0	38	1.12
1986015--1986087	36	2.0	36	84	15	96	46	2	0	50	1.15
1986437--1986488	19	2.8	20	74	11	56	59	0	0	40	0.97
1986437--1986548	40	2.9	40	78	11	108	58	0	2	38	1.12
1986515--1986610	20	5.0	20	71	17	69	55	0	1	43	1.06
1986498--1986586	42	2.2	40	80	11	92	58	0	1	40	1.05
1986701--1986744	23	1.9	23	86	9	63	52	4	2	40	1.34
1987759--1987785	11	2.5	11	100	0	54	92	7	0	0	0.38
1994316--1994569	79	3.2	79	84	1	312	25	33	18	22	1.96
2001100--2001161	17	3.8	16	74	18	65	46	0	0	53	1.00
2002094--2002142	21	2.3	20	80	10	53	53	0	0	46	1.00
2002120--2002225	46	2.3	46	75	9	103	52	1	0	45	1.11
2003323--2003366	20	2.2	20	84	4	63	40	0	4	54	1.21
2003343--2003426	39	2.2	39	80	8	91	46	0	1	52	1.08
2003349--2003459	34	3.1	36	72	21	92	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2003958--2003982	12	2.1	12	100	0	50	16	16	36	32	1.90
2004285--2004328	22	2.0	22	81	0	52	59	6	4	29	1.44
2005384--2005430	19	2.4	20	92	3	78	44	0	0	55	0.99
2006607--2006690	2	46.5	2	68	19	51	47	0	1	51	1.08
2006802--2006877	15	4.8	16	71	15	59	51	0	0	48	1.00
2007770--2007800	6	5.2	6	96	0	53	35	0	0	64	0.94
2008276--2008314	19	2.0	20	90	5	62	53	0	0	46	1.00
2008273--2008324	19	2.8	18	80	11	61	50	0	0	50	1.00
2008392--2008438	13	3.6	13	83	11	53	59	6	0	34	1.23
2009226--2009280	13	4.1	14	80	13	53	40	0	0	60	0.97
2009301--2009331	15	2.1	15	93	0	53	41	0	0	58	0.98
2009299--2009342	17	2.6	16	82	3	52	43	2	0	54	1.12
2013751--2013793	21	2.0	21	82	8	52	55	2	0	41	1.12
2013761--2013871	35	3.2	34	73	14	102	58	0	0	40	1.04
2013852--2013911	21	2.7	23	75	15	72	65	1	0	33	1.03
2014277--2014321	18	2.5	19	85	7	58	46	0	0	53	1.00
2014625--2014667	15	2.7	15	86	10	59	55	0	0	44	0.99
2014625--2014670	16	2.9	16	84	12	67	54	0	0	45	0.99
2014828--2014897	18	4.1	19	71	25	57	51	0	1	47	1.09
2015092--2015133	6	7.0	6	81	10	50	26	2	0	71	0.98
2015098--2015133	19	1.9	18	88	5	54	27	2	0	69	1.02
2016565--2016622	24	2.5	22	81	13	64	37	0	0	62	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2016755--2016800	24	2.0	23	86	4	65	32	2	2	63	1.19
2016759--2016816	28	2.1	28	83	6	73	29	3	1	65	1.19
2017270--2017300	12	2.5	13	89	10	55	32	0	0	67	0.91
2017683--2017753	13	5.2	13	71	18	54	39	0	0	60	0.97
2017675--2017739	33	1.9	34	81	3	78	38	0	0	61	0.96
2018112--2018136	2	12.5	2	100	0	50	52	0	0	48	1.00
2019518--2019542	3	8.3	3	100	0	50	36	0	32	32	1.58
2019771--2019826	23	2.4	23	90	0	85	35	5	14	44	1.68
2021061--2021093	15	2.1	16	94	5	59	36	18	6	39	1.75
2021447--2021503	17	3.5	17	73	22	59	40	0	3	56	1.17

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