genome.fa.s153.2.7.7.80.10.50.1000.14.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: Scaffold153
Parameters: 2 7 7 80 10 50 1000
Length:  3137677

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   

This is table  14  of  24  ( 2803 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)
1830437--1830502	15	4.3	15	78	20	57	53	3	0	43	1.16
1830441--1830517	29	2.6	30	87	4	113	51	5	0	42	1.24
1830441--1830518	14	5.5	13	75	17	66	51	5	0	43	1.24
1830789--1830840	22	2.4	21	87	9	70	69	5	1	23	1.20
1831436--1831471	17	2.1	17	89	0	54	27	0	0	72	0.85
1831505--1831547	19	2.3	19	80	11	52	44	4	0	51	1.22
1831721--1831759	14	2.7	15	85	14	55	48	0	0	51	1.00
1831724--1831755	15	2.1	16	94	5	57	53	0	0	46	1.00
1832173--1832224	25	2.4	22	77	22	56	61	0	0	38	0.96
1832824--1832864	22	1.9	21	85	5	55	41	0	0	58	0.98
1833819--1833858	21	2.0	20	85	5	53	25	7	7	60	1.50
1837531--1837556	2	13.0	2	100	0	52	50	0	0	50	1.00
1838232--1838275	2	22.0	2	100	0	88	50	0	50	0	1.00
1838650--1838678	9	3.3	9	95	4	51	72	0	0	27	0.85
1839205--1839260	24	2.3	24	77	17	62	35	1	0	62	1.06
1842994--1843032	15	2.6	15	83	0	51	43	2	2	51	1.29
1844200--1844236	12	3.1	12	92	0	56	40	18	27	13	1.88
1845472--1845501	12	2.5	12	94	0	51	40	0	0	60	0.97
1845908--1845968	29	2.1	30	93	3	106	45	0	0	54	1.00
1845931--1845974	21	2.1	21	83	8	54	45	0	0	54	0.99
1845929--1845987	22	2.7	22	84	10	77	40	0	0	59	0.97
1845940--1845985	21	2.2	21	92	7	76	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)
1848671--1848735	33	2.0	33	96	0	121	53	13	10	21	1.70
1850490--1850533	22	2.0	23	86	4	63	63	2	0	34	1.07
1850961--1851010	18	2.9	18	82	8	59	68	0	0	32	0.90
1850945--1851001	28	2.0	30	86	6	82	64	0	0	35	0.93
1850944--1851012	11	6.0	11	72	13	50	62	0	0	37	0.96
1851486--1851548	21	3.0	21	65	28	53	58	4	9	26	1.49
1853387--1853683	143	2.1	143	89	3	454	35	10	10	43	1.73
1853674--1853706	14	2.2	16	89	10	52	66	0	3	30	1.06
1853691--1853728	19	2.1	19	90	5	60	55	0	2	42	1.14
1855477--1855539	32	2.1	30	91	8	101	44	3	0	52	1.17
1855483--1855533	16	3.3	15	75	8	57	39	3	0	56	1.18
1855533--1855568	18	2.0	18	88	0	54	44	2	0	52	1.15
1856272--1856325	28	1.9	28	84	0	72	51	0	0	48	1.00
1856297--1856340	23	2.0	22	82	13	54	59	0	0	40	0.98
1856308--1856344	20	2.0	19	85	15	51	59	0	0	40	0.97
1856812--1857048	50	4.8	50	89	1	359	30	21	17	30	1.96
1861212--1861448	50	4.8	50	86	1	323	30	20	16	32	1.95
1861212--1861448	99	2.4	100	85	2	325	30	20	16	32	1.95
1861812--1861846	2	17.5	2	100	0	70	48	0	0	51	1.00
1862192--1862232	2	20.5	2	89	0	64	48	2	2	46	1.28
1862192--1862239	12	4.0	12	88	0	60	47	6	2	43	1.40
1864953--1864991	13	3.0	13	82	10	53	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1864946--1865011	29	2.2	30	76	17	75	43	0	1	54	1.09
1864954--1864991	20	1.9	20	88	0	58	34	0	0	65	0.93
1865281--1865321	8	5.1	8	84	0	55	46	0	0	53	1.00
1869056--1869114	13	4.6	13	76	2	57	49	0	0	50	1.00
1869052--1869114	26	2.5	25	84	2	72	50	0	0	49	1.00
1869075--1869132	26	2.3	24	82	5	62	58	1	0	39	1.08
1869127--1869156	9	3.3	9	90	0	51	56	0	0	43	0.99
1869127--1869163	18	2.1	18	94	0	65	48	0	0	51	1.00
1869151--1869200	16	3.4	15	76	10	50	42	4	0	54	1.19
1870096--1870129	15	2.3	15	89	0	50	50	14	2	32	1.58
1870778--1870802	2	12.5	2	100	0	50	48	0	0	52	1.00
1872987--1873029	23	1.9	23	90	4	70	60	6	0	32	1.23
1873666--1873729	33	2.0	32	81	9	76	56	0	0	43	0.99
1876570--1876628	19	3.0	21	83	13	72	40	0	1	57	1.09
1878231--1878262	2	16.5	2	93	6	57	50	0	0	50	1.00
1878807--1878874	35	1.9	35	85	5	93	44	0	1	54	1.09
1878841--1878898	18	3.1	19	85	12	75	50	0	3	46	1.18
1879304--1879347	3	14.7	3	90	0	70	72	0	27	0	0.85
1879774--1879821	19	2.4	20	79	10	53	68	0	0	31	0.90
1881191--1881282	17	5.5	16	72	12	69	39	0	1	59	1.04
1881305--1881370	16	4.1	15	75	19	53	48	3	0	48	1.17
1881422--1881466	23	2.0	23	95	0	81	31	6	26	35	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1881913--1881965	24	2.2	24	93	3	90	41	3	11	43	1.58
1881919--1881966	24	2.0	24	100	0	96	37	4	12	45	1.61
1881992--1882043	25	2.1	25	82	7	61	30	5	1	61	1.30
1883014--1883073	28	2.2	27	85	11	86	40	11	6	41	1.68
1883023--1883077	28	2.0	28	96	0	101	41	14	5	38	1.69
1890565--1890598	5	7.2	5	87	12	54	0	17	0	82	0.67
1890570--1890596	13	2.1	13	100	0	54	0	14	0	85	0.61
1891020--1891084	22	3.0	22	77	4	60	55	0	0	44	0.99
1891578--1891608	16	1.9	16	93	0	53	61	0	0	38	0.96
1892935--1892976	3	14.3	3	95	5	77	35	0	0	64	0.94
1892937--1892976	20	2.0	20	100	0	80	35	0	0	65	0.93
1893960--1894031	29	2.4	29	82	13	85	29	2	4	63	1.27
1894390--1894490	42	2.4	43	79	3	123	43	3	1	50	1.32
1896021--1896090	32	2.1	32	84	10	88	45	5	0	48	1.26
1896083--1896139	21	2.7	20	77	17	62	35	1	1	61	1.17
1896825--1896860	17	2.1	17	90	10	56	44	0	0	55	0.99
1897666--1897710	23	2.0	23	81	0	54	40	0	0	60	0.97
1898684--1898721	15	2.5	15	80	16	51	60	0	0	39	0.97
1899200--1899235	3	12.0	3	93	0	63	0	36	0	63	0.94
1900291--1900331	19	2.2	19	86	0	55	39	0	0	60	0.96
1901741--1901799	24	2.5	24	84	10	77	57	0	1	40	1.09
1901737--1901799	23	2.8	22	81	13	74	57	0	1	41	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1901755--1901806	18	2.8	18	80	8	52	59	0	0	40	0.97
1901758--1901826	35	1.9	37	82	11	90	55	0	1	43	1.08
1901758--1901826	36	1.9	36	85	5	95	55	0	1	43	1.08
1917472--1917511	2	21.5	2	80	14	50	52	0	2	45	1.14
1919055--1919088	2	17.0	2	100	0	68	50	0	0	50	1.00
1919900--1919936	17	2.2	17	95	0	65	37	5	16	40	1.71
1927583--1927613	16	2.0	15	93	6	53	48	0	0	51	1.00
1927609--1927645	3	12.3	3	100	0	74	35	0	0	64	0.94
1927807--1927855	20	2.7	18	81	12	64	44	0	0	55	0.99
1927878--1927903	9	2.9	9	100	0	52	34	0	0	65	0.93
1929789--1929818	10	2.9	10	95	5	51	43	0	0	56	0.99
1929789--1929861	21	3.6	21	70	22	57	46	1	2	49	1.24
1930331--1930356	2	13.0	2	100	0	52	50	0	0	50	1.00
1930843--1930882	21	1.9	21	90	10	64	42	0	0	57	0.98
1931303--1931413	46	2.4	46	89	1	168	41	0	2	54	1.20
1934961--1935028	25	2.6	27	81	11	70	39	0	1	58	1.07
1935179--1935221	22	1.9	23	85	4	61	65	2	0	32	1.06
1936094--1936122	2	14.5	2	100	0	58	51	0	0	48	1.00
1939830--1939866	7	5.7	7	90	9	53	54	0	0	45	1.00
1944064--1944104	21	2.0	21	90	0	64	39	26	0	34	1.57
1945359--1945425	22	3.2	22	81	12	70	53	0	1	44	1.09
1945369--1945471	11	9.1	11	70	17	59	46	0	3	49	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1945392--1945428	7	5.7	7	90	9	53	54	0	0	45	1.00
1945544--1945581	18	2.1	18	90	0	58	47	5	5	42	1.48
1945584--1945633	19	2.7	18	85	11	66	68	0	0	32	0.90
1946629--1946667	2	20.0	2	89	5	62	51	0	0	48	1.00
1949490--1949843	182	1.9	182	93	0	609	35	10	28	25	1.89
1951355--1951396	6	7.2	6	89	2	50	59	2	38	0	1.10
1951355--1951412	18	3.2	18	78	4	55	55	3	39	1	1.27
1952383--1952408	6	4.3	6	100	0	52	65	0	0	34	0.93
1952738--1952801	20	3.1	20	75	24	62	56	0	3	40	1.15
1952751--1952801	21	2.4	22	81	15	63	54	0	3	41	1.19

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