genome.fa.s145.2.7.7.80.10.50.1000.10.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: Scaffold145
Parameters: 2 7 7 80 10 50 1000
Length:  2608604

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  10  of  15  ( 1729 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)
1779947--1779982	10	3.6	10	96	0	63	55	0	44	0	0.99
1782139--1782179	11	3.9	11	78	12	50	36	4	0	58	1.20
1782133--1782180	20	2.5	20	89	3	71	35	4	0	60	1.16
1782133--1782203	19	3.5	20	73	14	65	39	2	0	57	1.13
1782186--1782299	46	2.4	45	75	13	106	42	3	0	53	1.24
1784488--1784520	2	16.5	2	100	0	66	51	0	0	48	1.00
1785240--1785301	24	2.4	26	82	12	76	51	0	0	48	1.00
1785265--1785302	17	2.1	19	85	9	53	47	0	0	52	1.00
1790627--1790669	16	2.8	16	78	3	52	62	0	0	37	0.95
1790637--1790673	14	2.5	15	86	8	58	56	0	0	43	0.99
1790637--1790681	14	3.0	16	78	15	51	53	0	0	46	1.00
1792286--1792339	26	2.0	28	82	13	69	51	0	3	44	1.19
1793152--1793183	2	16.0	2	100	0	64	50	0	0	50	1.00
1795998--1796052	22	2.4	23	81	6	67	58	1	0	40	1.09
1798350--1798380	2	15.5	2	100	0	62	48	0	0	51	1.00
1803327--1803749	211	2.0	211	96	1	787	47	17	6	28	1.73
1804163--1804216	27	2.0	27	100	0	108	29	14	40	14	1.86
1804630--1804661	15	2.1	16	88	11	50	53	0	0	46	1.00
1804830--1804910	25	3.2	25	73	11	67	49	0	0	50	1.00
1804867--1804925	25	2.4	25	80	5	77	59	0	0	40	0.97
1805056--1805113	24	2.4	24	94	5	100	51	0	0	48	1.00
1805642--1805681	14	2.9	14	88	3	55	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1807140--1807198	23	2.6	23	76	10	66	45	1	1	50	1.21
1812995--1813023	2	14.5	2	100	0	58	48	0	0	51	1.00
1814711--1814757	25	1.9	24	83	12	60	53	0	0	46	1.00
1816366--1816403	18	2.1	19	90	5	60	55	0	0	44	0.99
1820623--1820693	26	2.6	25	80	12	79	46	1	4	47	1.30
1820751--1820801	26	2.0	26	88	0	75	33	3	11	50	1.57
1829036--1829121	37	2.3	37	82	6	102	38	0	0	61	0.96
1829120--1829161	13	3.2	13	82	0	57	64	0	0	35	0.94
1829112--1829161	26	2.0	25	88	7	75	62	0	0	38	0.96
1829120--1829194	26	2.9	26	78	9	73	65	5	0	29	1.15
1829519--1829547	2	15.0	2	92	7	51	48	0	0	51	1.00
1829846--1829911	23	3.0	23	79	12	61	43	3	0	53	1.16
1832295--1832321	3	9.0	3	100	0	54	33	0	0	66	0.92
1832399--1832467	16	4.3	15	76	20	61	60	0	1	37	1.06
1832445--1832499	26	2.0	28	86	6	78	56	0	0	43	0.99
1832561--1832604	17	2.7	16	82	6	52	29	2	0	68	1.02
1833942--1834004	21	3.0	20	77	15	56	42	0	1	55	1.09
1836891--1836935	22	2.0	23	86	4	65	57	2	2	37	1.23
1837396--1837426	3	10.3	3	100	0	62	32	0	0	67	0.91
1837954--1838014	20	3.0	21	75	15	56	47	0	1	50	1.10
1837968--1838014	21	2.2	22	85	7	62	51	0	0	48	1.00
1838487--1838537	20	2.5	21	84	12	70	45	0	3	50	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1838514--1838597	30	2.9	28	77	10	87	55	1	2	40	1.20
1839469--1839498	15	2.0	15	93	0	51	43	0	0	56	0.99
1844722--1844789	25	2.6	26	86	6	93	57	0	0	42	0.98
1844709--1844777	13	5.4	13	70	19	56	57	0	0	42	0.98
1844770--1844809	20	2.0	20	85	4	55	57	0	0	42	0.98
1845370--1845406	19	1.9	19	94	0	65	35	2	29	32	1.72
1854307--1854351	7	6.1	7	80	10	54	2	8	2	86	0.73
1854303--1854336	11	3.2	11	87	8	52	0	11	0	88	0.52
1854303--1854351	21	2.4	21	82	3	64	2	10	2	85	0.76
1854311--1854351	16	2.8	14	92	7	64	2	7	2	87	0.70
1854891--1854944	26	2.1	26	96	0	99	53	5	3	37	1.42
1855866--1855950	33	2.6	33	77	20	97	56	1	0	42	1.07
1855898--1855933	19	1.9	18	88	5	54	58	0	0	41	0.98
1855982--1856028	16	2.8	16	84	15	60	44	2	0	53	1.12
1857092--1857160	33	2.1	32	83	2	84	53	1	2	42	1.24
1857604--1857655	15	4.0	12	77	22	52	38	0	0	61	0.96
1857517--1857655	38	4.3	32	74	23	107	43	0	0	56	1.04
1857854--1857909	20	2.6	23	77	13	64	41	0	0	58	0.98
1857878--1857948	28	2.6	27	76	12	74	49	0	0	50	1.00
1857843--1857944	50	2.1	49	80	12	111	45	0	0	54	0.99
1857846--1857952	16	6.3	17	71	18	71	46	0	0	53	1.00
1859604--1859732	64	2.0	64	100	0	258	15	10	10	62	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1860191--1860255	32	2.0	33	87	6	96	52	6	0	41	1.26
1860225--1860278	17	3.2	16	82	12	56	57	3	0	38	1.17
1860191--1860267	32	2.3	33	82	6	93	53	6	0	40	1.27
1868837--1868889	15	3.6	14	82	12	63	35	1	0	62	1.06
1870152--1870206	16	3.3	18	70	17	55	56	0	0	43	0.99
1870157--1870249	31	2.9	33	77	17	83	58	1	0	40	1.05
1870535--1870615	22	3.5	22	69	12	65	43	0	0	56	0.99
1870554--1870637	21	3.8	21	68	27	57	41	0	0	58	0.98
1870549--1870698	39	3.9	38	73	19	134	42	0	0	57	1.03
1870574--1870629	16	3.5	15	73	21	51	42	0	0	57	0.99
1870539--1870629	45	1.9	49	86	8	136	43	0	0	56	0.99
1870563--1870631	27	2.6	27	80	15	72	43	0	0	56	0.99
1870605--1870659	15	3.5	16	74	16	53	41	0	0	58	0.98
1870635--1870688	26	2.1	26	86	10	76	40	0	1	57	1.09
1870919--1871019	16	6.8	14	75	15	55	40	0	0	59	0.97
1870947--1871019	16	4.6	16	81	14	89	46	0	0	53	1.00
1870929--1871020	32	3.0	31	78	15	100	42	0	0	57	0.98
1870947--1871023	15	4.9	15	77	16	68	45	0	0	54	0.99
1873041--1873078	19	2.0	19	85	10	51	68	0	2	28	1.03
1873789--1873829	20	2.0	20	90	9	66	60	0	0	39	0.96
1874248--1874330	16	5.3	16	74	16	68	63	0	0	36	0.94
1874264--1874340	24	3.1	25	73	25	65	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1875685--1875759	39	1.9	39	100	0	150	36	14	25	24	1.93
1876338--1876371	3	11.3	3	100	0	68	0	35	0	64	0.94
1881912--1881962	17	3.1	17	75	25	56	54	1	0	43	1.11
1882347--1882374	2	14.0	2	100	0	56	50	0	50	0	1.00
1882821--1882857	2	18.5	2	88	0	56	48	5	0	45	1.25
1883209--1883245	2	18.5	2	100	0	74	48	0	0	51	1.00
1888014--1888057	12	3.4	12	77	17	52	54	0	0	45	0.99
1888010--1888059	17	3.4	17	65	35	51	56	0	0	44	0.99
1889287--1889343	23	2.5	21	76	18	51	26	5	5	63	1.37
1889284--1889350	24	2.8	23	80	11	64	26	5	4	62	1.38
1891451--1891491	16	2.3	19	84	16	61	41	0	0	58	0.98
1892161--1892190	16	1.9	15	93	6	51	53	0	0	46	1.00
1895119--1895188	22	2.8	26	77	16	69	41	0	0	58	0.98
1895130--1895188	25	2.5	22	84	13	73	42	0	0	57	0.98
1896038--1896110	29	2.5	30	76	12	82	42	2	1	53	1.23
1896377--1896402	2	13.0	2	100	0	52	50	0	0	50	1.00
1897351--1897384	2	17.0	2	93	0	59	0	52	0	47	1.00
1897701--1897738	3	12.7	3	88	0	58	68	28	2	0	1.03
1904799--1904824	2	13.0	2	100	0	52	0	50	0	50	1.00
1904824--1904849	2	13.0	2	100	0	52	50	50	0	0	1.00
1913114--1913163	26	2.0	25	84	4	64	58	0	0	42	0.98
1913113--1913171	24	2.4	24	75	10	57	61	0	1	37	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1926584--1926644	9	6.5	10	78	16	60	37	1	0	60	1.07
1926570--1926630	28	2.2	28	82	8	72	42	1	0	55	1.09
1926551--1926630	18	4.6	17	74	14	65	46	1	0	52	1.08
1926602--1926644	17	2.4	17	84	7	59	37	2	0	60	1.10
1927259--1927308	26	1.9	26	84	8	66	40	0	0	60	0.97
1928431--1928513	16	4.9	17	74	18	66	53	1	1	44	1.16
1928445--1928492	21	2.2	22	85	10	64	54	2	0	43	1.12
1928475--1928524	15	3.2	16	75	8	50	54	6	0	40	1.25
1929467--1929497	3	10.3	3	92	0	53	32	3	0	64	1.09
1929828--1929926	13	7.3	15	68	21	58	49	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15