genome.fa.s43.2.7.7.80.10.50.1000.15.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: Scaffold43
Parameters: 2 7 7 80 10 50 1000
Length:  2559314

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  15  of  19  ( 2200 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)
1741752--1741823	13	5.5	14	72	21	59	44	0	0	55	0.99
1741682--1741829	30	4.8	30	67	24	87	41	0	0	57	1.08
1741989--1742030	14	3.0	14	79	10	50	42	0	0	57	0.99
1742844--1742869	10	2.6	10	100	0	52	42	0	0	57	0.98
1744582--1744615	6	5.7	6	96	0	59	20	11	32	35	1.89
1745826--1745922	32	2.9	34	83	11	114	43	1	2	53	1.19
1745911--1745948	17	2.2	18	90	4	60	28	2	0	68	1.03
1746878--1746958	38	2.1	39	82	11	96	37	4	0	58	1.20
1747078--1747114	18	2.2	18	86	13	53	62	0	0	37	0.96
1752832--1752872	21	1.9	22	85	14	59	63	0	0	36	0.95
1757627--1757669	17	2.6	16	79	13	52	53	0	2	44	1.13
1757613--1757682	33	2.2	31	80	7	77	54	0	1	44	1.09
1757787--1757818	13	2.4	14	94	5	57	34	0	0	65	0.93
1758121--1758177	21	2.6	21	83	10	62	47	3	1	47	1.29
1758106--1758180	24	3.2	24	74	14	66	41	5	2	50	1.39
1762942--1762982	5	8.4	5	79	15	50	58	0	2	39	1.11
1762953--1762988	18	2.0	18	88	0	54	61	0	2	36	1.11
1763495--1763533	19	2.1	19	85	4	53	43	0	5	51	1.24
1764122--1764160	20	2.0	20	94	0	69	35	7	12	43	1.72
1765318--1765347	2	15.0	2	100	0	60	50	0	0	50	1.00
1766346--1766394	2	24.5	2	95	0	89	48	0	51	0	1.00
1771308--1771361	24	2.2	24	86	0	72	40	0	0	59	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1771738--1771777	18	2.2	18	86	8	55	67	0	5	27	1.11
1773121--1773162	15	2.7	15	92	3	66	73	2	0	23	0.94
1773138--1773170	11	2.8	12	86	13	50	69	0	0	30	0.88
1773107--1773173	15	4.2	17	81	11	63	68	2	0	28	1.04
1773530--1773610	16	5.2	15	72	20	51	55	0	1	43	1.07
1773548--1773621	20	3.9	19	74	15	64	56	0	1	41	1.07
1773526--1773619	16	5.6	16	65	21	50	54	0	1	44	1.07
1773587--1773645	26	2.1	30	81	15	72	50	0	0	49	1.00
1773874--1773944	36	2.0	35	86	13	101	56	0	0	43	0.99
1773896--1773939	21	2.0	23	83	16	58	59	0	0	40	0.98
1773882--1774004	36	3.4	36	78	18	107	56	0	0	42	1.04
1781296--1781363	20	3.4	19	73	13	64	42	0	0	57	0.98
1781353--1781392	15	2.7	14	85	11	53	55	0	0	45	0.99
1781661--1781694	13	2.7	13	90	4	52	52	0	0	47	1.00
1782930--1782968	14	3.0	13	82	10	53	46	0	0	53	1.00
1783303--1783361	28	2.1	28	81	12	68	57	0	0	42	0.98
1783333--1783416	30	2.7	31	81	9	100	57	0	2	40	1.12
1783727--1783824	26	3.7	27	69	18	71	39	0	2	58	1.10
1783754--1783824	8	8.2	8	72	18	54	36	0	1	61	1.05
1783758--1783802	21	2.3	18	85	11	54	35	0	2	62	1.08
1783735--1783830	27	3.5	26	74	17	79	37	0	2	60	1.09
1783754--1783835	11	7.4	11	74	14	62	36	0	2	60	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1784277--1784310	17	2.0	17	88	0	50	23	0	5	70	1.09
1784314--1784391	32	2.7	27	75	19	84	43	0	1	55	1.08
1784308--1784424	52	2.3	53	77	16	129	43	0	0	55	1.05
1784357--1784417	18	3.3	18	78	14	61	39	0	0	60	0.97
1784888--1784954	10	7.3	10	86	13	92	32	0	5	61	1.20
1784887--1784954	18	3.8	18	88	11	104	33	0	5	60	1.21
1784888--1784950	26	2.3	26	94	5	108	33	0	4	61	1.17
1784887--1784984	18	5.2	19	78	10	103	39	0	5	55	1.22
1786277--1786315	3	13.0	3	100	0	78	33	33	0	33	1.58
1787012--1787126	30	4.0	30	70	16	75	36	0	1	61	1.06
1787091--1787138	18	2.7	18	78	9	53	31	0	0	68	0.90
1787263--1787309	23	2.0	23	84	16	60	36	0	2	61	1.08
1787262--1787312	12	4.5	11	80	20	52	35	0	1	62	1.06
1787666--1787706	13	3.1	13	89	3	55	41	0	2	56	1.13
1791829--1791859	3	10.3	3	100	0	62	67	0	32	0	0.91
1792498--1792553	12	4.8	12	74	14	55	37	0	0	62	0.95
1792497--1792555	21	2.7	23	82	12	79	37	0	0	62	0.95
1792933--1792996	32	2.0	32	87	0	92	40	3	14	42	1.61
1793969--1794040	7	11.1	7	76	16	66	44	0	1	54	1.08
1795476--1795507	17	1.9	17	93	6	57	18	12	0	68	1.20
1798589--1798623	15	2.3	16	85	14	56	37	0	0	62	0.95
1800807--1800854	18	2.6	18	90	3	69	6	12	25	56	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1801043--1801116	27	2.7	28	80	4	87	51	2	0	45	1.15
1801676--1801706	2	15.5	2	100	0	62	48	0	0	51	1.00
1801896--1801976	33	2.5	35	78	13	100	48	0	1	50	1.08
1805452--1805493	20	2.3	19	80	15	52	35	0	0	64	0.94
1805447--1805508	23	2.7	23	79	20	69	41	0	0	58	0.98
1805500--1805543	16	2.6	17	78	7	54	54	0	0	45	0.99
1806634--1806665	13	2.5	13	94	0	55	37	0	0	62	0.95
1806975--1807023	22	2.3	22	83	16	68	51	0	0	48	1.00
1807848--1807872	13	1.9	13	100	0	50	44	0	0	56	0.99
1808650--1808684	12	2.9	12	82	0	52	62	0	0	37	0.95
1808720--1808775	30	2.0	29	82	10	71	48	0	0	51	1.00
1808770--1808810	2	21.5	2	81	18	52	48	2	0	48	1.14
1808770--1808810	15	2.8	16	82	14	52	48	2	0	48	1.14
1814132--1814170	20	2.0	20	85	10	53	43	0	0	56	0.99
1818210--1818255	23	2.1	21	84	8	56	54	6	0	39	1.26
1819339--1819375	17	2.2	16	90	4	56	40	2	0	56	1.13
1819339--1819409	11	6.6	11	72	16	60	38	1	0	60	1.06
1819339--1819474	6	23.2	6	68	17	56	41	1	0	56	1.08
1820050--1820124	39	2.0	35	85	10	96	49	0	0	50	1.00
1821235--1821268	16	2.1	16	94	0	59	47	0	0	52	1.00
1822591--1822680	36	2.5	36	96	1	164	48	17	3	30	1.63
1822591--1822683	35	2.6	35	93	1	105	49	17	3	30	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1822999--1823040	21	2.0	21	86	13	61	57	0	0	42	0.99
1824549--1824625	23	3.2	23	75	14	66	54	0	1	44	1.08
1824579--1824615	15	2.2	18	86	13	53	54	0	0	45	1.00
1825213--1825253	16	2.6	15	85	11	55	36	0	0	63	0.95
1825604--1825642	18	2.2	18	85	0	51	51	7	2	38	1.44
1825928--1825975	13	3.6	14	76	18	57	64	0	0	35	0.94
1825924--1825975	20	2.6	21	82	14	65	65	0	0	34	0.93
1826269--1826325	26	2.2	26	90	6	89	57	0	0	42	0.98
1826280--1826328	13	3.7	13	80	2	62	59	0	0	40	0.98
1826686--1826752	27	2.6	24	78	15	71	44	1	1	52	1.19
1826710--1826746	14	2.7	15	88	12	53	43	0	0	56	0.99
1826710--1826775	11	5.5	11	74	13	51	36	0	1	62	1.05
1826686--1826755	25	2.7	26	81	12	81	44	1	1	52	1.18
1826741--1826795	28	2.0	28	85	7	76	30	1	1	65	1.13
1827002--1827054	13	4.2	13	72	22	51	49	0	1	49	1.12
1826991--1827043	22	2.5	22	82	11	65	47	0	0	52	1.00
1827111--1827177	35	1.9	35	81	6	82	49	1	1	47	1.19
1827598--1827648	9	5.7	9	80	11	52	35	0	0	64	0.94
1827620--1827735	3	38.3	3	86	8	119	38	0	0	61	0.96
1828390--1828426	19	1.9	19	88	0	56	21	0	8	70	1.13
1829831--1829860	13	2.3	13	94	0	51	33	0	0	66	0.92
1830459--1830568	51	2.1	52	83	5	132	45	8	6	40	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1831211--1831465	50	5.1	50	86	0	332	32	20	19	27	1.97
1831211--1831465	99	2.6	99	85	1	341	32	20	19	27	1.97
1835698--1835998	50	6.1	50	82	2	304	34	14	17	33	1.90
1835698--1836002	100	3.1	99	82	3	346	34	14	17	33	1.90
1837937--1837966	9	3.2	9	90	9	51	73	0	0	26	0.84
1837935--1837964	10	3.1	10	90	9	53	73	0	0	26	0.84
1839456--1839515	9	6.6	9	73	17	52	46	0	1	51	1.10
1841412--1841462	25	2.0	25	85	7	68	43	1	0	54	1.11
1842584--1842619	2	18.5	2	94	5	65	50	0	0	50	1.00
1846169--1846206	2	19.0	2	100	0	76	0	50	0	50	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19