genome.fa.s320.2.7.7.80.10.50.1000.12.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: Scaffold320
Parameters: 2 7 7 80 10 50 1000
Length:  2598547

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

This is table  12  of  17  ( 1971 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)
1708903--1708949	22	2.1	22	84	7	60	72	2	2	23	1.06
1709027--1709052	2	13.0	2	100	0	52	50	0	0	50	1.00
1710770--1710810	19	2.1	20	86	4	57	34	7	4	53	1.50
1711624--1711669	12	4.1	11	83	11	58	45	0	0	54	0.99
1711625--1711668	22	2.0	22	86	8	63	43	0	0	56	0.99
1713340--1713404	19	3.5	17	73	20	51	55	1	1	41	1.18
1714775--1714799	2	12.5	2	100	0	50	48	0	0	52	1.00
1715532--1715568	2	18.5	2	100	0	74	48	0	0	51	1.00
1716293--1716319	3	9.0	3	100	0	54	66	0	0	33	0.92
1717869--1717912	19	2.4	19	88	3	63	52	0	0	47	1.00
1717989--1718023	17	2.0	17	88	5	52	48	5	0	45	1.26
1718210--1718252	17	2.4	19	84	11	63	6	9	6	76	1.15
1718408--1718456	13	3.5	15	78	18	52	61	0	2	36	1.08
1719404--1719479	19	3.8	19	82	17	100	38	0	0	61	0.96
1719403--1719510	37	2.9	35	78	12	101	38	0	0	61	0.96
1719414--1719478	24	2.6	25	83	9	89	36	0	0	63	0.95
1719405--1719488	43	1.9	43	92	7	143	38	0	0	61	0.96
1719409--1719467	8	7.0	8	72	24	50	37	0	0	62	0.95
1719410--1719490	10	7.7	10	71	15	56	37	0	0	62	0.95
1719410--1719498	19	4.8	19	67	26	50	38	0	0	61	0.96
1719644--1719671	2	14.0	2	100	0	56	0	50	0	50	1.00
1723747--1723881	70	1.9	71	83	7	177	32	11	14	41	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1728988--1729018	2	16.0	2	93	6	55	51	0	0	48	1.00
1729770--1729820	26	1.9	27	84	11	70	52	0	0	47	1.00
1729808--1729850	21	2.0	21	82	8	52	39	0	0	60	0.97
1729799--1729873	16	4.5	17	71	15	50	42	0	0	57	0.98
1729812--1729888	35	2.2	35	84	11	97	46	1	0	51	1.09
1730381--1730420	15	2.7	15	84	0	53	80	10	5	5	1.02
1734936--1734977	14	2.7	15	78	14	50	50	0	0	50	1.00
1735145--1735183	21	1.9	20	84	5	51	43	0	0	56	0.99
1735737--1735781	20	2.4	19	82	13	58	48	2	2	46	1.26
1736256--1736296	21	2.0	21	90	0	64	51	0	0	48	1.00
1736255--1736332	12	6.8	12	68	24	51	44	0	0	55	0.99
1736230--1736307	33	2.3	33	75	14	88	47	0	0	52	1.00
1738003--1738084	24	3.0	27	76	15	89	63	1	1	34	1.10
1737993--1738067	30	2.6	27	78	14	78	64	2	2	30	1.21
1738003--1738085	28	3.0	27	72	22	75	63	1	1	33	1.10
1738307--1738350	16	2.8	16	82	3	54	59	0	2	38	1.10
1738449--1738491	14	2.9	15	80	16	54	48	2	0	48	1.14
1739267--1739310	19	2.3	19	92	0	70	40	0	2	56	1.11
1739317--1739384	15	4.5	14	71	16	55	51	1	1	45	1.19
1739397--1739443	19	2.4	19	82	3	58	63	0	0	36	0.94
1739489--1739748	129	2.0	129	93	1	441	36	16	9	37	1.81
1740048--1740129	32	2.6	31	74	11	78	43	4	2	48	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1741971--1741995	2	12.5	2	100	0	50	48	0	0	52	1.00
1743466--1743506	2	20.5	2	89	0	64	51	0	0	48	1.00
1743530--1743602	37	2.0	37	97	0	137	50	17	6	24	1.70
1748044--1748084	21	1.9	21	85	5	55	48	0	0	51	1.00
1748095--1748167	20	3.7	20	80	7	76	43	0	1	54	1.08
1748137--1748170	10	3.4	10	100	0	68	38	0	0	61	0.96
1748195--1748230	14	2.4	14	90	9	54	38	0	0	61	0.96
1748256--1748313	22	2.6	23	79	12	68	56	1	0	41	1.09
1750354--1750437	22	3.6	22	80	16	89	39	0	3	57	1.16
1750354--1750440	23	3.8	21	82	13	84	39	0	3	57	1.16
1750553--1750594	19	2.2	20	86	4	59	33	0	0	66	0.92
1758243--1758314	36	2.0	36	97	0	135	19	23	27	29	1.98
1758778--1758834	3	20.3	3	79	13	68	66	0	0	33	0.92
1759142--1759183	19	2.2	20	86	4	59	66	0	0	33	0.92
1761503--1761624	15	8.8	15	72	26	51	60	0	0	37	1.08
1761517--1761612	11	8.5	11	73	16	72	63	1	1	34	1.08
1763242--1763309	29	2.3	31	79	7	77	39	0	1	58	1.07
1765229--1765255	12	2.2	12	100	0	54	0	40	0	59	0.98
1766018--1766075	30	1.9	30	82	6	73	44	0	0	55	0.99
1767296--1767375	19	4.3	19	68	17	51	47	2	2	47	1.29
1767741--1767840	23	4.4	23	69	13	82	58	3	9	30	1.44
1768123--1768184	13	5.0	13	79	18	62	3	19	0	77	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1768118--1768175	29	2.0	30	86	3	82	3	15	0	81	0.83
1768115--1768184	36	2.0	35	86	8	97	4	17	0	78	0.90
1768407--1768457	12	4.5	12	74	20	56	58	0	1	39	1.09
1768406--1768478	21	3.7	20	71	23	57	60	0	1	38	1.06
1768439--1768545	35	3.1	35	73	15	107	54	0	1	42	1.17
1769578--1769628	26	2.0	26	84	7	68	50	0	5	43	1.26
1770581--1770621	2	20.5	2	100	0	82	51	0	0	48	1.00
1772644--1772672	2	14.5	2	100	0	58	0	48	0	51	1.00
1773704--1773729	2	13.0	2	100	0	52	50	0	0	50	1.00
1774630--1774658	2	14.5	2	100	0	58	48	0	0	51	1.00
1775584--1775661	32	2.4	32	82	0	102	15	19	25	39	1.91
1775584--1775715	16	8.2	16	70	6	88	18	18	25	38	1.92
1781380--1781482	16	6.4	16	72	16	88	18	16	25	39	1.91
1782971--1783014	23	1.9	23	86	9	63	47	2	2	47	1.27
1782972--1783021	23	2.2	23	82	7	57	46	6	2	46	1.39
1790741--1790808	27	2.4	27	83	9	75	48	0	0	51	1.00
1792794--1792860	28	2.3	27	82	12	80	31	0	2	65	1.07
1793550--1793590	20	2.0	21	85	4	57	43	0	2	53	1.13
1795483--1795818	167	2.0	167	98	0	645	33	14	19	32	1.92
1798196--1798231	2	18.0	2	94	0	63	50	2	0	47	1.15
1798772--1798810	20	2.0	20	95	5	71	69	0	0	30	0.89
1799786--1799832	24	2.0	24	83	8	60	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1799816--1799896	41	1.9	43	82	9	105	54	2	1	41	1.21
1799863--1799902	19	2.2	18	90	4	62	60	0	2	37	1.11
1799811--1799910	43	2.4	40	77	12	103	54	2	1	43	1.18
1802935--1802976	21	2.0	21	86	13	61	40	0	0	59	0.97
1802973--1803017	18	2.3	20	85	11	67	51	0	0	48	1.00
1802973--1803018	19	2.4	20	85	10	69	50	0	0	50	1.00
1807875--1807906	2	16.5	2	93	6	57	53	0	0	46	1.00
1808143--1808184	22	1.9	22	90	9	68	38	0	0	61	0.96
1809389--1809460	30	2.6	28	76	10	76	33	1	0	65	1.02
1815425--1815457	17	1.9	17	88	11	50	39	0	6	54	1.25
1815635--1815685	24	2.1	24	82	7	59	45	1	0	52	1.12
1815947--1815986	21	1.9	21	89	0	62	57	2	0	40	1.12
1816439--1816495	26	2.2	24	77	22	62	63	1	3	31	1.22
1819094--1819120	2	13.5	2	100	0	54	51	0	0	48	1.00
1819113--1819155	21	2.0	21	90	0	68	46	18	6	27	1.75
1819338--1819372	2	17.5	2	100	0	70	51	0	0	48	1.00
1819134--1819597	231	2.0	231	88	3	686	41	12	15	30	1.84
1819568--1819597	2	15.0	2	100	0	60	50	0	0	50	1.00
1820331--1820376	19	2.3	19	85	11	56	41	0	0	58	0.98
1823424--1823450	13	2.1	13	100	0	54	37	0	0	62	0.95
1823469--1823513	23	1.9	24	90	4	74	57	0	0	42	0.98
1824209--1824239	2	15.5	2	100	0	62	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1824339--1824384	15	3.1	15	83	0	65	23	2	0	73	0.94
1824356--1824401	24	1.9	24	86	0	65	26	4	0	69	1.07
1825857--1825890	3	11.3	3	87	0	50	29	32	2	35	1.73
1826342--1826377	2	18.0	2	100	0	72	50	0	0	50	1.00
1835058--1835125	13	5.7	13	71	26	53	39	36	0	23	1.55
1835036--1835168	34	3.9	34	91	0	167	42	35	0	22	1.54
1840148--1840178	13	2.4	13	94	0	53	48	0	3	48	1.17
1844793--1844851	26	2.3	26	83	16	70	64	1	0	33	1.04
1844793--1844833	18	2.2	19	83	12	50	65	0	0	34	0.93
1845617--1845660	22	2.0	21	86	4	61	11	27	0	61	1.30

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