genome.fa.s46.2.7.7.80.10.50.1000.11.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: Scaffold46
Parameters: 2 7 7 80 10 50 1000
Length:  2524624

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

This is table  11  of  15  ( 1780 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)
1728011--1728073	32	2.0	32	96	0	117	36	15	12	34	1.86
1730243--1730363	61	2.0	63	90	3	192	48	7	19	24	1.74
1731081--1731275	77	2.5	77	80	6	189	44	13	12	29	1.81
1731160--1731278	39	3.1	39	76	4	123	46	13	10	29	1.77
1731323--1731493	78	2.2	77	81	5	193	35	15	19	30	1.92
1731382--1731491	38	2.8	39	83	2	150	35	13	18	32	1.90
1732314--1732388	16	4.7	16	77	6	80	40	28	17	14	1.89
1732313--1732468	48	3.2	48	80	4	136	42	27	16	13	1.86
1732626--1732668	22	2.0	22	100	0	86	51	6	4	37	1.50
1733549--1733663	59	1.9	61	79	16	132	48	2	4	44	1.36
1733793--1733870	16	4.9	16	68	6	50	43	21	20	14	1.87
1733799--1733882	32	2.6	32	79	7	98	45	21	19	14	1.85
1736069--1736105	3	12.3	3	100	0	74	67	0	0	32	0.91
1736273--1736325	11	5.1	11	82	13	67	33	0	0	66	0.92
1736263--1736325	30	2.1	31	82	8	76	36	0	0	63	0.95
1736916--1736942	13	2.1	13	100	0	54	37	0	0	62	0.95
1744517--1744587	20	3.6	19	75	7	70	40	9	15	33	1.80
1748925--1748951	2	13.5	2	100	0	54	51	48	0	0	1.00
1749801--1749845	17	2.6	17	82	3	54	48	0	0	51	1.00
1750300--1750345	21	2.2	21	88	0	65	45	2	0	52	1.13
1750515--1750666	34	4.5	34	88	0	205	24	6	26	42	1.79
1754841--1754875	17	2.0	18	88	5	54	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)
1755595--1755637	22	2.0	22	95	0	77	65	0	0	34	0.93
1755595--1755637	10	4.0	10	80	14	50	65	0	0	34	0.93
1755835--1755859	4	6.2	4	100	0	50	76	0	0	24	0.80
1755982--1756028	16	2.9	16	79	14	51	55	0	0	44	0.99
1759341--1759450	42	2.6	42	91	0	175	41	3	45	9	1.53
1769560--1769636	20	3.8	20	84	5	100	40	10	15	33	1.81
1769682--1769755	21	3.6	21	81	3	87	32	13	12	41	1.81
1773528--1773946	112	3.8	108	78	9	413	33	16	13	36	1.87
1777257--1777590	84	4.0	83	77	5	336	31	24	10	32	1.90
1777285--1777590	166	1.8	167	85	2	436	32	22	10	33	1.89
1777255--1777665	84	4.9	85	75	11	296	31	24	10	32	1.89
1779474--1780626	155	7.4	154	83	2	1299	24	15	20	39	1.91
1779474--1780626	465	2.5	463	85	2	1506	24	15	20	39	1.91
1786770--1786794	13	1.9	13	100	0	50	36	16	16	32	1.90
1786750--1786819	33	2.1	33	89	0	104	34	11	14	40	1.82
1786859--1786883	13	1.9	13	100	0	50	32	16	16	36	1.90
1790551--1790576	2	13.0	2	100	0	52	50	0	0	50	1.00
1790954--1791452	165	3.0	165	79	7	528	30	10	7	51	1.64
1790869--1791452	166	3.5	166	78	8	586	30	10	7	51	1.63
1790995--1791552	166	3.4	166	79	7	428	31	10	8	49	1.68
1792936--1793372	163	2.7	158	79	7	430	35	11	13	39	1.81
1800249--1800610	132	2.7	134	78	6	374	30	29	13	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1800110--1801191	70	15.8	70	69	10	330	29	28	14	27	1.95
1803518--1804189	83	8.0	82	75	10	429	32	22	9	36	1.85
1807137--1807381	62	3.8	62	79	7	208	21	22	13	42	1.87
1807432--1807576	67	2.1	68	85	1	193	17	24	14	42	1.87
1809786--1809834	15	3.3	15	78	16	57	46	0	0	53	1.00
1809774--1809847	30	2.5	30	77	4	87	37	0	0	62	0.96
1809825--1809849	11	2.3	11	100	0	50	24	0	0	76	0.80
1809914--1809959	20	2.3	21	88	7	69	56	2	0	41	1.11
1810550--1810732	11	17.3	11	64	24	56	39	4	3	51	1.40
1810546--1810705	21	7.6	21	70	12	98	40	5	3	51	1.39
1810550--1810705	22	7.4	21	69	18	85	39	4	3	52	1.38
1810666--1810736	21	3.3	22	84	5	92	40	2	5	50	1.40
1811275--1811330	20	2.9	19	87	10	71	42	1	1	53	1.21
1811278--1811336	18	3.2	18	88	9	68	42	1	1	54	1.20
1812534--1812561	12	2.3	12	100	0	56	32	0	0	67	0.91
1812490--1812608	43	2.9	43	72	14	117	40	0	0	59	0.97
1812942--1813015	32	2.3	33	84	6	100	48	0	0	51	1.00
1812942--1812995	17	3.3	17	73	19	60	53	0	0	46	1.00
1812995--1813047	12	4.5	11	78	19	54	33	0	0	66	0.92
1812988--1813055	35	2.0	34	88	8	102	36	0	0	63	0.95
1814986--1815065	22	3.5	22	69	21	56	45	0	1	53	1.08
1815980--1816031	12	3.7	15	82	17	51	76	0	21	1	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1816000--1816035	12	2.8	12	91	8	54	86	0	13	0	0.58
1816343--1816453	2	55.5	2	87	0	159	43	0	6	50	1.27
1822790--1822814	13	1.9	13	100	0	50	84	16	0	0	0.63
1823864--1824720	27	31.3	27	90	2	1311	22	33	14	29	1.94
1823864--1824720	55	15.7	54	91	1	1311	22	33	14	29	1.94
1827798--1827925	52	2.5	52	93	3	215	30	17	18	32	1.95
1827934--1827958	13	1.9	13	100	0	50	36	16	16	32	1.90
1827999--1828064	33	2.0	33	85	2	89	39	12	12	36	1.80
1829027--1829094	21	3.2	21	62	25	52	27	19	27	25	1.98
1829048--1829115	22	3.1	22	62	26	54	30	20	25	23	1.98
1828939--1829679	49	15.7	49	82	9	881	30	18	25	24	1.98
1828983--1829679	92	7.5	92	87	7	851	30	18	25	24	1.98
1829679--1829748	33	2.1	35	94	5	126	20	17	37	25	1.94
1829733--1830572	34	25.4	35	76	16	653	32	12	33	21	1.91
1829733--1830600	71	13.2	69	85	9	812	32	12	33	21	1.91
1829733--1830598	273	3.3	268	85	8	1106	32	12	33	21	1.91
1830191--1830572	62	6.1	62	88	5	484	32	12	32	21	1.91
1831635--1831670	16	2.2	16	90	0	54	0	8	5	86	0.72
1838847--1838974	52	2.5	52	93	3	215	30	17	18	32	1.95
1838983--1839007	13	1.9	13	100	0	50	36	16	16	32	1.90
1839069--1839093	13	1.9	13	100	0	50	32	16	16	36	1.90
1839048--1839113	32	2.0	33	88	2	98	39	13	12	34	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1839407--1839720	55	5.7	55	93	3	501	22	34	14	28	1.93
1839407--1839720	82	3.8	83	92	3	526	22	34	14	28	1.93
1839407--1839720	28	11.4	27	92	4	504	22	34	14	28	1.93
1839740--1839953	28	7.5	28	88	4	302	29	28	18	24	1.98
1839793--1840581	32	25.2	32	91	1	1137	30	32	18	18	1.95
1841944--1842058	56	2.1	56	98	0	221	32	12	11	44	1.77
1842306--1842366	2	30.5	2	89	0	95	44	0	4	50	1.23
1842306--1842364	18	3.3	18	100	0	118	44	0	5	50	1.24
1844746--1844831	21	3.9	21	76	19	84	41	2	16	39	1.61
1846618--1846642	13	1.9	13	100	0	50	36	16	16	32	1.90
1846627--1846683	19	3.0	20	79	7	73	35	17	14	33	1.90
1846713--1846775	33	1.9	33	90	6	101	34	12	19	33	1.89
1848396--1848469	20	3.8	19	80	5	67	29	14	16	39	1.88
1852517--1852697	52	3.5	52	96	0	335	27	18	18	35	1.94
1852706--1852763	13	4.9	13	70	23	56	37	17	17	27	1.92
1852685--1852763	33	2.4	33	97	0	149	39	16	17	26	1.91
1852686--1852751	20	3.7	20	69	26	74	39	16	18	25	1.91
1852801--1852869	32	2.1	33	94	2	122	36	18	10	34	1.85
1857724--1857788	33	2.0	33	87	0	94	33	12	13	40	1.82
1857744--1857768	13	1.9	13	100	0	50	36	16	16	32	1.90
1857831--1857858	13	2.2	13	100	0	56	28	14	17	39	1.89
1862072--1862098	13	2.1	13	100	0	54	29	7	14	48	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1862043--1862277	114	2.1	114	93	0	398	32	23	11	32	1.90
1862339--1862378	20	2.0	20	85	14	55	32	22	0	45	1.53
1863695--1863750	30	1.9	28	92	7	94	41	8	21	28	1.83
1864336--1864391	19	2.8	20	86	2	78	30	14	16	39	1.88
1864330--1864392	20	3.2	19	80	6	81	33	12	15	38	1.86
1864423--1864484	33	1.9	32	87	9	90	37	14	16	32	1.89
1867205--1867256	24	2.3	23	83	6	70	57	0	0	42	0.98
1868083--1868288	53	3.9	53	96	0	385	41	11	18	28	1.85
1870873--1870911	18	2.2	18	86	9	53	56	0	2	41	1.13
1874341--1874385	19	2.4	18	85	3	54	37	0	2	60	1.09

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