genome.fa.s401.2.7.7.80.10.50.1000.12.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: Scaffold401
Parameters: 2 7 7 80 10 50 1000
Length:  1910012

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

This is table  12  of  13  ( 1464 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)
1729979--1730019	19	2.2	20	82	13	59	14	7	0	78	0.96
1731311--1731352	3	14.0	3	100	0	84	66	0	0	33	0.92
1732173--1732197	2	12.5	2	100	0	50	0	0	48	52	1.00
1732929--1732974	22	2.0	25	87	12	71	56	0	0	43	0.99
1733619--1733657	18	2.3	16	86	8	51	7	7	5	79	1.05
1735075--1735113	10	3.9	10	89	0	51	53	7	0	38	1.30
1737381--1737417	18	2.1	17	90	5	56	56	0	0	43	0.99
1738389--1738451	18	3.2	18	74	23	63	46	1	1	50	1.20
1745370--1745403	15	2.4	14	90	5	50	50	0	0	50	1.00
1745392--1745444	23	2.2	26	75	21	62	58	0	0	41	0.98
1748239--1748269	16	1.9	16	93	0	53	67	3	6	22	1.28
1749129--1749168	18	2.2	19	95	4	73	70	0	0	30	0.88
1749643--1749702	30	2.1	30	84	12	81	51	0	0	48	1.00
1749687--1749728	22	1.9	22	90	9	68	38	0	0	61	0.96
1750410--1750435	6	4.3	6	100	0	52	30	0	0	69	0.89
1751033--1751070	16	2.4	16	82	4	51	44	2	0	52	1.14
1751542--1751611	21	3.3	21	67	15	63	41	8	15	34	1.78
1751501--1751620	42	2.9	42	93	0	204	41	10	17	30	1.83
1751516--1751628	21	5.3	22	65	23	62	41	9	17	30	1.82
1752159--1752244	35	2.5	36	78	14	92	50	0	0	50	1.00
1753578--1753608	15	2.1	15	93	0	53	35	22	6	35	1.80
1753621--1753754	20	6.8	20	71	17	93	36	1	0	61	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1753624--1753799	9	18.6	10	66	21	62	36	1	0	60	1.11
1753615--1753770	13	11.0	14	64	27	55	35	1	0	61	1.12
1757517--1757562	2	23.0	2	100	0	92	50	0	0	50	1.00
1759444--1759512	23	2.9	23	79	10	68	53	0	0	46	1.00
1759451--1759519	23	3.0	22	70	22	52	52	0	0	47	1.00
1761266--1761312	16	2.7	17	78	21	53	40	0	0	59	0.97
1762242--1762349	17	6.3	18	72	17	70	37	1	1	59	1.19
1762317--1762368	12	4.3	12	85	7	61	30	0	0	69	0.89
1762317--1762368	17	2.9	17	86	8	68	30	0	0	69	0.89
1767080--1767150	28	2.6	26	82	12	81	21	7	1	70	1.19
1767542--1768054	255	2.0	255	100	0	1026	41	13	12	32	1.81
1768138--1768179	22	2.0	21	90	9	68	52	21	0	26	1.47
1770441--1770488	21	2.3	20	85	7	60	47	0	0	52	1.00
1770440--1770506	20	3.2	21	81	6	66	43	0	1	55	1.09
1770972--1771003	2	16.0	2	100	0	64	50	0	0	50	1.00
1771141--1771169	6	5.0	6	91	8	51	86	0	13	0	0.58
1773032--1773074	14	3.2	13	81	15	52	53	0	0	46	1.00
1773716--1773744	2	14.5	2	100	0	58	48	0	0	51	1.00
1776797--1776828	15	2.1	15	94	0	55	18	15	12	53	1.73
1780324--1780464	72	2.0	72	83	5	178	24	26	9	39	1.87
1780425--1780550	48	2.6	48	87	5	166	20	30	11	37	1.88
1783487--1783562	20	4.0	20	70	16	70	42	1	0	56	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1784595--1784625	2	15.5	2	100	0	62	48	0	51	0	1.00
1786023--1786066	18	2.5	17	81	7	52	50	0	0	50	1.00
1788950--1788986	10	3.8	10	89	7	58	56	0	0	43	0.99
1788950--1788986	19	1.9	19	94	0	65	56	0	0	43	0.99
1789740--1789792	21	2.5	21	78	3	61	50	0	0	49	1.00
1789748--1789790	20	2.1	21	82	4	52	44	0	0	55	0.99
1791871--1791896	3	8.7	3	100	0	52	69	0	30	0	0.89
1792823--1792933	52	2.1	52	98	1	213	33	9	14	43	1.77
1793092--1793138	23	2.0	23	100	0	94	53	4	12	29	1.58
1794652--1794694	15	2.9	14	82	10	50	20	4	4	69	1.25
1795607--1795667	15	4.1	15	75	12	63	60	0	0	39	0.97
1795741--1795823	39	2.2	37	79	8	89	54	1	1	43	1.16
1799636--1799665	2	15.0	2	100	0	60	50	0	0	50	1.00
1799911--1799937	2	13.5	2	100	0	54	48	0	0	51	1.00
1800178--1800218	9	4.6	9	80	20	50	43	0	0	56	0.99
1800387--1800426	20	2.0	20	100	0	80	25	15	15	45	1.84
1802143--1802191	22	2.2	22	96	0	89	36	22	14	26	1.92
1802192--1802376	101	1.8	101	97	0	352	41	15	18	24	1.89
1803468--1803492	2	12.5	2	100	0	50	52	0	0	48	1.00
1804490--1804621	30	4.3	30	67	23	80	49	0	0	50	1.00
1804502--1804552	20	2.6	19	76	11	50	52	0	0	47	1.00
1805491--1805532	21	1.9	23	90	9	70	40	0	0	59	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1806194--1806223	10	3.0	10	95	0	51	56	0	0	43	0.99
1810500--1810531	2	16.0	2	93	0	55	53	0	0	46	1.00
1812089--1812143	26	2.1	27	96	3	103	52	0	0	47	1.00
1812099--1812147	14	3.5	15	71	18	52	46	0	0	53	1.00
1812089--1812152	26	2.5	26	89	5	85	53	0	0	46	1.00
1813570--1813614	23	2.0	23	86	0	63	48	0	0	51	1.00
1813636--1813674	18	2.3	16	86	8	51	58	2	0	38	1.12
1815064--1815448	196	2.0	197	90	3	614	50	3	6	39	1.46
1816844--1816983	16	8.8	16	66	16	53	55	0	0	45	0.99
1816853--1816944	27	3.6	27	68	22	74	59	0	0	40	0.97
1816840--1816956	50	2.4	50	85	11	161	56	0	0	43	0.99
1818034--1818067	2	17.0	2	100	0	68	50	0	0	50	1.00
1826789--1826829	20	2.0	21	90	4	66	41	4	0	53	1.22
1833787--1833817	4	7.8	4	100	0	62	22	0	0	77	0.77
1835243--1835274	15	2.1	15	100	0	64	25	25	6	43	1.77
1835402--1835436	13	2.6	13	95	4	61	48	0	0	51	1.00
1835592--1835656	29	2.1	32	80	8	73	58	0	0	41	0.98
1836453--1836498	18	2.7	18	80	12	62	54	0	2	43	1.12
1839575--1839669	19	5.0	19	72	20	67	65	0	1	33	1.00
1839597--1839630	9	3.9	9	96	3	61	58	0	0	41	0.98
1843287--1843316	2	15.0	2	100	0	60	0	0	50	50	1.00
1843316--1843341	2	13.0	2	100	0	52	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1846929--1846968	17	2.2	19	86	8	57	60	0	0	40	0.97
1846928--1846980	17	2.7	19	77	19	56	58	0	0	41	0.98
1852419--1852454	2	18.0	2	100	0	72	50	0	50	0	1.00
1853477--1853519	11	3.9	11	79	8	52	39	0	0	60	0.97
1856796--1856859	20	3.1	21	72	19	53	40	0	1	57	1.08
1857876--1857913	2	19.0	2	100	0	76	50	0	0	50	1.00
1857980--1858029	5	10.8	5	75	16	54	64	0	0	36	0.94
1857975--1858032	13	4.6	13	72	22	52	65	0	0	34	0.93
1857980--1858037	22	2.6	21	83	10	62	63	0	1	34	1.04
1858065--1858110	17	2.5	19	79	10	60	43	0	2	54	1.12
1859449--1859480	16	1.9	17	93	6	57	37	0	0	62	0.95
1860887--1860915	5	6.0	5	92	8	51	0	17	0	82	0.66
1861521--1861559	18	2.2	18	100	0	78	35	0	15	48	1.45
1862255--1862323	11	5.4	13	73	22	58	37	0	62	0	0.96
1862253--1862328	21	3.3	23	82	14	95	39	0	60	0	0.97
1862256--1862328	37	2.1	34	83	16	73	39	0	60	0	0.97
1862286--1862328	16	2.8	16	86	10	63	44	0	55	0	0.99
1862256--1862332	9	8.8	9	78	19	74	40	0	59	0	0.97
1867440--1867481	10	4.0	10	82	17	50	76	0	11	11	1.03
1867966--1867991	2	13.0	2	100	0	52	50	0	0	50	1.00
1868319--1868362	22	2.0	24	86	13	67	63	4	2	29	1.26
1868296--1868389	36	2.6	34	77	11	91	67	2	2	28	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1868817--1868862	17	2.5	19	77	19	53	52	2	2	43	1.25
1871873--1871914	16	2.6	16	85	11	50	64	2	0	33	1.07
1872501--1872554	19	3.2	17	83	16	69	27	0	1	70	0.98
1873334--1873367	13	2.6	13	80	0	50	55	8	0	35	1.31
1873502--1873538	19	1.9	19	88	0	56	56	0	0	43	0.99
1874029--1874072	2	22.0	2	100	0	88	50	0	50	0	1.00
1874784--1875002	75	2.9	75	88	1	314	38	21	6	33	1.80
1875718--1875775	28	2.1	28	96	0	107	39	15	0	44	1.47
1875720--1875766	14	3.4	14	72	21	53	42	17	0	40	1.49
1876175--1877554	459	3.0	459	97	0	2634	30	20	12	37	1.89

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