genome.fa.s4401.2.7.7.80.10.50.1000.6.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: scaffold132
Parameters: 2 7 7 80 10 50 1000
Length:  2008648

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 759 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)
1626482--1626579	49	2.0	49	93	0	169	42	14	15	27	1.85
1629676--1629728	25	2.1	25	86	6	72	37	11	18	32	1.87
1647966--1648038	36	2.0	36	97	0	137	34	19	6	39	1.78
1655660--1655694	18	1.9	18	94	0	61	45	11	14	28	1.79
1665708--1665916	50	4.1	50	85	6	249	22	31	19	26	1.98
1678245--1678510	40	6.7	39	80	5	273	37	17	27	16	1.92
1678311--1678453	20	7.2	20	66	3	81	39	16	28	15	1.89
1678245--1678509	120	2.2	121	82	5	331	38	17	27	16	1.92
1694924--1694991	34	2.0	34	82	5	84	22	22	23	32	1.98
1695510--1695545	16	2.2	16	100	0	72	25	11	13	50	1.75
1695517--1695552	16	2.2	16	90	0	54	27	19	8	44	1.79
1697565--1697602	19	2.0	19	100	0	76	42	21	5	31	1.75
1703472--1703502	15	2.1	15	100	0	62	35	12	25	25	1.92
1704845--1704882	18	2.1	18	85	9	51	39	0	2	57	1.12
1713687--1713725	15	2.6	15	92	8	62	48	0	2	48	1.15
1714966--1715008	20	2.2	20	86	0	59	30	2	9	58	1.42
1714966--1715012	21	2.3	20	85	3	58	29	2	10	57	1.44
1715173--1715229	29	2.1	26	84	15	71	36	3	3	56	1.34
1715173--1715229	26	2.1	29	81	15	68	36	3	3	56	1.34
1716176--1716361	93	2.0	93	80	10	211	36	13	20	28	1.92
1717089--1717130	19	2.3	19	91	4	68	38	14	2	45	1.58
1722015--1722078	23	2.7	23	83	7	67	34	4	6	54	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1723133--1723196	23	2.7	23	83	7	67	34	4	6	54	1.46
1724333--1724368	18	2.0	18	88	0	54	61	0	0	38	0.96
1728163--1728219	23	2.5	24	77	13	66	66	7	0	26	1.17
1728248--1728311	3	21.7	3	73	9	51	68	4	3	23	1.23
1728253--1728305	22	2.5	21	87	6	72	67	3	3	24	1.23
1730914--1730943	13	2.4	13	94	5	53	40	0	26	33	1.57
1732497--1732532	18	2.0	18	88	0	54	75	2	0	22	0.94
1732541--1732603	31	2.0	32	84	3	83	36	17	15	30	1.91
1732625--1732664	15	2.6	16	78	21	50	27	0	5	67	1.11
1735030--1735080	13	3.9	13	78	0	57	39	23	0	37	1.55
1739611--1739667	21	2.6	22	77	8	71	38	5	3	52	1.41
1744475--1744529	15	3.3	17	67	12	51	58	5	0	36	1.21
1747502--1747584	35	2.4	34	88	8	114	22	20	24	32	1.98
1748190--1748221	15	2.1	15	100	0	64	46	6	18	28	1.73
1748708--1748739	15	2.1	15	100	0	64	46	6	18	28	1.73
1747808--1748844	518	2.0	518	98	0	2002	35	22	13	28	1.92
1758580--1758618	20	2.0	20	85	10	53	51	10	0	38	1.36
1775778--1775849	30	2.4	30	72	9	74	25	26	12	36	1.91
1777396--1777505	35	3.1	36	78	10	120	23	27	21	27	1.99
1777333--1777493	70	2.2	73	83	5	195	21	31	19	27	1.97
1777515--1777607	36	2.6	36	78	0	114	20	31	19	29	1.97
1777518--1777716	107	1.9	107	80	6	233	22	28	18	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1783280--1783319	19	2.1	19	100	0	80	45	10	10	35	1.71
1784770--1784800	10	3.1	10	95	0	53	51	0	9	38	1.35
1786423--1786467	7	6.7	7	87	10	67	13	46	0	40	1.43
1786423--1786467	19	2.3	19	88	7	63	13	46	0	40	1.43
1793293--1793330	20	1.9	20	89	10	60	34	0	5	60	1.19
1796908--1796943	16	2.2	17	90	5	56	11	52	0	36	1.37
1800619--1800661	22	2.0	22	85	0	59	27	4	13	53	1.60
1803398--1803608	107	2.0	108	96	2	390	41	3	6	48	1.44
1812808--1813016	88	2.4	85	84	7	271	47	8	9	34	1.66
1812808--1813014	87	2.4	87	86	6	287	47	8	9	34	1.66
1822241--1822281	18	2.3	19	83	8	59	46	17	0	36	1.48
1822794--1822838	23	1.9	24	86	4	65	26	51	2	20	1.59
1826214--1826275	24	2.5	24	78	2	61	22	24	14	38	1.91
1826272--1826351	25	3.2	24	74	10	63	26	30	18	25	1.98
1831033--1831070	18	2.2	18	85	4	51	65	2	0	31	1.06
1831518--1831566	20	2.5	20	82	0	53	55	6	8	30	1.54
1832621--1832655	17	2.1	17	94	0	61	25	25	11	37	1.90
1837312--1837490	83	2.2	80	80	7	204	45	14	13	25	1.82
1837432--1837722	88	3.4	84	82	4	300	47	10	10	30	1.72
1837432--1837765	88	3.9	85	77	10	288	46	11	11	31	1.75
1837964--1838150	90	2.1	89	86	4	252	44	9	12	32	1.75
1839975--1840008	2	17.0	2	100	0	68	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1854830--1854876	10	4.9	10	89	7	62	61	4	0	34	1.15
1854832--1854876	19	2.4	19	84	0	63	62	4	0	33	1.15
1854862--1855161	148	2.0	149	99	0	593	48	8	12	31	1.70
1869500--1869534	15	2.2	16	95	5	63	37	0	11	51	1.38
1870398--1870431	14	2.3	15	90	5	52	17	26	2	52	1.58
1871350--1871408	9	6.8	9	82	7	68	50	18	0	30	1.47
1872175--1872267	17	5.9	17	71	14	74	37	4	6	51	1.47
1872168--1872224	30	1.9	30	92	0	96	33	7	3	56	1.43
1872168--1872220	13	3.8	13	77	18	52	33	7	3	54	1.46
1872217--1872250	16	2.1	16	100	0	68	47	0	5	47	1.26
1872216--1872253	16	2.5	15	91	8	67	42	0	5	52	1.24
1872294--1872416	15	7.9	15	66	20	65	52	15	1	30	1.53
1872317--1872374	21	2.8	20	82	7	71	43	18	3	34	1.68
1872371--1872416	7	6.6	7	78	16	51	60	10	0	28	1.30
1872412--1872459	21	2.3	21	85	7	62	41	20	4	33	1.72
1872573--1872873	34	8.7	35	75	10	264	43	21	3	31	1.70
1872688--1872939	9	29.3	9	67	17	92	44	19	3	33	1.67
1872829--1872910	25	3.3	25	82	0	101	47	15	2	34	1.59
1872558--1872857	69	4.3	69	95	0	519	43	21	4	32	1.71
1878272--1878441	66	2.6	65	84	3	198	39	18	28	14	1.89
1878412--1878461	21	2.4	21	86	0	64	34	16	44	6	1.72
1878795--1878942	43	3.4	43	85	7	194	19	18	32	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1880899--1881032	7	18.9	7	89	6	164	45	0	9	44	1.36
1880924--1881032	28	3.9	28	96	2	193	47	0	8	44	1.33
1881276--1881344	5	13.8	5	77	6	59	40	2	14	42	1.61
1888144--1888191	22	2.3	20	86	13	62	37	0	16	45	1.48
1888144--1888191	7	6.9	7	77	17	55	37	0	16	45	1.48
1888147--1888191	20	2.1	22	80	15	51	37	0	15	46	1.46
1888144--1888191	15	3.4	14	81	13	55	37	0	16	45	1.48
1897245--1897293	19	2.5	20	77	12	57	14	36	20	28	1.92
1898228--1898263	18	2.0	18	89	10	56	38	27	22	11	1.88
1907074--1907130	25	2.3	25	81	0	78	31	15	21	31	1.94
1911410--1911461	19	2.7	19	93	3	86	61	5	0	32	1.20
1911410--1911491	19	4.2	19	81	6	83	64	3	1	30	1.18
1911505--1911532	10	2.8	10	100	0	56	50	7	0	42	1.30
1911504--1911575	10	7.6	9	78	6	54	50	4	0	45	1.21
1911409--1911555	19	7.6	19	70	11	59	60	4	0	34	1.21
1911498--1911576	9	8.6	8	76	19	50	51	3	0	44	1.19
1918186--1918264	29	2.6	29	80	6	77	31	11	11	45	1.76
1920306--1920372	33	2.1	31	81	10	73	59	0	0	40	0.97
1920925--1920961	20	1.9	19	89	10	58	59	0	0	40	0.97
1922612--1922966	42	8.4	42	88	1	530	34	20	20	24	1.97
1922612--1922966	127	2.8	126	89	1	539	34	20	20	24	1.97
1922612--1922966	85	4.2	84	89	1	530	34	20	20	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1930738--1930788	24	2.1	24	96	0	93	43	27	7	21	1.80
1933077--1933292	114	1.9	114	80	3	256	31	21	22	24	1.99
1933414--1933741	114	2.9	114	92	0	548	26	24	15	33	1.95
1936731--1936807	39	2.0	37	82	9	93	53	1	2	42	1.23
1944441--1944474	17	2.0	17	88	0	50	32	14	14	38	1.87
1944740--1945320	114	5.1	114	74	11	526	33	16	19	30	1.94
1944752--1945338	227	2.6	226	88	3	847	34	16	19	29	1.94
1945255--1945394	74	1.9	75	85	4	194	31	17	21	30	1.96
1945137--1945523	188	2.1	188	91	0	630	33	15	20	30	1.94
1945255--1945413	74	2.1	75	81	4	187	34	16	20	28	1.95

Tables:   1   2   3   4   5   6   7