genome.fa.s158.2.7.7.80.10.50.1000.6.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: scaffold149
Parameters: 2 7 7 80 10 50 1000
Length:  2538714

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 918 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)
1782705--1782849	72	2.0	73	98	1	283	35	4	7	52	1.49
1783069--1783108	17	2.3	18	86	4	55	45	0	5	50	1.23
1787873--1787911	20	2.0	20	90	10	62	33	0	20	46	1.51
1787845--1787910	29	2.4	25	78	14	69	28	0	18	53	1.45
1796505--1796751	63	3.9	63	81	4	284	26	6	32	34	1.81
1796505--1796749	125	2.0	126	85	0	330	26	6	31	35	1.81
1800451--1800491	11	3.7	11	81	18	50	9	14	0	75	1.04
1801405--1801475	6	11.8	6	90	0	106	64	12	2	19	1.39
1803019--1803047	14	2.1	14	93	6	51	75	0	0	24	0.80
1803310--1803579	141	1.9	141	99	0	531	21	18	27	32	1.97
1804734--1805157	217	2.0	217	100	0	848	34	16	12	36	1.86
1807683--1807805	50	2.4	50	80	10	151	38	13	13	34	1.84
1813816--1813865	23	2.2	22	89	3	73	36	0	12	52	1.39
1814872--1814927	28	2.0	28	86	6	78	41	7	5	46	1.54
1824689--1824778	46	2.0	46	97	0	171	41	4	15	38	1.67
1825266--1825398	44	3.0	44	100	0	266	24	9	31	34	1.87
1827593--1827737	40	3.6	39	76	7	139	36	22	20	21	1.95
1827791--1828188	41	9.7	41	89	0	616	23	22	22	31	1.99
1831128--1831156	15	1.9	15	100	0	58	34	20	17	27	1.95
1833050--1833084	16	2.2	16	94	0	61	14	11	14	60	1.60
1834206--1834263	27	2.2	26	78	3	62	29	6	0	63	1.20
1834469--1834576	43	2.5	43	84	3	137	26	18	28	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1845272--1845359	25	3.5	26	77	9	94	34	22	21	21	1.97
1852862--1852916	25	2.2	25	83	6	67	34	18	20	27	1.95
1854739--1854856	27	4.4	27	78	6	114	24	20	30	24	1.99
1854736--1854842	54	2.0	54	84	0	142	24	22	28	25	2.00
1854739--1854856	54	2.2	54	81	3	130	24	20	30	24	1.99
1865665--1865818	51	3.0	51	93	0	254	47	0	6	45	1.33
1865702--1865779	24	3.2	23	69	22	68	46	1	6	46	1.36
1865790--1865847	29	2.0	29	83	12	75	55	0	1	43	1.10
1872135--1872175	16	2.6	16	100	0	82	36	0	21	41	1.54
1873430--1873471	21	2.0	21	86	9	59	47	4	26	21	1.70
1873637--1873797	82	2.0	82	82	4	200	25	19	16	37	1.93
1873638--1873816	41	4.4	40	73	12	107	25	18	18	36	1.94
1873674--1873816	40	3.5	40	72	7	128	25	19	17	37	1.94
1873660--1873821	82	2.0	82	84	7	213	25	21	16	36	1.94
1873674--1873821	41	3.6	40	75	4	143	25	20	17	35	1.95
1875298--1875446	63	2.4	61	85	4	208	35	11	13	39	1.81
1875313--1875431	63	1.9	63	94	0	211	34	13	11	40	1.81
1885178--1885206	14	2.1	14	100	0	58	27	10	20	41	1.85
1886846--1886920	33	2.4	32	80	8	91	29	4	1	65	1.19
1887881--1887910	15	2.0	15	100	0	60	46	0	0	53	1.00
1895605--1896063	157	3.0	153	83	9	564	42	4	9	43	1.59
1896029--1896073	23	2.0	22	87	8	65	42	2	8	46	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1897337--1897366	3	9.7	3	92	7	51	66	0	0	33	0.92
1897339--1897364	13	2.0	13	100	0	52	61	0	0	38	0.96
1901604--1901664	14	4.1	14	74	15	52	8	18	1	72	1.18
1906229--1906261	15	2.1	16	88	5	50	30	3	12	54	1.52
1911297--1911363	25	2.6	26	85	4	100	32	22	14	29	1.94
1912272--1912479	103	2.0	103	97	0	389	36	12	5	45	1.65
1913322--1913403	41	2.0	41	97	0	155	23	17	17	42	1.88
1920493--1920517	12	2.1	12	100	0	50	48	0	0	52	1.00
1922443--1922481	17	2.3	17	90	0	60	69	2	2	25	1.14
1924571--1924612	21	2.0	21	81	9	50	54	2	2	40	1.26
1926081--1926112	7	4.6	7	96	0	55	9	0	3	87	0.64
1939971--1940014	23	1.9	23	95	0	79	47	11	13	27	1.77
1943717--1943746	8	3.6	8	95	4	51	23	0	0	76	0.78
1945133--1945181	3	16.3	3	83	8	64	32	4	0	63	1.13
1953087--1953252	46	3.9	45	72	17	167	31	15	25	27	1.96
1953157--1953223	34	2.0	34	81	0	80	31	16	28	23	1.96
1953564--1953946	169	2.3	170	89	0	570	32	20	20	26	1.97
1954408--1954505	15	6.4	15	77	4	79	29	21	22	26	1.99
1954408--1954505	30	3.2	30	82	2	106	29	21	22	26	1.99
1954455--1954518	15	4.4	15	80	3	60	31	23	17	28	1.97
1954434--1954516	30	2.8	30	81	0	76	27	22	21	27	1.99
1954515--1954564	23	2.2	23	82	7	57	32	16	20	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1954624--1954692	34	2.0	34	97	0	129	33	15	18	31	1.93
1954684--1954752	24	2.9	24	73	4	68	43	11	10	34	1.75
1955137--1955182	24	2.0	23	86	4	65	10	10	0	78	0.97
1955702--1955842	62	2.3	62	81	4	160	22	24	27	25	2.00
1959517--1959552	18	2.0	18	100	0	72	27	22	22	27	1.99
1959987--1960022	10	3.8	9	86	13	54	38	2	0	58	1.13
1959985--1960022	20	1.9	19	94	5	67	39	2	0	57	1.12
1963322--1963353	5	6.4	5	100	0	64	81	0	0	18	0.70
1964198--1964266	26	2.7	26	88	0	93	24	27	23	24	2.00
1969311--1969365	13	3.9	13	78	17	65	40	45	0	14	1.45
1969302--1969365	30	2.1	31	94	2	112	40	42	0	17	1.49
1969324--1969365	17	2.4	18	88	4	68	40	45	0	14	1.45
1969346--1969423	38	2.0	39	95	2	140	51	28	2	17	1.59
1969556--1969618	17	3.5	17	69	12	54	34	3	12	49	1.57
1969553--1969627	37	2.0	37	94	0	114	36	4	14	45	1.64
1969626--1969656	9	3.4	9	95	0	53	25	9	22	41	1.84
1972182--1972677	231	2.1	231	88	1	726	34	20	14	30	1.92
1975216--1975243	12	2.3	12	100	0	56	57	14	14	14	1.66
1995055--1995101	21	2.4	19	82	10	58	59	2	8	29	1.39
2001891--2001927	3	12.3	3	100	0	74	64	0	0	35	0.94
2002103--2002128	12	2.2	12	100	0	52	57	0	7	34	1.27
2004231--2004357	43	3.0	42	80	15	161	22	18	28	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2005002--2005036	15	2.3	15	90	9	54	25	0	22	51	1.48
2005378--2005418	21	2.0	21	85	0	55	26	7	14	51	1.69
2005400--2005789	47	8.4	47	94	1	628	32	10	15	41	1.81
2005390--2005789	24	17.4	21	69	13	116	32	10	15	41	1.81
2005808--2005859	23	2.3	23	93	0	86	28	17	15	38	1.90
2011445--2011558	43	2.7	43	78	13	135	23	19	28	28	1.98
2012575--2012615	21	2.0	21	90	0	64	24	7	17	51	1.70
2012597--2012939	185	1.9	185	90	2	546	31	10	15	42	1.81
2012597--2012939	47	7.4	47	91	2	534	31	10	15	42	1.81
2012597--2012947	92	3.8	90	89	1	459	31	10	15	41	1.81
2012958--2013009	23	2.3	23	89	0	77	28	19	15	36	1.92
2013462--2014032	44	12.8	44	70	12	306	26	22	18	31	1.97
2014078--2014639	50	11.2	50	77	2	536	26	21	20	31	1.98
2014078--2014639	100	5.6	100	89	0	847	26	21	20	31	1.98
2016597--2016716	51	2.6	44	80	16	159	30	15	25	29	1.96
2016604--2016830	50	4.4	50	89	8	319	33	13	24	29	1.93
2024415--2024439	13	1.9	13	100	0	50	32	28	16	24	1.96
2025936--2025977	15	2.5	17	85	14	52	64	4	4	26	1.33
2026322--2026365	22	2.0	22	100	0	88	13	9	22	54	1.67
2029336--2029360	13	1.9	13	100	0	50	32	28	16	24	1.96
2030590--2030622	17	1.9	17	88	11	50	69	0	27	3	1.03
2031238--2031315	33	2.3	33	86	2	102	12	33	1	52	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2031364--2031403	21	1.9	21	84	0	53	27	30	17	25	1.97
2031470--2031516	20	2.3	20	96	0	85	25	2	38	34	1.68
2037202--2037241	21	1.9	21	85	10	55	35	20	0	45	1.51
2048910--2049030	39	3.1	39	100	0	242	17	32	21	28	1.96
2052713--2052775	24	2.7	24	80	2	65	20	17	14	47	1.82
2054355--2054534	74	2.4	74	94	0	315	27	24	16	32	1.96
2060644--2060726	39	2.1	39	82	12	100	20	20	20	38	1.94
2060676--2060776	45	2.2	45	87	0	148	20	18	19	40	1.92
2060756--2060798	6	6.8	6	83	2	50	18	20	16	44	1.87
2062339--2062403	32	2.0	32	85	5	87	16	18	35	29	1.93

Tables:   1   2   3   4   5   6   7   8