genome.fa.s220.2.7.7.80.10.50.1000.9.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: Scaffold220
Parameters: 2 7 7 80 10 50 1000
Length:  3999181

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  9  of  19  ( 2201 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)
1905009--1905070	2	31.0	2	100	0	124	50	0	0	50	1.00
1906230--1906400	93	1.8	93	93	0	297	45	18	11	24	1.82
1911179--1911213	2	17.5	2	87	0	52	0	51	2	45	1.16
1913033--1913104	33	2.3	32	80	7	85	52	0	1	45	1.09
1915750--1915814	29	2.3	29	80	15	73	35	1	4	58	1.28
1915763--1915821	30	2.0	29	83	9	75	38	0	3	57	1.15
1915824--1915899	20	3.5	21	75	18	75	43	0	2	53	1.14
1916565--1916589	2	12.5	2	100	0	50	0	52	0	48	1.00
1916739--1916802	29	2.2	28	76	13	67	51	0	1	46	1.10
1916776--1916823	20	2.4	20	85	0	69	45	0	6	47	1.27
1917020--1917057	17	2.3	17	86	4	51	55	0	0	44	0.99
1921896--1921929	3	11.3	3	100	0	68	0	32	0	67	0.91
1922399--1922457	25	2.3	26	80	8	68	54	1	0	44	1.10
1928264--1928311	25	1.9	25	87	8	71	58	0	0	41	0.98
1929717--1929784	12	5.5	13	70	19	56	63	1	0	35	1.04
1929873--1929901	13	2.1	14	93	6	51	44	0	0	55	0.99
1930243--1930281	11	3.2	12	85	7	53	69	0	2	28	1.02
1930486--1930520	17	2.1	17	88	0	52	65	0	0	34	0.93
1930627--1930675	10	4.6	10	83	14	62	81	0	16	2	0.78
1930637--1930676	13	3.2	13	92	3	64	85	0	15	0	0.61
1930627--1930676	23	2.2	23	96	0	91	82	0	16	2	0.77
1930661--1930728	32	2.2	30	87	7	93	66	0	10	23	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1931167--1931214	17	2.7	17	78	15	53	41	0	0	58	0.98
1931198--1931240	21	2.0	21	86	8	61	41	0	2	55	1.12
1931684--1931733	10	5.1	10	79	13	50	40	0	0	60	0.97
1931683--1931724	22	1.9	22	85	9	59	38	0	0	61	0.96
1931677--1931732	29	1.9	29	82	13	71	37	0	0	62	0.95
1931740--1931792	28	1.9	27	88	3	79	49	3	0	47	1.19
1931751--1931795	13	3.3	14	79	14	58	51	0	0	48	1.00
1933586--1933622	5	7.2	5	90	3	56	78	0	21	0	0.75
1934181--1934217	2	18.5	2	100	0	74	51	0	48	0	1.00
1934614--1934665	21	2.5	20	81	12	52	3	9	13	73	1.23
1934714--1934743	2	15.0	2	100	0	60	50	0	0	50	1.00
1935248--1935293	19	2.6	18	83	10	58	52	2	0	45	1.13
1935276--1935331	28	2.0	27	86	10	78	51	0	0	48	1.00
1935292--1935331	21	1.9	21	89	0	62	52	0	0	47	1.00
1936568--1936599	2	16.0	2	100	0	64	50	0	0	50	1.00
1938546--1938593	19	2.4	20	82	6	62	52	0	0	47	1.00
1941605--1941660	28	2.0	28	100	0	112	21	21	17	39	1.93
1943883--1943911	2	14.5	2	100	0	58	51	0	0	48	1.00
1944076--1944107	2	16.0	2	100	0	64	50	0	0	50	1.00
1944551--1944589	2	19.5	2	100	0	78	48	0	0	51	1.00
1952344--1952369	2	13.0	2	100	0	52	50	0	0	50	1.00
1958956--1958995	7	5.7	7	93	0	53	0	15	5	80	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1958956--1958995	21	1.9	21	89	0	62	0	15	5	80	0.88
1965159--1965189	4	7.8	4	100	0	62	0	25	0	74	0.82
1965189--1965213	3	8.3	3	100	0	50	32	0	0	68	0.90
1966674--1966715	19	2.2	20	86	4	59	64	0	2	33	1.07
1967384--1967434	17	2.9	18	75	16	61	43	0	0	56	0.99
1967385--1967440	17	3.3	16	74	18	51	41	0	0	58	0.98
1968180--1968211	13	2.3	15	89	10	50	43	0	3	53	1.16
1968170--1968208	19	2.1	19	85	9	53	48	0	2	48	1.15
1970059--1970192	43	2.9	46	74	16	125	41	0	1	56	1.13
1970103--1970192	27	3.0	30	71	17	62	44	0	0	55	0.99
1971335--1971372	18	2.0	19	85	10	51	36	15	15	31	1.90
1975179--1975351	90	1.9	91	91	1	285	46	10	10	32	1.72
1978039--1978111	35	2.1	35	97	0	137	15	35	13	35	1.87
1978495--1978540	20	2.3	20	84	0	56	30	4	54	10	1.55
1978617--1978687	27	2.6	27	88	6	99	46	23	7	22	1.76
1983196--1983259	27	2.3	27	84	12	78	48	17	6	28	1.71
1987964--1987995	2	16.0	2	100	0	64	50	0	0	50	1.00
1988720--1988763	23	1.9	23	95	0	79	36	0	0	63	0.95
1988720--1988758	12	3.3	12	85	7	62	35	0	0	64	0.94
1992143--1992178	3	12.0	3	100	0	72	33	0	0	66	0.92
2000583--2000610	7	4.0	7	100	0	56	85	0	0	14	0.59
2005547--2005572	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2008097--2008196	23	4.4	22	71	23	57	58	1	0	41	1.05
2008098--2008196	47	2.1	47	83	11	121	58	1	0	40	1.05
2009734--2009767	2	17.0	2	100	0	68	50	0	0	50	1.00
2023184--2023234	26	2.1	25	82	13	63	66	0	0	33	0.92
2023535--2023570	12	2.9	12	87	4	54	58	2	0	38	1.13
2023723--2023935	31	6.9	31	70	18	117	49	2	1	46	1.25
2023540--2024481	21	45.8	20	66	20	209	49	2	2	45	1.26
2023866--2023892	14	1.9	14	100	0	54	51	3	0	44	1.19
2023666--2024481	10	78.2	10	67	20	224	48	1	2	47	1.24
2023853--2024147	31	9.2	32	70	18	122	48	0	2	49	1.17
2023723--2024102	151	2.5	151	78	14	387	47	1	2	48	1.25
2023899--2024237	61	5.4	61	69	19	141	47	0	2	49	1.18
2023880--2024329	11	43.5	10	66	15	125	46	0	3	49	1.21
2024128--2024181	14	4.0	14	73	22	53	55	0	1	42	1.10
2023974--2024387	206	2.0	205	86	6	581	46	0	3	48	1.26
2024423--2024508	29	3.0	30	77	17	76	58	0	1	40	1.06
2026098--2026154	27	2.1	27	84	9	73	33	3	1	61	1.23
2028973--2029013	3	13.7	3	100	0	82	34	0	0	65	0.93
2035078--2035114	3	12.0	3	94	5	65	35	0	0	64	0.94
2042351--2042385	12	2.9	12	86	0	52	0	20	34	45	1.51
2044291--2044354	32	2.0	32	96	0	119	39	15	6	39	1.73
2047858--2047883	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2048146--2048186	11	3.7	12	78	15	52	63	0	0	36	0.95
2048171--2048290	32	3.9	33	72	17	98	55	0	0	44	0.99
2048204--2048250	18	2.7	18	80	9	53	55	0	0	44	0.99
2048240--2048281	15	2.9	15	82	3	50	66	0	0	33	0.92
2049675--2049709	18	1.9	18	88	0	52	48	0	2	48	1.16
2051837--2051861	13	1.9	13	100	0	50	32	0	0	68	0.90
2052520--2052556	16	2.4	16	90	4	58	64	0	0	35	0.94
2052580--2052639	27	2.1	29	84	6	79	36	0	1	61	1.06
2053362--2053394	17	2.0	16	94	5	57	24	0	0	75	0.80
2053361--2053392	12	2.6	13	90	9	50	21	0	0	78	0.76
2053428--2053478	14	3.8	13	82	10	59	52	0	1	45	1.12
2056853--2056945	16	5.8	16	69	20	52	65	0	1	33	1.00
2056861--2056943	19	4.1	20	78	15	82	67	0	1	31	0.98
2056879--2056943	10	6.5	10	75	18	64	66	0	1	32	1.01
2056853--2056947	29	3.3	29	75	21	101	64	0	1	34	1.01
2056914--2056994	32	2.6	32	84	5	103	55	1	1	41	1.15
2058133--2058163	15	2.1	15	93	0	53	29	0	0	70	0.87
2058192--2058227	13	2.9	12	84	8	54	61	0	0	38	0.96
2058159--2058227	26	2.8	26	86	6	90	56	0	0	43	0.99
2058170--2058212	21	2.1	21	86	4	61	55	0	0	44	0.99
2067448--2067474	2	13.5	2	100	0	54	48	0	0	51	1.00
2067697--2067734	2	19.0	2	94	0	67	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2068028--2068052	13	1.9	13	100	0	50	48	0	0	52	1.00
2068050--2068093	23	1.9	23	86	9	63	50	9	2	38	1.47
2068874--2068927	27	2.0	26	82	10	65	46	0	0	53	1.00
2068890--2068958	32	2.2	32	89	5	104	43	0	0	56	0.99
2068949--2068992	21	2.2	20	87	4	61	31	4	0	63	1.14
2070654--2070679	2	13.0	2	100	0	52	50	0	0	50	1.00
2071361--2071407	12	3.9	12	91	0	76	4	23	2	70	1.16
2071361--2071407	24	2.0	24	95	0	85	4	23	2	70	1.16
2073268--2073350	36	2.3	36	89	0	130	49	0	3	46	1.19
2073327--2073370	20	2.1	21	95	4	81	54	0	0	45	0.99

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19