genome.fa.s11.2.7.7.80.10.50.1000.14.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: Scaffold11
Parameters: 2 7 7 80 10 50 1000
Length:  5230303

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   

This is table  14  of  29  ( 3461 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)
1873258--1873309	27	1.9	27	92	0	86	57	1	5	34	1.33
1874948--1874980	2	16.5	2	100	0	66	48	0	0	51	1.00
1875142--1875184	14	3.4	13	84	12	54	41	0	0	58	0.98
1875149--1875191	16	2.8	15	82	3	50	44	0	0	55	0.99
1876523--1876560	18	2.1	19	85	14	53	31	5	21	42	1.75
1885702--1885748	19	2.3	22	85	10	64	61	0	4	34	1.15
1885767--1885828	11	5.9	10	70	10	52	61	1	0	37	1.06
1891778--1891829	4	13.0	4	83	0	59	40	0	9	50	1.35
1891778--1891823	10	4.4	11	86	10	53	41	0	8	50	1.33
1891781--1891833	18	3.0	17	91	2	79	37	0	11	50	1.38
1892819--1892844	10	2.6	10	100	0	52	42	0	0	57	0.98
1894786--1894959	86	2.0	86	97	0	330	36	10	9	42	1.73
1895224--1895277	3	18.0	3	100	0	108	33	0	0	66	0.92
1895862--1895906	21	2.0	22	83	8	56	28	0	2	68	1.01
1897479--1897561	34	2.4	34	88	4	123	25	4	24	45	1.72
1897861--1897918	28	2.1	28	93	0	98	29	20	12	37	1.89
1902022--1902300	34	8.5	34	77	8	265	23	6	27	42	1.77
1902004--1902198	96	2.0	95	94	1	336	26	7	26	39	1.83
1902126--1902300	67	2.6	67	87	2	244	22	4	29	44	1.73
1902117--1902298	100	1.8	101	84	3	251	23	4	27	44	1.73
1903161--1903219	26	2.3	26	80	11	68	42	0	0	57	0.98
1903895--1903950	17	3.5	17	79	11	66	66	1	0	32	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1903883--1904051	28	5.9	28	68	20	84	60	2	0	36	1.12
1903887--1904055	11	16.0	11	66	17	81	60	2	0	36	1.12
1903960--1904001	12	3.3	13	81	12	52	54	0	0	45	0.99
1904346--1904380	14	2.6	14	90	4	54	54	0	17	28	1.43
1905885--1905934	9	5.3	9	76	9	55	38	0	0	62	0.96
1905885--1905941	29	2.0	29	85	0	78	38	0	0	61	0.96
1905884--1905946	24	2.5	26	82	12	71	41	1	0	57	1.08
1905884--1905938	20	2.8	20	71	25	55	40	0	0	60	0.97
1907054--1907118	2	32.5	2	90	0	103	46	0	0	53	1.00
1907924--1907965	17	2.6	16	88	7	59	54	2	0	42	1.13
1908030--1908054	10	2.5	10	100	0	50	48	0	0	52	1.00
1908281--1908310	4	7.5	4	100	0	60	50	0	0	50	1.00
1911502--1911531	2	15.0	2	100	0	60	50	0	0	50	1.00
1911799--1911846	23	2.1	22	88	3	69	10	12	2	75	1.14
1911811--1912347	176	3.0	180	94	2	956	37	14	3	43	1.64
1915654--1915757	53	2.0	53	92	3	174	12	12	21	53	1.70
1918751--1918778	2	14.0	2	100	0	56	50	0	0	50	1.00
1919394--1919418	2	12.5	2	100	0	50	52	0	0	48	1.00
1920957--1920994	12	3.2	12	85	7	51	47	0	0	52	1.00
1923700--1923741	18	2.3	18	87	0	57	14	11	38	35	1.83
1923959--1923989	2	15.5	2	100	0	62	51	0	0	48	1.00
1925467--1925515	19	2.6	18	84	9	62	42	0	0	57	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1926953--1927003	23	2.1	25	85	7	70	43	5	1	49	1.38
1928116--1928158	23	1.9	22	85	4	59	58	2	0	39	1.11
1928748--1928789	21	2.0	22	90	4	68	42	0	0	57	0.99
1928747--1928796	21	2.5	20	80	3	64	38	0	0	62	0.96
1929537--1929561	2	12.5	2	100	0	50	48	0	0	52	1.00
1929850--1929943	32	3.2	30	79	13	88	40	0	0	59	0.97
1929884--1929924	17	2.4	18	80	12	50	36	0	0	63	0.95
1929899--1929946	17	2.8	17	87	6	62	29	0	0	70	0.87
1933470--1933494	2	12.5	2	100	0	50	48	0	0	52	1.00
1933684--1933713	2	15.0	2	100	0	60	50	0	0	50	1.00
1938480--1938545	16	4.3	16	73	21	52	56	3	0	40	1.15
1938476--1938545	28	2.5	29	84	11	85	55	2	0	41	1.14
1939556--1939607	19	2.7	20	76	8	63	36	0	0	63	0.95
1939581--1939615	17	2.1	17	89	5	54	31	0	0	68	0.90
1939611--1939669	28	2.0	30	83	9	77	59	0	0	40	0.97
1940388--1940452	27	2.4	28	84	10	89	32	6	15	46	1.70
1946681--1946728	22	2.1	23	84	3	62	52	8	2	37	1.44
1947305--1947377	31	2.5	29	82	10	78	67	0	30	2	1.05
1947330--1947372	18	2.2	20	84	8	54	74	0	25	0	0.82
1947315--1947379	10	6.5	10	79	13	55	69	0	29	1	0.98
1947531--1947586	21	2.7	21	86	5	69	28	0	0	71	0.86
1947531--1947598	21	3.2	21	82	14	68	29	0	1	69	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1947531--1947630	10	9.5	10	70	23	55	32	0	1	67	0.98
1947539--1947598	20	3.0	20	83	9	70	28	0	1	70	0.97
1948098--1948138	2	20.5	2	100	0	82	48	0	0	51	1.00
1949366--1949398	2	16.5	2	100	0	66	51	0	0	48	1.00
1949537--1949580	2	22.0	2	95	0	79	47	0	2	50	1.13
1949998--1950026	2	14.5	2	100	0	58	51	0	0	48	1.00
1952491--1952524	17	2.0	17	100	0	68	47	11	0	41	1.40
1952799--1952874	21	3.7	20	76	11	73	48	1	1	48	1.18
1952776--1952844	32	2.1	33	81	7	79	50	1	1	46	1.19
1954584--1954618	10	3.5	10	85	14	54	71	0	0	28	0.86
1955089--1955123	14	2.6	13	90	4	52	45	2	0	51	1.16
1955172--1955217	23	2.0	23	87	4	67	6	6	2	84	0.84
1955172--1955224	22	2.4	23	81	12	58	5	9	1	83	0.89
1957692--1957740	21	2.3	21	85	3	62	46	12	0	40	1.41
1959848--1959897	8	6.2	8	82	13	50	20	0	2	78	0.86
1959848--1959902	16	3.4	15	78	14	56	18	1	1	78	0.94
1961138--1961199	30	2.1	30	84	3	81	14	17	37	30	1.90
1960981--1961214	124	1.9	124	85	0	324	16	18	32	31	1.94
1961255--1961335	41	2.0	41	90	4	128	9	24	18	46	1.79
1961687--1961852	25	6.6	25	80	7	185	43	6	20	29	1.77
1961687--1961852	50	3.3	50	93	0	278	43	6	20	29	1.77
1961770--1961851	21	3.5	21	73	23	74	41	6	20	31	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1962795--1962840	12	4.1	11	78	21	51	52	0	0	47	1.00
1962789--1962833	21	2.1	21	88	8	65	51	0	0	48	1.00
1964571--1964605	10	3.5	10	85	14	54	71	0	0	28	0.86
1965081--1965115	14	2.6	13	90	4	52	45	2	0	51	1.16
1965164--1965209	23	2.0	23	87	4	67	6	6	2	84	0.84
1965164--1965216	22	2.4	23	81	12	58	5	9	1	83	0.89
1967684--1967732	21	2.3	21	85	3	62	46	12	0	40	1.41
1968918--1968953	17	2.2	16	95	5	63	75	11	0	13	1.06
1969351--1969404	18	3.1	18	85	15	69	46	0	0	53	1.00
1969609--1969646	8	4.9	8	87	3	51	42	0	0	57	0.98
1972453--1972496	2	22.5	2	95	4	81	47	0	0	52	1.00
1972687--1972738	27	2.0	27	85	10	74	42	3	3	50	1.39
1972684--1972740	26	2.3	23	82	14	69	43	3	3	49	1.36
1973164--1973227	12	5.6	12	70	10	53	28	0	10	60	1.30
1973294--1973353	21	2.9	21	74	0	57	38	3	8	50	1.49
1982732--1982788	10	5.5	11	81	10	66	71	0	0	28	0.86
1982734--1982794	24	2.7	23	78	9	65	73	0	0	26	0.83
1982832--1982874	22	1.9	23	85	4	61	55	6	0	37	1.27
1983640--1983689	19	2.6	19	87	6	66	26	0	2	72	0.96
1984556--1984614	2	29.0	2	79	3	64	52	3	1	42	1.28
1994113--1994145	2	16.5	2	100	0	66	48	0	0	51	1.00
1994293--1994366	22	3.3	23	79	11	64	60	0	1	37	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1994305--1994367	32	2.1	30	82	11	76	63	0	0	36	0.95
1994330--1994390	21	2.6	24	77	15	65	59	1	0	39	1.08
1994906--1994941	3	12.0	3	87	0	54	30	0	66	2	1.06
1996713--1996970	139	1.9	139	96	0	480	26	18	20	34	1.96
2002700--2002733	17	2.0	17	100	0	68	35	11	23	29	1.90
2005460--2005562	37	2.8	37	71	16	90	53	4	0	40	1.29
2006665--2006710	2	23.5	2	91	4	76	47	0	2	50	1.13
2007101--2007143	20	2.2	20	91	8	70	51	6	6	34	1.56
2007624--2007690	33	2.0	34	85	5	93	52	0	1	46	1.09
2007675--2007747	29	2.9	24	68	26	60	53	0	1	45	1.09

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29