genome.fa.s283.2.7.7.80.10.50.1000.11.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: Scaffold283
Parameters: 2 7 7 80 10 50 1000
Length:  2945114

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

This is table  11  of  15  ( 1700 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)
1910157--1910217	17	3.9	16	68	12	54	67	1	1	29	1.10
1910275--1910378	29	3.7	29	76	13	83	41	0	0	57	1.05
1915284--1915309	2	13.0	2	100	0	52	50	0	0	50	1.00
1917340--1917401	3	20.7	3	91	0	61	1	9	33	54	1.43
1919661--1919699	19	2.1	19	100	0	78	38	10	20	30	1.86
1920290--1920323	2	17.0	2	100	0	68	50	0	0	50	1.00
1921859--1921899	3	13.3	3	89	5	64	36	2	0	60	1.10
1922650--1922674	2	12.5	2	100	0	50	52	0	0	48	1.00
1932553--1932589	3	12.3	3	100	0	74	67	0	0	32	0.91
1937021--1937052	2	16.0	2	100	0	64	50	0	0	50	1.00
1944878--1944928	23	2.2	24	86	6	70	31	9	17	41	1.82
1944943--1945072	46	2.8	46	98	0	251	50	2	6	41	1.40
1948608--1948640	17	1.9	17	88	11	50	33	0	0	66	0.92
1950435--1950480	16	2.9	16	81	12	58	8	15	32	43	1.77
1950435--1950505	32	2.2	32	82	0	79	12	15	28	43	1.83
1950524--1950574	16	3.2	16	83	10	68	23	13	19	43	1.87
1952374--1952405	2	16.0	2	93	0	55	46	0	0	53	1.00
1957517--1957555	3	13.0	3	94	0	69	64	0	2	33	1.08
1961235--1961267	7	4.7	7	85	14	50	72	0	0	27	0.85
1961237--1961269	14	2.4	14	95	5	59	72	0	0	27	0.85
1961293--1961329	14	2.5	15	87	12	51	59	0	0	40	0.97
1962034--1962130	37	2.6	36	78	15	92	40	4	0	55	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1962780--1962816	11	3.1	12	88	11	58	59	0	0	40	0.97
1962817--1962873	12	4.5	12	75	16	53	54	0	0	45	0.99
1963075--1963115	12	3.7	11	81	18	50	60	0	0	39	0.96
1963075--1963113	11	3.7	10	86	6	51	61	0	0	38	0.96
1963467--1963514	25	1.9	25	87	8	71	41	0	2	56	1.11
1963463--1963526	20	3.3	20	76	21	66	40	0	1	57	1.08
1963494--1963527	15	2.2	16	89	5	52	41	0	0	58	0.98
1963491--1963580	27	3.5	26	77	20	91	43	0	0	56	0.99
1963541--1963586	20	2.3	20	81	11	58	39	0	0	60	0.97
1963552--1963604	19	2.8	19	85	2	63	41	1	1	54	1.22
1963897--1963948	22	2.4	21	78	12	52	44	0	5	50	1.26
1963906--1963949	22	2.0	22	86	4	61	45	0	6	47	1.29
1964150--1964194	21	2.0	22	83	8	56	55	0	0	44	0.99
1964980--1965022	17	2.4	19	88	7	63	48	2	4	44	1.36
1965212--1965307	16	6.2	15	73	16	63	56	0	1	42	1.06
1965212--1965304	30	3.1	29	80	9	89	55	0	1	43	1.06
1965995--1966054	16	3.3	18	75	13	61	51	0	0	48	1.00
1965976--1966061	34	2.5	36	78	12	108	53	0	0	46	1.00
1965985--1966043	9	6.8	9	78	20	63	49	0	0	50	1.00
1969285--1969363	40	2.0	40	87	2	115	34	20	8	36	1.84
1970273--1970314	21	2.0	21	86	13	61	61	0	0	38	0.96
1975106--1975136	2	15.5	2	93	0	53	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1975104--1975143	8	4.9	8	90	3	53	57	2	0	40	1.12
1975601--1975646	21	2.1	22	84	4	58	45	2	0	52	1.13
1977676--1977741	30	2.1	32	83	8	82	51	3	1	43	1.26
1977716--1977764	19	2.8	18	82	17	59	61	0	2	36	1.08
1978569--1978635	32	2.1	33	88	2	100	37	0	2	59	1.13
1978567--1978639	33	2.2	34	85	7	105	39	0	2	57	1.13
1978583--1978657	32	2.4	30	79	14	82	40	0	0	60	0.97
1981125--1981169	19	2.4	19	92	0	72	28	15	15	40	1.88
1981376--1981424	26	1.9	26	83	4	64	57	2	2	38	1.22
1986101--1986127	9	3.0	9	100	0	54	55	11	11	22	1.66
1988914--1988980	24	2.8	24	71	22	59	43	0	0	56	0.99
1992553--1992608	19	2.9	19	77	17	53	57	1	5	35	1.32
1993161--1993203	21	2.0	22	82	8	54	39	6	0	53	1.28
1993693--1993731	17	2.3	17	83	12	53	2	15	7	74	1.15
1998241--1998287	24	1.9	25	86	4	69	55	0	0	44	0.99
2003367--2003437	22	3.3	22	70	20	60	50	1	1	46	1.18
2021439--2021482	22	2.0	22	95	0	79	13	6	4	75	1.17
2021885--2021911	2	13.5	2	100	0	54	51	48	0	0	1.00
2021911--2021959	2	24.5	2	100	0	98	51	0	0	48	1.00
2022111--2022149	2	19.5	2	83	0	51	48	5	0	46	1.24
2030921--2030970	11	4.5	11	76	20	50	64	0	36	0	0.94
2030927--2030969	5	8.0	5	82	12	50	62	0	37	0	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2032251--2032275	2	12.5	2	100	0	50	48	0	52	0	1.00
2033431--2033472	2	21.0	2	100	0	84	50	0	0	50	1.00
2034391--2034448	28	2.2	26	81	6	62	43	1	0	55	1.10
2036541--2036572	14	2.2	15	94	5	57	62	0	0	37	0.95
2038545--2038584	21	1.9	21	84	0	53	42	20	7	30	1.79
2043067--2043164	5	19.2	5	69	22	62	41	3	0	55	1.15
2043086--2043166	23	3.4	25	78	11	82	41	1	0	56	1.07
2047357--2047388	2	16.0	2	100	0	64	50	0	0	50	1.00
2048603--2048636	3	11.3	3	93	0	59	64	2	0	32	1.08
2048962--2048986	11	2.3	11	100	0	50	56	0	0	44	0.99
2050023--2050062	7	5.7	7	88	8	55	20	2	0	77	0.88
2050008--2050068	14	4.5	13	76	11	52	13	1	1	83	0.79
2053725--2053757	2	16.5	2	93	0	57	45	0	3	51	1.16
2074303--2074348	11	4.3	11	76	23	53	34	0	0	65	0.93
2085239--2085343	25	4.6	24	67	21	82	34	11	12	41	1.79
2085308--2085353	24	1.9	24	82	8	58	34	10	13	41	1.79
2089121--2089153	2	16.5	2	100	0	66	48	0	0	51	1.00
2090728--2090771	6	7.3	6	100	0	88	34	15	0	50	1.45
2095983--2096017	2	17.5	2	87	0	52	54	2	0	42	1.15
2096133--2096157	2	12.5	2	100	0	50	52	0	48	0	1.00
2098907--2098941	2	17.5	2	93	0	61	45	0	0	54	0.99
2099138--2099175	2	19.0	2	100	0	76	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)
2099233--2099266	2	17.0	2	100	0	68	50	0	0	50	1.00
2099988--2100015	1	28.0	1	100	0	56	0	0	100	0	0.00
2107798--2107846	22	2.3	21	92	3	80	61	0	6	32	1.21
2112602--2112633	2	16.5	2	93	6	57	50	0	0	50	1.00
2112968--2113014	3	16.0	3	95	4	87	34	0	0	65	0.93
2113068--2113140	4	19.0	4	80	8	71	76	0	19	4	0.94
2113068--2113140	11	6.3	12	76	9	71	76	0	19	4	0.94
2113073--2113144	23	3.1	23	80	4	83	79	0	16	4	0.89
2113869--2113909	16	2.6	16	84	0	55	65	0	2	31	1.05
2114658--2114706	19	2.7	18	87	3	71	83	4	12	0	0.77
2114743--2114814	26	2.7	27	74	16	78	34	1	1	62	1.13
2114789--2114830	14	2.9	15	82	13	61	35	0	0	64	0.94
2114787--2114830	16	2.7	16	83	13	54	36	0	0	63	0.95
2115997--2116040	24	1.9	24	90	9	74	79	0	20	0	0.73
2116080--2116144	24	2.5	25	80	9	69	36	3	0	60	1.13
2117853--2117908	25	2.1	26	87	9	78	46	1	0	51	1.11
2118564--2118615	22	2.3	23	76	3	61	32	0	0	67	0.91
2118886--2118920	17	2.0	18	88	5	54	22	11	8	57	1.61
2123019--2123048	11	2.9	10	90	9	51	70	0	0	30	0.88
2122989--2123082	43	2.2	43	81	9	102	60	1	0	38	1.04
2123539--2123607	23	2.9	24	76	10	70	62	0	0	37	0.96
2123581--2123621	15	2.5	17	84	7	50	51	2	0	46	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2124679--2124713	13	2.7	13	87	12	54	54	0	5	40	1.24
2124728--2124798	28	2.5	27	78	15	72	59	0	0	40	0.98
2124982--2125037	23	2.5	23	82	2	69	53	0	1	44	1.11
2129547--2129581	18	1.9	18	88	0	52	54	2	0	42	1.15
2129655--2129701	24	1.9	24	82	4	58	63	10	0	25	1.26
2145130--2145162	2	16.5	2	100	0	66	51	0	0	48	1.00
2149118--2149150	10	3.3	10	91	8	50	48	0	0	51	1.00
2149135--2149159	13	1.9	13	100	0	50	48	0	0	52	1.00
2154438--2154465	2	14.0	2	100	0	56	50	0	0	50	1.00
2156221--2156274	21	2.5	22	75	3	56	50	0	11	38	1.38

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