genome.fa.s79.2.7.7.80.10.50.1000.14.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: Scaffold79
Parameters: 2 7 7 80 10 50 1000
Length:  4189514

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   

This is table  14  of  26  ( 3105 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)
1902579--1902645	25	2.8	24	72	25	70	49	0	0	50	1.00
1902560--1902651	19	4.3	20	76	17	80	48	0	0	51	1.00
1902987--1903110	29	4.2	29	77	14	119	42	0	3	54	1.16
1903004--1903124	29	3.9	32	75	18	107	44	0	0	54	1.05
1903257--1903337	37	2.1	39	82	8	96	39	1	3	55	1.25
1904663--1904697	2	17.5	2	100	0	70	51	0	0	48	1.00
1905261--1905285	13	1.9	13	100	0	50	36	0	0	64	0.94
1906230--1906276	23	2.1	22	84	4	58	38	2	0	59	1.09
1906926--1906963	13	3.0	13	80	3	51	57	5	0	36	1.21
1909550--1909576	2	13.5	2	100	0	54	48	0	0	51	1.00
1909632--1909716	32	2.7	32	78	12	79	40	0	2	57	1.11
1909656--1909710	26	2.2	25	83	9	67	38	0	0	61	0.96
1910201--1910245	23	1.9	24	90	4	74	35	0	0	64	0.94
1910917--1910976	31	2.0	30	83	9	77	48	3	1	46	1.28
1911357--1911433	20	3.7	19	73	13	64	25	1	2	70	1.08
1911406--1911506	23	4.5	22	68	16	66	21	2	4	70	1.20
1913500--1913594	32	3.0	32	96	0	181	30	18	18	31	1.96
1914437--1914488	27	1.9	27	100	0	104	42	5	3	48	1.45
1914444--1914493	14	3.6	14	78	5	66	46	4	6	44	1.47
1914983--1915055	33	2.2	33	80	4	85	53	6	0	39	1.28
1915050--1915115	6	11.3	6	69	18	50	57	1	3	37	1.23
1915050--1915115	17	3.8	17	78	11	64	57	1	3	37	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1915673--1915704	12	2.8	11	90	9	55	87	0	0	12	0.54
1915792--1915840	22	2.3	21	78	3	53	40	0	0	59	0.98
1916000--1916024	7	3.6	7	100	0	50	56	0	0	44	0.99
1915998--1916056	23	2.8	22	82	14	63	62	0	0	37	0.95
1916438--1916467	3	10.0	3	92	0	51	3	30	33	33	1.74
1917641--1917688	2	24.0	2	95	0	87	47	0	2	50	1.12
1918654--1918693	17	2.4	17	83	4	55	15	5	2	77	1.04
1918681--1918705	13	1.9	13	100	0	50	16	0	0	84	0.63
1926338--1926363	12	2.2	12	100	0	52	23	15	7	53	1.67
1926920--1926962	22	1.9	23	85	4	61	34	0	0	65	0.93
1928087--1928384	123	2.4	123	79	6	336	25	33	19	22	1.97
1930593--1930655	31	2.0	31	100	0	126	36	3	28	31	1.73
1933927--1933975	17	2.8	18	71	6	55	48	0	0	51	1.00
1934458--1934515	10	5.0	12	74	25	54	65	0	0	34	0.93
1935226--1935277	21	2.5	21	81	9	61	55	0	0	44	0.99
1935263--1935672	215	1.8	215	81	9	493	54	4	4	36	1.39
1935502--1935559	17	3.6	16	74	25	59	60	0	0	39	0.97
1935679--1935756	22	3.7	22	69	19	67	62	1	0	35	1.03
1935679--1935757	41	1.9	41	87	10	117	62	1	0	36	1.04
1935690--1935747	30	2.0	29	83	16	75	62	1	0	36	1.06
1935782--1935837	16	3.7	15	79	15	71	58	0	0	41	0.98
1935781--1935864	27	3.0	27	77	6	87	61	1	0	36	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1935781--1935853	29	2.6	28	78	8	85	60	1	0	38	1.06
1935749--1935863	29	4.1	29	69	15	71	59	2	0	38	1.12
1936905--1936989	23	3.8	22	78	13	84	45	1	3	49	1.26
1936931--1936998	36	1.9	35	88	8	102	50	0	0	50	1.00
1936931--1936998	13	5.8	12	76	20	65	50	0	0	50	1.00
1936932--1937002	23	3.1	23	82	9	85	46	0	0	53	1.00
1937660--1937685	2	13.0	2	100	0	52	50	0	0	50	1.00
1942085--1942125	21	2.0	21	86	9	59	70	0	2	26	0.99
1942483--1942523	21	2.0	20	86	13	57	43	0	0	56	0.99
1942986--1943070	2	42.0	2	72	11	57	43	1	7	48	1.38
1943250--1943294	19	2.5	18	85	7	56	51	0	0	48	1.00
1943251--1943309	19	3.2	18	79	18	52	52	0	0	47	1.00
1943614--1943675	24	2.5	24	84	7	72	54	1	0	43	1.09
1943658--1943723	19	3.5	19	71	20	57	62	1	0	36	1.05
1943654--1943722	13	5.3	13	72	6	59	60	1	0	37	1.06
1944067--1944102	17	2.1	17	100	0	72	25	5	0	69	1.10
1944315--1944354	16	2.4	16	83	4	53	55	0	0	45	0.99
1948501--1948666	88	1.9	91	82	8	216	37	8	8	45	1.65
1949072--1949135	22	2.8	24	77	15	64	48	0	0	51	1.00
1950853--1950978	5	27.0	5	68	19	51	53	0	0	46	1.00
1950852--1950976	22	5.8	22	68	20	70	52	0	0	47	1.00
1950891--1950931	11	3.7	11	84	12	57	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1950871--1951005	45	3.0	42	70	19	121	50	0	0	49	1.00
1950873--1950937	21	3.0	21	71	10	60	46	0	0	53	1.00
1950925--1951032	20	5.3	21	65	14	73	54	0	0	45	0.99
1950857--1951035	81	2.3	78	88	6	256	52	0	0	47	1.00
1950910--1951035	38	3.2	38	71	18	130	52	0	0	47	1.00
1950851--1951025	93	1.9	92	85	11	243	53	0	0	46	1.00
1950902--1951056	81	1.9	82	90	4	251	52	0	0	46	1.05
1951316--1951359	20	2.2	20	87	0	61	43	0	0	56	0.99
1951693--1951808	58	2.0	58	89	0	178	42	10	0	46	1.44
1956061--1956085	2	12.5	2	100	0	50	48	0	0	52	1.00
1957731--1957822	36	2.6	35	71	13	80	48	1	1	48	1.15
1963990--1964055	27	2.4	27	82	0	87	27	9	18	45	1.79
1967034--1967068	17	2.0	18	94	5	63	45	0	2	51	1.16
1967070--1967100	15	2.0	16	93	6	55	41	0	0	58	0.98
1967469--1967494	3	8.7	3	100	0	52	69	0	0	30	0.89
1974664--1974738	37	2.0	37	89	0	114	28	10	28	33	1.90
1975655--1975698	19	2.5	17	80	16	54	43	0	2	54	1.12
1975662--1975740	19	4.5	19	68	16	62	45	0	1	53	1.08
1976000--1976040	16	2.5	17	76	11	50	56	0	0	43	0.99
1976000--1976048	20	2.3	22	80	16	59	55	0	0	44	0.99
1976378--1976427	19	2.5	20	83	9	66	28	0	0	72	0.86
1976385--1976429	19	2.4	19	92	0	72	28	0	0	71	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1976399--1976456	21	2.8	21	77	15	66	22	0	0	77	0.77
1976376--1976470	49	2.0	47	82	14	113	27	0	2	70	0.98
1976696--1976737	16	2.6	16	85	14	52	19	2	0	78	0.86
1976696--1976761	18	3.7	18	74	11	55	24	4	0	71	1.05
1977443--1977519	25	3.0	26	88	5	120	24	2	19	53	1.58
1977443--1977536	24	3.7	25	81	9	102	25	3	20	51	1.62
1977443--1977530	25	3.5	25	79	17	85	27	3	18	51	1.62
1981991--1982063	27	2.7	27	87	2	85	28	9	13	47	1.74
1981999--1982068	26	2.6	27	88	2	97	30	7	17	45	1.75
1981997--1982114	24	4.7	24	76	7	74	28	6	17	46	1.74
1983911--1983982	25	2.8	26	72	10	76	54	0	0	45	0.99
1986389--1986416	14	2.0	14	100	0	56	14	14	7	64	1.48
1988690--1988732	20	2.2	19	84	12	52	58	0	9	32	1.30
1989716--1989755	20	2.0	20	85	4	55	52	5	0	42	1.23
1992538--1992567	3	10.0	3	100	0	60	66	0	33	0	0.92
1992983--1993026	23	1.9	23	86	9	63	52	2	0	45	1.13
1992986--1993026	7	5.6	7	88	11	64	53	2	0	43	1.13
1992987--1993061	30	2.5	31	81	10	84	49	1	0	49	1.09
1992987--1993061	14	4.9	16	82	12	70	49	1	0	49	1.09
1993121--1993168	16	3.0	16	84	0	60	43	0	0	56	0.99
1993531--1993613	31	2.7	31	72	10	89	39	3	2	54	1.31
1994234--1994286	20	2.4	22	78	15	56	33	3	0	62	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1995898--1995982	14	6.3	14	69	17	72	45	1	0	52	1.08
1996597--1996658	17	3.7	17	69	4	54	58	0	0	41	0.98
1996631--1996684	20	2.8	20	83	5	58	59	0	1	38	1.08
1996791--1996829	19	2.0	19	90	5	60	51	0	2	46	1.14
1996839--1996896	17	3.3	18	75	20	68	37	0	1	60	1.07
1996824--1996893	36	1.9	35	88	11	106	37	0	2	60	1.12
1997040--1997066	3	9.0	3	100	0	54	33	0	0	66	0.92
1998283--1998313	3	10.3	3	100	0	62	35	0	0	64	0.94
1998814--1998856	17	2.5	18	81	11	54	55	2	0	41	1.12
1998799--1998890	48	2.0	43	78	15	105	58	1	0	40	1.05

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