genome.fa.s223.2.7.7.80.10.50.1000.11.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: Scaffold223
Parameters: 2 7 7 80 10 50 1000
Length:  4172444

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  11  of  26  ( 3021 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)
1895779--1895853	25	3.1	24	80	14	66	52	0	0	48	1.00
1895777--1895860	32	2.5	33	79	9	100	51	0	0	48	1.00
1895801--1895870	25	2.7	26	79	20	83	50	0	0	50	1.00
1896076--1896116	2	20.5	2	94	0	73	51	0	2	46	1.14
1897180--1897237	23	2.5	23	78	13	57	46	1	5	46	1.35
1900380--1900416	13	3.0	13	84	7	51	40	0	0	59	0.97
1901444--1901471	2	14.0	2	100	0	56	50	0	0	50	1.00
1903180--1903217	4	9.5	4	88	0	58	44	23	2	28	1.67
1903769--1903801	17	1.9	17	88	11	50	51	6	0	42	1.26
1904053--1904087	2	17.5	2	100	0	70	51	0	0	48	1.00
1907546--1907579	2	17.0	2	100	0	68	50	0	0	50	1.00
1907579--1907605	2	13.5	2	100	0	54	51	0	48	0	1.00
1909533--1909624	7	12.6	7	72	17	62	39	0	0	60	0.97
1909504--1909622	37	3.2	37	100	0	238	39	0	0	60	0.97
1912580--1912628	23	2.1	22	79	17	55	30	0	2	67	1.02
1912586--1912643	11	5.3	10	76	17	53	31	0	1	67	1.01
1912584--1912648	16	4.0	16	78	9	78	32	0	1	66	1.01
1914317--1914376	29	2.1	29	87	6	86	55	0	0	45	0.99
1914714--1914788	13	5.5	13	73	19	55	54	0	0	45	0.99
1915847--1915879	17	1.9	17	88	11	50	3	9	3	84	0.82
1917419--1917461	21	2.0	21	86	8	61	37	0	13	48	1.43
1917663--1917708	16	2.8	16	83	3	56	21	8	0	69	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1921903--1921973	27	2.6	27	88	6	99	46	23	7	22	1.76
1923212--1923263	21	2.5	21	96	0	95	23	23	11	42	1.86
1927949--1927998	2	25.0	2	88	8	75	46	2	0	52	1.12
1927949--1928005	30	1.9	30	100	0	114	43	3	0	52	1.18
1928149--1928188	21	1.9	21	85	10	55	60	0	0	40	0.97
1928265--1928319	25	2.2	26	80	9	60	54	0	9	36	1.32
1928490--1928520	16	1.9	16	93	0	53	58	0	3	38	1.15
1929594--1931976	345	7.0	344	91	2	3665	33	21	24	20	1.97
1929595--1931976	696	3.5	675	92	3	3771	33	21	24	20	1.97
1934771--1934812	19	2.2	20	86	4	59	57	0	0	42	0.99
1937000--1937031	2	16.0	2	100	0	64	50	0	0	50	1.00
1937418--1937466	14	3.5	13	79	20	55	40	0	2	57	1.10
1937426--1937469	16	3.0	16	71	25	51	45	0	0	54	0.99
1938117--1938177	21	2.5	25	75	25	76	52	0	3	44	1.17
1938129--1938199	21	3.3	21	94	2	115	54	0	2	42	1.14
1938141--1938199	11	5.5	11	77	4	66	55	0	1	42	1.09
1938129--1938209	21	3.8	22	87	9	98	55	0	3	40	1.17
1938326--1938453	39	3.3	37	73	14	100	42	8	2	46	1.47
1938909--1938937	14	2.0	15	93	6	51	68	0	3	27	1.05
1938713--1939070	121	2.9	120	83	8	388	52	1	3	42	1.26
1939503--1939566	22	3.0	20	77	11	56	40	0	1	57	1.08
1939548--1939632	35	2.6	30	74	18	80	48	1	0	50	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1939841--1939882	14	2.7	16	82	17	61	52	0	0	47	1.00
1940510--1940548	19	2.0	20	85	9	55	38	0	5	56	1.22
1942087--1942195	32	3.3	32	75	18	100	50	2	1	44	1.26
1942087--1942209	32	3.7	32	76	13	99	52	2	1	43	1.24
1942143--1942200	18	3.6	16	69	21	50	50	3	1	44	1.29
1942270--1942354	35	2.4	35	76	5	91	43	2	0	54	1.13
1942891--1942951	19	3.1	20	76	9	72	62	0	0	37	0.96
1943576--1943652	19	4.2	18	69	14	68	44	0	1	54	1.08
1943606--1943673	35	1.9	35	82	11	86	44	0	2	52	1.16
1944042--1944092	23	2.2	24	86	10	70	41	0	0	58	0.98
1944400--1944437	19	2.0	20	85	10	53	60	5	0	34	1.19
1944975--1945033	16	3.6	17	77	4	50	49	3	0	47	1.18
1945207--1945246	20	2.1	18	90	9	62	60	0	0	40	0.97
1949099--1949169	30	2.3	31	82	2	90	66	0	1	32	1.01
1949174--1949242	24	2.8	24	79	16	63	57	1	2	37	1.22
1949210--1949263	27	2.1	26	80	16	67	55	1	1	40	1.21
1951246--1951279	2	17.0	2	93	0	59	47	0	2	50	1.16
1951774--1951811	16	2.3	17	86	4	51	73	2	15	7	1.17
1952149--1952177	12	2.3	13	94	5	51	24	0	0	75	0.80
1952285--1952316	14	2.2	15	94	5	57	18	3	0	78	0.89
1953837--1953867	13	2.4	13	88	0	53	38	0	3	58	1.15
1955899--1955923	13	1.9	13	100	0	50	56	8	4	32	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1956129--1956161	16	2.1	16	88	11	50	39	3	0	57	1.14
1957355--1957421	23	3.0	21	68	12	53	47	1	0	50	1.10
1957753--1957821	34	2.0	34	86	5	95	39	2	0	57	1.13
1956816--1958343	559	2.7	556	84	6	1870	42	6	9	41	1.64
1960800--1960824	10	2.5	10	100	0	50	0	16	0	84	0.63
1961332--1961656	166	2.0	165	85	5	442	52	7	12	27	1.65
1961347--1961695	166	2.1	165	83	5	420	50	9	12	27	1.70
1963452--1963487	2	18.5	2	94	5	65	52	0	0	47	1.00
1963451--1963487	19	1.9	19	100	0	74	54	0	0	45	1.00
1963454--1963488	17	2.1	17	100	0	70	54	0	0	45	0.99
1963542--1963566	2	12.5	2	100	0	50	52	0	0	48	1.00
1963460--1963658	81	2.4	81	92	2	319	46	8	10	34	1.69
1964176--1964222	18	2.6	18	80	10	51	46	0	2	51	1.13
1971270--1971358	20	4.5	19	70	14	72	58	0	0	41	0.98
1976009--1976042	16	2.1	17	88	5	52	44	0	0	55	0.99
1976028--1976067	20	2.0	20	85	9	55	52	2	0	45	1.14
1976592--1976631	20	2.0	21	85	9	57	37	0	0	62	0.95
1978775--1978800	2	13.0	2	100	0	52	50	0	0	50	1.00
1980522--1980563	16	2.5	17	80	3	59	11	4	0	83	0.79
1980854--1980882	2	14.5	2	100	0	58	48	0	0	51	1.00
1985341--1985387	23	2.0	24	88	8	71	46	2	10	40	1.50
1985374--1985456	36	2.4	33	84	15	114	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1985374--1985481	33	3.2	33	79	12	94	56	0	0	42	1.05
1988996--1989041	24	1.9	24	90	0	74	45	6	15	32	1.71
1989236--1989273	14	2.7	14	95	0	67	50	15	5	28	1.66
1989393--1989424	2	16.0	2	100	0	64	50	0	0	50	1.00
1992279--1992315	2	18.5	2	100	0	74	0	48	0	51	1.00
1992550--1992587	20	1.9	20	88	0	58	13	5	7	73	1.22
1998222--1998262	2	20.5	2	100	0	82	48	0	0	51	1.00
1998981--1999007	1	27.0	1	100	0	54	0	0	0	100	0.00
2000286--2000337	14	3.6	14	82	12	61	44	0	1	53	1.11
2000328--2000372	16	2.9	16	78	21	51	28	0	0	71	0.87
2000310--2000367	30	1.9	31	85	3	82	32	0	1	65	1.03
2000328--2000377	11	4.6	11	80	11	59	30	0	0	70	0.88
2000328--2000375	17	2.9	17	78	6	55	29	0	0	70	0.87
2001638--2001689	11	4.5	11	75	20	52	59	0	1	38	1.08
2001693--2001764	23	3.3	21	75	22	60	59	0	0	40	0.97
2001733--2001796	8	7.4	8	80	19	67	60	0	1	37	1.06
2001731--2001797	30	2.3	30	82	15	86	62	0	1	35	1.04
2001709--2001796	8	9.9	9	74	18	62	61	0	1	37	1.04
2009991--2010017	3	9.0	3	100	0	54	0	33	0	66	0.92
2012320--2012380	27	2.1	29	82	8	72	52	0	0	47	1.00
2013623--2013661	21	1.9	21	89	5	62	82	2	10	5	0.93
2013608--2013661	20	2.6	21	79	5	65	77	1	14	5	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2013840--2013891	22	2.3	22	80	3	59	57	5	0	36	1.23
2013933--2013986	20	2.8	19	73	15	56	53	3	0	42	1.18
2013974--2014007	16	2.1	17	94	5	61	70	0	0	29	0.87
2014020--2014054	14	2.4	15	85	9	54	45	2	0	51	1.16
2014142--2014184	21	2.2	21	84	12	56	51	0	0	48	1.00
2014142--2014180	20	1.9	21	84	5	53	48	0	0	51	1.00
2023125--2023165	20	2.0	20	95	0	73	24	12	19	43	1.85
2033701--2033802	21	4.9	21	72	13	75	48	0	0	51	1.00
2033700--2033786	22	4.1	21	71	14	63	47	0	0	52	1.00
2033699--2033791	20	4.3	21	76	11	82	48	0	0	51	1.00

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