genome.fa.s107.2.7.7.80.10.50.1000.13.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: Scaffold107
Parameters: 2 7 7 80 10 50 1000
Length:  2327068

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

This is table  13  of  15  ( 1755 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)
1875772--1875802	15	2.1	15	93	0	53	45	0	25	29	1.54
1880383--1880422	13	3.1	13	85	0	62	32	12	15	40	1.84
1881771--1881989	79	2.8	79	77	10	189	34	13	24	28	1.93
1881923--1882040	51	2.3	51	82	5	132	30	9	27	33	1.88
1881974--1882201	80	2.9	77	77	5	231	30	13	26	30	1.94
1881808--1882199	210	1.9	209	79	3	448	33	12	24	29	1.92
1885149--1885247	41	2.4	39	77	9	99	42	10	29	18	1.82
1885254--1885620	43	8.5	42	77	14	322	39	14	26	20	1.90
1885268--1885620	87	4.1	87	82	9	384	40	13	26	19	1.88
1885268--1885620	129	2.7	132	82	7	418	40	13	26	19	1.88
1885559--1885785	105	2.2	105	95	0	400	27	18	31	22	1.97
1885701--1885845	60	2.4	60	89	1	218	20	22	33	24	1.97
1885871--1886059	94	2.0	94	94	0	333	24	18	31	24	1.97
1886010--1887154	61	18.9	62	84	5	1258	28	18	26	26	1.98
1888170--1888208	11	3.5	11	83	10	53	0	0	15	84	0.62
1893344--1893551	79	2.6	79	78	13	237	36	12	23	27	1.91
1893504--1893623	51	2.4	51	88	2	179	33	14	25	27	1.94
1893555--1893782	80	2.9	79	83	1	294	33	14	24	27	1.94
1893318--1893784	210	2.2	207	77	5	463	35	13	23	27	1.92
1896040--1896095	20	2.8	20	100	0	112	44	16	14	25	1.84
1896029--1896058	13	2.3	13	100	0	60	40	13	16	30	1.87
1898618--1898674	23	2.7	20	82	17	71	38	14	14	33	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1901334--1901379	20	2.2	20	84	7	56	17	4	6	71	1.24
1901440--1901599	57	2.8	58	78	8	141	26	8	15	49	1.73
1902835--1902864	15	2.0	15	93	0	51	30	16	6	46	1.73
1905098--1905215	15	8.3	14	67	24	61	50	1	0	47	1.17
1905122--1905198	28	2.9	27	79	9	79	51	1	0	46	1.09
1905129--1905198	26	2.8	25	80	19	76	51	1	0	47	1.09
1906846--1906892	22	2.1	23	81	18	55	55	0	0	44	0.99
1913141--1913180	20	2.0	20	85	4	55	65	0	0	35	0.93
1914386--1914429	19	2.3	19	84	4	52	59	4	2	34	1.30
1915343--1915378	7	4.9	7	90	10	54	66	0	0	33	0.92
1915604--1915654	15	3.2	16	81	10	61	47	1	1	49	1.24
1915985--1916016	9	3.4	10	87	12	50	31	0	0	68	0.90
1915969--1916024	18	2.8	21	73	18	64	33	1	3	60	1.24
1918803--1918843	13	3.2	13	83	13	50	53	0	0	46	1.00
1919077--1919131	28	1.9	29	85	3	76	47	0	1	50	1.11
1919208--1919240	2	16.5	2	100	0	66	51	0	0	48	1.00
1919617--1919641	3	8.3	3	100	0	50	36	0	0	64	0.94
1920115--1920139	2	12.5	2	100	0	50	52	0	0	48	1.00
1920757--1920834	5	15.2	5	73	24	56	35	0	0	64	0.94
1920737--1920834	34	2.8	36	82	15	111	33	0	0	66	0.92
1920746--1920830	22	4.2	21	69	23	74	35	0	0	64	0.94
1922196--1922340	54	2.7	54	95	1	254	22	8	12	56	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1927518--1927768	57	4.5	58	76	11	202	47	11	10	30	1.74
1928064--1928130	20	3.3	20	70	14	57	41	16	13	28	1.86
1928155--1928209	21	2.6	21	88	8	85	38	7	12	41	1.71
1929371--1929401	16	1.9	16	100	0	62	51	6	19	22	1.69
1937944--1938306	28	12.9	28	84	2	442	28	29	17	24	1.97
1937944--1938306	113	3.2	113	89	3	518	28	29	17	24	1.97
1937944--1938334	141	2.8	141	87	5	513	28	29	16	24	1.97
1938444--1938567	49	2.7	45	83	7	149	21	28	18	31	1.97
1938941--1939015	20	3.8	20	85	0	105	34	12	12	41	1.79
1942687--1942750	19	3.3	20	77	14	64	1	20	1	76	0.95
1942687--1942746	20	3.0	20	76	11	54	1	20	1	76	0.96
1942710--1942762	15	3.6	14	82	7	61	3	16	1	77	1.01
1943512--1943538	2	13.5	2	100	0	54	48	0	0	51	1.00
1944876--1944960	22	3.8	22	76	14	84	32	1	2	63	1.15
1944866--1944924	21	2.7	21	75	15	57	30	1	5	62	1.26
1944853--1944959	46	2.4	45	83	10	130	33	0	2	62	1.16
1945073--1945120	23	2.0	23	84	8	60	31	4	0	64	1.12
1945161--1945192	16	2.1	15	94	5	55	31	6	3	59	1.38
1945705--1945736	6	5.7	6	92	7	50	46	0	0	53	1.00
1945704--1945739	16	2.2	16	95	0	63	47	0	0	52	1.00
1945705--1945738	11	3.1	11	86	0	50	50	0	0	50	1.00
1945806--1945844	16	2.6	15	80	11	53	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)
1946425--1946457	2	16.5	2	100	0	66	48	0	0	51	1.00
1946749--1946803	25	2.2	26	90	3	85	36	1	3	58	1.26
1949717--1949750	2	17.0	2	90	0	50	44	0	2	52	1.16
1950349--1950407	30	2.0	30	86	6	84	40	0	42	16	1.49
1960544--1960583	18	2.2	18	86	4	53	50	2	5	42	1.37
1960614--1960647	13	2.9	11	84	16	50	20	0	2	76	0.92
1960651--1960685	14	2.4	14	95	4	61	45	2	0	51	1.16
1960717--1960778	26	2.3	28	80	8	83	50	3	0	46	1.17
1961627--1961682	9	6.1	9	80	12	69	83	0	16	0	0.64
1961629--1961670	21	2.0	21	95	0	75	88	0	11	0	0.53
1961633--1961704	21	3.5	20	77	12	56	77	0	20	1	0.84
1961775--1961823	11	4.5	11	76	19	57	36	0	0	63	0.95
1961781--1961844	22	3.0	22	80	8	62	34	0	1	64	1.03
1962639--1962694	17	3.2	18	80	5	62	58	0	0	41	0.98
1962682--1962725	20	2.1	22	83	8	56	45	0	0	54	0.99
1962864--1962929	30	2.2	29	82	12	80	42	9	1	46	1.44
1963178--1963222	22	2.1	21	84	12	56	42	0	2	55	1.12
1963650--1963725	35	2.2	35	88	2	109	61	10	0	27	1.28
1965966--1966015	16	3.1	16	75	13	50	66	0	0	34	0.92
1966262--1966314	23	2.2	24	83	9	65	50	3	1	43	1.30
1967319--1967362	15	2.8	16	82	10	54	45	0	4	50	1.22
1967506--1967562	4	14.5	4	76	20	50	73	5	0	21	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1968008--1968036	12	2.4	12	100	0	58	48	0	0	51	1.00
1967990--1968041	18	3.1	17	72	8	52	53	0	0	46	1.00
1968249--1968323	17	4.4	17	81	5	98	65	1	0	33	1.01
1968251--1968322	34	2.1	34	89	0	108	65	1	0	33	1.02
1968966--1969092	16	8.2	16	68	21	58	61	0	0	38	0.96
1968970--1969077	23	4.7	21	76	16	90	62	0	0	37	0.96
1968989--1969087	8	13.4	8	71	25	60	59	0	0	40	0.97
1968966--1969077	46	2.4	47	81	14	135	62	0	0	37	0.95
1969295--1969350	27	2.0	28	86	10	80	51	1	1	44	1.22
1969331--1969375	13	3.6	13	77	19	51	68	0	2	28	1.01
1970012--1970062	27	1.9	27	84	11	70	29	1	1	66	1.13
1976533--1976623	43	2.1	43	95	0	164	30	9	7	51	1.63
1981945--1981970	2	13.0	2	100	0	52	50	0	0	50	1.00
1991053--1991145	1	93.0	1	78	0	78	87	5	7	0	0.68
1991051--1991144	33	3.0	32	92	7	158	85	5	9	0	0.75
2001584--2001696	39	2.9	39	67	6	93	40	17	11	30	1.85
2003231--2003311	26	3.1	26	75	18	78	44	6	6	43	1.54
2003455--2003531	27	2.9	27	86	3	93	49	6	7	36	1.58
2005190--2005256	20	3.3	20	81	6	73	29	13	13	43	1.82
2009174--2009226	19	2.7	20	91	2	90	32	11	16	39	1.85
2009302--2009426	52	2.4	52	97	0	232	35	18	18	28	1.94
2015604--2015634	3	10.3	3	92	0	53	32	32	3	32	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2017324--2017361	20	1.9	20	94	0	67	31	7	23	36	1.84
2032745--2032895	12	12.6	12	66	21	50	38	0	0	61	0.96
2032749--2032827	18	4.5	17	80	10	70	41	0	0	58	0.98
2032774--2032833	27	2.1	30	81	9	72	41	0	0	58	0.98
2032741--2032827	34	2.4	38	78	21	98	42	0	0	57	0.98
2032731--2032875	17	8.2	17	70	22	70	39	0	0	60	1.02
2032754--2032888	50	2.7	49	77	11	146	39	0	0	60	0.97
2033286--2033345	22	2.8	22	87	9	81	58	0	0	41	0.98
2035274--2035369	48	2.0	49	82	10	117	46	2	2	48	1.25
2036702--2036742	20	2.1	20	90	4	66	56	2	0	41	1.13

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