genome.fa.s114.2.7.7.80.10.50.1000.8.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: Scaffold114
Parameters: 2 7 7 80 10 50 1000
Length:  3219552

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

This is table  8  of  13  ( 1458 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)
1853624--1853654	6	5.2	6	100	0	62	32	19	0	48	1.49
1854297--1854326	15	2.0	15	93	0	51	23	13	3	60	1.48
1860467--1861332	288	3.0	288	97	0	1633	25	18	16	39	1.91
1873833--1874026	102	1.9	102	84	2	264	23	12	19	44	1.84
1887176--1887369	102	1.9	102	85	0	271	24	12	19	44	1.84
1887638--1887754	55	2.1	56	90	1	182	21	12	20	45	1.84
1891112--1891386	137	2.0	137	92	0	460	25	12	19	42	1.86
1894501--1894906	204	2.0	204	96	0	742	26	14	25	33	1.94
1897643--1897669	13	2.1	13	100	0	54	0	14	0	85	0.61
1907596--1907732	69	2.0	69	95	2	249	19	16	18	45	1.86
1912150--1912182	16	2.1	16	94	0	57	27	15	24	33	1.95
1912381--1912792	204	2.0	204	98	0	788	32	18	11	37	1.87
1924376--1924423	24	2.0	24	91	0	78	22	22	6	47	1.73
1925087--1925133	25	2.0	23	83	8	58	23	6	17	53	1.66
1928320--1928353	14	2.5	14	85	4	52	44	5	0	50	1.26
1931886--1931917	2	16.0	2	100	0	64	50	0	0	50	1.00
1932571--1932600	2	15.0	2	100	0	60	50	0	0	50	1.00
1933039--1933094	3	18.7	3	100	0	112	66	0	33	0	0.92
1934360--1934400	18	2.2	18	86	8	55	65	0	0	34	0.93
1934456--1934505	18	2.8	18	82	11	66	64	4	0	32	1.12
1934447--1934508	13	4.6	13	74	18	56	62	3	0	33	1.11
1935356--1935391	11	3.2	12	84	15	58	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1935389--1935426	15	2.5	16	83	12	53	34	0	5	60	1.19
1935548--1935610	20	3.1	20	78	14	58	47	3	1	47	1.27
1935599--1935650	23	2.3	23	90	3	79	48	3	0	48	1.20
1937764--1937807	20	2.1	21	84	12	56	75	9	0	15	1.05
1939046--1939084	20	1.9	20	89	5	60	48	5	0	46	1.24
1939433--1939470	11	3.2	12	82	14	51	55	0	0	44	0.99
1939404--1939461	18	3.1	19	73	12	57	53	0	0	46	1.00
1941254--1941282	2	14.5	2	100	0	58	48	0	0	51	1.00
1942095--1942123	2	14.5	2	100	0	58	48	0	0	51	1.00
1950928--1950987	20	2.9	20	76	14	68	63	0	0	36	0.95
1950938--1951018	28	3.0	26	77	15	83	65	0	1	33	1.01
1950927--1951021	6	16.5	6	69	23	62	63	0	1	35	1.02
1954779--1954824	14	3.2	14	81	6	56	65	0	0	34	0.93
1954777--1954818	22	1.9	22	85	9	59	69	0	0	30	0.89
1967507--1967560	27	2.0	27	100	0	108	22	14	7	55	1.64
1967804--1967843	15	2.7	15	92	0	62	50	7	5	37	1.53
1973300--1973360	23	2.8	21	72	16	52	44	1	0	54	1.10
1973339--1973372	18	1.9	18	88	5	52	47	5	0	47	1.26
1973729--1973760	16	2.0	16	100	0	64	25	12	18	43	1.85
1977492--1977521	14	2.1	14	100	0	60	43	56	0	0	0.99
1979372--1979422	22	2.4	22	83	9	61	43	0	0	56	0.99
1982070--1982122	25	2.2	24	83	10	63	32	0	3	64	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1987158--1987258	49	2.0	50	94	1	177	30	21	14	32	1.94
1992060--1992092	2	16.5	2	100	0	66	48	0	0	51	1.00
1997752--1997809	15	4.0	14	74	12	55	36	1	0	62	1.06
1997756--1997841	16	5.3	16	72	16	54	40	1	0	58	1.06
1997792--1997856	32	2.0	33	88	8	98	46	0	0	53	1.00
1998897--1998977	15	5.9	14	75	15	55	40	1	1	56	1.15
1998913--1998977	12	5.3	12	80	8	51	40	1	1	56	1.18
1998853--1998987	17	8.4	15	70	20	62	40	1	0	57	1.13
2000023--2000068	21	2.2	19	85	14	56	39	0	0	60	0.97
2000261--2000298	20	1.9	20	84	10	51	52	0	2	44	1.14
2000229--2000291	34	1.9	34	87	6	94	53	1	1	42	1.19
2000725--2000759	19	1.9	19	88	11	56	74	14	0	11	1.08
2000863--2000948	45	1.9	45	93	6	149	37	16	13	32	1.88
2011042--2011078	17	2.4	16	83	16	51	2	24	0	72	0.97
2015953--2015993	2	20.5	2	100	0	82	0	48	0	51	1.00
2018236--2018274	20	2.0	20	89	0	60	61	0	0	38	0.96
2018238--2018318	9	8.4	10	70	22	50	58	0	0	41	0.98
2018243--2018299	20	2.8	20	84	10	64	54	0	0	45	0.99
2018270--2018320	20	2.6	19	74	14	50	54	0	0	45	0.99
2027229--2027290	22	3.4	17	74	23	54	66	4	1	27	1.21
2027360--2027407	18	2.6	18	80	12	62	45	0	0	54	0.99
2027428--2027457	15	1.9	16	93	6	53	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)
2027962--2028036	26	2.9	25	72	16	64	45	0	1	53	1.08
2030968--2031038	22	3.6	20	74	14	67	38	0	1	60	1.06
2031013--2031052	21	1.9	21	85	10	55	35	0	0	65	0.93
2031047--2031098	20	2.6	21	79	11	65	48	0	1	50	1.12
2031755--2031810	28	2.0	28	86	6	78	46	0	0	53	1.00
2031759--2031806	22	2.1	22	84	3	60	47	0	0	52	1.00
2032272--2032321	25	2.0	25	84	4	64	46	6	10	38	1.62
2033095--2033150	22	2.5	22	80	8	60	55	0	0	44	0.99
2038134--2038163	2	15.0	2	100	0	60	50	0	0	50	1.00
2040180--2040231	18	2.8	18	80	11	61	44	0	0	55	0.99
2040157--2040235	21	3.7	21	70	17	56	41	1	0	56	1.07
2040579--2040604	3	8.7	3	100	0	52	0	34	0	65	0.93
2041576--2041602	2	13.5	2	100	0	54	48	0	0	51	1.00
2049661--2049711	2	25.5	2	87	0	66	49	7	0	43	1.32
2059055--2059085	2	15.5	2	100	0	62	0	51	0	48	1.00
2059687--2059734	20	2.3	21	86	10	64	27	0	0	72	0.84
2060382--2060408	3	9.0	3	100	0	54	33	0	0	66	0.92
2060645--2060669	13	1.9	13	100	0	50	48	0	0	52	1.00
2064266--2064300	2	17.5	2	100	0	70	0	48	0	51	1.00
2072549--2072586	2	18.5	2	94	5	67	50	0	2	47	1.15
2078300--2078356	30	1.9	30	82	13	73	49	0	0	50	1.00
2080612--2080653	21	2.0	21	100	0	84	28	19	19	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2081928--2081952	13	1.9	13	100	0	50	64	4	0	32	1.12
2085642--2085693	27	1.9	27	92	0	86	40	11	19	28	1.86
2086110--2086185	23	3.2	23	67	14	57	53	0	0	46	1.00
2086141--2086221	40	2.0	40	84	13	105	51	0	0	48	1.00
2086136--2086245	40	2.6	40	76	20	100	51	0	0	48	1.00
2086194--2086248	25	2.2	26	86	3	76	50	0	0	49	1.00
2090634--2090665	2	16.0	2	100	0	64	50	0	0	50	1.00
2091475--2091516	13	3.2	13	84	15	59	26	0	0	73	0.83
2091468--2091526	27	2.2	27	84	3	75	32	0	1	66	1.02
2092049--2092100	23	2.3	22	80	9	59	40	1	0	57	1.10
2096846--2096879	14	2.4	15	85	14	54	41	0	0	58	0.98
2097387--2097433	18	2.6	18	83	6	60	68	2	0	29	1.02
2097556--2097600	23	2.0	23	87	8	67	53	0	0	46	1.00
2097676--2097709	18	1.9	17	88	5	50	73	2	0	23	0.97
2100507--2100544	3	13.0	3	94	5	69	65	0	0	34	0.93
2100540--2100593	14	3.8	14	78	11	56	61	0	5	33	1.19
2100555--2100598	11	3.8	11	80	11	52	63	0	2	34	1.07
2100583--2100655	31	2.4	31	88	6	105	54	0	1	43	1.08
2100589--2100638	22	2.3	22	83	10	66	54	0	0	46	1.00
2100625--2100674	20	2.5	21	78	12	61	54	0	0	46	1.00
2100604--2100657	17	3.4	17	73	21	62	57	0	0	42	0.98
2100589--2100681	31	3.0	31	83	12	102	53	0	1	45	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2109136--2109202	16	4.2	16	75	3	64	19	16	23	40	1.91
2109069--2109174	32	3.3	31	70	12	79	18	13	23	44	1.85
2110177--2110229	20	2.6	20	78	3	52	41	0	1	56	1.10
2110299--2110408	48	2.3	48	77	12	118	21	13	20	43	1.87
2110299--2110413	16	7.2	16	67	16	60	22	13	20	42	1.88
2111545--2111581	16	2.3	16	90	0	56	67	0	0	32	0.91
2111512--2111622	57	2.0	55	82	8	134	56	3	0	38	1.23
2118112--2118198	28	2.9	29	76	11	86	41	1	1	56	1.14
2119238--2119272	17	2.1	17	100	0	70	45	0	11	42	1.40
2124981--2125012	2	16.0	2	100	0	64	50	0	50	0	1.00

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