genome.fa.s78.2.7.7.80.10.50.1000.14.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: Scaffold78
Parameters: 2 7 7 80 10 50 1000
Length:  2238306

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

This is table  14  of  15  ( 1751 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)
1964379--1964470	44	2.1	44	97	0	175	38	13	11	36	1.81
1966135--1966160	13	2.0	13	100	0	52	30	15	15	38	1.88
1968702--1968740	13	3.0	13	96	0	69	35	15	17	30	1.91
1968726--1968804	20	3.7	20	78	15	77	44	15	15	25	1.85
1970819--1970849	15	2.1	15	93	0	53	12	22	16	48	1.80
1972652--1972699	21	2.2	23	78	14	57	22	18	4	54	1.61
1972654--1972699	22	2.2	20	84	7	56	21	19	4	54	1.61
1974915--1974940	13	2.0	13	100	0	52	30	15	15	38	1.88
1975424--1975482	25	2.4	25	100	0	118	16	15	13	54	1.72
1976496--1976525	7	4.4	7	91	8	53	76	0	10	13	1.01
1976495--1976526	13	2.5	13	94	0	55	75	0	9	15	1.05
1978297--1978431	70	1.9	70	84	3	182	29	14	12	42	1.83
1981821--1981874	18	3.3	18	65	24	55	44	1	14	38	1.56
1981814--1981874	31	2.0	31	100	0	122	45	3	13	37	1.59
1982112--1982151	19	2.1	19	100	0	80	32	25	0	42	1.55
1985941--1985978	3	12.7	3	100	0	76	68	0	0	31	0.90
1986620--1986669	19	2.5	19	81	15	57	50	2	0	48	1.12
1986903--1986937	2	17.5	2	100	0	70	51	0	48	0	1.00
1987379--1987473	6	15.8	6	70	22	58	63	0	0	36	0.95
1987364--1987463	23	4.2	24	69	21	59	64	1	0	35	1.01
1987381--1987462	23	3.5	24	78	20	102	64	0	0	35	0.94
1987378--1987474	46	2.1	46	88	9	153	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1987390--1987453	16	4.1	16	68	22	55	64	0	0	35	0.94
1987456--1987536	15	5.2	15	70	21	51	49	0	2	48	1.14
1989552--1989603	21	2.5	20	81	9	59	65	0	0	34	0.93
1990052--1990086	3	12.0	3	93	6	63	31	0	0	68	0.90
1992320--1992362	19	2.2	20	84	8	54	16	20	0	62	1.32
1994007--1994050	22	2.0	23	86	4	63	11	11	2	75	1.15
1996185--1996225	2	20.5	2	100	0	82	48	0	0	51	1.00
2002575--2002623	15	3.2	15	77	5	53	46	24	8	20	1.77
2003362--2003392	11	2.9	11	95	4	55	54	0	0	45	0.99
2003367--2003401	11	3.0	12	91	4	54	48	0	0	51	1.00
2004699--2004725	2	13.5	2	100	0	54	48	0	0	51	1.00
2005270--2005391	59	2.1	59	96	0	226	33	22	11	32	1.90
2006329--2006397	32	2.2	32	84	5	86	36	0	2	60	1.11
2006338--2006378	11	3.8	11	81	12	50	34	0	0	65	0.93
2011925--2011969	21	2.0	23	83	8	58	57	0	2	40	1.11
2011946--2012004	17	3.3	17	75	13	55	54	0	3	42	1.17
2011925--2012015	37	2.3	39	81	9	105	53	0	5	40	1.24
2013993--2014024	3	10.7	3	100	0	64	68	0	0	31	0.90
2018612--2018660	21	2.3	21	82	10	55	36	0	2	61	1.08
2018802--2018836	15	2.4	15	90	4	54	51	0	2	45	1.16
2018800--2018849	22	2.3	21	83	6	64	48	0	2	50	1.12
2020418--2020460	2	22.0	2	90	4	70	51	2	0	46	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2022973--2023236	133	2.0	133	93	0	456	37	20	11	30	1.88
2024360--2024390	2	15.5	2	100	0	62	51	0	48	0	1.00
2030321--2030362	15	2.7	16	82	14	52	21	0	7	71	1.09
2030625--2030670	19	2.3	20	92	3	76	30	2	0	67	1.03
2032154--2032185	17	1.9	17	93	6	57	53	6	6	34	1.51
2037232--2037381	5	28.6	5	67	16	72	58	0	0	42	0.98
2037252--2037370	25	4.5	25	74	16	107	59	0	0	40	0.97
2037232--2037446	16	13.2	16	67	22	85	60	0	0	39	1.01
2037240--2037426	38	4.9	38	78	15	149	59	0	0	40	0.97
2037225--2037418	81	2.5	76	81	14	202	58	0	0	41	0.98
2037338--2037399	25	2.4	25	81	10	72	54	0	0	45	0.99
2041276--2041323	21	2.5	20	87	12	73	35	10	27	27	1.89
2042219--2042319	51	2.0	52	90	2	159	42	14	15	26	1.86
2045695--2045736	19	2.2	19	83	8	50	61	4	0	33	1.17
2045745--2045774	12	2.6	12	94	5	53	80	0	0	20	0.72
2046670--2046752	33	2.5	33	83	9	116	61	7	0	31	1.23
2046626--2046752	16	7.8	16	76	11	98	60	9	1	28	1.37
2047638--2047679	21	2.0	21	90	4	68	11	4	7	76	1.15
2047646--2047690	21	2.1	21	83	4	54	20	6	4	68	1.29
2048302--2048342	17	2.3	19	87	8	59	48	7	4	39	1.52
2049532--2049562	2	15.5	2	93	0	53	54	0	0	45	0.99
2051301--2051326	2	13.0	2	100	0	52	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)
2055410--2055536	15	8.5	15	67	27	83	25	15	7	51	1.68
2055454--2055534	32	2.6	31	90	3	135	23	13	9	53	1.70
2055948--2055987	19	2.1	19	85	0	53	57	5	0	37	1.21
2057242--2057299	26	2.2	26	81	6	73	34	1	8	55	1.41
2057586--2057628	22	2.0	21	81	4	50	39	0	6	53	1.28
2057894--2057955	22	2.7	22	71	14	63	66	0	0	33	0.92
2057885--2057939	26	2.1	26	83	6	67	63	0	0	36	0.95
2059150--2059199	2	25.0	2	100	0	100	50	0	0	50	1.00
2065296--2065331	16	2.2	17	95	5	65	11	13	27	47	1.77
2066563--2066645	30	2.7	32	92	5	136	24	19	12	44	1.84
2069971--2070028	16	3.6	16	78	0	62	15	8	27	48	1.74
2069971--2070035	32	2.0	33	84	3	87	13	7	29	49	1.70
2074498--2074674	93	1.9	91	89	5	275	22	13	25	38	1.91
2081912--2081994	39	2.3	35	79	16	98	40	40	3	14	1.63
2085132--2085345	105	2.0	105	98	0	410	37	20	13	28	1.90
2093389--2093420	2	16.0	2	100	0	64	50	0	0	50	1.00
2096926--2096962	15	2.5	15	91	4	58	56	0	0	43	0.99
2096935--2096980	21	2.1	23	88	8	69	54	0	2	43	1.12
2096932--2096981	17	3.1	17	82	5	59	56	0	2	42	1.11
2097010--2097056	16	2.9	16	78	12	60	36	19	19	25	1.95
2097009--2097103	16	6.5	16	70	20	57	41	16	15	26	1.89
2097041--2097134	39	2.4	39	90	0	143	42	15	13	27	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2102831--2102909	16	4.9	16	72	16	65	40	29	17	12	1.87
2102798--2102920	32	3.9	31	74	4	102	42	30	14	13	1.83
2102942--2102972	15	2.1	15	93	0	53	45	38	9	6	1.63
2103113--2103140	2	14.0	2	100	0	56	50	0	50	0	1.00
2107569--2107607	12	3.2	12	88	0	60	38	0	28	33	1.57
2109757--2109796	20	2.0	20	100	0	80	50	15	10	25	1.74
2111552--2111586	18	1.9	18	88	0	52	40	5	11	42	1.65
2114938--2115517	295	2.0	295	87	2	844	33	9	20	36	1.86
2116010--2116089	24	3.4	24	66	19	69	35	12	33	18	1.89
2115996--2116090	46	2.1	46	100	0	190	37	12	32	16	1.87
2117173--2117220	24	2.0	24	84	8	62	64	10	2	22	1.35
2121701--2121742	22	1.9	22	85	0	57	52	9	0	38	1.34
2129385--2129418	2	17.0	2	100	0	68	50	0	50	0	1.00
2130000--2130054	27	2.1	27	86	6	78	54	1	0	43	1.10
2131338--2131380	21	2.0	23	90	9	72	27	0	2	69	1.00
2133542--2133619	36	2.2	36	90	2	122	30	7	16	44	1.76
2133858--2133893	16	2.3	15	81	9	54	44	0	0	55	0.99
2133861--2133893	17	2.0	17	94	5	59	42	0	0	57	0.98
2134174--2134200	2	13.5	2	100	0	54	48	0	0	51	1.00
2138842--2138888	20	2.4	19	86	6	67	40	0	0	59	0.97
2139065--2139143	23	3.2	25	76	8	81	39	0	1	59	1.06
2139058--2139126	23	3.0	23	75	14	70	37	0	1	60	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2139787--2139868	30	2.9	29	82	12	116	40	0	0	59	0.97
2139844--2139878	16	2.1	17	89	5	54	54	2	0	42	1.15
2139962--2140028	29	2.3	30	89	7	102	67	1	0	31	1.00
2140656--2140684	12	2.4	12	100	0	58	37	0	0	62	0.96
2145951--2145985	5	7.0	5	90	0	52	20	2	2	74	1.08
2146623--2146661	2	19.5	2	83	0	51	51	2	0	46	1.14
2146630--2146666	18	2.1	18	89	0	56	48	2	0	48	1.15
2146661--2146704	16	2.8	16	82	0	52	56	6	0	36	1.26
2148431--2148486	28	1.9	30	82	7	71	69	8	7	14	1.35
2154384--2154417	2	17.0	2	100	0	68	50	0	0	50	1.00

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