genome.fa.s168.2.7.7.80.10.50.1000.15.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: Scaffold168
Parameters: 2 7 7 80 10 50 1000
Length:  2098754

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  15  of  16  ( 1854 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)
1816403--1816437	2	17.5	2	100	0	70	51	0	0	48	1.00
1817722--1817939	34	6.5	34	85	5	282	40	27	7	24	1.82
1817720--1817939	67	3.3	67	88	1	323	40	27	7	24	1.82
1822350--1822566	34	6.4	34	83	5	262	41	26	7	24	1.81
1822348--1822566	67	3.3	67	85	2	296	41	26	7	24	1.81
1822348--1822566	101	2.2	101	89	4	334	41	26	7	24	1.81
1823739--1823953	108	2.0	108	91	1	351	42	18	8	31	1.80
1824680--1824712	2	16.5	2	100	0	66	48	0	0	51	1.00
1825826--1825855	15	2.0	15	93	0	51	40	10	10	40	1.72
1826187--1826211	13	1.9	13	100	0	50	76	0	24	0	0.80
1826922--1826950	3	9.7	3	100	0	58	68	0	0	31	0.89
1827366--1827395	6	5.0	6	91	0	51	16	36	16	30	1.91
1827366--1827399	12	2.8	12	95	0	59	14	41	14	29	1.86
1828269--1828420	34	4.5	34	84	10	195	40	24	7	27	1.81
1832822--1832975	34	4.6	34	84	4	172	42	23	5	28	1.77
1832822--1832975	67	2.3	67	80	4	168	42	23	5	28	1.77
1833216--1833255	15	2.7	15	92	0	71	50	0	0	50	1.00
1844970--1845029	19	2.9	22	71	21	65	68	0	3	28	1.05
1844969--1845027	31	1.9	31	82	6	75	67	0	3	28	1.06
1845022--1845091	25	2.7	26	86	6	106	57	0	0	42	0.99
1845047--1845118	20	3.4	21	79	7	74	58	0	1	40	1.07
1845003--1845118	43	2.7	43	75	17	105	58	0	1	39	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1844980--1845118	20	6.5	21	68	19	65	60	0	1	38	1.06
1846186--1846519	183	1.8	183	96	1	625	34	17	29	18	1.94
1849054--1849097	20	2.2	20	84	8	54	25	0	11	63	1.27
1849501--1849552	15	3.1	16	83	10	52	32	0	0	67	0.91
1849486--1849553	26	2.6	25	79	6	73	33	0	1	64	1.02
1860274--1860391	57	2.1	57	100	0	236	32	10	15	42	1.80
1861840--1861866	6	4.5	6	100	0	54	37	0	14	48	1.45
1863006--1863042	2	18.5	2	100	0	74	48	0	0	51	1.00
1863265--1863302	2	19.0	2	100	0	76	0	50	0	50	1.00
1871722--1871787	3	21.7	3	78	3	69	62	0	33	4	1.16
1876971--1877118	74	2.0	74	97	0	278	31	12	13	42	1.82
1878993--1879020	2	14.0	2	100	0	56	50	0	50	0	1.00
1884924--1884951	2	14.0	2	100	0	56	50	0	0	50	1.00
1895665--1895694	2	15.0	2	92	0	51	50	3	0	46	1.18
1895883--1895916	6	5.7	6	96	0	59	17	2	61	17	1.46
1898531--1898566	18	1.9	19	88	5	56	33	0	0	66	0.92
1899349--1899382	2	17.0	2	100	0	68	0	50	0	50	1.00
1905183--1905214	5	6.4	5	100	0	64	40	0	0	59	0.97
1908455--1908565	50	2.2	50	79	6	127	35	10	16	37	1.83
1912951--1913163	50	4.2	49	86	4	273	31	15	19	32	1.94
1912951--1913186	101	2.3	100	84	3	305	33	15	19	32	1.93
1915147--1915184	18	2.1	19	85	5	51	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1915141--1915184	20	2.2	20	88	4	63	54	0	0	45	0.99
1918518--1918553	3	12.0	3	93	0	63	33	2	33	30	1.72
1920118--1920163	3	15.3	3	95	0	83	67	0	2	30	1.03
1929527--1929801	147	1.9	148	96	0	516	30	14	15	39	1.88
1930567--1930614	21	2.5	20	83	10	55	56	0	2	41	1.11
1931089--1931129	3	13.7	3	100	0	82	68	0	31	0	0.90
1931311--1931360	2	25.0	2	100	0	100	50	0	0	50	1.00
1938136--1938163	2	14.0	2	100	0	56	50	0	0	50	1.00
1946753--1946791	2	19.5	2	87	10	53	43	2	0	53	1.14
1946751--1946803	14	3.9	13	82	7	54	39	1	5	52	1.36
1952426--1952454	2	14.5	2	100	0	58	51	0	0	48	1.00
1954490--1954528	21	2.0	21	90	10	64	58	5	0	35	1.20
1956340--1956376	14	2.9	12	85	14	56	64	2	0	32	1.07
1956628--1956660	14	2.4	14	90	5	50	63	0	0	36	0.95
1956630--1956673	20	2.2	20	84	8	54	65	0	0	34	0.93
1956639--1956680	21	2.0	20	86	13	59	59	0	0	40	0.97
1956628--1956702	35	2.2	34	83	9	91	57	0	2	40	1.13
1959494--1959539	17	2.8	16	81	15	58	47	0	0	52	1.00
1959678--1959707	2	15.0	2	100	0	60	50	0	0	50	1.00
1960173--1960208	2	18.0	2	88	0	54	47	2	0	50	1.15
1960439--1960610	87	2.0	85	94	2	299	35	11	10	43	1.75
1968338--1968368	2	15.5	2	100	0	62	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1969732--1969758	14	1.9	14	100	0	54	48	0	0	51	1.00
1971763--1971801	2	19.5	2	100	0	78	51	0	0	48	1.00
1973997--1974045	16	3.0	16	80	16	64	46	0	0	53	1.00
1979864--1979891	3	9.3	3	100	0	56	0	32	0	67	0.91
1980570--1980595	2	13.0	2	100	0	52	50	0	0	50	1.00
1981176--1981217	21	2.1	19	86	13	57	61	0	0	38	0.96
1981758--1981796	19	2.0	21	90	10	64	25	2	2	69	1.14
1997469--1997498	2	15.0	2	92	0	51	0	46	0	53	1.00
1997695--1997750	28	2.0	28	100	0	112	42	10	17	28	1.83
2000460--2000489	2	15.0	2	100	0	60	50	0	0	50	1.00
2006338--2006363	2	13.0	2	100	0	52	50	0	0	50	1.00
2006598--2006631	3	11.3	3	100	0	68	67	0	0	32	0.91
2006828--2006865	16	2.4	16	86	8	51	26	0	0	73	0.83
2006984--2007026	19	2.3	17	84	15	50	60	2	0	37	1.10
2007089--2007128	12	3.3	12	89	0	53	65	7	0	27	1.20
2010841--2010922	40	2.0	40	88	4	121	41	9	8	40	1.69
2011177--2011216	15	2.6	16	88	11	57	55	0	10	35	1.34
2011176--2011229	15	3.5	16	74	23	53	59	0	9	31	1.29
2011873--2012281	107	3.8	109	75	13	333	51	1	1	44	1.23
2011845--2011990	66	2.2	64	80	13	172	54	1	0	43	1.13
2012035--2012163	46	2.8	47	73	17	108	53	0	2	43	1.19
2012161--2012235	31	2.4	29	82	10	87	52	1	2	44	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2012223--2012329	46	2.3	46	84	6	128	58	3	1	35	1.26
2012612--2012646	15	2.2	16	90	5	54	42	2	0	54	1.15
2012603--2012956	123	2.9	122	86	8	490	42	3	1	52	1.28
2012603--2012956	122	2.9	122	86	9	483	42	3	1	52	1.28
2013335--2013415	39	2.1	39	83	4	101	46	2	6	44	1.41
2013655--2013721	35	1.9	34	93	3	116	52	0	17	29	1.45
2013566--2013812	126	2.0	125	89	0	377	46	4	15	33	1.68
2013689--2014127	92	4.8	92	90	1	611	42	7	15	34	1.74
2014079--2014182	55	1.9	55	93	0	181	39	10	18	31	1.85
2014235--2014376	69	2.0	70	85	4	189	48	7	15	28	1.72
2014152--2014444	161	1.8	162	80	6	362	44	7	15	31	1.75
2021925--2022450	292	1.8	286	91	3	865	48	8	7	36	1.61
2022679--2022768	37	2.4	39	76	17	91	45	1	2	51	1.21
2022927--2022963	14	2.7	14	88	12	51	54	0	0	45	1.00
2023942--2023967	4	6.5	4	100	0	52	50	23	0	26	1.50
2024243--2024269	3	9.0	3	100	0	54	33	0	0	66	0.92
2028263--2028323	28	2.1	29	84	3	79	44	1	11	42	1.50
2028309--2028458	31	4.8	32	79	14	120	42	0	2	55	1.11
2028408--2028465	13	4.2	13	79	14	62	46	0	0	53	1.00
2028380--2028483	29	3.4	30	86	9	131	47	0	0	51	1.07
2031937--2031970	2	17.0	2	100	0	68	50	0	0	50	1.00
2032802--2032833	9	3.4	9	95	4	55	21	12	0	65	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2037333--2037367	17	2.1	17	94	0	61	40	5	2	51	1.40
2038311--2038339	5	5.8	5	100	0	58	82	17	0	0	0.66
2045829--2045857	2	14.5	2	100	0	58	51	0	0	48	1.00
2048014--2048046	17	2.1	17	88	11	52	45	6	0	48	1.27
2049024--2049048	2	12.5	2	100	0	50	48	0	0	52	1.00
2053404--2053428	12	2.1	12	100	0	50	28	0	0	72	0.86
2053443--2053492	21	2.5	19	84	9	64	76	2	10	12	1.11
2053444--2053487	21	2.2	20	91	4	70	77	2	9	11	1.08
2054323--2054352	2	15.0	2	100	0	60	50	0	0	50	1.00
2057559--2057583	2	12.5	2	100	0	50	52	0	0	48	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16