genome.fa.s47.2.7.7.80.10.50.1000.14.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: Scaffold47
Parameters: 2 7 7 80 10 50 1000
Length:  2157611

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

This is table  14  of  15  ( 1735 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)
1864661--1864689	14	2.0	15	93	6	51	48	24	6	20	1.74
1865859--1865950	18	5.5	17	67	25	63	57	0	0	42	0.98
1865861--1865952	16	5.9	15	69	19	55	57	0	0	42	0.98
1865853--1866002	64	2.4	63	77	18	154	56	1	0	42	1.08
1866083--1866139	16	3.6	16	73	17	57	56	12	1	29	1.46
1878109--1878135	2	13.5	2	100	0	54	51	0	0	48	1.00
1880704--1880877	86	2.0	88	92	2	289	41	17	14	27	1.88
1886827--1886863	14	2.6	14	86	0	56	37	0	0	62	0.96
1886907--1886968	26	2.4	26	82	12	76	33	0	3	62	1.11
1886920--1886971	24	2.2	24	83	13	63	34	0	0	65	0.93
1887028--1887107	19	4.2	19	68	14	58	48	0	2	48	1.14
1887327--1887396	10	6.9	10	73	13	54	48	1	1	48	1.19
1887328--1887390	21	3.0	20	76	15	56	47	1	1	49	1.20
1887585--1887612	3	9.3	3	100	0	56	32	0	0	67	0.91
1888213--1888258	14	3.1	15	84	9	58	41	4	0	54	1.20
1888524--1888563	2	20.0	2	94	0	71	47	0	2	50	1.14
1900169--1900647	240	2.0	239	99	0	940	31	11	13	43	1.80
1904836--1904891	3	19.0	3	96	3	105	66	0	0	33	0.92
1905237--1905336	16	6.2	16	68	14	62	42	17	14	27	1.87
1905251--1905337	32	2.7	32	80	0	102	43	18	12	25	1.85
1906156--1906235	16	5.0	16	73	0	70	40	21	16	22	1.91
1906156--1906245	32	2.8	32	79	1	99	43	20	14	22	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1907591--1907621	3	10.3	3	100	0	62	32	0	0	67	0.91
1919869--1919911	21	2.0	23	86	9	63	58	11	4	25	1.52
1920729--1920763	6	5.8	6	96	0	61	34	2	0	62	1.10
1922051--1922086	3	12.0	3	87	0	54	38	33	27	0	1.57
1925913--1925964	21	2.5	21	93	0	86	36	0	0	63	0.95
1925975--1926029	16	3.3	16	77	12	58	56	0	0	43	0.99
1925969--1926044	32	2.3	33	74	14	77	50	0	0	50	1.00
1926026--1926071	16	2.8	16	90	3	65	36	0	0	63	0.95
1926037--1926071	12	3.0	12	95	4	63	40	0	0	60	0.97
1926384--1926436	6	8.2	6	76	15	52	41	0	0	58	0.98
1926500--1926590	16	5.7	16	81	2	85	48	3	5	42	1.42
1926500--1926592	32	2.9	32	82	3	107	48	3	6	41	1.45
1928715--1928813	51	1.9	51	89	0	153	33	16	14	36	1.88
1935676--1935836	77	2.1	78	95	3	288	59	9	11	18	1.59
1937758--1937795	2	19.0	2	100	0	76	50	0	0	50	1.00
1940648--1940687	19	2.1	19	90	0	62	32	0	0	67	0.91
1940653--1940694	19	2.2	19	86	0	57	30	2	2	64	1.19
1942079--1942116	13	2.6	14	80	19	51	60	0	2	36	1.11
1942492--1942531	6	6.7	6	97	0	71	0	20	0	80	0.72
1943006--1943045	8	5.0	8	90	0	53	50	15	0	35	1.44
1943006--1943037	12	2.7	12	90	0	55	50	18	0	31	1.48
1945163--1945195	2	16.5	2	100	0	66	48	0	51	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1945572--1945599	2	14.0	2	100	0	56	50	0	0	50	1.00
1947437--1947567	70	1.9	70	95	0	235	41	9	12	36	1.76
1951766--1951802	2	18.5	2	100	0	74	51	0	0	48	1.00
1951802--1951838	2	18.5	2	100	0	74	51	0	48	0	1.00
1954025--1954072	20	2.5	20	80	10	55	41	12	14	31	1.83
1961064--1961127	16	3.8	16	71	28	53	46	1	1	50	1.20
1961060--1961100	15	2.7	15	82	17	50	41	0	2	56	1.13
1961172--1961217	20	2.2	20	85	11	58	56	2	0	41	1.11
1961625--1961670	16	2.8	16	87	12	67	54	0	0	45	0.99
1961625--1961709	17	5.1	17	73	19	72	54	0	0	45	1.00
1961672--1961712	20	2.0	22	85	9	59	56	0	0	43	0.99
1961677--1961720	21	2.2	20	84	12	54	52	0	2	45	1.13
1962331--1962372	16	2.6	16	82	14	59	9	2	4	83	0.88
1969069--1969097	7	4.3	7	91	8	51	58	0	0	41	0.98
1969069--1969097	13	2.1	14	93	6	51	58	0	0	41	0.98
1969151--1969205	12	5.1	11	75	18	53	67	1	1	29	1.11
1969148--1969205	22	2.8	20	78	7	62	68	1	1	27	1.08
1969516--1969546	4	7.8	4	100	0	62	48	0	0	51	1.00
1970454--1970481	2	14.0	2	100	0	56	0	50	0	50	1.00
1970921--1970945	12	2.1	12	100	0	50	0	8	0	92	0.40
1973981--1974014	7	4.9	7	100	0	68	58	0	0	41	0.98
1974189--1974214	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)
1976496--1976527	3	10.7	3	100	0	64	31	0	0	68	0.90
1981808--1981842	2	17.5	2	100	0	70	48	0	0	51	1.00
1985618--1985774	72	2.2	72	98	0	305	48	8	26	17	1.75
1988379--1988404	12	2.2	12	100	0	52	23	0	0	76	0.78
1996724--1996789	28	2.4	26	78	14	69	50	3	9	37	1.50
1997055--1997101	21	2.3	19	89	10	67	57	2	0	40	1.11
1997055--1997117	23	2.8	22	81	9	65	57	1	0	41	1.08
1997375--1997423	20	2.3	20	82	6	62	42	0	2	55	1.11
2002685--2002794	25	4.2	26	65	19	66	54	4	2	38	1.35
2002915--2002949	3	11.7	3	93	0	61	71	0	0	28	0.86
2003039--2003085	17	2.8	17	78	12	60	17	38	2	42	1.61
2007411--2007547	27	4.9	27	85	5	175	29	24	29	17	1.97
2011068--2011158	42	2.2	42	93	0	155	57	1	4	37	1.26
2015076--2015254	78	2.3	78	84	1	216	31	16	28	23	1.96
2015209--2015280	28	2.6	28	86	0	90	25	19	33	22	1.97
2015268--2015447	52	3.5	51	78	7	175	31	12	27	28	1.93
2017805--2017830	13	2.0	13	100	0	52	38	15	15	30	1.88
2017784--2017850	33	2.0	33	88	0	98	43	16	14	25	1.86
2017870--2017937	19	3.9	18	76	23	83	38	14	11	35	1.83
2017892--2017916	13	1.9	13	100	0	50	32	16	16	36	1.90
2017873--2017935	32	2.0	32	96	0	117	36	15	12	34	1.86
2018573--2018710	50	2.8	48	85	4	136	31	16	19	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2018587--2018710	50	2.5	50	89	0	176	30	16	20	32	1.95
2023069--2023224	50	3.1	50	84	5	199	31	17	20	30	1.96
2028059--2028117	8	7.4	8	74	14	50	45	0	0	54	0.99
2027980--2028117	16	9.0	15	68	26	67	41	0	2	56	1.11
2028051--2028113	32	1.9	33	93	3	110	47	0	0	52	1.00
2028027--2028106	20	4.4	20	73	20	77	45	0	2	52	1.14
2028152--2028192	18	2.4	17	84	15	57	41	0	0	58	0.98
2028324--2028361	2	19.5	2	94	5	69	50	0	0	50	1.00
2028863--2028913	20	2.6	19	77	17	59	50	0	0	49	1.00
2029882--2030112	107	2.2	106	75	6	225	31	13	18	36	1.90
2030566--2030591	13	2.0	13	100	0	52	38	30	0	30	1.58
2036331--2036359	3	9.7	3	100	0	58	68	0	0	31	0.89
2037126--2037188	31	2.0	31	100	0	126	15	28	6	49	1.69
2037133--2037195	31	2.2	28	86	13	85	12	30	6	50	1.65
2037544--2037587	22	2.0	21	86	4	61	13	22	0	63	1.29
2039440--2039464	13	1.9	13	100	0	50	36	16	16	32	1.90
2039528--2039552	13	1.9	13	100	0	50	32	16	16	36	1.90
2039541--2039689	52	2.9	50	83	6	181	34	16	16	32	1.91
2041294--2041318	13	1.9	13	100	0	50	36	16	16	32	1.90
2041381--2041405	13	1.9	13	100	0	50	32	16	16	36	1.90
2041394--2041542	52	2.9	50	83	6	181	34	16	16	32	1.91
2048358--2048431	11	6.6	11	80	16	73	85	14	0	0	0.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2048356--2048432	18	4.4	16	83	15	91	85	14	0	0	0.59
2048356--2048417	26	2.4	25	86	10	88	87	12	0	0	0.55
2048357--2048432	24	3.3	23	79	18	88	85	14	0	0	0.60
2048356--2048419	1	64.0	1	74	0	56	87	12	0	0	0.54
2048671--2048724	16	3.4	16	85	12	76	81	14	3	0	0.82
2048679--2048721	4	10.8	4	87	7	52	81	16	2	0	0.79
2049685--2049886	34	6.0	34	86	4	259	20	33	11	35	1.88
2049877--2050224	32	10.8	32	88	5	526	29	35	19	16	1.93
2049876--2050224	97	3.6	97	92	3	571	28	35	19	16	1.93
2050224--2050591	92	4.0	92	94	1	619	25	26	17	31	1.97

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