genome.fa.s4693.2.7.7.80.10.50.1000.9.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: VEPZ01004693.1 Hibiscus syriacus cultivar Beakdansim tig00010533_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2620943

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

This is table  9  of  12  ( 1372 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)
1810369--1810410	22	1.9	22	85	0	57	38	2	0	59	1.10
1811603--1811649	24	2.0	23	84	12	60	23	12	17	46	1.82
1811659--1811710	22	2.4	22	73	0	59	21	9	13	55	1.66
1820009--1820790	6	132.5	6	96	3	1464	50	16	0	33	1.46
1826374--1826487	44	2.6	45	74	4	106	29	28	16	24	1.97
1826609--1826672	27	2.4	27	97	0	119	48	28	7	15	1.73
1832588--1832636	20	2.5	20	82	0	62	46	22	12	18	1.82
1832605--1832862	135	1.9	135	91	1	419	37	19	13	29	1.90
1832788--1833096	104	2.9	103	80	8	325	30	17	21	30	1.96
1833122--1833238	20	5.8	21	72	11	95	41	17	17	23	1.89
1833143--1833238	40	2.4	40	91	0	156	41	16	17	23	1.89
1833454--1833565	21	5.6	20	79	3	109	24	13	28	33	1.93
1833519--1833561	19	2.2	20	79	8	52	25	16	30	27	1.97
1840221--1840280	3	20.0	3	100	0	120	33	0	0	66	0.92
1840370--1840402	13	2.5	13	100	0	66	33	45	15	6	1.70
1840723--1840752	10	3.0	10	100	0	60	60	40	0	0	0.97
1842097--1842138	15	2.6	16	82	17	52	33	4	0	61	1.17
1852657--1853312	228	2.9	228	88	0	981	16	23	30	29	1.97
1854489--1854520	2	16.0	2	100	0	64	50	0	0	50	1.00
1854795--1854871	25	2.9	27	71	13	79	29	28	12	28	1.94
1859741--1859773	8	4.1	8	92	0	57	45	15	27	12	1.81
1870786--1870891	22	4.8	21	88	6	140	28	24	19	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1870793--1870891	44	2.2	44	94	1	171	29	23	20	27	1.99
1873599--1873659	23	2.7	23	86	0	86	29	27	22	19	1.98
1873675--1873890	103	2.1	103	97	0	405	36	23	14	25	1.93
1873873--1873926	18	3.0	18	100	0	108	33	33	22	11	1.89
1873770--1874029	139	1.9	139	99	0	511	34	25	16	24	1.95
1875310--1875350	21	2.0	21	85	0	55	17	21	29	31	1.96
1879676--1879740	22	2.9	22	81	2	76	26	20	23	30	1.98
1882154--1882196	20	2.2	20	91	0	68	9	18	20	51	1.74
1882333--1882387	25	2.2	24	78	15	58	20	9	18	52	1.71
1883516--1883563	18	2.7	18	93	0	87	27	45	12	14	1.81
1884098--1884195	19	5.4	19	75	17	82	45	21	18	14	1.84
1884117--1884199	19	4.6	19	77	19	97	45	20	20	13	1.84
1884206--1884285	33	2.4	33	91	0	124	13	20	20	46	1.84
1884227--1884285	19	3.4	19	73	22	74	16	20	16	45	1.85
1884270--1884344	20	3.8	20	92	1	116	16	26	24	33	1.95
1884712--1884767	21	2.7	20	72	8	58	25	39	14	21	1.91
1886381--1886445	19	3.7	19	84	15	95	46	18	21	13	1.84
1886452--1886525	20	3.7	20	92	0	130	14	21	24	39	1.91
1886457--1886544	40	2.4	36	85	11	108	15	23	23	36	1.94
1886868--1886950	20	4.2	20	90	6	132	30	19	25	25	1.98
1887634--1887687	24	2.2	24	90	0	81	22	16	20	40	1.91
1887862--1887886	12	2.1	12	100	0	50	72	0	28	0	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1890134--1890206	20	3.6	20	68	17	60	32	23	19	24	1.97
1890211--1890293	33	2.5	33	92	3	132	50	18	20	10	1.76
1890293--1890352	19	3.4	19	74	25	69	10	16	25	48	1.77
1890322--1890360	19	2.1	19	100	0	78	10	23	20	46	1.81
1890327--1890368	19	2.2	19	91	0	66	16	21	16	45	1.86
1890333--1890376	19	2.3	19	84	0	52	18	20	15	45	1.85
1890475--1890508	14	2.4	14	95	0	59	44	20	0	35	1.52
1891861--1891927	21	3.2	21	68	4	55	19	20	35	23	1.95
1891861--1891983	42	2.9	41	79	7	113	22	18	36	21	1.95
1893168--1893211	18	2.4	18	92	0	70	52	11	18	18	1.74
1895334--1895381	21	2.3	21	92	0	78	27	6	54	12	1.61
1896400--1896468	36	1.9	35	88	2	102	27	15	18	37	1.92
1897449--1897537	32	2.8	32	81	1	99	41	6	5	46	1.54
1899297--1899341	17	2.6	17	96	0	81	6	24	40	28	1.80
1906068--1906117	25	2.1	23	81	7	55	58	2	0	40	1.10
1907880--1907925	20	2.2	21	92	3	76	28	6	52	13	1.65
1913702--1913749	21	2.3	21	88	0	69	25	8	54	12	1.65
1914762--1914833	36	2.0	35	91	2	117	26	18	16	38	1.91
1915886--1915956	32	2.2	32	87	2	99	45	4	7	43	1.50
1920342--1920419	3	26.7	3	89	10	126	66	0	33	0	0.92
1923905--1923952	21	2.3	21	85	7	62	25	8	52	14	1.69
1926531--1926601	3	24.7	3	86	13	105	67	0	32	0	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1932435--1932482	21	2.3	21	85	7	62	25	8	52	14	1.69
1940831--1940880	20	2.6	19	84	9	57	54	2	12	32	1.49
1942405--1942460	20	2.8	19	81	7	58	23	33	14	28	1.94
1946142--1946207	30	2.2	30	84	10	82	65	0	10	24	1.24
1950406--1950497	44	2.1	44	82	11	111	42	1	22	33	1.61
1953848--1953889	21	2.0	21	86	9	59	59	0	14	26	1.35
1957019--1957066	21	2.3	21	88	0	69	25	8	54	12	1.65
1958460--1959301	425	2.0	425	95	1	1508	23	10	16	49	1.76
1959463--1959556	32	3.0	32	84	1	109	41	6	6	45	1.55
1959865--1959910	23	2.0	23	86	0	65	45	10	2	41	1.51
1962068--1962093	3	8.7	3	100	0	52	69	0	30	0	0.89
1964164--1964210	21	2.2	21	85	7	60	25	8	51	14	1.71
1966254--1966296	16	2.8	15	82	6	59	74	2	0	23	0.93
1968153--1968197	20	2.3	20	80	3	56	46	4	2	46	1.35
1968301--1968339	20	2.0	20	89	0	60	25	38	23	12	1.90
1971424--1971544	64	1.9	65	85	1	172	28	19	23	28	1.98
1971442--1971601	65	2.5	65	84	1	196	27	16	25	30	1.97
1971552--1971598	19	2.5	19	83	10	62	25	17	31	25	1.97
1971818--1971857	20	2.0	20	85	5	53	42	10	2	45	1.51
1974122--1974156	15	2.3	15	90	0	52	74	0	17	8	1.06
1975962--1975998	19	1.9	19	94	0	65	29	18	18	32	1.96
1976055--1976316	36	7.3	36	89	0	389	18	24	24	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1977655--1977682	14	2.0	14	100	0	56	50	0	14	35	1.43
1980864--1980910	21	2.2	21	88	0	67	17	51	6	25	1.69
1985051--1985096	21	2.2	21	84	0	56	26	8	52	13	1.69
1986452--1986650	21	9.7	21	85	4	237	22	22	16	38	1.93
1986451--1986651	62	3.3	62	92	2	316	22	22	16	38	1.93
1986452--1986650	41	4.8	41	86	4	267	22	22	16	38	1.93
1987524--1987577	24	2.2	24	93	0	90	20	18	20	40	1.91
1990087--1990141	19	2.8	19	83	2	65	40	21	20	18	1.92
1990094--1990244	19	8.8	17	69	23	77	44	19	23	12	1.85
1990132--1990219	14	5.6	14	67	23	50	44	19	23	12	1.85
1990114--1990240	33	3.8	33	95	0	227	44	18	23	12	1.84
1990240--1990301	19	3.3	18	84	10	79	14	17	22	45	1.85
1990250--1990301	19	2.7	19	93	0	86	11	19	21	48	1.80
1990408--1990444	14	2.6	14	91	0	65	45	21	0	32	1.52
1991806--1991881	21	3.6	21	70	7	64	23	23	30	22	1.99
1992305--1992375	19	3.6	19	80	3	79	45	21	22	11	1.83
1992417--1992455	20	2.0	20	100	0	78	5	15	28	51	1.64
1992438--1992521	33	2.5	33	92	0	141	8	19	21	51	1.73
1992438--1992502	14	4.3	14	73	17	58	9	20	20	50	1.74
1992459--1992546	19	4.8	19	76	16	96	9	20	19	51	1.74
1992635--1992912	94	3.1	92	85	8	383	47	17	12	22	1.82
1994607--1994669	20	3.2	20	82	8	83	46	17	23	12	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1994654--1994742	14	5.6	14	69	23	61	46	22	22	8	1.80
1994605--1994746	33	4.1	33	86	6	185	46	20	23	9	1.80
2007452--2007504	2	26.5	2	100	0	106	49	0	0	50	1.00
2007795--2007824	13	2.3	13	100	0	60	13	6	0	80	0.91
2013268--2013722	36	13.0	35	74	13	269	26	19	12	42	1.86
2013365--2013608	65	3.6	66	76	13	271	26	19	11	42	1.85
2013432--2013725	36	8.3	36	75	10	275	25	20	12	41	1.88
2013432--2013725	73	4.2	73	74	11	279	25	20	12	41	1.88
2013296--2013693	138	2.9	138	89	1	586	26	19	11	42	1.85
2013644--2013709	21	3.4	21	70	25	72	27	21	12	39	1.88

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