genome.fa.s1444.2.7.7.80.10.50.1000.9.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: VEPZ01001444.1 Hibiscus syriacus cultivar Beakdansim tig00002793_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2564052

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

This is table  9  of  12  ( 1400 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)
1911544--1911647	45	2.3	45	86	1	145	50	7	18	24	1.73
1914752--1914799	18	2.7	18	96	3	89	39	14	22	22	1.91
1915285--1915368	34	2.5	35	92	5	145	36	19	19	25	1.94
1915387--1915425	20	2.1	18	86	13	53	33	17	23	25	1.96
1915856--1916051	59	3.3	58	85	5	252	37	9	17	35	1.83
1916365--1916495	68	1.9	68	87	0	190	32	14	22	29	1.94
1916371--1916844	149	3.3	149	80	10	620	33	14	23	28	1.94
1916547--1916761	68	3.2	68	93	2	378	30	15	25	28	1.96
1916713--1916867	81	1.9	80	84	1	202	34	12	23	29	1.92
1916885--1917020	45	3.0	45	79	5	157	48	7	16	27	1.73
1916876--1917028	45	3.3	45	78	6	155	48	7	16	26	1.74
1919966--1920173	94	2.2	94	84	3	267	36	17	21	25	1.95
1920524--1920659	56	2.5	56	89	10	212	34	8	18	38	1.82
1920940--1921068	68	1.9	68	90	0	204	31	13	24	30	1.94
1921097--1921411	68	4.6	68	89	0	450	31	14	23	30	1.94
1921526--1921649	45	2.7	45	84	2	167	48	4	18	29	1.66
1923255--1923342	40	2.2	40	95	0	158	38	0	43	18	1.50
1927142--1927217	36	2.1	36	97	0	143	31	10	14	43	1.79
1933320--1933358	19	2.0	19	90	5	60	56	25	0	17	1.41
1938485--1938546	31	2.0	31	96	0	115	53	12	9	24	1.69
1944066--1944166	46	2.2	46	82	7	116	44	0	1	53	1.11
1944083--1944166	23	3.7	22	87	7	107	41	0	1	57	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1944284--1944332	24	2.1	23	85	11	64	59	2	2	36	1.21
1945951--1945981	2	15.5	2	100	0	62	48	0	0	51	1.00
1947158--1947197	10	4.0	10	83	0	53	57	20	12	10	1.63
1947159--1947198	20	2.0	20	90	0	62	55	20	15	10	1.68
1947534--1947587	24	2.2	24	83	0	72	61	16	7	14	1.55
1948757--1948783	5	5.4	5	100	0	54	81	0	18	0	0.69
1959728--1959780	27	2.0	27	88	0	79	50	16	1	30	1.56
1959726--1960032	29	10.8	27	74	13	147	48	15	2	32	1.58
1959726--1959978	29	8.9	28	75	9	199	49	15	1	33	1.56
1959902--1960027	28	4.4	29	79	6	98	48	17	2	31	1.60
1960551--1960576	13	2.0	13	100	0	52	61	0	30	7	1.24
1961588--1961680	19	5.1	19	77	13	97	45	20	22	11	1.84
1961676--1961742	19	3.5	19	83	2	89	8	16	23	50	1.73
1962276--1962335	20	2.9	22	75	12	72	23	15	20	41	1.89
1962259--1962332	20	3.7	19	75	10	67	24	17	22	35	1.95
1962259--1962353	41	2.3	41	81	3	111	22	20	22	35	1.96
1962569--1962632	29	2.3	28	81	5	76	50	14	3	32	1.58
1963163--1963188	13	2.0	13	100	0	52	61	0	30	7	1.24
1963760--1963826	31	2.2	29	80	12	73	44	10	5	38	1.63
1968899--1968956	24	2.4	24	77	11	64	32	34	10	22	1.88
1972873--1972911	11	3.6	11	79	6	53	48	10	15	25	1.76
1972867--1972923	21	2.7	21	100	0	114	47	8	12	31	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1972867--1972921	10	5.3	10	74	8	56	45	9	12	32	1.74
1974267--1974346	18	4.4	18	93	0	124	17	22	31	28	1.97
1975701--1975758	2	29.0	2	100	0	116	50	0	0	50	1.00
1983813--1983857	20	2.2	20	92	0	72	48	28	0	22	1.50
1984053--1984203	72	2.1	72	96	0	275	18	22	19	39	1.92
1984053--1984193	36	3.9	36	85	3	212	18	22	19	39	1.93
1985535--1985578	20	2.2	20	91	0	70	47	29	0	22	1.51
1989859--1989891	6	5.7	6	96	3	59	72	0	12	15	1.12
1989847--1989899	18	2.9	19	81	13	67	67	3	9	18	1.33
1996044--1996111	31	2.2	31	94	0	118	48	17	14	19	1.81
2000296--2000341	21	2.3	19	85	7	56	13	4	6	76	1.14
2003464--2003731	134	2.0	134	100	0	536	24	22	23	29	1.99
2004970--2005134	82	2.0	82	95	2	296	27	12	15	44	1.83
2005634--2005683	18	2.8	18	93	0	82	28	2	2	68	1.12
2005625--2005738	26	4.5	25	77	15	110	29	2	3	64	1.24
2005625--2005691	4	15.8	4	79	11	71	26	1	1	70	1.05
2005652--2005723	28	2.6	28	89	4	103	31	1	5	61	1.28
2008645--2008909	131	2.0	131	100	0	530	27	19	19	33	1.96
2011190--2011230	18	2.3	18	91	4	66	29	4	2	63	1.28
2011292--2011624	111	3.0	111	96	0	596	36	7	11	45	1.69
2013905--2014034	51	2.5	51	81	2	136	23	26	32	16	1.96
2029368--2029437	16	4.4	16	94	1	124	57	21	12	8	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2030189--2030260	24	3.0	24	86	8	92	52	19	12	15	1.74
2030206--2030261	14	4.3	14	78	17	57	50	23	14	12	1.77
2032501--2032543	18	2.4	18	88	0	59	23	4	0	72	1.04
2032584--2032649	3	23.0	3	72	25	54	27	3	0	69	1.03
2032593--2032650	16	3.9	14	74	26	57	27	3	0	68	1.05
2032589--2032649	24	2.5	23	82	12	61	26	3	0	70	1.02
2036785--2036823	20	2.0	20	84	0	51	23	7	23	46	1.78
2036983--2037022	21	1.9	21	89	0	62	10	25	40	25	1.86
2037005--2037065	20	2.9	21	87	7	79	18	26	34	21	1.96
2050523--2050665	31	4.6	31	86	0	205	20	17	23	39	1.92
2055283--2055381	31	3.2	31	91	0	162	20	17	22	40	1.91
2055283--2055404	62	2.0	62	87	6	176	19	15	22	41	1.89
2059409--2059447	20	2.0	20	100	0	78	10	20	20	48	1.78
2059375--2059475	20	4.9	20	75	4	69	16	19	23	39	1.92
2059443--2059537	21	4.6	19	74	14	82	20	18	24	36	1.95
2059443--2059537	41	2.3	41	92	5	156	20	18	24	36	1.95
2059816--2059910	22	4.4	22	83	2	120	36	27	14	21	1.92
2059800--2059911	43	2.6	43	84	4	129	38	25	16	20	1.92
2059903--2059975	20	3.6	20	72	3	74	39	21	20	17	1.92
2059878--2060004	21	6.1	21	70	6	80	37	24	18	19	1.94
2059900--2060000	41	2.5	41	95	0	175	37	22	18	20	1.94
2065525--2065574	24	2.1	24	88	7	75	58	14	2	26	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2071703--2071748	20	2.2	20	84	7	56	58	2	0	39	1.10
2073871--2073968	26	3.8	26	90	0	124	37	10	11	40	1.75
2074125--2074149	11	2.3	11	100	0	50	8	28	8	56	1.57
2085207--2085644	56	7.9	56	89	2	666	35	15	10	39	1.81
2085973--2086071	22	4.7	21	76	8	94	25	22	15	37	1.93
2085973--2086066	42	2.2	42	88	0	134	25	22	15	36	1.94
2092207--2092519	152	2.1	152	99	0	617	36	19	8	34	1.83
2092440--2092822	56	6.9	56	91	1	608	34	15	11	38	1.83
2093151--2093222	20	3.5	20	81	7	90	26	26	15	31	1.95
2093168--2093246	22	3.7	22	83	6	108	29	20	13	36	1.91
2093148--2093244	42	2.3	42	92	0	167	29	23	13	32	1.93
2094310--2094393	27	3.2	26	76	6	73	39	3	2	54	1.31
2094535--2094601	31	2.2	31	89	5	100	50	10	8	29	1.67
2096472--2096516	16	2.8	16	86	0	63	37	17	6	37	1.76
2101317--2101342	13	2.0	13	100	0	52	30	0	23	46	1.53
2101976--2102054	30	2.6	31	83	2	97	45	6	3	44	1.47
2103208--2103238	5	6.2	5	100	0	62	0	19	58	22	1.40
2111879--2111934	25	2.3	25	82	11	73	41	0	1	57	1.09
2111887--2111929	13	3.4	13	81	12	54	34	0	2	62	1.08
2116965--2117047	32	2.6	31	84	3	112	42	24	10	22	1.85
2119985--2120198	6	34.2	6	68	22	63	77	3	3	15	1.06
2119985--2120198	30	7.2	30	64	18	85	77	3	3	15	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2120033--2120104	16	4.2	16	76	11	72	76	2	1	19	0.99
2119986--2120127	52	2.8	49	78	14	137	76	3	2	17	1.06
2119959--2120198	27	9.7	24	69	18	97	76	3	5	15	1.08
2120149--2120198	16	3.2	16	75	8	50	86	2	4	8	0.78
2120202--2120240	17	2.1	17	86	13	51	64	0	2	33	1.08
2121397--2121461	29	2.2	28	81	7	76	55	6	0	38	1.25
2121979--2122626	83	7.8	82	84	2	650	24	17	23	33	1.96
2121979--2122621	250	2.6	249	85	1	786	24	18	23	33	1.96
2122080--2122621	249	2.2	252	86	1	757	23	18	23	34	1.96
2125208--2125362	56	2.7	55	77	15	147	74	5	2	17	1.11

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