genome.fa.s5946.2.7.7.80.10.50.1000.9.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: VEPZ01005946.1 Hibiscus syriacus cultivar Beakdansim tig00013960_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2465359

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

This is table  9  of  11  ( 1316 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)
1790724--1790849	46	2.8	45	89	7	200	40	3	0	55	1.21
1797213--1797258	16	2.9	16	86	0	56	6	17	26	50	1.70
1817435--1817538	43	2.4	43	88	0	145	41	21	9	27	1.84
1822462--1822504	18	2.3	19	84	4	52	67	2	4	25	1.22
1826449--1826492	20	2.1	22	83	8	56	50	6	6	36	1.56
1827226--1827314	30	2.9	30	98	1	169	34	5	3	56	1.40
1829218--1829263	24	1.9	24	100	0	92	21	26	28	23	1.99
1831430--1831472	21	2.0	21	95	0	77	46	13	16	23	1.83
1836079--1836126	21	2.3	21	92	0	78	43	12	16	27	1.84
1837856--1837899	21	2.1	21	91	0	70	45	9	15	29	1.77
1843393--1843422	11	2.7	11	100	0	60	36	0	16	46	1.47
1847483--1847600	3	39.0	3	87	1	173	61	2	0	36	1.10
1847732--1848675	76	12.4	76	97	0	1746	35	21	21	21	1.96
1849785--1849954	54	3.1	54	94	0	286	22	20	16	40	1.91
1852213--1852549	92	3.7	92	94	0	577	36	23	14	26	1.93
1854807--1854840	17	2.1	16	94	5	59	0	20	0	79	0.73
1855134--1855218	2	42.5	2	100	0	170	50	0	0	49	1.00
1861899--1862023	3	41.0	3	85	3	160	60	2	0	37	1.10
1866297--1866325	2	14.5	2	100	0	58	48	0	0	51	1.00
1873909--1874027	60	2.0	60	84	0	157	47	6	7	38	1.59
1879333--1879441	42	2.5	43	83	2	130	31	19	21	28	1.97
1879345--1879490	43	3.4	41	78	10	116	26	18	21	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1880031--1880216	82	2.3	80	88	3	275	37	17	15	30	1.91
1880153--1880282	66	1.9	66	87	3	188	37	19	13	29	1.90
1887422--1887512	2	45.5	2	100	0	182	50	0	0	49	1.00
1888473--1888516	23	1.9	23	100	0	88	45	9	22	22	1.80
1904953--1905041	31	2.9	30	79	12	108	46	6	3	43	1.46
1908405--1908656	141	1.8	138	92	2	432	29	14	15	40	1.87
1909128--1909165	17	2.2	17	86	9	51	42	7	23	26	1.81
1910772--1910847	40	1.9	40	83	0	98	30	14	6	48	1.69
1911268--1911310	18	2.3	19	84	4	52	30	2	2	65	1.18
1912647--1912696	2	25.5	2	95	4	93	50	0	0	50	1.00
1929885--1929947	29	2.1	30	85	2	83	17	15	3	63	1.44
1931327--1931385	31	1.9	31	82	6	75	42	5	1	50	1.34
1931572--1931617	20	2.2	21	77	14	51	47	4	2	45	1.34
1933934--1933963	2	15.0	2	100	0	60	50	0	0	50	1.00
1944752--1944799	23	2.1	23	88	7	71	62	10	14	12	1.54
1953510--1953728	2	110.5	2	97	1	406	48	0	51	0	1.00
1957594--1957694	50	2.0	50	98	0	193	32	16	11	38	1.86
1961904--1961945	20	2.0	23	86	13	63	59	0	0	40	0.97
1965208--1965244	2	18.5	2	100	0	74	48	0	0	51	1.00
1965826--1965883	29	2.0	29	86	0	80	13	34	27	24	1.93
1965926--1965992	14	4.4	14	74	20	62	23	37	29	8	1.86
1965922--1965987	34	1.9	34	96	0	123	22	37	28	10	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1965984--1966058	33	2.3	33	86	4	98	28	24	38	9	1.86
1973003--1973034	2	16.0	2	100	0	64	50	0	0	50	1.00
1973193--1973309	61	1.9	62	84	7	157	39	23	5	32	1.76
1976422--1976470	9	5.7	9	78	9	57	14	2	8	75	1.12
1976446--1976502	22	2.6	22	80	5	62	10	7	5	77	1.12
1976855--1977102	20	12.2	20	79	8	236	43	21	19	16	1.88
1977197--1977260	6	10.7	6	100	0	128	32	50	17	0	1.46
1977809--1978116	20	15.2	20	78	12	260	16	19	22	41	1.90
1977809--1978114	40	7.6	40	80	10	290	16	19	22	41	1.90
1981253--1981292	21	1.9	21	85	10	55	60	0	12	27	1.33
1981831--1981875	11	4.0	11	83	16	65	17	28	35	17	1.93
1981831--1981878	17	2.8	17	93	6	80	16	31	33	18	1.94
1981832--1981877	6	8.4	5	86	13	56	17	28	34	19	1.94
1982253--1982415	82	2.0	84	87	2	240	48	3	5	42	1.44
1985999--1986040	16	2.5	17	77	14	52	54	2	0	42	1.13
1987039--1987113	33	2.3	34	84	13	95	49	0	0	50	1.00
1987039--1987118	38	2.2	34	82	14	99	50	0	0	50	1.00
1995846--1995885	21	2.0	20	95	5	71	30	17	15	37	1.90
1996739--1996793	27	2.0	27	93	6	94	36	1	1	60	1.18
1996894--1996940	24	2.0	24	87	8	69	44	0	2	53	1.12
1998089--1998158	21	3.4	21	69	15	65	37	25	17	20	1.94
1998060--1998152	40	2.3	42	90	3	145	38	23	16	21	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1998167--1998219	21	2.5	21	93	0	88	18	22	30	28	1.98
2011995--2012076	15	5.5	15	86	2	112	37	6	19	36	1.77
2011990--2012076	45	2.0	44	90	2	138	40	5	19	34	1.76
2011995--2012076	30	2.8	30	92	1	130	37	6	19	36	1.77
2012059--2012128	20	3.5	20	96	0	131	40	10	14	35	1.79
2012294--2012357	28	2.2	28	84	15	87	51	1	1	45	1.20
2012369--2012418	23	2.2	22	86	10	66	46	0	2	52	1.12
2012411--2012454	22	2.0	23	86	4	63	54	0	0	45	0.99
2012415--2012471	21	2.6	22	81	10	64	52	0	0	47	1.00
2012351--2012471	52	2.3	52	77	19	135	51	0	0	47	1.06
2012660--2012859	42	4.7	42	94	0	346	45	19	19	17	1.86
2014740--2014772	17	1.9	17	100	0	66	27	0	24	48	1.51
2015377--2015415	16	2.4	16	86	0	60	56	17	12	12	1.67
2016167--2016230	24	2.5	26	85	10	78	54	17	12	15	1.71
2016187--2016232	14	3.3	14	81	0	65	50	21	15	13	1.78
2017034--2017064	11	2.7	11	95	5	53	90	0	0	9	0.46
2017034--2017064	16	2.0	15	93	6	53	90	0	0	9	0.46
2017063--2017110	5	9.6	5	90	0	60	41	31	18	8	1.80
2017066--2017109	15	2.9	15	93	0	70	40	29	20	9	1.83
2018943--2019018	36	2.1	36	100	0	152	31	10	15	42	1.81
2019442--2019471	15	2.0	15	100	0	60	13	26	46	13	1.80
2022071--2022146	36	2.1	36	100	0	152	31	10	15	42	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2025201--2025276	36	2.1	36	97	0	143	31	11	15	40	1.84
2025694--2025723	15	2.0	15	100	0	60	13	26	46	13	1.80
2028325--2028399	35	2.1	36	97	2	143	32	10	16	41	1.82
2028823--2028852	15	2.0	15	100	0	60	13	26	46	13	1.80
2031454--2031529	36	2.1	36	97	0	143	32	10	14	42	1.80
2031952--2031981	15	2.0	15	100	0	60	13	26	46	13	1.80
2036451--2036526	36	2.1	36	100	0	152	31	10	15	42	1.81
2040133--2040157	5	5.0	5	100	0	50	20	0	0	80	0.72
2040642--2040674	13	2.5	13	90	0	57	36	9	0	54	1.32
2042237--2042281	23	2.0	23	86	0	63	44	11	26	17	1.82
2045726--2045772	19	2.5	19	96	0	85	29	27	6	36	1.82
2046437--2046506	21	3.3	21	77	0	68	34	30	11	24	1.90
2049744--2049777	3	11.0	3	93	6	59	0	35	0	64	0.94
2051134--2051209	21	3.6	22	82	7	77	26	17	22	34	1.96
2060192--2060277	23	3.6	23	74	21	61	66	3	1	29	1.16
2060243--2060289	21	2.2	21	88	0	67	72	4	0	23	1.02
2062268--2062318	16	3.2	16	97	0	93	17	27	13	41	1.87
2062579--2062624	23	2.0	24	95	4	85	45	0	4	50	1.21
2062800--2062858	14	4.2	14	82	0	73	22	0	25	52	1.47
2062794--2062854	21	3.0	20	76	13	61	24	0	24	50	1.49
2062851--2062944	48	1.9	49	86	2	136	34	5	9	51	1.57
2062996--2063053	22	2.4	25	86	11	86	56	0	1	41	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2063345--2063402	7	8.3	7	78	0	53	20	0	29	50	1.49
2063476--2063527	15	3.4	15	89	2	77	40	3	7	48	1.50
2062712--2063827	550	2.0	551	91	4	1806	37	7	11	43	1.70
2063546--2063603	22	2.4	25	86	11	86	56	0	1	41	1.09
2064810--2064857	2	23.0	2	80	16	53	43	2	4	50	1.33
2064810--2064857	11	4.6	10	82	10	53	43	2	4	50	1.33
2064810--2064852	13	3.3	13	90	0	68	44	0	4	51	1.22
2064817--2064857	13	2.8	15	89	10	59	43	2	2	51	1.28
2065056--2065094	2	19.5	2	100	0	78	48	51	0	0	1.00
2065075--2065275	100	2.0	100	100	0	402	55	17	7	18	1.66

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