genome.fa.s7838.2.7.7.80.10.50.1000.8.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: VEPZ01007838.1 Hibiscus syriacus cultivar Beakdansim tig00110187_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3429202

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

This is table  8  of  13  ( 1485 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)
1785390--1785451	32	2.0	29	85	14	81	59	0	3	37	1.13
1790024--1790062	15	2.4	16	83	12	53	48	0	2	48	1.15
1790769--1790831	29	2.1	31	91	5	103	26	4	22	46	1.72
1791756--1791806	12	4.1	12	76	16	50	43	9	0	47	1.36
1791762--1791811	25	2.0	24	92	3	82	44	6	0	50	1.26
1794280--1794603	66	5.0	66	92	3	532	44	7	27	20	1.77
1801649--1801687	3	13.0	3	88	0	60	0	61	0	38	0.96
1813213--1813251	15	2.6	16	84	15	57	53	5	0	41	1.23
1813651--1813703	21	2.5	21	81	6	72	20	26	18	33	1.96
1813693--1813744	21	2.5	21	81	3	61	38	19	25	17	1.93
1813730--1813867	41	3.4	41	80	6	145	34	23	17	24	1.96
1813733--1813847	20	5.7	20	79	6	106	32	24	18	25	1.97
1814031--1814074	22	2.0	22	95	0	79	20	45	15	18	1.85
1814301--1814359	20	3.0	20	87	0	73	15	18	22	44	1.87
1816230--1816293	20	3.4	19	80	6	76	39	25	20	15	1.92
1816284--1816341	14	3.8	14	75	20	62	48	24	17	10	1.78
1816268--1816357	33	2.8	32	94	3	162	46	22	18	12	1.82
1816387--1816486	20	5.4	19	69	17	68	14	20	24	42	1.88
1816369--1816439	33	2.2	32	94	2	124	12	18	21	47	1.81
1816433--1816512	20	4.1	19	82	7	79	21	17	26	35	1.95
1816852--1816966	41	2.8	41	82	3	117	22	40	15	20	1.90
1818230--1818293	18	3.7	18	82	15	82	45	18	21	14	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1818312--1818367	20	2.8	19	86	10	76	14	21	23	41	1.89
1818993--1819048	21	2.7	21	100	0	112	14	16	25	44	1.84
1818913--1819068	20	7.7	20	85	4	118	22	18	24	34	1.96
1818974--1819091	62	1.9	62	84	3	157	19	17	23	38	1.93
1819057--1819108	20	2.5	21	87	3	70	21	23	17	38	1.93
1819098--1819150	21	2.5	22	81	6	74	35	18	24	20	1.95
1822269--1822309	21	1.9	22	95	5	75	24	24	14	36	1.93
1824057--1824097	21	2.0	21	85	0	55	29	29	24	17	1.97
1825754--1825833	22	3.6	22	94	3	135	17	27	30	25	1.97
1828201--1828526	163	2.0	163	98	1	636	34	10	23	31	1.89
1830713--1830791	22	3.6	22	91	6	126	18	27	29	24	1.98
1833141--1833256	57	2.0	57	96	0	214	22	15	27	34	1.94
1843567--1843592	3	8.7	3	100	0	52	30	0	0	69	0.89
1848500--1848604	11	9.8	11	71	15	51	38	0	7	54	1.29
1848500--1848593	5	17.8	5	72	10	62	39	0	6	54	1.26
1848500--1848591	37	2.5	37	94	1	166	38	0	6	55	1.26
1848995--1849096	28	3.4	28	76	22	107	46	1	7	44	1.44
1848973--1849072	37	2.6	39	90	3	150	43	3	9	45	1.51
1848973--1849086	37	3.0	37	87	5	131	44	2	7	44	1.47
1848999--1849179	65	2.8	63	80	8	186	46	3	8	41	1.51
1849035--1849141	27	4.0	27	80	6	94	43	4	9	42	1.57
1849154--1849203	17	2.9	17	82	14	59	52	2	2	44	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1849157--1849204	16	3.0	16	85	11	55	50	2	2	45	1.25
1857012--1857045	6	5.7	6	92	0	59	50	2	0	47	1.16
1857330--1857371	19	2.1	20	86	8	59	42	0	7	50	1.30
1857905--1857973	21	3.3	21	76	6	68	31	14	14	39	1.86
1868650--1868705	15	3.6	15	74	9	58	35	14	28	21	1.92
1868645--1868708	32	2.0	32	100	0	128	34	15	28	21	1.94
1868645--1868695	16	3.2	16	72	10	59	37	17	25	19	1.94
1869401--1869562	50	3.2	50	65	13	141	51	4	9	33	1.56
1869372--1869563	102	1.9	102	97	0	366	48	5	11	34	1.62
1885551--1885627	37	2.1	37	92	0	127	40	22	15	22	1.91
1886932--1887040	37	2.9	37	97	0	200	40	6	16	36	1.74
1908294--1908654	181	2.0	181	98	1	706	29	18	15	36	1.92
1914863--1914936	36	2.1	36	100	0	148	29	27	14	28	1.95
1917529--1917560	13	2.5	13	94	0	55	31	3	0	65	1.08
1923068--1923095	2	14.0	2	100	0	56	50	0	0	50	1.00
1926341--1926389	13	3.8	13	82	17	66	51	0	0	48	1.00
1936290--1936492	99	2.0	102	95	4	367	27	23	19	29	1.98
1937501--1937602	47	2.2	47	98	0	195	46	13	6	33	1.70
1943467--1943537	29	2.4	30	83	9	92	59	15	8	16	1.60
1944109--1944140	17	1.9	17	93	6	57	43	0	0	56	0.99
1944130--1944191	28	2.2	28	85	0	79	50	0	1	48	1.10
1944868--1944932	26	2.5	28	83	13	79	52	0	1	46	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1944966--1945003	17	2.3	16	86	8	58	52	0	2	44	1.14
1945384--1945529	60	2.4	59	79	6	143	43	5	18	32	1.73
1945444--1945563	60	2.0	60	83	6	154	45	5	15	34	1.68
1949359--1949441	41	2.0	42	97	2	159	22	9	26	40	1.85
1951314--1951365	21	2.5	21	81	6	61	40	0	1	57	1.10
1954441--1954907	182	2.6	180	87	3	638	42	14	16	26	1.86
1957101--1957165	21	3.1	21	90	0	94	41	9	30	18	1.82
1957199--1957263	33	2.0	33	90	3	105	29	0	47	23	1.52
1958942--1958990	19	2.6	19	96	0	89	32	2	10	55	1.45
1959224--1960785	598	2.6	600	94	0	2752	35	14	18	31	1.91
1959224--1960785	200	7.8	200	95	0	2732	35	14	18	31	1.91
1963544--1963942	182	2.2	183	96	1	743	34	14	16	34	1.90
1963819--1964062	117	2.1	120	93	3	424	32	13	15	37	1.88
1965138--1965164	13	2.1	13	100	0	54	14	33	7	44	1.73
1966974--1967046	23	3.2	23	92	0	119	34	5	21	38	1.77
1967461--1967533	23	3.2	23	92	0	119	34	5	21	38	1.77
1966787--1968420	489	3.4	488	96	1	2915	41	7	11	39	1.69
1967958--1968022	23	2.8	23	92	0	112	33	6	21	38	1.78
1971981--1972022	22	1.9	22	85	9	59	52	0	7	40	1.29
1972887--1972916	13	2.3	13	100	0	60	16	46	23	13	1.82
1975393--1975457	24	2.7	24	85	0	85	24	20	21	33	1.97
1975669--1975737	2	34.5	2	100	0	138	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1980105--1980195	24	3.8	24	83	0	110	25	18	20	35	1.96
1980104--1980195	48	1.9	48	88	0	139	26	18	20	34	1.96
1985856--1985880	2	12.5	2	100	0	50	48	0	0	52	1.00
1986882--1986957	31	2.4	31	80	2	89	27	31	26	14	1.95
1986834--1986957	63	2.0	63	82	9	155	26	29	27	16	1.97
1987827--1987869	7	6.4	7	89	10	72	23	30	30	16	1.96
1987831--1987869	13	3.0	13	100	0	78	23	30	30	15	1.95
1987827--1987869	20	2.2	20	91	8	70	23	30	30	16	1.96
1987859--1987899	17	2.4	17	95	0	73	17	24	41	17	1.89
1987893--1987960	19	3.5	20	88	6	95	27	30	25	16	1.96
1987895--1987960	9	6.8	10	76	11	66	28	31	22	16	1.96
1990317--1992017	849	2.0	849	100	0	3402	25	26	18	29	1.98
1994491--1994568	33	2.2	36	77	17	99	23	10	6	60	1.52
1994502--1994568	33	2.0	33	94	0	116	22	10	7	59	1.55
2003826--2003927	20	5.1	20	78	0	96	39	20	17	22	1.93
2003800--2003927	40	3.2	40	86	3	168	38	21	17	23	1.93
2004174--2004209	14	2.6	14	95	0	63	33	0	22	44	1.53
2004316--2004366	14	3.1	17	72	21	54	45	17	23	13	1.84
2004357--2004381	13	1.9	13	100	0	50	56	12	24	8	1.62
2004406--2004478	19	4.1	19	69	18	57	12	17	19	50	1.77
2004417--2004565	33	4.3	33	77	11	154	14	20	20	43	1.87
2004454--2004511	20	2.9	19	80	7	62	17	22	22	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2004420--2004552	19	7.4	19	71	19	97	15	20	20	44	1.87
2004728--2004774	20	2.4	20	85	3	60	21	19	19	40	1.92
2004769--2004813	20	2.3	19	81	11	54	35	17	28	17	1.93
2005213--2005237	13	1.9	13	100	0	50	40	0	4	56	1.18
2008174--2008256	29	2.8	29	92	1	139	43	9	14	32	1.78
2017287--2017324	2	19.0	2	100	0	76	50	0	0	50	1.00
2017754--2017792	2	20.0	2	94	5	71	51	0	0	48	1.00
2018977--2019090	21	5.4	21	74	15	119	19	19	27	34	1.96
2018939--2019115	42	4.3	42	94	1	295	20	18	23	37	1.94
2018948--2019107	21	7.6	21	69	18	102	20	18	23	37	1.94

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