genome.fa.s7845.2.7.7.80.10.50.1000.9.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: VEPZ01007845.1 Hibiscus syriacus cultivar Beakdansim tig00110201_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2731752

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

This is table  9  of  13  ( 1556 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)
1799181--1799308	22	5.8	22	89	3	204	49	11	0	39	1.40
1805042--1805091	27	2.0	25	85	14	68	54	8	34	4	1.49
1806890--1806941	21	2.5	21	93	0	86	17	19	15	48	1.82
1814570--1814617	23	2.1	23	88	0	69	39	12	14	33	1.84
1815084--1815160	23	3.5	22	87	7	111	38	22	5	33	1.76
1815283--1815339	27	2.1	28	81	12	75	42	10	7	40	1.66
1815295--1815349	27	2.0	27	100	0	110	36	10	10	41	1.75
1815600--1815672	23	3.2	23	88	0	110	39	20	5	34	1.76
1816095--1816156	23	2.7	23	92	2	99	35	22	4	37	1.76
1815322--1816401	484	2.2	485	93	1	1891	41	10	6	41	1.67
1816397--1817002	200	3.0	200	95	0	1068	29	17	15	37	1.91
1817106--1817166	19	3.3	18	88	2	59	52	11	1	34	1.47
1817118--1817166	19	2.6	19	96	0	89	55	10	2	32	1.45
1818943--1818995	21	2.5	21	96	0	97	15	32	9	43	1.78
1821387--1821433	20	2.3	20	89	10	78	17	17	10	55	1.69
1821173--1821646	181	2.6	181	90	0	723	26	16	14	42	1.87
1825659--1825695	17	2.2	17	86	13	51	56	0	5	37	1.22
1827232--1827263	2	16.0	2	100	0	64	50	0	0	50	1.00
1827906--1827943	20	1.9	20	88	0	58	55	7	15	21	1.66
1828333--1828373	3	13.3	3	84	5	55	34	2	0	63	1.08
1828332--1828374	22	2.0	22	95	0	77	34	2	0	62	1.08
1828404--1828500	40	2.4	39	81	10	108	37	1	7	54	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1831958--1832032	37	2.0	37	100	0	150	34	13	10	41	1.79
1835583--1835607	2	12.5	2	100	0	50	52	0	0	48	1.00
1840876--1840959	42	2.0	42	100	0	168	23	26	21	28	1.99
1843019--1843090	36	2.0	36	94	5	128	36	15	16	31	1.90
1845085--1845165	36	2.3	36	97	2	155	39	12	14	33	1.84
1846091--1846122	5	6.4	5	96	0	55	34	0	3	62	1.11
1848325--1848362	20	1.9	20	88	0	58	55	7	15	21	1.66
1848807--1848894	40	2.2	39	84	9	108	39	1	7	51	1.39
1849079--1849110	15	2.1	15	94	0	55	59	3	0	37	1.13
1849982--1850205	111	2.0	111	100	0	448	30	33	9	25	1.88
1867795--1867845	2	25.5	2	100	0	102	49	0	0	50	1.00
1868193--1868480	42	6.9	41	92	2	418	20	19	24	35	1.95
1868208--1868480	126	2.2	124	93	2	465	20	19	24	35	1.95
1868588--1868630	21	2.0	21	95	0	77	37	18	20	23	1.94
1868664--1868871	21	10.0	21	77	7	129	36	23	19	21	1.95
1868654--1868875	40	5.4	40	82	6	248	36	23	19	21	1.95
1868721--1868893	61	2.8	60	77	9	206	33	25	19	21	1.97
1868721--1868872	21	7.4	21	79	8	170	32	26	19	20	1.97
1868654--1868893	122	2.0	123	85	4	324	35	22	19	21	1.96
1871175--1871208	3	11.3	3	100	0	68	32	0	0	67	0.91
1871456--1871517	29	2.1	29	100	0	124	51	6	0	41	1.27
1872291--1872440	43	3.5	43	81	1	176	28	19	14	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1878627--1878719	37	2.5	37	85	0	114	41	10	11	35	1.77
1879652--1879708	20	2.9	19	75	14	62	24	7	0	68	1.14
1884002--1884041	15	2.7	15	88	3	64	77	7	15	0	0.98
1884671--1884725	22	2.5	22	93	0	101	36	29	10	23	1.89
1885687--1886750	106	10.0	106	91	0	1633	34	24	18	22	1.96
1887500--1887603	37	2.8	37	88	0	145	40	13	13	32	1.83
1888155--1888239	31	2.6	31	74	22	77	32	4	1	61	1.24
1888185--1888219	17	2.0	18	88	5	54	25	8	0	65	1.21
1888521--1888570	20	2.6	19	73	17	50	20	8	6	66	1.40
1892974--1893016	23	1.9	22	85	4	59	25	4	0	69	1.07
1893114--1893171	2	29.0	2	100	0	116	50	0	0	50	1.00
1896411--1896439	2	14.5	2	100	0	58	51	0	0	48	1.00
1898077--1898109	17	1.9	17	88	11	50	66	0	6	27	1.15
1915336--1915367	16	2.0	16	100	0	64	25	18	25	31	1.98
1916205--1916327	31	3.9	31	76	15	119	29	20	21	29	1.98
1916975--1917195	64	3.5	64	82	7	236	26	19	20	33	1.96
1921478--1921549	30	2.4	30	85	0	99	31	22	20	25	1.98
1921536--1921660	31	4.0	30	78	13	110	30	19	20	30	1.97
1922308--1922528	64	3.5	64	84	7	252	26	19	20	33	1.96
1923720--1923789	36	1.9	36	88	5	106	34	15	20	30	1.93
1926625--1926704	21	3.7	21	81	6	72	23	10	20	46	1.80
1927254--1927279	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)
1927465--1927502	20	1.9	20	94	0	67	26	21	31	21	1.98
1928315--1928380	23	2.9	23	88	0	96	36	19	19	24	1.95
1942691--1942727	16	2.3	16	90	9	58	51	0	18	29	1.47
1942823--1943246	212	2.0	212	98	0	823	31	19	22	27	1.97
1946991--1947050	15	4.3	14	75	19	54	41	0	1	56	1.09
1946970--1947047	29	2.6	30	79	4	86	39	0	2	57	1.12
1946965--1947049	15	5.7	15	68	15	50	38	0	2	58	1.11
1946999--1947060	29	2.1	29	82	5	72	40	0	3	56	1.15
1947189--1947242	17	3.2	17	72	0	54	31	0	3	64	1.11
1952868--1952919	21	2.5	21	81	3	61	38	19	25	17	1.93
1952908--1953021	20	5.7	20	81	6	122	31	24	18	25	1.97
1952905--1953021	61	1.9	61	87	0	171	33	23	17	24	1.97
1953540--1953606	19	3.5	19	85	2	89	47	25	16	10	1.78
1953602--1953772	19	9.1	19	81	10	172	12	21	21	44	1.85
1953602--1953772	39	4.6	38	77	10	172	12	21	21	44	1.85
1953700--1953750	20	2.6	19	87	3	57	17	23	21	37	1.94
1955772--1955892	42	2.9	42	80	2	118	22	37	17	23	1.94
1955828--1955892	21	3.1	21	66	4	51	23	36	20	20	1.95
1957239--1957274	14	2.6	14	95	0	63	30	0	25	44	1.54
1957409--1957446	20	1.9	20	94	0	67	50	18	21	10	1.76
1957452--1957602	19	8.7	19	64	21	80	15	22	20	41	1.89
1957456--1957582	33	3.9	32	87	8	193	14	22	19	42	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1957449--1957581	66	2.0	66	97	0	248	16	22	19	41	1.90
1960060--1960113	24	2.3	23	87	6	81	37	20	16	25	1.93
1961162--1961237	20	3.9	20	87	6	120	35	23	23	17	1.95
1961260--1961331	18	4.5	15	75	20	58	13	19	19	47	1.83
1961256--1961321	18	3.9	18	83	16	88	13	22	18	45	1.84
1963306--1963372	19	3.5	19	83	4	89	37	23	23	14	1.93
1963401--1963458	14	3.9	14	79	16	71	8	17	25	48	1.75
1963398--1963474	32	2.4	33	95	2	138	10	19	24	45	1.81
1963417--1963474	18	3.4	17	73	22	59	12	18	22	46	1.82
1963459--1963513	20	2.8	19	83	8	65	16	23	23	36	1.94
1963991--1964030	18	2.2	18	90	0	62	12	17	45	25	1.83
1965350--1965387	20	1.9	20	88	0	58	50	21	15	13	1.78
1965869--1965962	20	4.7	20	80	2	89	23	18	24	34	1.96
1965849--1965963	20	5.7	20	78	5	88	23	17	23	35	1.95
1965952--1966044	20	4.5	21	78	4	100	17	24	18	39	1.91
1965891--1966025	41	3.3	41	82	4	139	19	21	20	38	1.94
1965952--1966044	41	2.3	41	100	0	186	17	24	18	39	1.91
1973823--1973857	18	1.9	18	88	11	54	54	0	2	42	1.15
1973938--1974450	260	2.0	254	96	3	956	41	7	6	43	1.60
1987478--1987772	146	2.0	146	90	4	463	44	9	11	34	1.73
1997944--1998015	35	2.1	35	89	0	108	41	8	20	29	1.81
1998179--1998225	21	2.2	21	85	7	60	23	6	0	70	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1998189--1998231	21	2.1	20	82	4	50	27	6	0	65	1.18
1998484--1998543	29	2.1	28	84	9	77	13	13	1	71	1.22
2007431--2007855	109	3.9	109	94	0	726	34	26	18	20	1.96
2008308--2008379	35	2.1	35	94	0	126	40	11	20	27	1.87
2008896--2008924	2	14.5	2	100	0	58	48	0	0	51	1.00
2009187--2009234	15	3.4	14	80	11	53	10	10	2	77	1.09
2016394--2016424	2	15.5	2	93	0	53	48	3	0	48	1.17
2019707--2019754	2	24.0	2	100	0	96	50	0	0	50	1.00
2036400--2036476	21	3.5	21	76	10	73	29	3	50	15	1.62
2036483--2036595	48	2.4	48	83	0	145	20	4	60	15	1.52

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