genome.fa.s8128.2.7.7.80.10.50.1000.8.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: VEPZ01008128.1 Hibiscus syriacus cultivar Beakdansim tig00110683_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4987688

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  8  of  20  ( 2387 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)
1828332--1828368	18	2.1	17	90	5	56	72	0	8	18	1.08
1830906--1830981	33	2.3	34	90	2	118	32	10	30	26	1.90
1831403--1831661	55	4.8	55	85	4	332	39	11	18	30	1.87
1831403--1831666	110	2.4	108	88	3	381	39	12	18	30	1.87
1837662--1838036	55	6.9	55	83	3	402	36	12	18	32	1.89
1837686--1838036	108	3.2	106	81	5	409	35	12	18	32	1.89
1851123--1852982	923	2.0	932	95	2	3328	28	15	23	32	1.95
1856623--1856795	86	2.0	86	89	3	267	24	14	17	43	1.86
1859535--1859624	44	2.0	46	82	10	114	15	36	4	43	1.67
1859971--1860287	131	2.4	133	84	5	414	23	7	17	51	1.70
1861155--1861302	56	2.5	60	88	5	214	52	19	6	21	1.67
1861750--1861810	19	3.2	19	90	0	95	60	9	1	27	1.38
1864905--1864929	13	1.9	13	100	0	50	32	0	8	60	1.26
1865585--1865674	43	2.1	43	85	4	119	33	17	8	40	1.81
1865905--1865946	16	2.6	16	92	3	66	26	0	2	71	0.98
1867576--1867704	38	3.4	38	73	9	118	44	10	17	27	1.81
1867537--1867716	76	2.4	75	81	5	209	44	8	16	30	1.78
1891343--1891426	41	2.0	41	90	0	132	21	28	10	39	1.87
1891709--1891750	21	2.0	21	85	0	57	7	35	11	45	1.69
1894339--1894520	29	6.5	29	82	5	196	48	14	1	36	1.51
1901562--1901765	29	7.3	28	75	11	143	43	17	1	37	1.60
1901562--1901764	57	3.6	56	74	13	159	43	16	1	37	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1902747--1902834	22	4.0	22	87	0	122	28	22	20	28	1.99
1905835--1905955	15	8.1	15	74	10	95	31	3	41	23	1.71
1905835--1905955	30	4.0	30	73	4	109	31	3	41	23	1.71
1906893--1906957	34	1.9	34	93	0	112	30	13	7	47	1.71
1907147--1907198	18	2.7	19	85	5	70	28	23	13	34	1.92
1909880--1910040	77	2.1	77	86	0	223	27	8	17	45	1.77
1910057--1910136	33	2.4	34	80	4	99	32	1	21	45	1.60
1911969--1912066	21	4.7	21	75	7	83	30	23	21	24	1.99
1919215--1919371	62	2.5	64	79	11	162	31	24	18	25	1.98
1920852--1920910	21	2.8	21	84	0	73	28	27	18	25	1.98
1921602--1921632	15	2.1	15	93	0	53	16	25	25	32	1.96
1927849--1927884	11	3.2	11	88	4	54	61	0	2	36	1.11
1927846--1927887	12	3.6	12	81	18	52	59	0	2	38	1.10
1931199--1931282	37	2.3	37	89	0	132	35	40	11	11	1.79
1936228--1936280	21	2.5	22	82	11	67	32	1	28	37	1.68
1939680--1939732	21	2.5	22	82	11	76	32	3	26	37	1.74
1947499--1947543	23	2.1	22	88	12	67	24	31	24	20	1.98
1950325--1950369	20	2.3	19	88	7	72	22	26	26	24	2.00
1950332--1950382	20	2.5	20	96	0	93	19	33	21	25	1.97
1951622--1951681	27	2.3	27	82	2	68	35	1	3	60	1.23
1952182--1952240	24	2.3	27	80	14	70	44	0	3	52	1.17
1952200--1952263	25	2.7	22	80	11	56	45	1	1	51	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1952488--1952554	8	8.6	8	71	12	50	46	0	2	50	1.16
1952477--1952527	23	2.2	23	89	0	75	45	3	1	49	1.32
1952500--1952560	31	1.9	30	90	10	86	49	0	3	47	1.18
1952489--1952552	23	2.8	23	82	0	65	46	0	3	50	1.17
1954997--1955032	16	2.2	16	95	0	63	63	22	2	11	1.39
1956682--1956731	3	16.7	3	87	0	73	60	0	4	36	1.16
1956970--1957383	118	3.6	117	80	8	417	25	21	14	38	1.92
1957218--1957276	19	3.0	21	69	23	63	20	20	11	47	1.81
1957324--1957712	136	2.9	134	91	3	596	27	22	17	32	1.96
1957764--1957877	42	2.7	41	90	4	174	37	19	19	23	1.94
1961676--1964004	777	3.0	777	96	0	4260	27	19	16	37	1.92
1964708--1964776	27	2.5	29	79	13	92	62	8	11	17	1.53
1967784--1967814	16	1.9	16	93	0	53	61	19	6	12	1.53
1969426--1969469	3	14.7	3	90	0	70	61	0	2	36	1.09
1977604--1977637	14	2.4	14	100	0	68	52	5	17	23	1.66
1981951--1982018	32	2.1	33	86	2	93	39	11	17	30	1.86
1984229--1984263	17	2.1	17	89	5	54	60	2	0	37	1.12
1986304--1986338	13	2.7	13	91	8	54	34	5	14	45	1.68
1986999--1987039	15	2.7	15	100	0	82	53	0	4	41	1.22
1987934--1987974	21	1.9	22	85	5	57	26	21	17	34	1.95
1991034--1991071	20	1.9	20	94	0	67	23	10	34	31	1.89
1997534--1997580	23	2.1	23	84	11	62	55	21	0	23	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1998814--1998861	19	2.5	19	100	0	96	39	12	25	22	1.89
1999232--1999834	54	11.2	54	90	2	874	32	13	17	37	1.88
1999936--2000062	47	2.6	49	90	2	186	29	13	25	31	1.94
2002617--2003200	54	10.8	54	85	0	756	31	21	17	29	1.96
2003179--2003281	54	1.9	54	84	4	136	33	7	21	36	1.82
2003554--2003641	46	1.9	46	90	0	140	45	12	18	23	1.83
2005432--2005512	2	40.5	2	100	0	162	50	0	0	49	1.00
2011314--2011352	8	4.8	8	85	14	53	0	5	10	84	0.76
2014937--2015367	54	8.0	54	86	2	564	33	12	17	36	1.88
2015481--2015608	47	2.7	48	85	4	161	30	12	25	31	1.93
2024060--2024111	21	2.5	21	81	3	61	38	19	25	17	1.93
2024100--2024173	20	3.7	20	98	0	139	31	25	18	24	1.98
2024101--2024234	20	6.7	20	83	5	72	31	25	17	25	1.97
2024791--2024831	19	2.2	19	90	0	64	48	26	17	7	1.73
2024827--2024992	20	9.1	19	71	16	118	12	21	21	43	1.85
2024880--2024967	33	2.6	33	89	1	122	12	23	23	39	1.89
2026987--2027109	42	2.9	42	80	2	122	22	36	17	22	1.95
2027043--2027109	21	3.2	21	66	6	55	23	35	20	19	1.95
2028467--2028502	14	2.6	14	95	0	63	30	0	25	44	1.54
2028609--2028662	20	2.8	19	91	5	90	46	20	20	12	1.83
2028667--2028794	19	7.5	19	63	24	79	14	24	19	42	1.88
2028671--2028794	33	3.8	32	87	8	178	14	24	19	41	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2028664--2028794	66	2.0	66	95	0	235	16	23	19	41	1.90
2029927--2029954	2	14.0	2	100	0	56	50	0	0	50	1.00
2033215--2033274	10	5.3	12	75	22	51	46	0	0	53	1.00
2033244--2033278	2	18.5	2	88	11	56	48	0	0	51	1.00
2034532--2034569	14	2.6	14	84	16	51	26	5	0	68	1.11
2034535--2034585	14	3.8	13	82	12	50	23	9	0	66	1.21
2034560--2034597	20	2.0	20	94	5	69	18	13	0	68	1.21
2034578--2034724	4	34.2	4	71	17	84	21	4	1	72	1.11
2034578--2034700	17	7.1	16	73	16	77	21	5	1	71	1.15
2034737--2034779	22	1.9	23	90	4	70	13	9	0	76	1.01
2034737--2034779	23	1.9	22	86	13	61	13	9	0	76	1.01
2034737--2034807	22	3.2	22	79	15	67	14	14	0	71	1.14
2047330--2047486	75	2.1	76	95	1	280	22	16	18	42	1.89
2048294--2048397	31	3.2	31	70	17	84	38	22	20	19	1.94
2048271--2048397	67	1.9	67	90	0	200	37	22	21	19	1.95
2049285--2049323	20	2.0	20	89	0	60	25	15	12	46	1.81
2056421--2056477	21	2.7	21	88	2	87	24	28	22	24	2.00
2065383--2065449	23	2.9	23	84	0	89	29	25	22	22	1.99
2072516--2072550	14	2.5	14	100	0	70	25	11	22	40	1.88
2082788--2082947	57	2.8	57	83	0	196	31	21	16	30	1.96
2105652--2105685	17	2.0	17	94	0	59	47	5	8	38	1.59
2105657--2105717	21	3.0	21	86	13	85	44	8	9	37	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2107860--2107943	42	2.0	42	100	0	168	38	21	16	23	1.93
2109878--2109922	21	2.1	21	87	0	63	17	13	2	66	1.34
2115511--2115555	20	2.3	19	82	14	56	11	4	2	82	0.91
2115509--2115616	11	8.8	11	70	22	56	17	4	1	75	1.05
2115570--2115614	15	2.9	16	81	18	60	15	4	0	80	0.87
2115509--2115614	26	4.0	27	70	15	71	17	4	1	75	1.07
2119390--2119516	42	3.1	39	79	8	121	43	7	9	40	1.64
2121772--2121846	22	3.3	22	65	31	59	34	16	14	34	1.89
2121771--2121862	46	2.0	46	100	0	184	36	17	13	32	1.88
2125605--2125814	39	5.4	39	81	1	197	18	27	21	32	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20