genome.fa.s8150.2.7.7.80.10.50.1000.9.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: VEPZ01008150.1 Hibiscus syriacus cultivar Beakdansim tig00110716_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3012591

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  9  of  14  ( 1639 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)
1817770--1817825	21	2.8	20	88	2	76	23	23	25	28	1.99
1818199--1818268	34	2.1	32	84	5	86	31	15	28	24	1.96
1818790--1819260	111	4.2	111	87	1	620	32	11	11	45	1.76
1818781--1819261	224	2.2	223	86	2	655	32	11	11	45	1.76
1819507--1819567	23	2.7	23	85	10	88	32	18	6	42	1.76
1819604--1819656	23	2.3	23	96	0	97	35	16	7	39	1.78
1819518--1819748	110	2.1	110	90	1	356	33	13	9	42	1.78
1819618--1819783	87	1.9	86	85	7	228	33	12	10	42	1.78
1823187--1823221	16	2.2	16	90	10	54	62	0	0	37	0.95
1824030--1824078	25	1.9	26	91	4	82	20	0	20	59	1.38
1824034--1824125	28	3.4	28	80	15	88	20	1	23	54	1.51
1826033--1826094	30	2.1	30	100	0	124	12	9	32	45	1.75
1829033--1829293	115	2.3	115	87	5	357	24	19	14	40	1.90
1829336--1829736	115	3.4	117	82	6	440	28	18	14	39	1.90
1830671--1830736	6	11.2	6	78	15	59	0	16	0	83	0.65
1846733--1846762	15	2.0	15	100	0	60	33	6	26	33	1.83
1852501--1852689	60	3.2	60	78	4	202	31	23	5	40	1.77
1858059--1858095	19	1.9	19	88	0	56	32	27	16	24	1.96
1858160--1858207	21	2.4	20	86	6	62	29	20	22	27	1.99
1858199--1858343	21	6.9	21	92	0	245	20	26	22	31	1.98
1859054--1859134	21	3.9	21	90	0	126	33	22	23	20	1.97
1859124--1859170	21	2.2	21	96	0	85	27	27	21	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1859062--1859155	42	2.2	42	83	7	120	31	24	23	20	1.98
1859221--1859266	19	2.4	19	85	3	56	21	17	30	30	1.96
1859232--1859268	19	1.9	19	94	0	65	21	16	29	32	1.95
1859552--1859857	156	2.0	155	94	1	533	39	8	21	30	1.84
1861599--1861638	18	2.2	19	90	4	64	37	0	0	62	0.95
1869010--1869082	28	2.5	31	71	8	80	27	8	2	61	1.38
1872271--1872315	21	2.1	22	88	12	67	80	4	0	15	0.87
1872371--1872439	2	34.5	2	100	0	138	50	0	0	49	1.00
1872462--1872524	32	2.1	30	82	8	74	71	1	11	15	1.22
1875522--1875564	22	2.0	22	90	4	70	9	11	0	79	0.95
1885365--1885433	15	4.8	13	73	18	57	81	4	5	8	0.99
1885386--1885420	18	1.9	18	94	0	61	82	8	2	5	0.91
1885367--1885433	19	3.5	18	76	10	62	82	4	4	8	0.95
1885414--1885586	92	1.9	91	80	7	206	62	5	7	24	1.44
1889982--1890073	27	3.6	25	78	10	96	47	21	7	22	1.76
1898053--1898110	27	2.2	25	76	8	62	62	0	3	34	1.12
1900335--1900365	3	10.7	3	93	6	55	67	0	0	32	0.91
1907140--1907277	64	2.2	64	84	5	172	31	16	21	30	1.96
1907645--1907687	21	2.0	21	82	8	52	18	0	32	48	1.48
1908245--1908282	2	19.0	2	100	0	76	50	0	0	50	1.00
1909279--1909440	2	82.0	2	69	18	99	45	4	1	47	1.35
1909648--1909726	20	3.7	20	73	23	79	26	31	0	41	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1909804--1909876	2	36.0	2	83	8	94	46	2	2	47	1.31
1910311--1910344	17	2.0	17	88	0	50	41	2	8	47	1.50
1910322--1910366	13	3.5	13	87	0	63	40	4	8	46	1.55
1910376--1910434	18	3.3	18	84	11	68	47	1	5	45	1.34
1924672--1924713	17	2.5	17	92	0	75	30	9	35	23	1.87
1925579--1925620	22	1.9	22	95	0	75	11	23	40	23	1.88
1928232--1928312	21	3.8	21	77	9	67	18	24	32	24	1.97
1928254--1928314	20	2.9	20	82	7	68	19	26	29	24	1.99
1931378--1931408	13	2.4	13	94	0	53	48	25	9	16	1.76
1932370--1932407	3	12.7	3	83	10	51	39	0	0	60	0.97
1932368--1932407	21	1.9	21	94	0	71	40	0	0	60	0.97
1932373--1932420	9	5.7	9	77	20	50	43	0	0	56	0.99
1934053--1934089	18	2.1	19	85	10	51	45	0	0	54	1.00
1934926--1934996	30	2.6	26	79	14	81	33	4	0	61	1.15
1934994--1935032	15	2.7	15	92	7	64	20	5	2	71	1.17
1935456--1935487	16	1.9	17	93	6	57	3	0	6	90	0.53
1937098--1937167	26	2.6	27	73	10	72	15	12	10	61	1.56
1939856--1939921	10	7.7	9	73	26	63	78	1	19	0	0.82
1939857--1939921	8	7.8	8	77	19	62	78	1	20	0	0.83
1939858--1939921	16	3.8	17	87	10	87	78	1	20	0	0.84
1939871--1939921	15	3.2	15	88	8	66	78	0	21	0	0.75
1939887--1939920	7	4.7	7	85	7	50	79	0	20	0	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1940376--1940437	32	1.9	32	96	0	115	43	17	19	19	1.88
1944919--1945599	45	15.0	45	92	2	1042	24	21	19	33	1.97
1944919--1945599	136	5.0	137	91	1	1075	24	21	19	33	1.97
1945807--1945844	3	12.7	3	83	10	51	39	0	0	60	0.97
1945805--1945844	21	1.9	21	94	0	71	40	0	0	60	0.97
1945810--1945857	9	5.7	9	77	20	50	43	0	0	56	0.99
1957317--1957597	54	5.2	53	80	7	262	25	18	18	36	1.94
1957317--1957597	108	2.6	107	86	1	364	25	18	18	36	1.94
1960062--1960227	90	1.9	89	96	1	305	46	5	11	36	1.63
1966800--1966965	90	1.9	89	96	1	305	46	4	12	36	1.62
1972478--1972822	54	6.4	54	87	5	437	26	18	19	35	1.95
1975389--1975438	19	2.6	19	87	0	73	46	0	2	52	1.12
1975926--1975960	2	17.5	2	100	0	70	0	0	48	51	1.00
1985592--1985656	28	2.3	29	97	2	123	20	15	40	24	1.91
1988893--1988930	19	2.0	19	94	0	67	23	15	34	26	1.95
1988971--1989016	20	2.4	19	82	13	51	50	0	0	50	1.00
1994837--1994886	26	1.9	26	87	0	73	34	6	24	36	1.80
1995210--1995256	22	2.1	22	100	0	94	40	4	8	46	1.54
2002590--2002735	43	3.4	42	83	5	168	28	13	21	36	1.91
2002886--2002966	41	2.0	41	92	0	135	48	7	7	37	1.59
2003144--2003187	12	3.9	12	77	17	58	2	43	9	45	1.48
2003420--2003467	13	3.7	13	91	0	78	27	18	18	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2003446--2003606	85	1.9	84	91	2	261	30	20	17	31	1.96
2008858--2008916	28	2.1	28	93	0	100	22	15	8	54	1.68
2017251--2017425	90	2.0	89	94	1	305	45	6	10	37	1.65
2027528--2027576	26	1.9	26	87	4	73	28	16	22	32	1.95
2035827--2035868	11	3.9	11	84	12	52	80	0	16	2	0.81
2036663--2036714	27	2.0	27	84	3	70	28	17	25	28	1.97
2040334--2040377	17	2.4	18	85	7	54	45	0	2	52	1.13
2042062--2042253	39	4.9	39	88	1	251	33	25	25	16	1.95
2047962--2048075	39	2.9	39	81	0	129	37	19	25	17	1.93
2050239--2050312	20	3.7	19	76	7	67	25	20	21	32	1.97
2056268--2056299	3	10.7	3	93	0	55	68	3	0	28	1.04
2058642--2058685	15	2.9	15	77	16	54	27	0	2	70	0.99
2061757--2061808	15	3.2	17	72	22	58	36	21	0	42	1.53
2063600--2063642	19	2.3	19	84	8	52	34	0	4	60	1.17
2063867--2063907	4	10.2	4	83	0	55	24	0	2	73	0.96
2064248--2064283	2	18.5	2	94	5	65	50	0	0	50	1.00
2064343--2064413	30	2.4	30	95	0	124	21	32	11	35	1.89
2065392--2065506	60	1.9	60	80	3	133	40	13	8	36	1.76
2066758--2066874	59	2.0	59	93	3	200	33	23	17	26	1.96
2072903--2072938	16	2.2	17	90	5	56	36	2	19	41	1.66
2077772--2077807	16	2.2	17	95	5	65	33	5	19	41	1.75
2082221--2082450	43	5.4	43	94	1	381	16	27	24	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2082585--2083494	454	2.0	455	97	0	1734	30	14	16	38	1.89
2088189--2088417	43	5.3	43	91	0	377	17	30	22	29	1.96
2095031--2095075	22	2.0	22	100	0	90	24	31	13	31	1.93
2097048--2097077	2	15.0	2	100	0	60	50	0	0	50	1.00
2097239--2097298	29	2.1	29	90	0	93	38	23	1	36	1.65
2097338--2097389	27	1.9	27	88	0	77	51	7	1	38	1.42
2100409--2100436	2	14.0	2	100	0	56	50	0	0	50	1.00
2100773--2101491	53	13.5	53	90	3	1009	24	25	18	31	1.97
2100773--2101491	107	6.8	106	91	2	1092	24	25	18	31	1.97
2100773--2101491	160	4.5	159	90	2	1090	24	25	18	31	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14