genome.fa.s8228.2.7.7.80.10.50.1000.11.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: VEPZ01008228.1 Hibiscus syriacus cultivar Beakdansim tig00110864_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3739947

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

This is table  11  of  20  ( 2363 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)
1784834--1785065	120	2.0	118	83	5	299	45	8	8	37	1.65
1785144--1785170	3	9.0	3	100	0	54	66	0	0	33	0.92
1786579--1786659	3	26.7	3	83	12	103	65	0	0	34	0.93
1786594--1786659	21	3.1	21	93	2	114	68	0	0	31	0.90
1798320--1798356	18	2.1	18	100	0	74	43	5	16	35	1.71
1805808--1805855	22	2.2	22	84	0	60	52	22	4	20	1.64
1806098--1806153	21	2.5	22	78	13	62	62	7	21	8	1.48
1812214--1812245	16	2.0	16	100	0	64	43	37	0	18	1.51
1814590--1814658	24	2.9	23	76	6	75	60	13	10	15	1.58
1814586--1814682	23	4.1	23	76	4	86	61	12	10	15	1.56
1814867--1814933	14	5.1	14	74	20	72	64	14	8	11	1.50
1814882--1814935	24	2.2	24	87	6	74	62	14	9	12	1.53
1854442--1854620	90	2.0	90	94	0	313	36	11	6	45	1.66
1856869--1856914	24	1.9	24	90	0	74	43	13	13	30	1.81
1868663--1868968	153	2.0	153	96	0	558	28	19	7	43	1.78
1870770--1870926	65	2.4	64	82	5	174	32	24	17	26	1.96
1879375--1879573	65	3.1	64	80	11	210	31	24	18	25	1.97
1886521--1886574	22	2.7	19	81	13	65	24	18	29	27	1.98
1886946--1887100	79	2.0	79	84	2	204	32	10	26	30	1.91
1887072--1887192	45	2.7	45	89	0	179	38	8	22	31	1.84
1888734--1888774	2	20.5	2	100	0	82	51	0	0	48	1.00
1891447--1891601	79	2.0	79	86	0	220	34	10	23	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1891536--1891815	45	6.2	45	82	7	282	38	9	21	30	1.85
1891576--1891832	135	1.9	135	84	6	340	40	8	19	31	1.82
1900264--1900523	36	7.2	36	92	3	359	18	28	22	30	1.97
1900266--1900523	108	2.4	107	90	1	401	18	28	22	30	1.97
1905626--1905660	17	2.1	17	94	0	61	25	17	11	45	1.81
1910919--1910952	16	2.1	16	94	0	59	32	20	5	41	1.76
1919333--1919403	2	35.5	2	100	0	142	50	0	0	49	1.00
1921014--1921117	5	20.8	5	100	0	208	39	0	0	60	0.97
1924067--1924109	3	14.3	3	80	9	52	62	0	0	37	0.95
1925270--1925689	143	3.0	141	81	5	458	40	5	6	47	1.53
1926381--1926412	2	16.0	2	100	0	64	50	0	0	50	1.00
1928216--1928316	50	2.0	50	98	0	193	29	16	11	41	1.84
1930475--1930523	22	2.3	21	80	13	55	44	2	2	51	1.24
1934760--1934792	17	1.9	17	93	0	57	45	6	9	39	1.61
1934799--1934849	18	2.8	18	91	5	77	43	11	13	31	1.80
1936447--1936496	23	2.2	23	92	0	82	40	10	10	40	1.72
1936453--1936504	23	2.2	23	82	3	59	46	13	7	32	1.72
1940327--1940370	22	2.1	22	83	8	56	61	2	6	29	1.34
1947749--1947783	16	2.2	16	89	0	52	48	0	2	48	1.16
1949417--1949921	172	2.9	170	81	4	620	34	18	16	30	1.93
1949966--1950029	8	8.0	8	74	6	58	35	31	1	31	1.67
1962124--1962172	2	24.5	2	95	0	89	0	0	46	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1962253--1962364	39	2.9	38	77	16	104	50	19	1	28	1.58
1962250--1962395	19	7.6	19	70	9	75	47	23	1	27	1.60
1962431--1962466	14	2.5	15	86	9	56	58	30	0	11	1.33
1968126--1968448	46	7.0	46	86	0	396	23	21	12	42	1.87
1971646--1971704	22	2.7	21	76	10	57	23	28	23	23	1.99
1973809--1973924	24	4.8	24	92	0	187	26	17	18	37	1.93
1975997--1976038	10	4.1	10	84	12	50	21	33	21	23	1.97
1978184--1978269	24	3.6	24	83	0	109	26	11	22	39	1.88
1982343--1982710	46	8.0	46	85	1	470	22	20	14	42	1.88
1986277--1986318	18	2.3	18	87	0	57	40	2	0	57	1.12
1986741--1986821	31	2.6	30	81	13	76	71	0	3	24	1.02
1986756--1986846	14	6.4	14	70	12	60	71	0	4	24	1.04
1986756--1986846	43	2.1	42	80	11	96	71	0	4	24	1.04
1988327--1988428	36	2.8	36	96	1	186	44	9	4	41	1.59
1989095--1989460	167	2.2	166	86	6	499	27	17	21	33	1.96
1989095--1989460	83	4.4	83	86	5	479	27	17	21	33	1.96
1995130--1995166	19	1.9	19	89	10	58	70	0	0	29	0.88
1995175--1995217	13	3.4	13	84	9	54	83	0	4	11	0.78
1995142--1995198	21	2.7	20	76	10	60	75	0	3	21	0.95
1997914--1997949	11	3.3	11	84	0	54	86	5	0	8	0.72
1997915--1997954	18	2.2	18	86	0	53	85	7	0	7	0.76
1997917--1997953	12	3.2	12	81	11	51	83	8	0	8	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1998197--1998255	26	2.3	26	93	0	100	42	8	30	18	1.80
1998305--1998333	14	2.0	15	93	6	51	10	0	27	62	1.28
2004395--2004708	36	8.8	36	81	10	369	43	7	4	44	1.53
2004395--2004656	111	2.4	110	92	2	436	43	7	4	43	1.54
2004395--2004708	75	4.4	74	82	8	352	43	7	4	44	1.53
2004622--2004682	26	2.4	26	94	2	106	44	9	4	40	1.59
2004588--2004720	62	2.2	61	89	6	198	42	9	3	44	1.54
2006301--2006383	26	3.2	26	72	16	80	45	0	3	50	1.19
2007010--2007556	223	2.4	223	88	0	799	45	14	14	25	1.82
2007010--2007583	111	5.1	112	88	1	794	45	13	14	26	1.83
2007454--2008636	182	6.5	182	94	0	1976	41	12	16	28	1.85
2007454--2008636	545	2.2	546	92	0	1994	41	12	16	28	1.85
2009015--2009071	23	2.4	23	79	2	60	42	14	7	36	1.72
2011825--2011861	12	3.0	12	84	7	56	40	5	8	45	1.56
2013214--2013252	2	20.0	2	89	5	62	46	0	0	53	1.00
2014432--2014470	2	19.5	2	89	0	60	43	0	0	56	0.99
2014666--2014705	2	20.0	2	94	0	71	2	50	0	47	1.14
2014705--2014745	2	20.5	2	100	0	82	48	0	0	51	1.00
2014943--2014993	12	4.2	12	76	16	52	9	35	0	54	1.33
2014934--2014992	23	2.7	21	75	17	57	10	35	0	54	1.34
2016702--2016779	32	2.4	32	82	4	104	35	15	17	30	1.91
2024531--2024611	23	3.5	23	84	3	92	20	25	24	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2024555--2024611	23	2.5	23	97	0	105	22	24	26	26	2.00
2030500--2030554	20	2.8	20	94	0	83	30	18	25	25	1.98
2031251--2031313	23	2.7	23	75	4	56	23	22	22	31	1.98
2033913--2033948	17	2.1	17	89	0	54	63	0	0	36	0.94
2034986--2035064	42	2.0	39	83	11	99	51	0	3	44	1.19
2036512--2036549	2	19.0	2	100	0	76	50	0	0	50	1.00
2037820--2037857	20	2.0	19	90	10	60	55	7	0	36	1.29
2038499--2038555	26	2.2	26	87	6	80	10	7	5	77	1.12
2039108--2039160	26	2.0	27	85	10	74	71	7	1	18	1.19
2044566--2044616	12	4.2	12	76	14	52	66	0	3	29	1.09
2045201--2045233	13	2.5	13	95	0	57	75	0	15	9	1.03
2045392--2045437	19	2.5	19	83	13	60	58	8	0	32	1.28
2045693--2045731	16	2.4	17	86	4	53	69	0	2	28	1.02
2047357--2047530	60	2.9	60	76	4	172	40	6	20	32	1.78
2049746--2049814	30	2.3	30	80	5	86	52	7	2	37	1.44
2050737--2050793	14	4.1	14	100	0	114	21	21	14	43	1.87
2055059--2055978	84	10.9	84	79	4	852	31	23	19	25	1.98
2055059--2055978	168	5.5	168	84	4	1086	31	23	19	25	1.98
2055059--2055978	340	2.7	336	84	4	1111	31	23	19	25	1.98
2056421--2056455	16	2.1	17	89	10	54	62	11	20	5	1.48
2056555--2056757	38	5.3	37	80	11	198	42	3	8	44	1.52
2056569--2056742	74	2.3	76	86	8	232	43	4	8	44	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2056689--2056796	53	2.0	52	87	8	155	42	3	7	46	1.49
2056781--2056858	28	2.8	28	86	5	95	50	1	3	44	1.28
2056910--2056954	3	14.7	3	82	13	56	26	4	0	68	1.08
2056910--2056943	10	3.5	10	96	4	61	29	5	0	64	1.17
2058181--2058229	3	16.7	3	95	4	91	30	0	0	69	0.89
2058973--2059033	28	2.2	27	91	2	95	47	0	8	44	1.33
2059040--2059075	2	18.5	2	94	5	65	52	0	0	47	1.00
2059071--2059112	20	2.2	20	86	4	59	54	0	7	38	1.28
2059195--2059272	3	26.0	3	100	0	156	33	0	0	66	0.92
2067738--2068166	38	10.8	38	83	9	509	24	17	17	39	1.91

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