genome.fa.s8488.2.7.7.80.10.50.1000.8.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   

This is table  8  of  54  ( 6450 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)
1883627--1883678	22	2.4	21	84	9	68	21	28	34	15	1.94
1885284--1885331	20	2.3	20	82	10	53	33	14	29	22	1.94
1887467--1887539	24	3.0	24	85	0	101	49	17	12	20	1.79
1887501--1887540	12	3.3	12	78	0	53	47	20	17	15	1.83
1887470--1887577	24	4.5	24	73	11	96	47	16	14	21	1.83
1889999--1890041	7	6.1	7	80	20	54	25	25	34	13	1.93
1889989--1890033	7	5.6	8	84	15	58	26	24	33	15	1.95
1889989--1890041	15	3.5	15	90	10	74	26	24	33	15	1.95
1890021--1890086	31	2.1	31	83	5	80	18	22	42	16	1.89
1893770--1893896	36	3.6	36	78	5	150	27	18	15	37	1.92
1911811--1911848	12	2.8	13	85	14	51	52	7	0	39	1.31
1915134--1915171	16	2.4	16	100	0	76	13	50	10	26	1.73
1915992--1916025	17	2.0	17	94	0	59	32	5	17	44	1.73
1916025--1916067	23	1.9	22	86	13	61	39	20	16	23	1.92
1920082--1920152	27	2.6	28	82	6	76	19	9	21	49	1.77
1924286--1924327	21	2.0	21	100	0	84	28	9	19	42	1.82
1924685--1924819	45	3.0	45	86	1	180	30	14	8	46	1.74
1924828--1924871	17	2.6	17	85	7	63	29	13	11	45	1.79
1925061--1925189	68	1.9	67	84	6	170	35	17	13	33	1.89
1928212--1928267	20	2.8	20	83	0	76	19	17	30	32	1.95
1932196--1932707	252	2.0	256	96	2	960	33	12	13	40	1.82
1935112--1935200	39	2.3	39	88	0	124	29	21	30	19	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1935842--1935887	18	2.6	18	89	0	65	30	26	26	17	1.97
1940067--1940143	38	2.0	38	82	2	91	24	16	28	29	1.97
1944159--1944321	65	2.5	64	84	3	220	26	15	26	30	1.96
1944269--1944319	19	2.7	19	85	8	70	25	15	35	23	1.94
1944163--1944370	65	3.2	65	81	12	207	26	16	25	30	1.97
1948158--1948238	38	2.1	39	86	2	110	27	18	25	28	1.98
1948588--1948618	2	15.5	2	100	0	62	48	0	0	51	1.00
1952583--1952649	30	2.2	30	86	0	89	28	23	35	11	1.91
1954177--1954258	43	1.9	43	94	0	146	45	21	8	24	1.80
1962158--1962230	32	2.3	32	85	4	112	27	9	27	35	1.88
1963619--1963677	27	2.2	26	79	8	64	38	28	8	23	1.84
1966173--1966230	19	3.1	19	94	0	107	62	8	10	18	1.53
1967199--1967403	59	3.5	59	87	0	266	31	16	25	26	1.96
1967913--1968267	36	9.5	36	67	8	145	40	11	16	31	1.85
1967913--1968267	76	4.7	75	85	1	460	40	11	16	31	1.85
1967889--1968267	150	2.5	150	85	3	476	40	11	16	31	1.84
1968116--1968233	39	3.1	38	63	9	87	34	12	21	31	1.91
1974336--1974382	24	2.0	24	95	0	85	2	31	44	21	1.64
1974339--1974400	24	2.6	24	86	0	79	3	29	45	22	1.68
1982674--1982711	11	3.4	11	88	3	58	81	2	15	0	0.80
1984200--1984351	58	2.7	58	92	2	254	36	12	17	33	1.88
1984512--1984896	81	4.8	81	86	3	521	34	10	23	31	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1984512--1984880	157	2.3	157	87	3	533	34	10	23	30	1.89
1984844--1984956	56	2.0	56	96	0	208	24	13	29	32	1.93
1984687--1985114	217	2.0	213	89	3	662	32	12	24	30	1.92
1984609--1985194	298	2.0	294	89	3	890	32	11	24	31	1.91
1984525--1985279	379	2.0	375	88	2	1120	33	11	24	30	1.91
1984900--1985445	81	6.8	80	86	2	734	33	11	23	30	1.91
1985495--1985615	51	2.5	51	90	5	187	40	8	19	31	1.81
1988054--1988091	2	19.0	2	94	0	67	50	0	2	47	1.15
1988598--1988902	152	2.0	152	100	0	610	42	7	19	30	1.79
1989464--1989607	57	2.5	57	88	4	227	36	12	15	34	1.86
1989767--1990407	81	7.9	80	84	3	770	35	10	22	31	1.88
1989767--1990869	162	6.9	162	86	3	1509	34	10	23	31	1.89
1989767--1990870	243	4.6	243	87	4	1544	34	10	23	31	1.89
1990336--1990473	67	2.1	67	94	0	240	32	10	25	31	1.90
1990403--1990870	81	5.8	81	90	1	672	34	10	22	32	1.89
1992634--1992691	29	2.0	29	89	0	89	46	34	5	13	1.66
1992629--1992694	29	2.3	28	82	5	87	45	33	7	13	1.72
1995654--1995687	16	2.2	15	89	5	50	47	2	5	44	1.42
1996601--1998141	790	2.0	775	93	2	2618	25	10	24	40	1.86
1998234--1998307	33	2.2	34	81	11	82	33	8	13	44	1.73
1999752--1999783	15	2.1	15	94	0	55	6	18	9	65	1.42
2007055--2007606	54	10.2	53	85	3	608	27	17	20	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2007659--2008196	269	2.0	269	98	0	1033	30	22	10	36	1.88
2009182--2009396	107	2.0	107	100	0	430	28	12	18	40	1.87
2010228--2010375	68	2.2	68	98	1	287	37	10	19	32	1.85
2012406--2012700	81	3.6	80	80	9	323	24	20	20	34	1.96
2012441--2012700	40	6.4	41	88	2	391	23	21	20	35	1.96
2016236--2016375	40	3.5	40	76	2	122	35	23	12	28	1.91
2017358--2017443	40	2.2	38	81	6	102	31	10	19	38	1.86
2017955--2018092	43	3.2	42	83	2	168	22	18	20	39	1.93
2018229--2018260	15	2.1	15	94	0	55	43	0	0	56	0.99
2018273--2018311	2	20.0	2	94	5	71	51	0	0	48	1.00
2023101--2023166	24	2.8	24	83	4	80	39	18	16	25	1.91
2023108--2023181	24	3.1	24	90	0	112	40	20	14	24	1.90
2026017--2026056	20	2.0	20	100	0	80	45	15	15	25	1.84
2029081--2029121	22	2.0	21	85	9	57	34	24	19	21	1.97
2029187--2029249	27	2.3	28	91	5	103	44	15	11	28	1.81
2029302--2029341	16	2.6	16	88	4	55	30	15	12	42	1.83
2035759--2035789	3	10.7	3	93	6	55	0	32	0	67	0.91
2036320--2036476	64	2.5	63	77	3	170	34	20	17	27	1.95
2037819--2037958	22	6.6	22	90	4	218	15	26	30	27	1.95
2039867--2039937	22	3.2	22	95	0	133	22	29	23	23	1.99
2045840--2045889	18	2.8	18	81	6	57	64	2	0	34	1.05
2046952--2046989	16	2.4	16	86	4	51	5	23	44	26	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2047879--2047982	20	5.1	20	95	2	163	38	23	16	22	1.93
2054504--2054654	75	2.0	75	100	0	302	40	7	5	46	1.56
2054537--2054657	41	3.1	41	64	20	114	41	8	4	45	1.56
2057489--2057538	25	2.0	25	84	7	66	28	6	12	54	1.60
2058641--2058689	15	3.1	17	74	14	50	53	2	0	44	1.12
2061736--2061782	2	23.5	2	100	0	94	48	0	0	51	1.00
2067941--2068019	32	2.5	32	82	0	104	22	26	25	25	2.00
2069223--2069435	81	2.6	81	86	2	277	27	26	12	33	1.92
2069485--2069532	19	2.5	19	89	0	69	35	25	18	20	1.95
2069417--2069600	87	2.1	87	91	2	298	32	24	16	27	1.96
2069504--2069677	68	2.6	68	93	0	285	29	25	14	29	1.95
2071627--2071667	21	2.0	21	95	0	73	19	31	7	41	1.79
2075605--2075786	68	2.7	68	90	1	276	28	25	15	30	1.96
2076010--2076147	55	2.5	55	90	2	206	31	17	14	36	1.90
2076499--2076550	19	2.5	21	84	9	63	26	21	19	32	1.97
2078172--2078206	16	2.2	16	94	0	61	40	31	8	20	1.82
2080148--2080182	2	17.5	2	100	0	70	48	0	0	51	1.00
2080512--2080715	81	2.5	79	88	4	291	28	25	12	33	1.92
2080675--2081198	68	7.7	68	89	1	773	29	23	14	32	1.95
2081412--2081563	55	2.8	54	85	6	198	34	18	13	34	1.89
2081922--2081973	22	2.5	21	84	9	63	28	19	19	32	1.96
2084282--2084333	21	2.5	21	82	14	63	69	3	0	26	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2085031--2085594	111	5.1	110	87	4	784	46	13	13	25	1.80
2085466--2085920	182	2.5	182	90	1	689	43	12	15	28	1.83
2087409--2087449	2	20.5	2	100	0	82	51	0	0	48	1.00
2092654--2093027	189	2.0	190	95	0	669	40	16	17	25	1.90
2116588--2116642	28	2.0	27	82	3	65	34	14	1	49	1.54
2122991--2123044	15	3.7	15	87	9	85	40	1	0	57	1.09
2122991--2123048	28	2.1	28	96	0	107	41	1	0	56	1.09
2123624--2124220	300	2.0	297	96	2	1110	36	15	13	34	1.87
2126010--2126043	16	2.1	17	88	5	52	58	0	2	38	1.13
2126006--2126047	17	2.4	18	84	11	61	57	0	2	40	1.12

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54