genome.fa.s7984.2.7.7.80.10.50.1000.10.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   55   56   57   58   59   60   61   62   63   64   
          65   

This is table  10  of  65  ( 7696 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)
1794750--1794818	21	3.3	20	80	8	66	20	18	24	36	1.95
1794770--1794818	21	2.3	20	89	6	71	16	20	28	34	1.94
1799968--1800003	17	2.1	17	89	0	54	75	5	11	8	1.19
1802445--1802508	26	2.4	27	87	10	87	53	4	1	40	1.31
1802478--1802534	21	2.5	22	75	10	62	49	7	1	42	1.40
1802565--1802664	22	4.6	21	77	13	87	45	6	1	48	1.34
1802467--1802628	87	1.9	84	83	11	213	48	8	2	40	1.47
1802557--1802668	23	4.8	22	77	13	93	47	6	0	45	1.34
1802632--1802703	2	37.0	2	78	15	62	47	2	0	50	1.15
1802632--1802703	19	3.7	19	76	10	65	47	2	0	50	1.15
1803524--1803549	2	13.0	2	100	0	52	50	0	0	50	1.00
1804017--1804071	23	2.4	23	75	0	56	50	12	21	14	1.76
1804089--1804132	3	14.7	3	100	0	88	34	0	0	65	0.93
1804294--1804865	4	143.0	4	99	0	1135	25	49	0	25	1.50
1807011--1807045	15	2.3	15	90	0	61	17	22	42	17	1.88
1808311--1808346	15	2.4	15	100	0	72	16	0	41	41	1.48
1810607--1810640	12	2.7	13	86	9	52	41	5	8	44	1.60
1812782--1812834	20	2.7	20	100	0	106	26	24	15	33	1.95
1812822--1812877	21	2.6	21	85	5	67	32	16	25	26	1.96
1820114--1820146	2	16.5	2	100	0	66	48	0	0	51	1.00
1821140--1821297	22	7.7	20	70	13	81	44	2	5	46	1.40
1821157--1821214	11	5.5	11	75	17	61	48	0	5	46	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1821136--1821298	42	4.0	40	70	15	118	44	2	6	47	1.41
1821089--1821224	22	6.6	20	73	12	78	46	3	5	44	1.43
1821248--1821329	33	2.6	32	82	5	103	45	3	6	45	1.46
1821284--1821308	11	2.3	11	100	0	50	56	8	0	36	1.29
1821388--1821447	30	2.0	30	90	0	93	48	10	1	40	1.47
1821421--1821506	20	4.1	20	72	21	70	45	9	5	39	1.60
1821396--1821494	13	7.1	13	70	10	63	46	9	4	40	1.54
1821621--1821771	20	7.5	20	66	18	80	47	7	4	40	1.52
1821723--1821805	27	3.2	25	80	10	85	46	6	3	43	1.45
1821796--1821831	15	2.4	16	90	9	58	44	11	0	44	1.39
1821898--1821954	20	2.8	20	84	10	64	42	8	5	43	1.58
1821946--1821979	13	2.6	13	90	0	50	55	8	2	32	1.45
1821982--1822024	16	2.7	15	86	13	59	39	0	6	53	1.28
1821964--1822083	51	2.3	53	88	2	172	42	5	8	44	1.56
1822034--1822120	33	2.6	33	94	0	147	43	8	4	43	1.54
1822014--1822091	18	4.5	18	70	15	74	44	6	6	42	1.55
1822035--1822135	33	3.2	31	81	10	107	44	6	2	45	1.45
1822201--1822321	61	2.0	61	86	3	172	46	6	7	39	1.58
1822645--1822847	109	1.8	111	82	6	261	33	29	5	32	1.80
1823831--1823960	66	2.0	66	89	0	197	34	21	23	20	1.96
1825730--1825769	19	2.1	19	100	0	80	45	25	10	20	1.81
1827132--1827159	2	14.0	2	100	0	56	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)
1829465--1829542	20	3.9	20	84	0	102	15	11	16	56	1.67
1829461--1829542	40	2.0	40	88	0	119	14	10	17	57	1.65
1841133--1841171	18	2.1	19	90	4	62	33	17	0	48	1.48
1841396--1841468	23	3.2	23	94	0	128	30	24	23	21	1.99
1845338--1845395	23	2.7	23	82	15	70	29	29	18	22	1.98
1847661--1847705	2	22.0	2	82	13	56	44	6	0	48	1.29
1851061--1851087	12	2.2	12	100	0	54	7	48	0	44	1.31
1852865--1852953	32	2.9	31	81	5	108	34	21	20	23	1.96
1858242--1858285	19	2.2	20	84	4	54	27	27	20	25	1.99
1861252--1861289	2	19.0	2	100	0	76	50	0	0	50	1.00
1867334--1867379	3	15.3	3	95	0	83	32	2	0	65	1.05
1869321--1869636	130	2.4	130	84	3	386	35	11	14	38	1.82
1870835--1870908	18	3.9	18	91	5	112	25	32	21	20	1.97
1878843--1878871	2	14.5	2	100	0	58	51	0	0	48	1.00
1881018--1881087	34	2.1	34	100	0	140	24	35	11	28	1.90
1883240--1883266	14	1.9	14	100	0	54	44	3	0	51	1.19
1883344--1883406	22	2.9	22	93	6	103	31	31	26	9	1.88
1884652--1884699	25	2.0	24	84	15	64	45	0	2	52	1.12
1891949--1891990	21	2.0	21	90	0	66	26	21	19	33	1.97
1892477--1892523	2	24.0	2	95	4	87	51	0	0	48	1.00
1893488--1893551	20	3.5	18	75	10	67	21	20	31	26	1.98
1898410--1898505	20	5.0	20	72	10	92	25	21	29	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1898411--1898505	38	2.5	38	82	0	136	25	21	29	24	1.99
1898411--1898503	18	4.9	18	79	7	96	23	21	30	24	1.99
1908627--1908651	13	1.9	13	100	0	50	36	16	24	24	1.94
1908933--1909013	32	2.5	31	84	4	90	33	24	28	13	1.93
1913349--1913468	32	3.8	32	87	1	152	24	27	29	19	1.98
1927261--1927319	27	2.2	27	96	0	109	3	30	0	66	1.08
1927278--1927317	21	1.9	21	85	10	55	2	30	0	67	1.04
1932796--1932820	10	2.5	10	100	0	50	8	8	8	76	1.18
1938034--1938175	64	2.2	64	84	7	191	24	21	18	35	1.95
1941467--1941526	22	2.7	22	97	0	111	36	31	16	15	1.90
1942558--1942589	15	2.0	17	88	11	50	50	0	6	43	1.27
1942894--1942925	2	16.0	2	100	0	64	50	0	0	50	1.00
1944499--1944548	23	2.2	23	85	3	66	58	0	0	42	0.98
1945148--1945251	40	2.6	40	98	1	201	18	25	9	47	1.78
1945188--1945508	112	2.9	111	91	0	507	23	21	16	37	1.93
1946269--1946477	54	3.9	54	88	4	287	24	22	13	39	1.90
1949987--1950036	8	6.9	7	82	17	50	0	14	0	86	0.58
1949978--1950037	9	6.7	9	80	14	70	0	15	0	85	0.61
1950322--1950357	2	18.0	2	100	0	72	50	0	0	50	1.00
1953336--1953422	43	2.0	43	82	6	104	34	22	12	29	1.92
1955198--1955228	2	15.5	2	100	0	62	51	0	0	48	1.00
1956840--1956907	3	23.0	3	78	3	66	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1957448--1957608	63	2.5	63	83	5	198	24	24	18	32	1.97
1961464--1961517	26	2.1	26	96	0	99	46	9	12	31	1.74
1968922--1968961	21	2.0	20	85	5	53	40	12	12	35	1.81
1977348--1977379	15	2.1	15	100	0	64	31	6	21	40	1.78
1978868--1978912	23	2.0	23	90	0	72	31	24	24	20	1.98
1985741--1985799	23	2.6	23	72	0	64	28	25	23	22	1.99
1987287--1987345	29	2.0	29	83	6	75	32	15	8	44	1.76
1996574--1996612	20	2.0	20	89	0	60	33	10	23	33	1.88
2001959--2001998	21	1.9	21	89	0	62	55	7	7	30	1.56
2004101--2004161	23	2.7	23	92	2	97	22	32	24	19	1.97
2006885--2006937	21	2.5	21	87	0	79	22	30	28	18	1.98
2012981--2013007	5	5.4	5	100	0	54	18	0	0	81	0.69
2023375--2023416	11	3.9	10	82	17	57	76	0	9	14	1.02
2023375--2023417	23	1.9	23	95	4	79	74	0	9	16	1.06
2029344--2029387	21	2.0	20	83	12	52	61	2	0	36	1.09
2029582--2029614	15	2.1	17	88	11	52	36	3	12	48	1.56
2029657--2029693	17	2.1	18	90	5	58	37	5	0	56	1.22
2032363--2032643	140	2.0	145	86	6	403	37	10	24	27	1.88
2032961--2033064	54	1.9	54	90	0	163	39	9	16	34	1.81
2033263--2034423	81	14.2	81	88	3	1586	35	12	22	30	1.90
2034520--2034585	2	33.0	2	100	0	132	50	0	0	50	1.00
2034849--2034900	27	2.0	26	96	3	95	21	9	23	46	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2035371--2035416	23	2.0	23	91	0	74	45	10	6	36	1.65
2038572--2038878	149	2.1	149	94	1	535	34	21	17	26	1.95
2040503--2040547	21	2.1	21	83	0	54	15	22	28	33	1.95
2043791--2043835	23	2.0	23	90	0	72	24	26	26	22	2.00
2043803--2044112	144	2.1	148	92	5	515	33	21	18	26	1.96
2045703--2045747	21	2.1	21	91	0	72	15	22	28	33	1.95
2046746--2046840	50	1.9	50	93	0	163	35	17	7	38	1.78
2050560--2050622	32	1.9	33	81	9	76	42	9	3	44	1.52
2052152--2052282	15	9.2	13	73	15	91	46	7	4	41	1.53
2052152--2052282	13	9.1	14	72	13	90	46	7	4	41	1.53

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   55   56   57   58   59   60   61   62   63   64   
          65