genome.fa.s8356.2.7.7.80.10.50.1000.10.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   

This is table  10  of  56  ( 6656 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)
1719285--1719396	27	3.8	27	70	18	66	75	1	8	13	1.11
1719503--1719581	4	18.5	4	73	21	54	72	2	3	21	1.13
1719572--1719603	13	2.5	13	100	0	64	87	0	6	6	0.67
1719503--1719626	23	5.7	21	70	18	69	75	2	4	16	1.08
1719574--1719612	17	2.2	18	86	4	53	84	2	5	7	0.84
1719581--1719621	17	2.5	16	80	7	55	82	2	7	7	0.91
1719567--1719634	21	3.0	23	77	14	70	79	1	5	13	0.98
1719504--1719626	66	1.9	66	82	9	157	75	2	4	17	1.08
1721417--1721598	90	2.0	90	90	2	285	35	6	19	38	1.78
1724524--1724574	18	2.7	20	79	14	63	35	17	23	23	1.95
1733208--1733249	21	2.0	21	90	0	66	23	42	14	19	1.87
1735922--1735982	2	30.5	2	100	0	122	50	0	0	49	1.00
1737294--1737563	142	1.9	143	85	0	380	53	4	15	26	1.62
1742465--1742504	22	1.9	22	90	10	66	25	10	15	50	1.74
1744452--1744499	17	2.8	17	78	6	53	64	0	2	33	1.05
1745712--1745750	16	2.5	16	87	4	53	2	30	33	33	1.72
1745824--1745886	3	21.0	3	78	12	58	58	1	3	36	1.23
1745826--1745885	17	3.8	15	81	14	68	58	1	3	36	1.25
1745826--1745882	11	5.1	11	72	19	55	57	1	3	36	1.26
1746569--1746634	29	2.3	29	91	0	105	30	15	6	48	1.69
1746647--1747135	127	3.8	127	89	4	561	21	16	15	46	1.84
1746814--1747135	127	2.5	127	95	0	572	21	16	18	44	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1747132--1747177	16	3.0	16	78	12	60	32	21	6	39	1.79
1748321--1748375	25	2.3	25	87	6	78	41	1	1	54	1.21
1754810--1754857	2	24.0	2	100	0	96	50	0	0	50	1.00
1756084--1756490	192	2.1	191	84	7	545	38	6	9	45	1.62
1762046--1762080	18	1.9	18	94	0	61	28	34	20	17	1.95
1767584--1767628	19	2.4	18	77	3	54	46	13	0	40	1.43
1790780--1791440	105	6.3	105	96	1	1224	24	18	24	33	1.97
1790781--1791440	209	3.2	209	97	1	1238	24	18	24	33	1.97
1790780--1791440	314	2.1	314	97	1	1240	24	18	24	33	1.97
1791630--1791657	1	28.0	1	100	0	56	0	0	0	100	0.00
1792223--1792280	1	58.0	1	82	0	71	0	0	8	91	0.42
1792223--1792279	15	3.9	15	86	2	80	0	0	8	91	0.43
1792224--1792280	21	2.8	21	91	2	98	0	0	8	91	0.43
1799271--1799314	21	2.0	20	87	12	61	65	6	6	20	1.39
1803316--1803420	49	2.1	50	80	15	121	58	0	6	34	1.31
1807978--1808091	35	3.3	35	84	0	156	43	20	0	35	1.58
1808085--1808159	35	2.1	35	90	0	114	36	1	18	44	1.59
1808136--1808207	24	3.0	24	66	28	62	37	5	13	43	1.68
1808791--1808829	21	1.9	20	84	5	51	53	5	0	41	1.23
1817700--1817774	21	3.5	21	73	7	78	29	20	24	26	1.99
1817682--1817798	44	2.7	44	94	0	207	25	21	23	29	1.99
1817689--1817805	23	5.3	22	70	12	87	27	21	23	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1820451--1820605	65	2.4	64	81	4	161	29	21	19	30	1.97
1824852--1824934	2	42.5	2	95	4	152	50	0	0	49	1.00
1825121--1825160	17	2.4	17	91	0	71	27	7	20	45	1.78
1825564--1825600	19	2.0	19	89	5	58	59	0	5	35	1.20
1830616--1830652	11	3.3	11	88	3	56	67	0	2	29	1.04
1832008--1832068	3	20.3	3	89	0	95	60	0	0	39	0.97
1833232--1833286	23	2.4	23	87	6	76	54	5	9	30	1.54
1834665--1834767	52	2.0	52	96	0	188	34	10	24	30	1.89
1835218--1835307	44	2.0	44	89	0	135	30	11	30	28	1.91
1836140--1836186	19	2.5	19	82	3	60	48	0	4	46	1.21
1837958--1838018	3	20.7	3	86	9	90	63	0	0	36	0.94
1838153--1838254	45	2.3	45	94	0	177	37	20	18	23	1.94
1838196--1838915	76	9.5	76	93	0	1215	34	22	19	24	1.97
1839587--1839663	22	3.5	22	94	0	136	38	14	12	33	1.84
1842130--1842353	114	2.0	114	91	0	367	29	20	16	33	1.94
1846384--1846442	14	4.1	14	79	14	66	57	8	16	16	1.63
1846384--1846432	7	6.9	7	86	9	64	57	10	18	14	1.65
1846385--1846443	29	2.0	30	86	3	84	55	8	18	16	1.66
1850259--1850299	18	2.3	18	95	0	73	9	41	34	14	1.79
1851103--1851168	3	21.7	3	87	9	98	63	0	0	36	0.95
1853338--1853370	11	3.0	11	95	0	57	45	39	0	15	1.46
1854462--1854517	29	1.9	29	96	0	103	35	7	1	55	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1855526--1855575	22	2.3	21	80	13	57	56	0	2	42	1.11
1856343--1856409	23	3.0	23	76	8	59	49	16	19	14	1.80
1856353--1856419	20	3.1	21	83	12	91	47	14	19	17	1.82
1856380--1856429	20	2.5	20	90	0	64	44	14	20	22	1.86
1858218--1858245	12	2.3	12	100	0	56	50	0	0	50	1.00
1858451--1858685	51	4.7	51	88	4	361	24	14	17	44	1.85
1858454--1858693	98	2.4	100	88	4	360	23	13	17	45	1.83
1859835--1859880	17	2.8	17	83	9	51	65	0	32	2	1.05
1859835--1859868	17	1.9	18	88	5	52	64	0	35	0	0.94
1860561--1860598	17	2.2	18	90	4	60	34	0	18	47	1.49
1862569--1862685	31	3.8	31	90	2	155	34	17	16	31	1.93
1868664--1868716	18	2.9	18	70	10	54	22	9	9	58	1.58
1869957--1870053	20	5.1	20	77	9	103	29	29	19	20	1.97
1869958--1870053	38	2.5	38	93	0	165	30	30	19	19	1.97
1876836--1876908	18	3.9	18	84	7	101	27	30	21	20	1.98
1880640--1880687	15	3.4	15	77	13	57	56	0	2	41	1.11
1880716--1880762	22	2.1	23	80	11	62	70	4	0	25	1.05
1881893--1881934	16	2.6	16	100	0	84	16	19	57	7	1.62
1882056--1882145	3	30.0	3	90	0	108	57	0	0	42	0.98
1882409--1882487	36	2.2	36	95	0	140	20	20	10	49	1.77
1882433--1883093	113	5.9	113	90	3	1003	31	19	13	35	1.90
1883819--1884122	83	3.5	84	89	6	434	37	20	14	27	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1885275--1885357	1	83.0	1	75	0	76	0	12	0	87	0.53
1885274--1885360	6	14.5	6	80	15	92	0	13	0	86	0.58
1885275--1885354	17	4.8	17	83	11	103	0	12	0	87	0.54
1885274--1885360	23	3.7	23	83	11	115	0	13	0	86	0.58
1896695--1896742	15	3.4	15	77	13	57	56	0	2	41	1.11
1896771--1896817	22	2.1	23	80	11	62	70	4	0	25	1.05
1897948--1897989	16	2.6	16	96	0	75	16	21	54	7	1.65
1898114--1898188	3	25.0	3	91	0	123	62	0	0	37	0.95
1911000--1911114	58	2.0	58	87	3	169	24	25	13	37	1.91
1911881--1912364	261	1.9	261	98	0	941	28	14	20	36	1.92
1923664--1923722	27	2.2	27	93	0	100	18	42	13	25	1.87
1923721--1923762	22	2.0	20	86	9	57	26	35	0	38	1.57
1924249--1924456	68	3.1	68	91	0	335	29	14	19	36	1.92
1926443--1926639	103	1.9	103	87	2	288	29	16	18	35	1.93
1929264--1929321	23	2.5	23	91	0	89	25	13	25	34	1.93
1929959--1930022	33	1.9	33	100	0	128	42	4	12	40	1.64
1930858--1930984	63	2.1	58	81	12	143	48	11	15	24	1.77
1933676--1934216	51	10.3	55	91	2	423	28	26	15	29	1.96
1933740--1934215	51	9.1	51	91	4	673	28	27	15	28	1.96
1935536--1935581	23	2.1	22	88	11	69	6	15	0	78	0.95
1935545--1935590	16	2.9	16	87	9	67	8	15	0	76	1.02
1935545--1935593	9	5.9	9	76	13	52	8	16	0	75	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1939147--1939174	8	3.5	8	100	0	56	50	10	0	39	1.37
1948964--1949011	21	2.3	21	96	3	89	14	20	52	12	1.74
1949143--1949190	21	2.3	21	100	0	96	22	25	16	35	1.95
1952840--1952885	19	2.4	19	85	0	65	17	30	15	36	1.91
1965166--1966070	209	4.2	214	91	3	1342	50	8	12	28	1.69
1966078--1966323	2	123.5	2	63	21	63	45	3	4	45	1.42
1966063--1966323	22	13.0	20	71	18	102	45	3	4	45	1.42
1966082--1966143	29	2.1	29	82	5	72	45	3	6	45	1.45
1966063--1966147	42	2.0	41	82	8	100	45	2	5	45	1.40
1966176--1966309	11	11.8	11	65	17	60	47	2	3	47	1.32

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