genome.fa.s9624.2.7.7.80.10.50.1000.10.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: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8249038

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   

This is table  10  of  38  ( 4514 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)
1673266--1673634	20	18.5	20	86	4	458	20	18	26	34	1.96
1674033--1674113	30	2.7	30	78	3	92	24	3	11	60	1.47
1678879--1678965	42	2.1	42	84	0	111	33	31	11	24	1.91
1693847--1693871	13	1.9	13	100	0	50	36	32	16	16	1.90
1699733--1699834	23	4.5	23	81	9	138	21	31	21	25	1.98
1699778--1699859	21	3.8	21	76	12	94	19	36	20	23	1.95
1699755--1699856	44	2.3	44	94	0	177	20	33	21	24	1.97
1702103--1702141	18	2.2	18	100	0	78	33	0	43	23	1.54
1702068--1702175	52	2.1	52	100	0	216	33	1	34	30	1.69
1702509--1702552	22	2.1	21	87	8	63	29	40	18	11	1.85
1708800--1708853	28	1.9	28	84	0	72	31	16	20	31	1.95
1710008--1710042	16	2.1	18	89	10	56	65	0	8	25	1.21
1710163--1710199	2	18.5	2	94	0	65	54	0	0	45	1.00
1710189--1710260	28	2.4	30	86	9	94	61	4	2	31	1.29
1710189--1710273	28	2.9	28	83	11	91	62	4	3	29	1.32
1711248--1712420	105	11.3	105	90	4	1692	22	18	25	33	1.96
1711248--1712420	205	5.7	208	91	3	1689	22	18	25	33	1.96
1711248--1712420	305	3.8	310	91	3	1794	22	18	25	33	1.96
1713024--1713410	65	5.8	65	71	9	233	38	11	20	29	1.88
1713157--1713464	36	8.9	36	70	15	159	38	13	20	27	1.90
1713285--1713464	65	2.7	66	76	13	170	36	13	21	28	1.91
1714323--1714373	22	2.3	22	93	0	84	25	13	27	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1714980--1715041	20	3.0	21	79	9	65	1	16	6	75	1.08
1714998--1715050	23	2.4	22	84	6	72	0	15	5	79	0.91
1718167--1718201	16	2.1	18	89	10	56	65	0	8	25	1.21
1718240--1718280	2	20.5	2	100	0	82	51	0	0	48	1.00
1718354--1718384	2	15.5	2	100	0	62	51	0	0	48	1.00
1721975--1722052	26	3.1	24	71	15	59	20	1	8	69	1.23
1728174--1728229	24	2.3	24	100	0	112	23	12	25	39	1.89
1733269--1733330	30	2.1	30	87	6	90	41	8	12	37	1.73
1733272--1733341	30	2.3	30	83	9	81	45	11	14	28	1.79
1735038--1735260	45	5.0	44	88	3	313	39	6	21	31	1.79
1737192--1737236	23	2.0	23	90	0	72	24	26	26	22	2.00
1737204--1737523	154	2.1	149	93	4	543	34	21	16	27	1.95
1738989--1739033	21	2.1	21	87	0	63	15	24	28	31	1.96
1742187--1742231	23	2.0	23	86	0	63	26	26	24	22	2.00
1742199--1742513	149	2.1	149	94	1	551	34	21	16	27	1.95
1743980--1744024	21	2.1	21	87	0	63	15	24	28	31	1.96
1756009--1756046	12	2.9	13	84	11	51	39	2	23	34	1.69
1757963--1758023	21	3.0	21	72	11	63	47	22	0	29	1.52
1760404--1760633	123	1.9	123	91	0	379	27	13	28	31	1.93
1761759--1761892	31	4.3	31	69	10	92	27	27	25	19	1.99
1764652--1764687	13	2.8	13	82	0	54	13	19	47	19	1.83
1764628--1764687	31	1.9	31	82	0	75	16	20	43	20	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1766740--1766815	31	2.4	30	78	6	80	28	31	25	14	1.95
1769635--1769680	13	3.8	13	78	21	64	8	23	50	17	1.74
1769637--1769682	22	2.1	22	100	0	92	8	21	52	17	1.71
1769617--1769684	18	3.6	18	79	14	73	11	20	48	19	1.80
1770444--1770518	32	2.3	32	84	6	98	26	9	22	41	1.84
1771154--1771198	18	2.6	18	82	3	56	33	6	26	33	1.83
1771733--1772337	257	2.4	242	82	11	720	40	19	13	26	1.88
1772402--1772456	22	2.2	27	66	30	66	38	10	21	29	1.88
1772408--1772457	22	2.3	22	96	0	91	38	14	20	28	1.91
1773656--1773710	23	2.4	23	96	0	101	34	25	23	16	1.95
1777153--1777277	31	4.0	31	91	2	198	37	22	20	20	1.94
1777934--1778111	64	2.8	65	84	2	225	26	19	21	32	1.97
1780265--1780305	19	2.2	19	100	0	82	34	24	4	36	1.77
1780413--1780590	73	2.4	75	83	6	209	36	14	7	42	1.73
1780922--1781654	185	3.9	185	81	4	724	32	16	11	39	1.84
1782584--1782626	22	2.0	21	81	4	50	58	6	2	32	1.38
1783233--1783281	20	2.5	20	86	0	62	40	6	20	32	1.77
1783734--1783772	18	2.2	18	100	0	78	46	5	10	38	1.60
1790528--1791617	199	5.5	200	76	8	934	39	13	12	34	1.82
1790995--1791368	180	2.1	179	83	3	457	39	13	12	34	1.82
1790836--1791546	379	1.9	379	82	2	901	40	12	12	34	1.80
1797004--1797035	15	2.2	14	94	5	55	81	0	18	0	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1797260--1797302	23	1.9	22	85	4	59	76	2	2	18	1.00
1808668--1810121	200	7.3	201	83	4	1635	40	12	12	34	1.80
1810073--1810408	178	1.9	179	82	6	421	38	14	13	33	1.86
1810986--1811233	118	2.1	118	84	3	329	28	17	15	38	1.90
1816222--1816251	4	7.5	4	100	0	60	76	0	0	23	0.78
1816306--1816347	21	2.0	21	100	0	84	28	19	9	42	1.82
1817024--1817058	17	2.1	17	100	0	70	42	5	22	28	1.76
1818157--1818203	2	23.5	2	100	0	94	51	0	0	48	1.00
1820897--1821220	165	2.0	165	93	0	558	34	9	11	44	1.73
1834448--1834528	42	1.9	42	92	0	135	37	18	18	25	1.94
1839541--1839681	59	2.4	59	82	1	165	32	12	23	31	1.92
1839359--1840094	286	2.6	285	87	1	1044	34	16	20	28	1.95
1839990--1840102	42	2.7	41	74	8	113	32	22	16	28	1.96
1840300--1840365	35	1.9	35	84	9	91	33	13	12	40	1.82
1840237--1840425	92	2.0	97	84	6	253	35	16	12	35	1.86
1840195--1840481	152	1.9	154	84	4	393	38	16	12	33	1.86
1840322--1840589	60	4.7	58	83	6	316	39	17	11	31	1.86
1840324--1840589	110	2.3	116	82	6	312	39	17	11	31	1.86
1848796--1848865	28	2.5	27	77	11	70	72	8	1	17	1.16
1848811--1848871	13	4.6	13	75	22	56	73	8	1	16	1.14
1850270--1850306	19	2.0	20	84	10	51	5	0	40	54	1.24
1850295--1850334	21	1.9	21	89	0	62	7	2	32	57	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1852035--1852085	25	2.1	25	81	3	59	54	3	5	35	1.43
1853335--1853379	2	22.5	2	95	0	81	53	0	0	46	1.00
1853367--1853507	75	1.9	76	92	1	239	40	7	12	39	1.71
1857925--1858018	44	2.1	43	80	7	100	31	15	24	27	1.96
1858537--1858593	21	2.7	21	88	0	78	1	38	12	47	1.51
1863077--1863221	55	2.6	55	90	2	220	31	23	18	26	1.98
1865240--1865363	44	2.8	44	86	3	162	38	16	15	29	1.89
1865254--1865404	44	3.5	44	86	5	191	39	17	16	27	1.91
1872903--1872947	13	3.3	13	90	6	63	15	42	24	17	1.88
1872881--1872926	18	2.6	18	100	0	92	17	52	21	8	1.71
1872908--1872954	8	6.5	8	77	22	59	14	38	25	21	1.92
1872924--1872955	7	4.4	7	92	7	55	12	34	28	25	1.92
1872908--1872954	15	3.3	15	91	5	71	14	38	25	21	1.92
1874264--1874299	18	2.0	18	88	0	54	52	0	16	30	1.44
1875424--1875530	24	4.5	24	72	0	88	23	13	15	47	1.81
1877572--1877646	29	2.6	29	93	2	132	17	45	22	14	1.85
1877570--1877640	17	4.5	17	76	20	82	16	47	22	12	1.80
1877638--1877668	7	4.4	7	100	0	62	12	32	29	25	1.93
1878972--1879007	18	2.0	18	88	0	54	52	0	16	30	1.44
1880133--1880239	24	4.5	24	72	0	88	23	13	15	47	1.81
1886815--1886855	19	2.2	20	86	8	59	60	21	0	17	1.35
1888919--1889036	43	2.7	43	82	0	128	20	22	22	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1895163--1895192	12	2.5	12	100	0	60	20	16	36	26	1.93
1896902--1896973	12	6.0	12	78	12	53	66	2	0	30	1.06
1896937--1896973	3	12.7	3	94	5	67	64	0	0	35	0.94
1896978--1897224	33	7.1	35	74	20	191	44	8	2	44	1.45
1897126--1897189	28	2.4	28	81	5	78	46	10	1	40	1.48
1897246--1897288	14	3.1	14	78	18	54	48	6	2	41	1.43
1897171--1897278	36	3.1	35	73	13	98	42	7	5	44	1.55
1897251--1897287	13	2.7	14	84	15	51	51	8	0	40	1.32
1899037--1899077	18	2.3	18	86	0	55	36	24	0	39	1.56
1899281--1899327	24	2.0	24	86	0	67	31	25	21	21	1.98

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