genome.fa.s8620.2.7.7.80.10.50.1000.9.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   

This is table  9  of  64  ( 7674 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)
1757371--1757470	43	2.3	43	86	5	139	36	19	20	25	1.95
1757373--1757494	43	2.8	43	85	7	133	31	17	21	29	1.96
1757392--1757539	43	3.4	43	78	5	122	29	16	19	34	1.94
1757546--1757686	44	3.2	44	81	2	140	28	19	24	27	1.98
1761338--1761362	13	1.9	13	100	0	50	56	4	32	8	1.47
1761791--1761885	41	2.3	40	83	7	111	26	18	21	33	1.96
1761801--1761987	41	4.6	40	74	14	130	32	19	15	32	1.93
1769926--1770135	37	5.8	37	74	10	143	45	1	7	45	1.43
1770095--1770140	24	2.0	23	86	4	65	41	0	10	47	1.38
1771454--1771494	12	3.3	13	81	18	52	19	4	0	75	0.98
1771538--1771609	4	17.0	4	75	16	56	18	4	1	76	1.02
1771539--1771642	5	20.4	5	71	23	58	15	5	0	77	1.00
1771399--1771555	82	2.0	81	82	9	200	24	6	3	65	1.33
1771546--1771637	23	4.2	22	75	15	68	15	6	1	77	1.03
1771724--1771787	21	2.7	24	74	18	71	12	3	4	79	1.00
1771751--1771790	14	2.8	14	88	3	53	15	2	2	80	0.93
1772824--1772863	19	2.1	19	100	0	80	20	15	0	65	1.28
1774447--1774706	95	2.7	94	82	7	290	34	17	17	30	1.93
1775551--1776322	83	9.4	83	82	5	872	34	23	18	23	1.96
1776851--1776904	26	2.0	27	85	3	74	40	1	7	50	1.41
1776848--1776904	28	2.1	27	83	9	71	40	1	7	50	1.40
1776864--1777068	38	5.6	37	78	14	189	45	1	5	46	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1776815--1776936	64	1.9	62	82	9	149	43	1	7	47	1.41
1776946--1777040	36	2.6	34	82	11	118	46	1	5	47	1.32
1777046--1777091	24	2.0	23	86	4	65	41	0	10	47	1.38
1777083--1777155	15	4.8	15	74	14	60	24	2	0	72	0.98
1777084--1777141	13	4.2	13	80	10	53	22	3	0	74	0.97
1777084--1777155	23	3.1	23	75	15	69	25	2	0	72	0.98
1778380--1778565	75	2.4	80	80	13	208	23	5	3	67	1.26
1778451--1778476	12	2.2	12	100	0	52	23	0	0	76	0.78
1778534--1778640	4	24.5	4	74	23	51	18	5	0	74	1.06
1778535--1778638	10	11.2	9	76	15	81	17	5	0	75	1.04
1778539--1778638	14	6.8	15	72	21	70	17	6	1	76	1.05
1778539--1778623	31	2.9	30	84	8	104	16	7	1	75	1.08
1778572--1778609	18	2.1	18	95	0	67	21	2	2	73	1.07
1778535--1778640	45	2.3	46	83	15	139	17	5	0	75	1.05
1778560--1778622	13	4.7	13	79	11	56	17	7	1	73	1.16
1778529--1778655	14	8.7	14	73	19	55	18	5	2	74	1.13
1778709--1778764	28	2.0	28	82	6	69	14	5	5	75	1.16
1787873--1787903	15	2.1	15	93	0	53	45	0	0	54	0.99
1788451--1788568	45	2.6	45	84	1	146	25	21	18	34	1.96
1788495--1788706	85	2.5	85	80	5	250	25	21	20	32	1.97
1792983--1793089	40	2.7	40	86	0	160	18	14	41	25	1.89
1797016--1797049	17	2.1	16	88	5	50	14	8	0	76	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1807154--1807187	17	2.1	16	94	5	59	14	5	0	79	0.91
1807951--1808394	133	3.3	132	83	6	538	28	15	21	34	1.94
1808554--1808892	167	2.0	169	98	1	655	30	12	15	41	1.85
1811759--1811855	6	14.8	6	72	19	63	3	19	2	75	1.04
1811777--1811870	25	3.9	24	72	13	61	5	18	2	74	1.11
1811759--1811870	47	2.4	47	84	10	135	4	18	1	75	1.07
1811802--1811871	15	4.6	14	71	16	50	7	17	1	74	1.11
1811840--1811878	18	2.1	18	85	9	51	12	12	0	74	1.08
1811796--1811872	16	4.8	16	74	20	72	6	16	2	74	1.15
1811796--1811874	17	4.9	17	71	21	62	7	16	2	73	1.17
1811875--1811902	2	14.0	2	100	0	56	50	0	0	50	1.00
1814695--1814730	18	2.0	18	88	0	54	63	2	5	27	1.30
1814826--1814880	24	2.3	24	87	6	76	29	1	25	43	1.65
1814846--1814891	24	1.9	24	90	0	74	28	2	26	43	1.66
1817294--1817526	102	2.3	101	83	3	277	26	13	24	36	1.92
1819023--1819087	24	2.8	24	80	2	78	32	26	18	23	1.97
1825692--1825772	23	3.6	24	76	11	75	35	23	14	25	1.93
1827613--1827911	153	2.0	152	85	3	404	28	17	20	34	1.95
1827766--1828143	169	2.2	170	81	6	453	31	17	20	31	1.95
1829092--1829129	12	3.0	13	84	7	51	65	7	0	26	1.19
1829523--1829568	21	2.2	21	92	0	74	26	23	28	21	1.99
1830375--1830423	24	2.0	24	84	0	62	53	2	0	44	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1831571--1831629	26	2.3	27	85	5	77	16	16	38	27	1.91
1835592--1835636	21	2.1	21	91	0	72	57	13	4	24	1.54
1839584--1839634	14	3.6	14	84	5	50	25	0	25	49	1.51
1840752--1840873	51	2.4	50	89	6	194	39	4	22	34	1.73
1841931--1841982	21	2.5	21	96	0	95	30	19	23	26	1.98
1842054--1842373	82	3.9	82	80	3	333	33	20	13	32	1.91
1842215--1842357	41	3.5	41	68	7	110	33	21	11	32	1.90
1846031--1846074	18	2.4	18	76	3	52	43	0	0	56	0.99
1848796--1848839	21	2.1	21	91	8	72	36	6	29	27	1.83
1851526--1851555	15	1.9	15	93	6	51	76	0	23	0	0.78
1851630--1851687	28	2.1	28	86	0	80	31	29	13	25	1.94
1852313--1852384	38	1.9	37	83	8	92	56	1	1	40	1.16
1854202--1854272	24	3.0	24	83	8	99	18	14	15	52	1.75
1854438--1854469	16	2.0	16	93	0	55	43	0	9	46	1.35
1864556--1864595	15	2.6	16	84	4	55	30	22	27	20	1.98
1869857--1869929	36	2.0	36	94	0	128	38	15	16	30	1.89
1872255--1872336	29	2.8	29	83	0	92	30	10	1	57	1.41
1872290--1872336	14	3.3	13	83	16	58	31	10	0	57	1.33
1875269--1875310	19	2.2	20	86	4	59	19	14	4	61	1.49
1875277--1875352	28	2.9	26	80	11	75	18	15	10	55	1.68
1875306--1875395	28	3.2	28	80	0	99	20	17	15	46	1.84
1878449--1878539	42	2.2	42	89	0	137	23	18	18	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1878465--1878552	42	2.1	42	86	0	122	26	14	20	38	1.91
1878663--1879385	102	7.1	102	81	6	659	35	16	10	37	1.83
1879753--1879982	44	5.2	44	75	5	187	26	20	18	34	1.96
1880156--1880210	22	2.5	21	80	13	58	76	0	5	18	0.97
1880168--1880215	10	4.6	10	82	10	51	72	0	6	20	1.05
1892316--1892354	3	13.0	3	100	0	78	33	0	0	66	0.92
1894000--1894042	22	1.9	23	85	4	61	11	13	9	65	1.48
1894209--1894305	29	3.3	29	76	11	101	28	11	1	58	1.39
1897267--1897328	27	2.2	29	82	5	74	48	33	3	14	1.60
1897943--1897997	6	8.5	6	81	18	58	78	1	0	20	0.85
1897943--1897997	13	4.2	13	81	9	58	78	1	0	20	0.85
1897943--1897985	20	2.1	21	86	4	61	79	0	0	20	0.74
1897965--1898005	12	3.3	12	86	6	55	78	4	0	17	0.93
1898197--1898621	135	3.2	135	82	3	516	30	17	20	31	1.96
1903146--1903188	16	2.5	17	81	14	52	72	2	6	18	1.19
1903577--1903651	23	3.3	23	96	1	134	22	22	34	20	1.96
1904245--1904283	19	2.1	19	95	0	69	17	15	30	35	1.91
1907484--1907523	20	2.0	20	85	9	55	32	12	2	52	1.52
1909700--1909797	10	9.6	10	75	20	64	0	20	1	78	0.81
1909706--1909795	22	3.9	23	76	19	82	0	20	1	78	0.81
1909710--1909789	6	14.3	6	81	12	75	0	20	1	78	0.81
1909700--1909767	32	2.1	33	86	13	97	0	17	0	82	0.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1909702--1909795	38	2.5	38	83	11	113	0	20	1	78	0.81
1925921--1925971	13	4.1	12	80	7	57	68	1	0	29	1.00
1925921--1925965	19	2.4	18	82	10	54	71	2	0	26	0.98
1926412--1926504	20	4.6	19	76	11	87	55	2	4	37	1.31
1928362--1928388	2	13.5	2	100	0	54	51	0	0	48	1.00
1932944--1932975	2	16.0	2	100	0	64	50	0	0	50	1.00
1933129--1933209	12	6.8	12	72	10	58	46	18	14	19	1.83
1933172--1933224	24	2.2	24	83	6	63	43	16	18	20	1.88
1938734--1938797	27	2.4	27	97	0	119	43	3	7	45	1.48
1940553--1940604	21	2.5	21	77	0	68	51	3	5	38	1.44

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