genome.fa.s7800.2.7.7.80.10.50.1000.9.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: VEPZ01007800.1 Hibiscus syriacus cultivar Beakdansim tig00110114_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4652821

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  9  of  23  ( 2671 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)
1784608--1784654	6	8.0	6	90	2	51	31	38	29	0	1.58
1785205--1785460	21	12.2	21	92	0	395	32	20	25	21	1.97
1785479--1785546	21	3.2	21	100	0	136	19	19	33	27	1.96
1786849--1786974	63	2.0	63	100	0	252	36	20	15	26	1.93
1787401--1787435	13	2.8	13	86	4	54	22	0	2	74	0.95
1788129--1788174	21	2.2	21	84	7	58	36	8	0	54	1.32
1788533--1789014	251	1.9	248	92	2	813	37	11	8	41	1.73
1794889--1795008	43	2.8	43	78	2	125	23	15	26	34	1.95
1794889--1795061	43	4.1	43	75	5	111	23	19	26	30	1.98
1795158--1795243	21	4.1	21	84	0	100	1	34	19	44	1.59
1798332--1798402	36	2.0	36	94	0	124	32	9	15	42	1.80
1800086--1800167	42	2.0	41	87	2	119	31	18	17	32	1.94
1800241--1800334	41	2.3	42	81	1	100	29	12	21	36	1.91
1801463--1801516	22	2.5	22	90	3	83	37	14	7	40	1.74
1801991--1802129	41	3.4	40	76	13	140	32	22	15	30	1.94
1801917--1802182	81	3.3	81	80	5	270	31	22	14	31	1.94
1803494--1803541	18	2.7	18	90	0	69	14	25	0	60	1.34
1804664--1804812	39	3.8	39	81	3	156	16	28	22	32	1.95
1804664--1804807	78	1.8	78	82	5	184	15	28	22	34	1.94
1806660--1806712	27	2.0	26	92	7	90	32	13	24	30	1.93
1808603--1808809	103	2.0	103	100	0	414	28	24	16	29	1.96
1827404--1827558	60	2.6	60	77	7	152	33	21	5	39	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1829931--1829995	3	21.7	3	100	0	130	66	0	0	33	0.92
1831582--1831624	3	15.0	3	90	9	72	34	0	0	65	0.93
1831575--1831624	25	2.0	25	96	0	91	38	0	0	62	0.96
1842397--1842448	21	2.5	21	81	3	61	38	19	25	17	1.93
1842437--1842551	20	5.7	20	81	6	106	33	24	18	24	1.97
1842434--1842571	61	2.3	61	83	0	177	36	23	16	23	1.94
1843037--1843095	20	3.0	20	87	0	73	16	18	22	42	1.89
1843229--1843283	25	2.2	24	78	15	58	20	9	18	52	1.71
1844386--1844428	16	2.6	16	81	7	50	27	41	16	13	1.86
1844901--1844943	20	2.2	20	86	0	59	34	25	23	16	1.95
1844940--1845028	31	2.8	32	91	3	144	44	21	19	14	1.86
1844957--1845017	13	4.3	14	74	22	56	45	24	18	11	1.82
1845045--1845135	14	5.9	14	73	20	74	12	17	21	48	1.80
1845040--1845151	33	3.4	33	96	1	199	12	18	21	47	1.81
1845136--1845191	20	2.8	19	86	7	76	16	25	23	35	1.94
1845226--1845290	25	2.5	26	75	12	71	23	9	16	50	1.74
1847209--1847295	20	4.4	20	78	4	97	14	21	25	37	1.92
1847508--1847557	20	2.5	20	86	0	82	22	18	20	40	1.92
1847584--1847634	20	2.5	21	84	6	61	21	23	17	37	1.94
1847826--1847859	12	2.9	12	86	4	52	17	41	5	35	1.74
1848404--1848456	24	2.2	24	86	3	72	22	16	20	39	1.92
1848411--1848456	24	1.9	24	90	0	74	23	17	21	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1850878--1850915	20	2.0	20	89	5	60	34	23	18	23	1.96
1851101--1851230	19	7.7	18	66	23	86	43	20	23	13	1.87
1851081--1851228	33	4.3	36	77	14	145	41	20	22	14	1.90
1851101--1851226	33	3.8	33	87	5	193	42	19	23	14	1.88
1851230--1851292	18	3.7	18	75	18	71	12	23	19	44	1.85
1851235--1851292	14	3.4	19	73	26	74	10	25	20	43	1.84
1851258--1851299	18	2.3	18	88	8	59	14	23	21	40	1.90
1851406--1851441	14	2.6	14	86	4	56	44	25	0	30	1.54
1852751--1852955	42	4.9	41	73	10	164	22	18	37	21	1.95
1852751--1852817	21	3.2	21	68	4	55	19	20	35	23	1.95
1852781--1852955	83	2.1	84	98	1	343	22	17	38	21	1.93
1853174--1853356	90	2.0	89	89	8	280	46	19	12	21	1.82
1853738--1853774	18	2.1	18	94	0	65	10	13	45	29	1.77
1854841--1854928	33	2.6	33	96	1	158	38	22	27	11	1.88
1854816--1854980	19	9.1	19	74	15	143	43	20	23	12	1.85
1854976--1855041	18	3.5	19	83	4	80	10	16	25	46	1.79
1854987--1855038	19	2.7	19	88	5	70	11	19	25	44	1.84
1855549--1855601	20	2.7	20	93	0	88	26	20	28	24	1.99
1855614--1855659	17	2.5	19	86	10	60	28	17	21	32	1.96
1855550--1855659	20	5.7	20	77	12	77	25	18	24	31	1.97
1855730--1855770	21	2.0	21	85	0	55	34	31	17	17	1.93
1860366--1860548	60	3.0	60	78	4	181	39	5	22	32	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1861335--1861372	20	1.9	20	88	0	58	21	26	10	42	1.85
1864146--1864209	20	3.2	21	73	18	66	42	0	0	57	0.98
1870233--1870257	2	12.5	2	100	0	50	52	0	0	48	1.00
1875418--1875537	42	2.9	42	97	0	222	16	20	18	44	1.87
1875709--1875771	23	2.6	24	78	19	60	52	0	0	47	1.00
1875726--1875786	22	2.8	23	82	7	65	47	0	0	52	1.00
1875752--1875854	54	1.9	52	83	11	129	47	0	0	50	1.14
1875812--1875905	31	3.1	30	73	19	77	44	1	2	52	1.20
1875827--1875888	32	2.0	31	84	15	83	41	0	1	56	1.09
1876071--1876140	20	3.5	20	94	0	122	35	12	10	41	1.77
1876071--1876149	40	2.0	40	89	0	122	35	13	8	41	1.76
1876123--1876204	15	5.5	15	80	2	94	35	15	7	41	1.75
1876123--1876204	30	2.8	30	90	1	121	35	15	7	41	1.75
1877353--1877380	2	14.0	2	100	0	56	50	0	0	50	1.00
1877969--1878019	2	25.5	2	100	0	102	50	0	0	49	1.00
1878645--1878686	17	2.4	17	88	4	66	26	9	0	64	1.24
1879317--1879374	27	2.1	27	90	0	89	27	24	10	37	1.88
1881469--1881522	20	2.6	20	75	16	56	42	0	0	57	0.98
1881479--1881588	28	3.7	29	75	19	77	48	0	2	49	1.15
1881618--1881690	23	3.1	23	78	9	85	41	1	1	56	1.16
1881851--1881925	22	3.4	23	82	10	68	50	0	0	49	1.00
1881785--1881880	31	2.9	34	77	12	110	46	1	1	51	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1883967--1884044	36	2.1	36	88	2	111	35	5	6	52	1.49
1887254--1887287	17	2.1	16	88	5	50	76	0	8	14	1.01
1888245--1888304	31	1.9	31	96	0	111	28	8	25	38	1.84
1889329--1889414	42	2.0	42	93	0	145	36	16	19	27	1.93
1889418--1889451	15	2.3	15	94	0	59	76	0	23	0	0.79
1889412--1889446	9	3.9	9	96	0	61	77	0	22	0	0.78
1890278--1890335	22	2.6	22	80	0	71	39	6	15	37	1.74
1891326--1891362	20	2.0	20	89	10	60	45	2	27	24	1.66
1893451--1893505	22	2.5	22	93	0	92	18	34	10	36	1.86
1897355--1897400	2	23.0	2	95	0	83	47	0	2	50	1.13
1900394--1900418	13	1.9	13	100	0	50	32	0	16	52	1.44
1908110--1908149	21	1.9	21	89	0	62	55	7	7	30	1.56
1911936--1911996	21	2.9	21	75	4	61	22	31	27	18	1.97
1912149--1912196	20	2.5	19	76	6	51	41	22	10	25	1.85
1912454--1912487	13	2.6	13	90	9	52	29	17	5	47	1.71
1917988--1918013	2	13.0	2	100	0	52	50	0	0	50	1.00
1930279--1930318	21	1.9	21	94	0	71	15	30	37	17	1.90
1931298--1931414	21	5.7	21	67	8	62	35	25	17	22	1.95
1931401--1931574	20	8.6	20	83	5	217	34	26	19	19	1.96
1931899--1931942	10	4.5	10	88	5	72	65	6	11	15	1.44
1931906--1931946	19	2.2	19	100	0	82	68	4	9	17	1.35
1932887--1932922	14	2.6	14	90	0	54	30	0	22	47	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1933029--1933126	19	5.4	19	84	13	143	45	17	21	15	1.84
1933029--1933144	53	2.2	53	96	1	216	43	18	23	14	1.86
1933173--1933336	19	9.4	19	76	18	187	14	21	18	46	1.84
1933151--1933308	52	3.0	52	99	0	307	13	23	17	45	1.84
1933151--1933350	33	5.9	33	75	14	210	13	22	18	45	1.84
1935630--1935654	12	2.1	12	100	0	50	0	28	0	72	0.86
1935829--1935875	24	2.0	24	87	8	69	38	21	14	25	1.92
1936557--1936786	20	11.5	20	87	1	237	19	19	24	36	1.94
1936773--1936855	21	4.0	21	73	6	78	25	16	24	33	1.96
1936753--1936851	42	2.4	43	77	11	100	21	18	23	37	1.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23