genome.fa.s8721.2.7.7.80.10.50.1000.9.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: VEPZ01008721.1 Hibiscus syriacus cultivar Beakdansim tig00111779_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2464137

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  9  of  12  ( 1342 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)
1761228--1761423	103	2.0	97	93	6	338	36	9	13	40	1.77
1767276--1767434	55	2.9	55	89	3	239	30	24	16	28	1.96
1778203--1778263	22	2.9	21	85	4	77	27	22	24	24	2.00
1778200--1778263	21	3.0	21	81	4	83	26	23	23	26	2.00
1778854--1778928	21	3.6	21	96	0	141	28	25	24	22	2.00
1780195--1780254	29	2.0	31	83	6	79	36	6	11	45	1.67
1780576--1780631	29	1.9	29	88	0	85	28	21	5	44	1.74
1780648--1780819	59	2.9	60	81	6	181	38	5	22	33	1.76
1784202--1784253	26	2.0	26	96	0	95	34	17	11	36	1.86
1795536--1795601	15	4.4	15	83	7	89	37	6	18	37	1.75
1795531--1795617	45	2.0	44	90	2	138	41	6	18	33	1.77
1795536--1795617	30	2.8	30	92	5	132	39	7	18	35	1.78
1795600--1795689	20	4.5	20	97	0	162	40	10	13	36	1.78
1795877--1795949	28	2.6	29	80	8	87	43	0	1	54	1.08
1795879--1795997	28	4.0	27	75	13	85	46	0	0	52	1.06
1795941--1795988	21	2.3	20	80	16	53	54	0	0	45	0.99
1796179--1796298	42	2.9	42	98	0	231	44	19	20	15	1.87
1796487--1796537	15	3.4	15	88	0	84	37	5	19	37	1.76
1796482--1796553	30	2.4	29	95	2	126	43	6	18	31	1.76
1796536--1796665	20	6.5	20	96	0	224	40	10	12	36	1.76
1796877--1796950	12	5.9	13	70	19	50	44	0	1	54	1.08
1796883--1796939	17	3.1	17	77	22	62	43	0	1	54	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1796926--1796973	21	2.2	21	85	10	62	50	0	0	50	1.00
1797141--1797260	42	2.9	42	96	0	213	45	19	19	16	1.86
1800140--1801267	182	6.2	182	91	2	1715	42	12	16	28	1.84
1803038--1803093	24	2.5	22	77	13	60	39	0	8	51	1.33
1803750--1803787	18	2.2	18	95	4	69	55	0	39	5	1.23
1804087--1804121	16	2.1	17	94	5	63	48	8	11	31	1.69
1805267--1805317	19	2.7	19	90	0	75	29	1	9	58	1.41
1805458--1806326	387	2.2	384	87	6	1228	35	16	15	32	1.90
1805458--1806380	198	4.7	198	88	6	1324	36	16	15	32	1.90
1806739--1806788	15	3.3	15	94	0	82	20	48	0	32	1.50
1809240--1809281	5	8.0	5	89	10	66	19	19	0	61	1.34
1809240--1809281	11	4.0	10	88	11	66	19	19	0	61	1.34
1809240--1809281	16	2.6	16	100	0	84	19	19	0	61	1.34
1809284--1809336	24	2.2	24	89	0	79	37	1	13	47	1.54
1809696--1810568	200	4.4	198	84	5	1024	39	16	13	31	1.87
1810282--1810327	21	2.1	21	84	4	56	30	15	10	43	1.81
1810479--1810524	21	2.1	21	84	4	56	30	15	10	43	1.81
1813110--1813632	198	2.6	197	79	6	538	38	13	16	31	1.88
1813680--1813738	23	2.6	23	83	0	73	35	16	5	42	1.71
1813627--1813853	87	2.6	87	95	0	400	31	14	11	42	1.81
1813767--1813825	23	2.6	23	86	0	82	33	16	6	42	1.75
1814503--1814535	2	16.5	2	100	0	66	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1815118--1815143	13	2.0	13	100	0	52	46	15	7	30	1.74
1819336--1819390	16	3.4	16	84	0	74	38	3	18	40	1.68
1819374--1819419	24	2.0	22	83	8	56	36	0	19	43	1.51
1819671--1819710	18	2.2	19	90	4	64	60	12	0	27	1.33
1820455--1820503	24	2.0	24	100	0	98	28	20	20	30	1.98
1827052--1827098	18	2.6	18	96	0	85	17	27	23	31	1.96
1836285--1836348	25	2.5	27	70	17	64	64	1	4	29	1.23
1836304--1836349	25	1.9	25	86	8	69	60	2	4	32	1.28
1836337--1836376	16	2.4	17	84	16	57	67	2	2	27	1.16
1837265--1837363	2	49.5	2	100	0	198	50	0	0	49	1.00
1838436--1838496	12	5.0	13	86	7	76	60	0	0	39	0.97
1838448--1838496	3	16.0	3	91	4	80	63	0	0	36	0.95
1838650--1838788	45	3.1	45	83	5	183	33	19	20	27	1.96
1838723--1838999	75	3.7	76	86	3	395	32	20	19	27	1.97
1838947--1839084	45	3.0	45	77	12	145	30	21	23	24	1.99
1840156--1840259	54	1.9	54	88	0	154	27	25	13	32	1.94
1841195--1841308	41	2.7	41	74	12	106	28	21	15	34	1.94
1841177--1841325	42	3.6	40	72	17	110	26	21	18	33	1.96
1841272--1841687	118	3.5	118	93	0	706	28	23	16	32	1.95
1842419--1842488	34	2.1	32	84	5	86	24	28	15	31	1.96
1844888--1844935	19	2.5	20	82	3	62	29	12	6	52	1.63
1846145--1846197	21	2.5	21	100	0	106	18	24	37	18	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1849913--1849949	14	2.6	15	83	12	51	45	18	16	18	1.85
1853273--1853337	25	2.6	26	79	13	75	61	1	4	32	1.26
1853325--1853364	16	2.4	17	84	16	57	67	2	2	27	1.16
1855091--1855344	73	3.5	73	84	10	349	44	2	6	45	1.44
1855091--1855344	38	6.9	38	84	12	336	44	2	6	45	1.44
1855164--1855214	26	2.0	26	88	0	75	43	1	5	49	1.38
1855305--1855366	25	2.6	24	82	7	65	48	0	6	45	1.28
1855274--1855404	60	2.2	61	84	5	169	45	0	7	46	1.37
1855334--1855438	35	2.9	35	84	12	133	44	2	8	43	1.49
1855334--1855438	37	2.9	36	85	9	135	44	2	8	43	1.49
1855473--1855500	10	2.8	10	100	0	56	28	0	0	71	0.86
1856547--1856620	21	3.6	21	67	15	55	17	8	5	68	1.33
1856531--1856617	42	2.0	43	86	6	122	18	8	5	67	1.36
1856663--1856742	32	2.4	33	87	6	108	16	6	3	73	1.18
1856696--1856757	21	2.9	22	76	4	56	19	3	3	74	1.10
1857671--1857697	14	1.9	14	100	0	54	37	0	11	51	1.37
1858001--1858309	153	2.0	154	99	0	611	34	9	14	41	1.79
1858615--1858699	32	2.6	33	83	7	111	9	9	35	45	1.69
1859600--1859624	13	1.9	13	100	0	50	32	8	0	60	1.26
1859890--1859925	2	18.0	2	94	0	63	50	0	2	47	1.15
1861274--1861325	19	2.8	18	83	11	70	11	23	46	19	1.82
1866269--1866425	79	2.0	79	97	2	298	29	19	6	45	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1866667--1866799	44	3.2	44	65	27	124	35	9	8	47	1.65
1866640--1866805	82	2.0	82	98	0	323	36	8	9	46	1.66
1867217--1867252	2	18.0	2	88	0	54	55	0	44	0	0.99
1876211--1876269	29	2.0	29	100	0	118	20	30	10	38	1.86
1876432--1876735	153	2.0	153	99	0	599	17	18	35	27	1.94
1877844--1877916	20	3.6	20	75	3	83	38	23	21	16	1.93
1877841--1877941	41	2.5	41	98	0	193	36	23	19	19	1.95
1877841--1877945	21	5.1	21	70	4	97	37	24	19	19	1.94
1880945--1880978	12	2.8	12	95	0	59	58	8	5	26	1.51
1886400--1886426	9	3.0	9	100	0	54	11	0	0	88	0.50
1887188--1887286	50	2.0	50	85	0	135	44	12	14	29	1.81
1888978--1889007	3	9.7	3	92	7	51	36	0	0	63	0.95
1890382--1890430	22	2.2	22	89	7	73	26	4	2	67	1.19
1890361--1890430	11	6.3	10	79	17	59	27	4	1	67	1.18
1890610--1890816	115	1.8	115	82	2	272	40	7	7	44	1.62
1893287--1893325	20	1.9	21	84	5	53	35	23	0	41	1.55
1895106--1895140	2	17.5	2	100	0	70	48	0	0	51	1.00
1896251--1896332	27	3.0	27	100	0	164	48	10	21	18	1.78
1899021--1899404	144	2.7	142	82	4	520	32	24	23	19	1.98
1905240--1905303	30	2.1	30	85	0	83	34	28	18	18	1.95
1905460--1905495	17	2.0	19	89	10	58	38	11	5	44	1.63
1905979--1906129	64	2.3	65	85	6	191	29	16	19	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1909639--1909680	18	2.3	19	84	12	61	38	11	9	40	1.75
1910222--1910273	19	2.7	19	100	0	104	26	21	17	34	1.95
1910157--1910340	83	2.2	84	83	6	230	27	18	19	34	1.95
1914259--1914370	57	2.0	57	96	0	206	22	21	23	33	1.98
1915411--1915458	2	24.0	2	100	0	96	50	0	0	50	1.00
1920421--1920480	28	2.1	29	84	9	79	71	1	3	23	1.10
1921584--1921655	23	3.1	22	80	6	72	43	5	2	48	1.40
1923491--1923565	18	3.9	18	73	24	64	22	16	32	29	1.95
1924138--1924185	22	2.2	22	92	0	78	16	22	33	27	1.96
1924702--1924753	18	2.9	18	91	2	79	38	0	32	28	1.57

Tables:   1   2   3   4   5   6   7   8   9   10   11   12