genome.fa.s8523.2.7.7.80.10.50.1000.7.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: VEPZ01008523.1 Hibiscus syriacus cultivar Beakdansim tig00111392_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4657139

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

This is table  7  of  18  ( 2060 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)
1678826--1678851	13	2.0	13	100	0	52	23	7	7	61	1.49
1682906--1682949	2	22.0	2	85	0	61	56	0	0	43	0.99
1682939--1682984	17	2.6	17	86	6	56	36	2	2	58	1.22
1687536--1687886	30	11.7	30	76	14	232	37	8	1	52	1.42
1687536--1687886	59	5.9	59	75	11	245	37	8	1	52	1.42
1687580--1687791	89	2.4	88	77	5	221	37	9	1	50	1.44
1687718--1687910	95	2.0	98	81	8	229	39	5	1	52	1.34
1690985--1691035	26	1.9	27	84	4	68	68	1	1	27	1.11
1690991--1691043	26	2.0	26	85	7	72	64	3	1	30	1.22
1699748--1699819	3	24.0	3	100	0	144	33	0	0	66	0.92
1704668--1704752	30	2.8	30	89	1	116	42	18	15	23	1.88
1720476--1720511	6	6.0	6	93	0	63	36	50	0	13	1.43
1722870--1722898	2	14.5	2	100	0	58	48	0	0	51	1.00
1723840--1723869	2	15.0	2	100	0	60	50	0	0	50	1.00
1731941--1731981	2	20.5	2	100	0	82	51	0	0	48	1.00
1731981--1732008	2	14.0	2	100	0	56	50	0	50	0	1.00
1733224--1733391	31	5.4	32	74	11	125	42	3	7	46	1.48
1733239--1733391	62	2.5	62	83	3	193	42	3	7	46	1.49
1734864--1734914	21	2.4	21	80	0	57	17	1	3	76	1.03
1734864--1734914	7	7.3	7	73	8	50	17	1	3	76	1.03
1734919--1734983	22	2.9	23	85	14	84	16	20	12	50	1.77
1735352--1735548	66	3.0	66	93	0	324	42	7	7	43	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1760479--1760523	23	2.0	23	86	0	63	26	28	24	20	1.99
1760502--1760805	149	2.0	149	99	0	599	36	20	16	27	1.93
1761286--1761432	67	2.2	68	92	2	242	14	28	25	31	1.95
1767490--1767534	23	2.0	23	86	0	63	26	28	24	20	1.99
1767513--1767816	149	2.0	149	100	0	608	36	20	16	27	1.94
1768294--1768446	67	2.2	68	91	2	245	15	26	28	30	1.96
1769830--1769881	24	2.2	24	86	6	70	32	19	3	44	1.69
1771572--1771597	3	8.7	3	100	0	52	34	30	0	34	1.58
1778472--1778522	16	3.4	16	69	20	56	43	15	9	31	1.80
1778473--1778530	28	2.1	28	100	0	116	41	15	6	36	1.74
1789974--1790010	17	2.1	19	85	10	51	29	0	2	67	1.04
1798166--1798205	18	2.2	19	95	4	73	27	7	5	60	1.45
1798166--1798211	18	2.6	18	89	6	58	30	8	4	56	1.49
1799607--1799649	14	2.9	15	79	10	52	58	2	0	39	1.11
1814093--1814126	2	17.0	2	100	0	68	50	0	0	50	1.00
1818496--1818570	37	2.0	37	97	0	141	21	40	22	16	1.91
1818991--1819155	90	1.8	90	90	0	267	36	10	6	47	1.62
1822761--1822821	27	2.3	27	97	0	113	31	26	22	19	1.98
1822788--1822938	66	2.3	66	95	0	266	31	25	26	15	1.96
1822921--1823001	27	3.0	27	87	0	108	34	32	25	7	1.84
1822935--1823009	27	2.7	27	87	2	78	36	28	28	8	1.85
1827640--1827664	12	2.1	12	100	0	50	0	16	0	84	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1827972--1828049	27	2.9	27	98	0	147	34	25	3	35	1.74
1832013--1832079	34	2.0	34	84	0	89	49	22	8	19	1.76
1838591--1838644	26	2.1	26	96	0	99	29	24	3	42	1.72
1839268--1839327	29	2.0	29	87	3	84	31	8	23	36	1.84
1841257--1841323	30	2.2	30	81	7	82	28	5	7	58	1.49
1846908--1847165	41	6.3	41	71	9	134	32	19	18	29	1.96
1846881--1847056	21	8.5	21	69	9	76	26	21	18	32	1.97
1847046--1847157	20	5.6	20	82	8	129	37	19	20	22	1.94
1847706--1847750	19	2.4	19	92	0	72	48	26	15	8	1.74
1847751--1847814	34	1.9	34	87	3	94	12	25	20	42	1.87
1847782--1847839	20	2.9	20	80	10	64	15	24	17	43	1.87
1849929--1850047	42	2.8	42	81	5	107	23	36	17	22	1.95
1851365--1851400	14	2.6	14	95	0	63	30	0	25	44	1.54
1851507--1851559	19	2.8	19	97	0	97	41	20	24	13	1.88
1853899--1853923	12	2.1	12	100	0	50	0	28	0	72	0.86
1854098--1854151	24	2.2	24	90	0	81	40	20	16	22	1.91
1854933--1854984	21	2.5	21	87	3	70	38	17	23	21	1.93
1854969--1855060	20	4.6	20	73	2	76	39	21	18	20	1.93
1855411--1855469	20	3.0	20	87	0	73	42	22	18	16	1.89
1855732--1855775	22	2.0	22	90	0	70	18	13	45	22	1.84
1855955--1856023	21	3.3	21	67	18	54	20	14	23	42	1.89
1855949--1856046	41	2.4	41	84	0	133	22	15	22	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1856114--1856154	21	2.0	21	85	0	55	34	29	17	19	1.94
1858605--1858643	18	2.2	17	86	4	51	43	12	2	41	1.56
1858563--1858686	60	2.0	62	90	3	198	41	11	3	44	1.56
1862973--1863201	112	2.0	112	96	0	422	41	17	10	31	1.82
1863915--1863948	16	2.2	15	89	5	50	61	0	2	35	1.11
1867931--1867976	24	2.0	23	82	4	56	36	2	15	45	1.58
1868274--1868350	39	2.0	39	89	0	118	38	12	25	22	1.90
1868603--1868639	20	1.9	19	89	10	58	45	10	24	18	1.81
1872842--1872885	21	2.1	21	86	0	61	45	0	2	52	1.13
1874819--1874848	16	1.9	16	93	6	53	53	0	0	46	1.00
1875690--1875720	3	10.3	3	92	0	53	32	3	0	64	1.09
1876479--1876518	2	20.5	2	94	5	73	50	0	0	50	1.00
1878220--1878278	31	2.0	31	86	6	86	50	5	1	42	1.34
1878337--1878400	28	2.2	29	88	2	94	39	6	1	53	1.36
1879005--1879126	53	2.3	53	92	4	201	30	24	24	20	1.99
1879105--1879138	6	6.0	6	90	10	54	17	35	29	17	1.93
1879105--1879138	11	3.0	11	91	8	59	17	35	29	17	1.93
1887193--1887226	2	17.0	2	93	0	59	47	2	0	50	1.16
1889216--1890585	4	347.8	4	91	4	2157	47	24	2	25	1.64
1891028--1891086	31	1.9	31	92	0	100	42	5	8	44	1.57
1892407--1892577	30	5.9	29	80	13	201	46	20	4	29	1.69
1892437--1892534	27	3.5	27	81	13	126	46	20	5	27	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1892407--1892564	57	2.8	57	96	0	289	46	20	4	27	1.70
1893642--1893701	22	2.8	22	92	2	95	56	23	1	18	1.50
1893675--1893741	32	2.1	32	88	5	100	58	19	0	22	1.40
1893692--1893771	20	3.9	21	75	8	74	56	13	0	30	1.38
1894663--1894723	32	1.9	32	86	6	88	57	19	0	22	1.41
1898831--1898880	22	2.2	24	76	20	63	34	2	0	64	1.05
1899659--1899685	12	2.2	12	100	0	54	7	7	25	59	1.51
1915528--1915555	14	2.0	14	100	0	56	28	7	7	57	1.52
1916181--1916275	30	3.1	30	83	1	100	33	17	9	38	1.82
1916385--1916420	18	1.9	19	94	5	65	69	0	0	30	0.89
1919004--1919039	2	18.0	2	94	0	63	47	0	2	50	1.15
1928245--1928298	25	2.2	25	100	0	108	7	16	55	20	1.65
1940296--1940342	2	23.5	2	95	0	85	46	0	2	51	1.13
1940824--1940881	2	29.0	2	100	0	116	50	0	0	50	1.00
1943263--1943291	2	14.5	2	100	0	58	51	0	0	48	1.00
1944015--1944058	23	1.9	23	85	0	61	43	15	11	29	1.82
1950042--1950086	20	2.1	22	84	8	58	57	2	2	37	1.23
1950069--1950105	12	3.1	12	100	0	74	43	0	0	56	0.99
1950069--1950119	24	2.1	24	82	7	59	47	1	0	50	1.12
1955049--1955497	229	2.0	227	94	0	790	45	7	7	39	1.61
1955563--1955608	20	2.3	19	89	10	74	54	10	17	17	1.70
1956467--1956865	184	2.2	184	99	0	789	36	13	15	34	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1956932--1956982	25	2.0	25	92	0	84	33	7	19	39	1.81
1957231--1957267	18	2.1	18	89	0	56	32	5	8	54	1.53
1957526--1957653	39	3.3	39	96	0	229	48	18	13	19	1.81
1958387--1958412	6	4.3	6	100	0	52	15	69	0	15	1.20
1960615--1960670	2	28.0	2	100	0	112	50	0	0	50	1.00
1966094--1966143	23	2.1	22	82	10	55	26	6	2	66	1.26
1966274--1966484	21	10.6	20	71	18	145	25	23	20	30	1.98
1966294--1966422	20	6.7	20	72	19	121	23	24	18	34	1.96
1966294--1966459	55	2.8	58	82	12	198	24	24	18	33	1.97
1966350--1966484	41	3.3	41	88	3	173	25	22	20	31	1.98

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