genome.fa.s8824.2.7.7.80.10.50.1000.8.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: VEPZ01008824.1 Hibiscus syriacus cultivar Beakdansim tig00111996_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4603428

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

This is table  8  of  19  ( 2203 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)
1679948--1680360	113	3.7	113	93	1	688	27	20	15	37	1.92
1681160--1681321	54	3.0	54	81	0	180	29	17	14	38	1.89
1685552--1685686	72	1.9	72	95	0	243	35	20	20	23	1.96
1688139--1688225	43	2.0	44	88	2	131	35	21	10	32	1.87
1689539--1689595	31	1.9	28	82	10	69	66	1	7	24	1.26
1690959--1690987	2	14.5	2	100	0	58	48	0	0	51	1.00
1699945--1700021	21	3.6	21	81	13	102	23	9	24	42	1.83
1706314--1706378	31	2.1	31	94	0	112	27	9	10	52	1.67
1706497--1706544	21	2.4	21	79	6	55	52	2	2	43	1.24
1706497--1706544	20	2.4	19	82	10	51	52	2	2	43	1.24
1715162--1715282	59	2.1	59	87	0	170	35	20	17	26	1.95
1718346--1718398	20	2.6	21	80	14	65	33	18	20	26	1.96
1722273--1722392	3	38.3	3	69	22	61	38	3	1	56	1.26
1722267--1722392	7	18.6	7	72	22	60	38	3	1	57	1.24
1722267--1722391	21	5.8	23	74	19	117	38	3	1	56	1.25
1724072--1724107	16	2.2	17	90	5	56	61	8	5	25	1.46
1724723--1724766	5	9.2	5	85	5	56	75	4	0	20	0.98
1724875--1724903	3	9.7	3	100	0	58	68	0	0	31	0.89
1726459--1726849	100	3.9	100	79	7	407	38	12	16	32	1.86
1726862--1727080	36	6.4	35	70	15	154	41	13	16	29	1.86
1726862--1727080	102	2.1	102	87	3	316	41	13	16	29	1.86
1726841--1726978	66	2.1	66	84	2	179	43	12	16	27	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1726964--1727165	66	3.1	66	87	0	287	40	15	14	29	1.87
1727030--1727155	36	3.7	36	69	16	95	42	19	11	26	1.85
1728124--1728163	18	2.2	18	95	0	71	52	30	2	15	1.55
1733321--1733364	3	14.7	3	95	0	79	65	0	2	31	1.05
1737381--1737407	11	2.5	11	100	0	54	37	0	62	0	0.95
1738043--1738090	21	2.3	21	92	0	78	41	10	18	29	1.84
1742432--1742472	20	2.0	20	100	0	82	41	4	34	19	1.73
1742716--1742763	21	2.3	21	92	0	78	41	12	16	29	1.85
1743397--1743451	29	1.9	28	85	3	74	29	16	7	47	1.73
1744088--1744128	3	13.7	3	84	0	55	65	2	4	26	1.25
1748995--1749114	42	2.8	42	79	6	143	26	33	15	24	1.95
1749109--1749158	21	2.4	21	93	0	82	22	28	24	26	1.99
1749883--1749922	21	1.9	21	94	0	71	52	0	2	45	1.14
1750174--1750199	11	2.4	11	100	0	52	23	69	7	0	1.14
1754171--1754208	20	1.9	20	88	0	58	15	31	7	44	1.75
1754745--1754775	3	10.3	3	100	0	62	32	0	32	35	1.58
1755223--1755261	20	2.0	20	100	0	78	25	25	23	25	2.00
1758690--1758722	16	2.0	17	94	5	59	21	36	12	30	1.90
1760575--1760621	12	3.7	12	83	16	51	70	8	2	19	1.24
1765654--1765678	2	12.5	2	100	0	50	52	0	0	48	1.00
1765701--1765863	85	1.9	85	82	2	202	30	17	20	31	1.96
1765835--1765886	13	4.0	13	92	0	86	32	19	23	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1766458--1766524	3	21.3	3	77	8	62	56	2	2	37	1.30
1766458--1766524	10	6.4	10	75	18	57	56	2	2	37	1.30
1769641--1769675	14	2.5	15	90	9	56	68	0	0	31	0.90
1775864--1775912	15	3.3	15	77	11	55	40	26	6	26	1.79
1776082--1776123	22	2.0	21	86	13	59	28	0	7	64	1.20
1778299--1778358	3	19.0	3	80	10	66	35	3	1	60	1.23
1778298--1778355	16	3.6	16	81	4	64	34	3	1	60	1.24
1778357--1778382	3	8.7	3	100	0	52	34	30	0	34	1.58
1785069--1785111	19	2.3	18	88	11	61	34	18	0	46	1.50
1790083--1790166	36	2.3	36	77	2	87	32	15	10	41	1.81
1791068--1791163	3	31.0	3	82	6	111	33	3	2	61	1.23
1791079--1791157	22	3.6	23	76	10	67	34	2	1	62	1.17
1803786--1803823	20	1.9	20	88	0	58	44	0	5	50	1.24
1809838--1809877	18	2.2	18	86	8	55	32	0	2	65	1.06
1811301--1811338	3	12.7	3	88	0	58	34	5	0	60	1.19
1811870--1811905	19	1.9	18	88	5	54	69	0	27	2	1.02
1812840--1812937	40	2.5	40	93	5	164	30	9	7	53	1.60
1814948--1814987	2	20.0	2	100	0	80	50	50	0	0	1.00
1817588--1817677	45	2.0	45	84	0	117	31	16	10	42	1.81
1821205--1821409	45	5.0	44	65	24	144	29	24	10	35	1.89
1821243--1821375	34	3.6	34	71	20	122	30	22	10	36	1.88
1821196--1821409	79	2.7	79	94	0	365	28	23	11	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1821847--1821907	22	2.9	19	77	13	59	24	27	16	31	1.96
1821894--1822075	95	1.9	95	83	4	233	28	26	16	29	1.97
1826534--1826592	2	30.5	2	93	6	104	50	0	0	49	1.00
1826534--1826592	25	2.4	25	97	0	109	50	0	0	49	1.00
1826592--1826616	2	12.5	2	100	0	50	52	48	0	0	1.00
1827255--1827467	106	2.0	106	100	0	426	30	11	18	39	1.86
1828384--1828743	131	2.7	131	81	3	418	26	31	16	25	1.97
1836259--1836292	17	2.0	17	100	0	68	0	17	17	64	1.29
1836480--1836760	55	5.1	55	85	3	343	32	17	19	30	1.95
1837557--1837764	45	4.6	45	80	3	215	41	19	16	22	1.90
1837557--1837737	90	2.0	90	84	4	240	40	19	16	23	1.90
1838108--1838208	42	2.4	42	80	1	123	29	21	23	24	1.99
1838182--1838564	176	2.2	177	87	2	551	33	17	16	32	1.93
1838537--1838624	42	2.1	41	85	2	122	29	22	21	26	1.99
1838560--1838639	42	1.9	42	85	10	110	32	21	20	26	1.97
1838735--1838845	42	2.7	41	84	2	150	32	22	19	25	1.98
1838473--1838905	198	2.2	197	89	1	661	32	18	17	31	1.94
1839955--1840011	24	2.4	24	96	0	105	35	14	3	47	1.61
1841226--1841346	9	13.1	9	76	8	109	4	16	0	79	0.88
1841227--1841312	17	5.0	16	83	13	75	5	11	0	82	0.83
1841237--1841340	8	13.5	8	78	13	60	3	17	0	78	0.89
1841292--1841352	22	2.7	22	85	9	79	0	27	0	72	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1841256--1841352	15	6.1	17	73	17	64	2	21	0	76	0.89
1848969--1849005	18	2.2	18	85	9	51	56	5	13	24	1.58
1850865--1851512	81	8.1	80	87	3	833	29	24	12	33	1.92
1851714--1851825	55	2.0	55	91	3	181	31	21	13	33	1.92
1852166--1852210	22	2.2	21	84	11	58	28	17	17	35	1.93
1852239--1852293	20	2.7	21	81	15	71	25	23	16	34	1.95
1854101--1854191	41	2.2	41	86	0	119	37	6	17	38	1.76
1854477--1854828	43	8.2	43	80	6	249	34	21	21	22	1.97
1854503--1854828	85	3.8	85	84	6	383	34	21	21	22	1.97
1854542--1854828	128	2.2	128	83	5	364	34	22	21	21	1.97
1858235--1858638	41	9.8	41	82	6	413	31	16	21	29	1.96
1858235--1858592	83	4.3	83	89	1	522	31	17	22	28	1.96
1858235--1858638	166	2.4	166	85	2	542	31	16	21	29	1.96
1859045--1859082	16	2.3	17	86	4	51	71	2	18	7	1.23
1865710--1865920	65	3.3	64	82	8	250	30	24	17	27	1.97
1871197--1871276	24	3.5	24	69	20	73	22	25	21	31	1.98
1872811--1872854	21	2.1	21	82	0	52	9	43	15	31	1.79
1873512--1873558	23	2.1	23	84	4	60	53	2	27	17	1.55
1873976--1874041	19	3.5	19	95	0	123	27	36	15	21	1.93
1874025--1874115	47	1.9	47	82	8	114	29	26	19	24	1.98
1877912--1877981	24	2.9	24	78	0	77	18	12	17	51	1.76
1879080--1879137	29	2.0	29	93	0	98	32	3	13	50	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1882914--1882986	24	3.0	24	81	0	92	20	10	17	50	1.76
1882919--1882982	12	5.3	12	75	14	51	17	12	18	51	1.76
1885969--1886701	43	17.0	43	75	4	406	30	24	21	23	1.99
1886940--1887077	8	15.2	10	73	20	126	45	0	0	53	1.05
1886892--1887078	25	7.7	24	80	15	149	42	0	1	55	1.11
1886892--1887078	15	11.5	15	80	14	162	42	0	1	55	1.11
1886892--1887078	10	17.2	10	80	14	162	42	0	1	55	1.11
1889068--1889138	2	35.5	2	100	0	142	50	0	0	49	1.00
1889601--1889716	56	2.1	56	86	0	160	39	26	27	6	1.79
1892750--1893018	135	2.0	134	95	2	486	37	12	6	42	1.69

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