genome.fa.s9461.2.7.7.80.10.50.1000.10.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: VEPZ01009461.1 Hibiscus syriacus cultivar Beakdansim tig00113724_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2346588

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

This is table  10  of  12  ( 1395 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)
1749925--1749990	19	3.5	19	80	15	91	31	0	0	68	0.90
1749917--1750070	41	3.8	40	77	12	129	40	0	0	59	0.97
1750226--1750267	22	1.9	22	85	0	57	26	11	21	40	1.88
1760075--1760156	19	4.0	20	75	15	78	43	14	2	39	1.59
1760102--1760253	8	18.9	8	73	18	66	44	12	1	41	1.50
1760210--1760257	2	24.0	2	100	0	96	50	0	0	50	1.00
1760313--1760368	29	2.0	29	85	3	78	42	10	10	35	1.74
1767233--1767297	30	2.2	31	86	5	89	49	7	6	36	1.57
1772804--1772849	2	23.0	2	100	0	92	50	0	0	50	1.00
1773768--1773830	16	3.7	17	73	21	51	49	1	1	47	1.20
1774247--1774312	32	2.0	33	97	2	125	36	15	21	27	1.93
1782103--1782143	18	2.3	18	82	0	55	24	31	21	21	1.98
1786711--1786754	21	2.0	22	95	4	81	43	13	13	29	1.83
1793620--1793681	25	2.5	24	77	15	63	61	0	4	33	1.17
1793678--1793741	31	2.1	31	100	0	128	37	25	6	31	1.81
1804214--1804247	13	2.6	13	100	0	68	5	14	0	79	0.91
1813538--1813610	18	3.9	18	84	7	101	27	30	21	20	1.98
1820427--1820499	18	3.9	18	82	7	101	27	30	21	20	1.98
1820426--1820508	38	2.2	38	88	0	130	26	30	20	22	1.98
1821650--1821680	9	3.6	9	91	8	55	64	0	35	0	0.94
1822437--1822477	22	1.9	21	90	5	64	36	36	2	24	1.69
1822791--1822862	11	6.4	11	76	17	67	81	2	13	1	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1822790--1822843	18	3.0	18	86	13	76	81	3	14	0	0.82
1822791--1822851	23	2.7	22	80	14	70	83	1	14	0	0.72
1822791--1822862	17	4.2	16	81	15	74	81	2	13	1	0.86
1822791--1822862	27	2.5	28	82	8	92	81	2	13	1	0.86
1822843--1822868	11	2.4	11	100	0	52	76	7	7	7	1.15
1829508--1829599	24	3.7	24	71	22	82	28	3	10	57	1.48
1831547--1831607	30	2.0	30	96	0	113	26	6	9	57	1.55
1834195--1834398	108	1.9	108	84	2	275	29	10	17	41	1.84
1836560--1836600	21	2.0	22	85	9	59	9	12	19	58	1.61
1836507--1836863	179	2.0	181	86	2	495	22	15	15	46	1.83
1837832--1837866	16	2.1	18	89	10	56	65	0	8	25	1.21
1837876--1837934	24	2.6	23	76	7	66	66	1	5	27	1.22
1838413--1838501	37	2.4	37	83	3	99	30	14	13	41	1.84
1839060--1840030	109	9.3	102	80	10	850	20	21	26	31	1.98
1839064--1840035	207	4.7	205	85	6	1176	20	21	26	31	1.98
1840768--1840938	72	2.3	75	82	7	199	42	12	17	26	1.85
1841722--1841798	22	3.5	22	92	0	136	23	12	25	37	1.91
1842442--1842521	16	5.1	15	76	18	51	0	15	7	77	0.98
1842448--1842515	8	8.0	8	71	12	55	0	14	5	79	0.91
1843669--1843707	8	5.0	8	84	6	53	58	12	17	10	1.61
1843669--1843707	15	2.5	15	87	4	51	58	12	17	10	1.61
1844229--1844268	18	2.2	18	95	0	71	35	12	35	17	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1846382--1846415	16	2.1	16	88	5	50	64	0	8	26	1.22
1846425--1846483	24	2.6	23	76	7	66	66	1	5	27	1.22
1846963--1847049	37	2.4	37	84	0	102	29	14	11	43	1.81
1849472--1849649	20	8.9	20	83	10	132	28	24	12	35	1.91
1849472--1849650	60	3.0	60	77	11	168	28	24	12	35	1.91
1849542--1849649	40	2.7	40	87	5	148	24	24	12	38	1.90
1849805--1849843	16	2.5	15	84	8	51	28	5	0	66	1.12
1850788--1850812	3	8.3	3	100	0	50	64	0	36	0	0.94
1854228--1854321	20	4.8	20	84	1	109	53	20	12	13	1.72
1854354--1854393	20	2.0	20	85	0	53	15	12	22	50	1.77
1854727--1854774	22	2.3	20	86	13	71	20	12	45	20	1.83
1854929--1854999	20	3.5	20	84	5	90	16	15	28	39	1.89
1864536--1864574	18	2.2	18	95	4	71	64	2	0	33	1.08
1865107--1865149	20	2.2	20	100	0	86	39	25	9	25	1.85
1865469--1865500	14	2.3	14	100	0	64	34	0	0	65	0.93
1866162--1866499	131	2.6	129	86	3	444	32	7	15	44	1.74
1868997--1869066	3	23.3	3	71	11	54	28	1	1	68	1.06
1868993--1869073	17	4.6	18	77	18	89	28	1	1	69	1.04
1875197--1875236	21	1.9	21	89	0	62	25	42	25	7	1.80
1877674--1877728	2	27.5	2	100	0	110	50	0	0	49	1.00
1877788--1877857	2	35.5	2	84	8	90	45	1	2	50	1.25
1877857--1877883	2	13.5	2	100	0	54	0	0	48	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1879857--1880058	38	5.4	38	76	14	111	47	1	7	44	1.40
1879863--1879913	24	2.0	27	85	11	72	50	0	3	45	1.20
1879879--1880048	37	4.6	36	75	19	140	46	1	8	43	1.44
1879998--1880154	40	3.8	43	77	15	120	47	1	7	43	1.43
1880040--1880157	36	3.1	38	89	8	195	46	1	7	44	1.42
1880059--1880160	11	8.4	11	69	25	55	44	1	7	46	1.44
1880095--1880203	48	2.2	49	88	6	157	45	0	6	46	1.34
1880095--1880167	13	5.7	13	73	12	62	43	1	8	46	1.42
1880146--1880271	37	3.4	35	78	14	137	42	0	6	50	1.33
1880157--1880290	37	3.6	39	77	20	119	43	1	5	49	1.36
1881301--1881481	18	10.4	17	74	16	65	75	1	8	15	1.10
1881330--1881674	5	67.6	5	69	18	89	74	2	7	15	1.16
1881306--1881487	14	13.4	13	70	19	81	75	1	8	15	1.09
1881378--1881489	37	2.9	38	80	17	99	77	1	5	15	1.03
1881377--1881492	49	2.4	45	77	17	85	78	1	5	14	1.00
1881334--1881492	18	8.9	18	77	16	79	76	1	8	14	1.08
1881361--1881495	23	5.5	23	69	18	69	77	1	5	15	1.04
1881308--1881495	13	14.5	13	70	15	88	75	1	8	14	1.09
1881423--1881509	37	2.4	36	84	7	97	77	3	6	12	1.10
1881557--1881680	23	5.3	23	73	19	87	77	4	5	12	1.09
1881557--1881662	23	4.6	22	75	12	97	79	4	4	11	1.04
1881556--1881662	17	5.9	17	71	24	58	78	4	4	12	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1881627--1881674	22	2.1	23	88	3	71	77	0	8	14	0.99
1881693--1881732	12	2.9	15	75	21	50	62	0	10	27	1.27
1881763--1881833	25	2.8	25	72	12	74	70	1	2	25	1.09
1883193--1884699	85	17.8	85	85	2	1767	24	18	22	34	1.96
1885694--1885876	94	1.9	95	87	1	269	31	18	15	34	1.92
1889855--1889980	39	3.2	38	76	18	114	73	3	7	15	1.20
1889896--1889958	33	1.9	33	86	0	90	74	3	6	15	1.15
1889890--1889974	18	4.5	18	78	12	82	75	2	7	15	1.12
1889970--1890368	6	65.8	6	93	3	532	64	18	3	13	1.40
1890417--1890562	5	25.3	6	74	13	71	75	1	4	19	1.04
1890384--1890521	10	12.7	10	71	17	80	78	3	5	13	1.05
1892188--1892221	12	2.8	13	86	13	54	20	5	0	73	1.04
1892251--1892480	5	44.6	5	67	21	104	18	3	3	74	1.10
1892153--1892258	52	2.1	51	81	12	119	18	9	4	66	1.37
1892341--1892470	41	3.5	35	74	18	111	15	2	3	78	1.00
1895680--1895714	2	17.5	2	100	0	70	51	0	0	48	1.00
1897582--1897622	11	3.6	11	87	6	55	65	4	4	24	1.32
1897705--1897749	12	3.7	12	81	3	54	66	0	4	28	1.11
1897706--1897754	24	2.0	24	92	0	80	67	0	4	28	1.09
1898327--1898418	37	2.5	37	90	0	139	30	14	14	41	1.85
1898638--1900119	106	14.0	106	90	1	2181	22	18	24	34	1.96
1901028--1901103	22	3.5	22	90	3	127	25	14	26	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1901709--1901783	7	10.7	7	76	9	55	1	12	6	80	0.97
1901711--1901785	20	3.8	20	73	16	59	1	12	6	80	0.97
1901732--1901789	16	3.7	15	80	15	57	0	13	5	81	0.86
1901722--1901788	35	1.9	34	82	14	84	0	13	5	80	0.88
1906401--1906428	12	2.3	12	100	0	56	85	0	14	0	0.59
1906965--1906992	2	14.0	2	100	0	56	50	0	0	50	1.00
1907046--1907099	24	2.1	27	86	10	78	72	1	0	25	0.95
1906990--1907079	16	5.2	16	70	18	56	74	2	5	17	1.11
1915523--1915655	30	4.4	30	97	0	248	32	23	19	24	1.98
1915523--1915680	60	2.6	60	91	1	235	33	24	18	23	1.97

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