genome.fa.s8245.2.7.7.80.10.50.1000.10.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: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6601124

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   

This is table  10  of  33  ( 3922 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)
1771698--1771779	32	2.6	32	82	0	101	41	2	48	7	1.44
1771727--1771801	24	3.0	24	75	11	80	41	1	50	6	1.37
1771914--1771940	7	3.9	7	100	0	54	44	14	29	11	1.80
1772080--1772135	25	2.2	25	100	0	112	42	17	7	32	1.77
1772858--1772895	19	2.1	19	90	5	60	42	0	0	57	0.98
1775428--1775509	29	2.8	29	98	1	155	32	14	13	39	1.85
1776040--1776092	22	2.4	22	96	0	97	49	33	5	11	1.62
1780188--1780268	29	2.8	29	90	5	119	32	16	11	40	1.83
1780817--1780875	26	2.3	26	96	0	109	42	8	15	33	1.77
1788935--1789109	57	3.1	57	80	7	194	34	3	36	25	1.73
1788966--1789149	57	3.2	57	82	3	165	33	3	35	26	1.75
1793398--1793491	31	3.0	31	80	6	109	28	29	25	15	1.96
1794382--1794598	29	7.6	29	88	3	287	34	22	5	37	1.79
1794617--1794654	19	2.0	19	89	0	58	26	34	23	15	1.95
1801801--1801958	29	5.5	29	83	2	185	34	18	6	39	1.77
1803134--1803373	36	6.7	36	85	2	322	18	24	22	34	1.96
1806518--1806607	29	3.1	28	72	12	83	35	11	5	47	1.62
1808111--1808146	2	18.5	2	94	5	65	50	0	0	50	1.00
1809398--1809429	2	16.0	2	100	0	64	50	0	0	50	1.00
1810008--1810036	15	1.9	15	100	0	58	20	34	27	17	1.95
1810725--1810895	85	2.0	85	96	1	317	33	9	12	44	1.74
1815006--1815067	28	2.2	28	100	0	124	45	0	25	29	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1821234--1821297	31	2.1	31	81	0	74	60	6	6	26	1.44
1827674--1827836	64	2.5	64	82	3	177	35	19	18	26	1.95
1828476--1828557	23	3.6	23	83	0	110	18	21	26	32	1.97
1833162--1833241	29	2.8	29	100	0	160	30	15	18	36	1.92
1840523--1841148	127	5.0	127	90	0	979	22	22	19	34	1.96
1841156--1841240	42	2.0	42	83	0	107	22	21	35	21	1.96
1842931--1842967	18	1.9	18	89	10	56	70	8	0	21	1.13
1842973--1843051	31	2.5	33	78	12	85	56	0	0	43	0.99
1843026--1843070	24	1.9	23	81	4	54	60	2	0	37	1.09
1845042--1845100	20	2.9	19	74	16	64	57	1	1	38	1.19
1848029--1848145	20	5.9	21	85	11	149	39	23	16	20	1.92
1848029--1848144	60	1.9	59	86	11	166	39	24	16	19	1.91
1848905--1848938	12	2.8	12	90	0	50	55	29	0	14	1.40
1849065--1849118	24	2.2	24	90	0	81	22	16	20	40	1.91
1851729--1851772	20	2.2	20	100	0	88	34	25	22	18	1.96
1851783--1851859	20	3.8	20	84	0	100	24	19	19	36	1.95
1851783--1851859	40	1.9	40	91	0	127	24	19	19	36	1.95
1851949--1851998	25	2.0	25	96	0	91	26	8	22	44	1.80
1852377--1852417	12	3.4	12	79	0	55	31	2	14	51	1.56
1852366--1852420	24	2.3	25	84	9	78	32	5	12	49	1.64
1852385--1852421	18	2.1	18	89	0	56	32	5	10	51	1.60
1852377--1852429	24	2.2	24	89	0	79	35	3	11	49	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1852732--1852818	39	2.2	39	93	0	147	48	19	13	18	1.81
1852994--1853036	20	2.2	20	95	0	77	41	23	18	16	1.89
1853044--1853088	20	2.2	20	92	0	81	17	22	24	35	1.95
1853193--1853332	66	2.2	60	86	7	181	51	17	0	30	1.50
1854711--1854806	21	4.6	21	71	5	77	25	16	34	23	1.95
1856991--1857034	14	3.1	14	80	0	52	9	15	27	47	1.76
1857046--1857083	13	3.1	13	88	11	62	78	13	7	0	0.94
1857046--1857083	11	3.2	12	92	7	60	78	13	7	0	0.94
1857525--1857581	21	2.7	21	100	0	114	42	15	21	21	1.89
1858837--1858901	33	1.9	34	90	3	105	53	13	18	13	1.72
1859653--1859764	30	3.7	30	80	2	127	20	12	8	58	1.59
1859653--1859777	30	4.2	30	80	3	92	20	13	8	57	1.62
1861683--1861741	21	2.8	21	92	0	100	20	28	23	27	1.99
1862137--1862377	45	5.4	45	92	1	378	31	21	6	39	1.79
1862150--1862223	25	3.2	25	63	31	63	29	20	8	41	1.81
1862920--1862965	24	1.9	24	86	0	65	43	13	10	32	1.78
1864969--1865774	4	201.5	4	99	0	1603	25	0	24	50	1.50
1867254--1867355	42	2.5	40	79	14	118	27	8	19	44	1.80
1869053--1869252	106	1.9	105	85	3	276	40	13	11	34	1.81
1869614--1869645	15	2.1	15	94	0	55	43	6	21	28	1.77
1870735--1870792	15	3.8	16	77	6	66	41	1	0	56	1.09
1870759--1870802	22	2.0	23	90	4	72	40	4	0	54	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1870714--1870775	3	20.7	3	80	6	63	37	3	0	59	1.13
1872728--1872753	13	2.0	13	100	0	52	76	7	7	7	1.15
1872795--1872851	19	3.1	19	82	2	71	31	17	29	21	1.96
1875206--1875242	14	2.6	14	91	0	65	37	18	16	27	1.92
1876026--1876187	40	4.1	40	96	0	297	23	16	26	33	1.95
1876292--1876417	47	2.8	45	83	5	146	40	7	21	30	1.82
1876921--1876982	30	2.1	30	96	0	115	25	22	22	29	1.99
1876960--1876997	18	2.1	18	100	0	76	34	23	21	21	1.97
1883154--1883257	24	4.4	24	85	3	122	31	22	23	23	1.98
1883368--1883570	57	3.5	57	78	6	205	34	20	5	39	1.75
1884040--1884088	21	2.4	20	83	10	55	36	26	6	30	1.81
1884870--1884916	18	2.6	19	90	10	80	63	4	0	31	1.13
1889653--1889677	6	4.2	6	100	0	50	84	0	0	16	0.63
1896083--1896290	65	3.2	62	78	12	215	26	18	24	31	1.97
1896751--1896805	2	27.5	2	100	0	110	50	0	0	49	1.00
1896942--1896991	2	25.0	2	100	0	100	50	0	0	50	1.00
1898968--1899049	23	3.6	22	73	8	67	25	23	24	26	2.00
1904847--1904954	45	2.4	45	84	7	139	32	18	20	28	1.96
1907907--1907967	29	2.1	29	87	9	88	21	11	11	55	1.66
1909579--1909684	20	5.2	20	82	6	106	31	25	18	24	1.98
1909568--1909684	61	1.9	61	83	0	153	34	24	17	23	1.96
1910239--1910283	19	2.4	19	92	0	72	48	26	15	8	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1910279--1910424	19	8.1	19	71	17	105	13	22	19	43	1.86
1910279--1910395	52	2.2	52	89	1	171	12	23	23	41	1.88
1910334--1910399	33	2.0	34	96	3	125	12	24	24	39	1.89
1912111--1912280	91	1.9	88	84	9	225	22	12	18	47	1.82
1912505--1912710	42	4.9	42	78	2	200	22	36	17	23	1.95
1912560--1912710	21	7.2	21	62	10	58	22	37	19	21	1.95
1912505--1912680	84	2.1	84	97	0	334	21	37	17	23	1.94
1912505--1912710	84	2.5	84	91	1	279	22	36	17	23	1.95
1914208--1914264	14	3.7	14	72	20	51	42	22	26	8	1.83
1914190--1914279	33	2.7	33	92	0	144	42	21	23	13	1.88
1914190--1914250	19	3.5	19	74	21	69	44	21	22	11	1.84
1914275--1914392	19	6.7	19	66	19	76	13	23	20	42	1.88
1914279--1914372	33	2.8	33	98	0	179	12	24	19	43	1.85
1916667--1916711	3	15.0	3	85	0	63	0	26	0	73	0.84
1916663--1916711	12	4.1	12	100	0	98	0	26	0	73	0.83
1916886--1916939	24	2.2	24	86	0	72	42	20	14	22	1.88
1917691--1917742	21	2.5	21	87	3	70	38	17	23	21	1.93
1917727--1917818	20	4.6	20	73	2	76	39	21	18	20	1.93
1918032--1918119	20	4.4	20	74	5	97	40	23	19	15	1.90
1918151--1918204	14	3.5	14	77	22	63	11	20	20	48	1.80
1920221--1920288	20	3.5	19	82	6	82	38	23	23	14	1.92
1920277--1920367	14	5.9	14	73	20	74	49	20	17	12	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1920261--1920372	33	3.4	33	93	1	190	48	20	18	12	1.80
1920261--1920383	65	1.9	66	88	5	187	47	21	17	12	1.80
1920379--1920460	18	4.6	19	79	14	104	13	20	19	46	1.83
1920445--1920488	20	2.2	20	88	4	63	18	25	20	36	1.95
1920981--1921025	18	2.5	18	88	0	72	13	15	44	26	1.83
1922346--1922404	20	3.0	20	87	0	73	42	22	18	16	1.89
1922866--1922917	20	2.6	20	93	0	86	25	21	28	25	1.99
1922888--1922979	41	2.2	40	79	7	96	22	19	23	33	1.97
1930953--1931012	30	2.0	30	96	0	111	33	11	20	35	1.88
1938588--1938613	11	2.4	11	100	0	52	15	0	0	84	0.62

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33