genome.fa.s7832.2.7.7.80.10.50.1000.9.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: VEPZ01007832.1 Hibiscus syriacus cultivar Beakdansim tig00110174_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4020056

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  9  of  21  ( 2482 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)
1716758--1717054	156	1.9	157	83	3	384	31	18	11	39	1.86
1716919--1717157	105	2.3	102	83	7	288	30	19	12	37	1.89
1717103--1717222	36	3.4	36	79	6	113	30	20	12	35	1.90
1717473--1717615	26	5.3	25	84	15	146	29	11	17	41	1.84
1717475--1717577	52	1.9	55	92	5	176	26	13	15	44	1.83
1717465--1717616	29	5.5	28	84	10	154	28	11	17	42	1.84
1717678--1717807	30	4.1	30	70	15	93	35	11	12	40	1.79
1717693--1717807	30	3.6	30	69	15	95	32	12	13	42	1.80
1717683--1717862	67	2.7	67	95	1	317	31	12	12	44	1.79
1717724--1717851	37	3.6	38	69	23	125	32	12	11	43	1.79
1718082--1718211	69	1.9	68	88	1	197	33	13	10	41	1.80
1718645--1718787	66	2.2	65	76	7	146	28	19	14	37	1.91
1718845--1718926	28	2.9	27	79	13	94	24	15	14	45	1.84
1718984--1719447	43	10.7	43	70	10	311	26	30	18	24	1.98
1718983--1719484	46	11.5	46	70	17	266	27	30	18	24	1.98
1718955--1719536	130	4.5	130	95	1	990	26	30	18	24	1.98
1719744--1719849	3	35.7	3	98	1	205	33	0	0	66	0.92
1720370--1720420	24	2.1	25	85	10	70	76	1	17	3	1.03
1720280--1720596	159	2.0	157	96	2	591	49	10	21	18	1.77
1723260--1723292	16	2.1	16	94	0	57	45	0	18	36	1.49
1723989--1724015	12	2.2	12	100	0	54	48	0	0	51	1.00
1726290--1726333	3	14.7	3	100	0	88	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1730168--1730230	29	2.2	29	97	0	117	30	28	25	15	1.96
1737079--1737149	16	4.2	16	75	16	63	12	5	4	77	1.09
1737085--1737145	24	2.4	25	78	15	63	11	6	4	77	1.12
1737121--1737163	16	2.6	16	85	3	50	13	11	2	72	1.22
1740935--1741292	94	3.7	96	85	4	483	34	16	17	31	1.92
1742199--1742240	17	2.5	17	88	0	66	30	11	16	40	1.85
1742699--1742926	66	3.4	65	76	13	253	27	18	12	41	1.87
1742749--1742872	36	3.4	36	89	2	178	29	20	10	39	1.86
1742787--1742849	21	3.3	20	66	25	55	26	22	6	44	1.76
1742618--1742734	36	3.2	36	83	6	155	28	18	11	41	1.86
1742619--1743112	138	3.6	139	90	2	714	27	18	12	41	1.86
1742887--1743012	36	3.5	36	84	4	173	26	18	12	42	1.86
1743781--1743825	17	2.6	18	86	10	67	28	0	4	66	1.11
1744997--1745042	16	2.9	16	81	12	51	23	0	4	71	1.03
1745195--1745253	24	2.4	25	78	16	61	10	6	5	77	1.10
1751647--1751697	12	4.3	12	76	18	54	31	0	1	66	1.03
1751682--1751765	14	6.4	14	67	20	56	40	1	1	57	1.14
1751685--1751749	24	2.5	27	80	12	82	41	0	1	56	1.08
1751657--1751815	64	2.5	65	83	6	211	41	0	2	55	1.18
1751810--1751857	21	2.3	22	79	17	57	41	2	0	56	1.11
1751992--1752066	37	1.9	39	84	7	100	56	1	2	40	1.22
1752340--1752400	31	2.0	31	90	0	95	42	13	4	39	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1752340--1752386	16	3.0	16	76	14	53	44	10	2	42	1.51
1759625--1759742	26	4.7	26	79	12	97	22	0	23	53	1.46
1759629--1759714	25	3.5	24	75	15	63	22	0	23	54	1.45
1759676--1759749	26	2.8	26	95	0	130	20	0	22	56	1.42
1759676--1759763	26	3.4	26	92	1	124	21	0	23	54	1.45
1759893--1759973	31	2.6	31	88	1	110	61	7	8	22	1.50
1766977--1767016	21	1.9	21	85	10	55	35	10	2	52	1.48
1768941--1768978	19	2.0	19	89	0	58	13	21	39	26	1.89
1771339--1771376	20	1.9	19	85	15	51	50	2	0	47	1.15
1771339--1771376	19	2.0	20	85	15	53	50	2	0	47	1.15
1774391--1774437	17	2.8	17	96	3	87	27	19	4	48	1.67
1774491--1774542	23	2.3	22	83	3	59	32	26	21	19	1.97
1781389--1781434	20	2.2	21	84	3	58	52	6	0	41	1.27
1781356--1781536	60	3.1	60	66	22	168	45	6	1	46	1.35
1781350--1781567	113	1.9	113	96	0	400	45	5	1	47	1.35
1781502--1781547	20	2.2	21	84	3	58	54	4	0	41	1.20
1784525--1784586	22	2.9	22	83	7	74	59	0	1	38	1.07
1789744--1789850	52	2.0	53	90	3	171	42	14	21	20	1.88
1798463--1798507	19	2.2	20	84	7	56	2	15	11	71	1.24
1809995--1810075	23	3.6	22	80	8	92	28	23	22	25	1.99
1809974--1810094	44	2.8	44	79	13	133	28	20	23	27	1.99
1814116--1814337	117	1.9	118	79	6	254	28	14	9	47	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1815572--1815686	60	1.9	60	89	7	180	26	19	24	30	1.98
1818467--1818602	68	2.0	68	98	0	263	38	20	13	27	1.90
1822770--1822819	22	2.3	22	85	0	64	30	20	20	30	1.97
1822843--1822973	33	4.0	33	90	0	208	27	30	19	22	1.98
1822845--1822977	66	2.0	66	95	2	241	28	30	18	22	1.97
1822851--1822974	18	7.4	18	67	15	95	28	31	16	23	1.96
1826094--1826155	28	2.2	28	100	0	124	29	14	14	41	1.85
1826104--1826165	18	3.9	18	67	30	59	24	14	11	50	1.75
1826376--1826429	18	3.2	18	74	15	69	25	27	22	24	2.00
1826409--1826453	22	2.0	22	86	0	63	33	22	20	24	1.97
1826484--1826540	18	3.3	18	76	14	66	26	29	17	26	1.97
1826493--1826541	15	3.1	15	75	16	53	24	26	20	28	1.99
1826476--1826541	33	2.0	33	90	0	105	24	28	21	25	1.99
1830177--1830219	24	1.9	23	81	13	54	55	0	6	37	1.27
1830198--1830264	33	2.0	33	100	0	134	44	0	2	52	1.16
1830423--1830524	23	4.5	23	79	9	111	55	1	0	41	1.17
1830392--1830470	19	4.1	19	67	30	60	58	0	1	40	1.06
1832617--1832655	20	2.0	20	94	0	69	30	17	10	41	1.83
1833134--1833867	377	1.9	377	86	2	1035	36	16	16	30	1.91
1841235--1841310	21	3.6	21	75	7	73	32	23	23	19	1.97
1846740--1846770	10	3.1	10	95	0	53	61	16	9	12	1.56
1846703--1846773	37	1.9	36	82	2	88	60	18	9	11	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1846705--1846778	23	3.2	22	72	16	60	60	20	9	9	1.55
1847270--1847320	21	2.4	21	93	0	84	41	15	31	11	1.83
1855860--1855897	10	3.2	12	89	10	53	21	0	2	76	0.91
1857914--1858016	21	5.0	21	76	4	111	20	35	27	16	1.94
1857914--1858016	41	2.5	42	84	4	138	20	35	27	16	1.94
1859412--1859449	3	13.0	3	86	5	51	68	0	28	2	1.03
1865964--1866029	5	13.0	5	78	12	55	19	7	0	72	1.08
1866861--1866889	14	2.1	14	100	0	58	86	0	13	0	0.58
1868890--1868927	15	2.5	15	95	0	67	5	21	28	44	1.73
1868920--1868945	12	2.2	12	100	0	52	0	15	34	50	1.45
1868917--1868978	15	4.1	15	71	8	54	8	19	27	45	1.78
1870056--1871430	458	3.0	458	97	0	2603	26	19	22	31	1.98
1879701--1879766	24	2.7	25	72	4	64	18	34	13	33	1.90
1879746--1879862	48	2.4	48	87	2	164	19	35	12	32	1.90
1896743--1896791	22	2.1	24	85	7	66	14	8	28	48	1.72
1897762--1897790	3	10.0	3	92	7	51	31	0	0	68	0.89
1899410--1899496	24	3.6	24	76	3	86	16	10	16	57	1.65
1899542--1899576	16	2.2	16	89	0	52	48	14	0	37	1.44
1899784--1900112	38	8.8	37	77	13	307	41	3	7	47	1.48
1899809--1900112	111	2.7	111	80	11	361	42	3	6	48	1.45
1900075--1900139	27	2.5	27	85	11	91	40	6	4	49	1.48
1900150--1900210	30	2.0	30	87	6	86	50	0	3	45	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1901527--1901674	1	148.0	1	65	0	62	10	4	2	82	0.90
1901516--1901666	27	5.9	24	76	19	114	12	5	1	80	0.93
1901529--1901674	24	6.5	22	72	18	97	10	4	2	82	0.91
1901489--1901675	51	3.6	50	76	20	156	11	5	2	80	0.98
1905410--1905664	95	2.7	95	85	4	324	32	17	16	32	1.93
1906690--1907773	84	13.1	84	85	2	1098	32	23	18	25	1.97
1908185--1908398	37	5.7	38	79	9	199	42	2	7	46	1.47
1908157--1908384	73	3.1	74	78	13	224	42	3	6	47	1.45
1908186--1908392	75	2.7	76	80	9	244	42	2	7	47	1.45
1908361--1908454	27	3.5	27	83	11	122	41	3	5	50	1.41

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21