genome.fa.s8959.2.7.7.80.10.50.1000.9.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: VEPZ01008959.1 Hibiscus syriacus cultivar Beakdansim tig00112293_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4521124

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  ( 2431 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)
1667287--1667342	26	2.2	26	83	6	69	26	0	0	73	0.84
1667291--1667325	9	3.7	9	92	7	52	28	0	0	71	0.86
1667292--1667344	8	6.4	8	80	2	52	24	0	0	75	0.80
1667292--1667344	16	3.2	16	81	5	61	24	0	0	75	0.80
1670444--1670547	52	2.0	52	92	0	172	42	14	21	22	1.88
1671767--1671825	30	2.0	30	90	3	93	35	6	15	42	1.73
1671905--1671960	21	2.7	21	97	0	103	23	35	17	23	1.95
1672032--1672070	12	3.6	12	74	25	50	20	35	17	25	1.95
1672025--1672070	20	2.3	20	100	0	92	19	34	19	26	1.96
1672181--1672220	20	1.9	22	90	10	66	37	40	10	12	1.77
1672435--1672504	34	2.1	32	86	5	95	32	14	31	21	1.93
1674691--1674748	30	2.0	30	89	3	91	36	3	13	46	1.61
1674871--1674960	20	4.9	18	72	14	60	28	30	16	24	1.97
1675315--1675384	34	2.1	32	86	5	95	31	15	30	22	1.95
1686715--1686744	15	2.0	15	100	0	60	46	20	6	26	1.75
1686719--1686780	12	4.9	12	75	9	52	46	19	4	29	1.70
1690321--1690358	8	4.8	8	100	0	76	34	26	13	26	1.93
1690349--1690399	24	2.1	24	85	0	66	19	27	23	29	1.98
1690377--1690426	25	2.0	25	88	0	73	18	20	26	36	1.95
1690602--1690721	42	2.9	42	98	0	231	15	20	19	44	1.87
1690893--1690955	23	2.6	24	78	19	60	52	0	0	47	1.00
1690910--1690970	22	2.8	23	82	7	65	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1690998--1691044	24	2.0	23	83	4	58	40	0	2	57	1.11
1691023--1691086	28	2.2	28	86	8	85	43	1	1	53	1.19
1691253--1691323	20	3.5	20	96	0	133	36	14	9	39	1.79
1691253--1691332	40	2.0	40	90	0	124	36	15	8	40	1.78
1691306--1691387	15	5.5	15	83	2	103	36	18	6	39	1.75
1691306--1691372	30	2.3	29	94	2	116	34	17	7	40	1.78
1705853--1705902	21	2.4	21	82	0	64	28	20	24	28	1.99
1705917--1705972	29	1.9	29	92	0	94	28	23	17	30	1.97
1708906--1708958	25	2.2	25	86	3	72	52	3	5	37	1.43
1708968--1708993	10	2.6	10	100	0	52	46	0	11	42	1.40
1709716--1709741	13	2.0	13	100	0	52	61	0	7	30	1.24
1709754--1709797	22	2.0	22	86	8	63	70	15	2	11	1.26
1711437--1711467	3	10.3	3	92	0	53	61	3	0	35	1.12
1711758--1711902	43	3.4	43	73	13	129	23	17	33	26	1.96
1711804--1711942	40	3.4	40	73	9	136	22	15	33	28	1.95
1711695--1711942	86	3.0	83	83	5	309	22	16	33	28	1.95
1711970--1712326	36	10.1	36	88	4	512	41	13	21	23	1.89
1712004--1712089	15	5.2	15	66	28	50	39	11	23	25	1.88
1711970--1712326	106	3.4	106	89	2	522	41	13	21	23	1.89
1712465--1712606	37	3.9	35	75	10	124	40	11	15	32	1.84
1714010--1715940	4	485.2	4	98	1	3792	50	24	0	25	1.50
1717986--1718015	14	2.1	15	93	6	53	46	13	16	23	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1722024--1722070	3	16.0	3	91	4	78	65	0	0	34	0.93
1724746--1724770	12	2.1	12	100	0	50	36	16	16	32	1.90
1733135--1733177	12	3.5	12	78	6	50	39	11	9	39	1.74
1733668--1733693	2	13.0	2	100	0	52	50	0	0	50	1.00
1734294--1734332	18	2.2	18	86	9	53	61	0	2	35	1.10
1735842--1735891	20	2.5	20	96	0	91	36	22	16	26	1.94
1740190--1740224	16	2.2	16	89	0	52	48	17	14	20	1.81
1740196--1740240	16	2.8	16	82	0	54	55	15	6	22	1.63
1741177--1741250	23	3.2	23	82	3	94	35	41	18	4	1.70
1744572--1744623	21	2.5	20	78	3	59	32	17	17	32	1.93
1745157--1745187	11	2.8	11	90	0	53	35	45	0	19	1.51
1748085--1748123	20	2.0	20	94	0	69	74	0	17	7	1.05
1750362--1750410	17	2.8	18	82	17	68	67	4	2	26	1.19
1750935--1750971	11	3.3	11	96	3	65	78	0	13	8	0.96
1755334--1755358	12	2.1	12	100	0	50	64	0	8	28	1.22
1760447--1760493	18	2.6	19	86	10	71	65	4	2	27	1.22
1762979--1763060	23	3.6	23	73	18	82	68	1	9	20	1.25
1763021--1763080	23	2.4	26	82	17	83	68	0	11	20	1.20
1766569--1766659	2	45.5	2	100	0	182	50	0	0	49	1.00
1775746--1777116	201	6.8	199	84	3	1512	31	16	13	38	1.87
1775746--1777109	602	2.3	597	85	4	1787	31	16	13	38	1.87
1779033--1779079	24	1.9	25	86	4	69	40	19	0	40	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1780162--1781300	200	5.7	200	83	3	1355	31	15	14	37	1.88
1781138--1781179	21	2.0	21	90	0	66	45	11	16	26	1.82
1781651--1781699	19	2.6	19	96	0	89	55	10	2	32	1.45
1783152--1783208	18	3.2	18	97	0	105	0	40	0	59	0.97
1783237--1783322	42	2.1	42	97	2	165	18	29	2	50	1.60
1783248--1783314	21	3.2	21	64	24	52	17	31	1	49	1.56
1785306--1785377	19	3.7	19	69	10	65	37	16	1	44	1.57
1785962--1786442	176	2.7	176	84	5	641	26	16	15	41	1.88
1787069--1787115	18	2.7	18	96	3	87	27	21	31	19	1.97
1787204--1787244	21	1.9	22	85	5	57	39	12	17	31	1.86
1787931--1787972	13	3.2	13	82	3	57	50	4	14	30	1.63
1788283--1788330	25	1.9	25	83	8	62	31	6	0	62	1.20
1788641--1788687	6	7.8	6	100	0	94	14	0	34	51	1.43
1788917--1788989	37	2.0	37	82	10	89	45	4	2	47	1.36
1802040--1802109	28	2.4	28	81	9	70	52	0	4	42	1.20
1802136--1802181	23	2.0	23	91	0	74	54	0	2	43	1.12
1802398--1802474	20	3.8	20	91	0	127	24	23	10	41	1.85
1802589--1802649	32	1.9	32	82	0	77	39	26	9	24	1.86
1805146--1805182	6	6.2	6	100	0	74	35	0	48	16	1.46
1805544--1805584	20	2.0	22	90	9	68	53	0	7	39	1.29
1806710--1806740	2	15.5	2	100	0	62	48	0	0	51	1.00
1807979--1808048	31	2.3	31	80	2	79	42	8	31	17	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1816124--1816267	72	2.0	72	95	0	261	41	20	14	22	1.89
1817296--1817670	178	2.1	174	80	7	409	43	7	7	41	1.61
1827886--1827911	2	13.0	2	100	0	52	50	0	0	50	1.00
1828943--1829051	39	2.7	42	77	13	120	20	28	23	27	1.99
1833550--1833588	20	2.0	20	84	0	51	51	17	15	15	1.77
1835647--1835676	13	2.3	13	100	0	60	23	16	0	60	1.36
1837674--1837711	19	2.0	20	94	5	69	28	15	28	26	1.96
1837679--1837837	63	2.5	62	87	6	221	33	18	21	26	1.96
1838293--1838598	149	2.0	151	95	1	553	29	14	20	35	1.92
1838576--1838621	23	2.0	23	86	0	65	21	21	26	30	1.99
1844871--1844924	19	2.8	20	86	10	78	35	20	27	16	1.94
1844945--1845042	20	4.8	20	83	12	117	24	18	34	22	1.96
1845110--1845176	28	2.4	28	85	12	84	44	16	7	31	1.75
1845122--1845176	28	1.9	28	89	10	85	43	18	7	30	1.77
1846227--1846293	20	3.3	20	87	0	98	34	22	28	14	1.94
1846314--1846412	21	4.8	20	84	13	119	23	18	36	22	1.95
1846492--1846549	30	2.0	29	86	10	82	44	15	5	34	1.69
1846492--1846551	29	2.0	30	90	6	95	43	15	6	35	1.72
1847827--1847874	19	2.5	20	82	3	62	29	12	6	52	1.63
1849150--1849223	20	3.7	20	82	10	96	28	22	28	20	1.99
1849141--1849223	41	2.0	41	90	4	132	26	25	27	20	1.99
1849244--1849346	21	4.8	20	71	20	73	21	19	36	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1849286--1849336	13	3.9	13	94	0	84	21	21	39	17	1.93
1849426--1849485	30	2.0	30	90	6	95	41	16	6	35	1.75
1850869--1850907	19	2.1	19	100	0	78	20	30	5	43	1.73
1854506--1854550	7	6.4	7	84	0	63	44	37	0	17	1.49
1854511--1854556	21	2.2	21	84	7	58	47	30	0	21	1.51
1854611--1854656	7	6.6	7	82	0	56	47	30	0	21	1.51
1854611--1854656	14	3.3	14	87	0	65	47	30	0	21	1.51
1854607--1854661	21	2.7	21	86	8	69	45	30	0	23	1.53
1856266--1856292	11	2.5	11	100	0	54	25	18	29	25	1.98
1857675--1857727	26	2.0	27	82	14	65	67	1	0	30	1.01

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