genome.fa.s7960.2.7.7.80.10.50.1000.9.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: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7905731

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   34   35   36   37   38   39   

This is table  9  of  39  ( 4646 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)
1713944--1713977	17	1.9	18	88	5	52	52	8	20	17	1.71
1717180--1717227	23	2.1	23	92	0	78	12	25	18	43	1.85
1717320--1717381	21	2.9	23	81	9	69	56	1	1	40	1.19
1717470--1717545	38	2.0	38	89	0	116	19	13	26	40	1.88
1719625--1719653	15	1.9	15	100	0	58	34	0	3	62	1.12
1721325--1721366	3	14.0	3	100	0	84	33	0	0	66	0.92
1734524--1734568	23	2.0	23	81	0	54	28	26	24	20	1.99
1744133--1744162	2	15.0	2	100	0	60	50	0	0	50	1.00
1744877--1744911	18	1.9	18	94	0	61	48	2	0	48	1.16
1745160--1745217	31	1.9	29	86	6	80	22	12	5	60	1.51
1745395--1745432	3	12.7	3	94	0	67	34	0	2	63	1.09
1747322--1747356	18	1.9	18	94	0	61	48	0	2	48	1.16
1748587--1748673	39	2.2	39	97	0	165	17	14	20	47	1.83
1748986--1749022	18	2.1	18	89	0	56	51	10	5	32	1.60
1751417--1751639	105	2.1	104	82	2	259	23	15	21	39	1.92
1756657--1756879	105	2.1	104	82	0	257	22	15	22	39	1.92
1756896--1756941	24	2.0	24	82	4	58	23	23	26	26	2.00
1757881--1757982	20	5.1	20	90	0	141	40	21	20	17	1.92
1760576--1760629	24	2.2	24	93	0	90	40	20	18	20	1.91
1760576--1760643	24	2.8	24	84	0	64	38	20	17	23	1.93
1760755--1760788	12	2.8	12	90	0	50	14	0	29	55	1.40
1761341--1761377	16	2.4	16	86	8	51	64	0	5	29	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1761534--1761570	19	1.9	19	100	0	74	29	10	21	37	1.88
1761540--1761586	19	2.4	19	85	7	58	36	12	14	36	1.85
1761553--1761639	40	2.2	40	83	8	106	21	14	22	40	1.91
1761580--1761657	20	4.0	20	78	8	72	17	15	23	43	1.87
1761580--1761657	40	2.0	39	87	12	115	17	15	23	43	1.87
1761790--1761864	22	3.2	23	75	17	82	54	17	0	28	1.43
1761836--1761928	32	3.2	32	70	28	107	53	10	0	35	1.36
1761819--1761928	54	2.0	54	98	0	211	53	11	0	34	1.38
1761868--1761910	22	2.0	22	100	0	86	51	13	0	34	1.42
1761870--1761918	22	2.2	22	88	3	71	57	12	0	30	1.36
1761868--1762016	69	2.2	68	84	6	185	51	6	0	42	1.31
1761956--1762016	15	4.0	15	89	2	77	49	0	0	50	1.00
1762437--1762495	31	1.9	31	89	0	91	42	6	8	42	1.61
1762520--1762562	22	2.0	22	100	0	86	51	13	0	34	1.42
1762522--1762570	22	2.2	22	88	3	71	55	14	0	30	1.40
1762510--1763209	54	12.8	54	67	20	346	52	13	0	34	1.40
1762510--1762840	80	4.0	83	80	12	396	52	13	0	33	1.41
1762578--1762651	22	3.2	22	70	16	60	55	17	0	27	1.42
1762542--1762895	112	3.2	112	89	8	532	52	14	0	33	1.41
1762605--1762987	134	2.8	139	78	12	368	53	13	0	33	1.40
1762766--1762808	22	2.0	22	100	0	86	51	13	0	34	1.42
1762768--1762816	22	2.2	22	88	3	71	55	14	0	30	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1762822--1762870	22	2.2	22	85	3	62	55	12	0	32	1.37
1762876--1762950	22	3.2	23	75	17	82	54	17	0	28	1.43
1762922--1763023	36	2.9	36	87	5	140	54	8	0	36	1.31
1762956--1762999	22	2.0	22	81	0	52	61	4	0	34	1.16
1762788--1763157	170	2.2	170	95	1	667	52	12	0	34	1.39
1762992--1763040	22	2.2	22	85	3	62	55	12	0	32	1.37
1763046--1763120	22	3.2	23	75	17	82	54	17	0	28	1.43
1762788--1763198	80	4.9	81	83	10	488	53	12	0	34	1.39
1763126--1763174	22	2.2	22	85	3	62	57	10	0	32	1.32
1763143--1763256	30	3.5	33	76	16	103	50	5	0	44	1.24
1763197--1763271	15	5.0	15	93	0	123	48	0	0	52	1.00
1768320--1768359	2	20.0	2	100	0	80	50	0	0	50	1.00
1768605--1768638	10	3.3	10	91	4	50	41	0	0	58	0.98
1770347--1770477	21	6.2	20	75	13	104	20	19	25	35	1.96
1770349--1770467	63	1.9	61	89	3	184	21	18	23	36	1.95
1770387--1770486	42	2.4	42	85	3	141	21	19	25	35	1.96
1770347--1770469	19	5.9	19	73	14	93	21	18	24	35	1.95
1770484--1770509	6	4.3	6	100	0	52	30	53	15	0	1.42
1771271--1771471	21	9.7	19	73	15	141	35	24	17	21	1.95
1771274--1771420	42	3.5	42	96	0	267	36	25	18	19	1.94
1771341--1771471	61	2.1	62	92	2	219	35	25	17	21	1.95
1771404--1771537	41	3.3	40	76	13	123	33	24	18	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1771307--1771512	103	2.0	101	86	6	272	34	26	17	21	1.96
1773421--1773967	40	13.5	40	84	3	601	31	17	17	33	1.93
1773430--1773962	122	4.4	120	81	5	563	31	17	17	33	1.93
1773423--1773967	162	3.4	161	86	3	700	31	17	17	33	1.93
1776925--1778776	701	2.6	700	92	0	3067	24	15	22	37	1.92
1785574--1787430	701	2.7	701	96	0	3398	26	14	21	37	1.92
1788233--1788343	42	2.7	42	88	2	163	34	19	17	28	1.95
1793979--1794031	25	2.1	25	96	0	97	33	15	16	33	1.90
1809220--1809299	2	41.0	2	95	5	146	48	0	0	51	1.00
1811693--1811734	14	3.1	14	86	3	50	23	9	26	40	1.85
1812267--1812331	33	2.0	34	82	17	84	53	1	1	43	1.19
1812320--1812376	25	2.3	24	90	6	87	52	0	0	47	1.00
1813127--1813152	2	13.0	2	100	0	52	50	0	0	50	1.00
1833957--1834096	44	3.2	44	82	2	163	34	7	19	39	1.79
1833988--1834096	14	7.4	14	69	10	65	33	7	19	40	1.79
1833988--1834052	15	4.4	14	75	17	60	38	4	18	38	1.72
1834168--1834258	23	4.0	23	75	2	76	16	23	26	34	1.95
1834167--1834262	46	2.1	46	86	3	131	15	22	25	36	1.94
1834183--1834268	23	3.7	23	79	0	82	15	19	27	37	1.92
1841932--1841985	27	2.0	27	88	0	81	50	16	7	25	1.71
1843132--1843183	15	3.2	17	72	22	58	36	21	0	42	1.53
1845720--1845804	27	3.1	27	75	11	93	25	7	0	67	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1846470--1846507	4	9.2	4	88	5	58	23	0	2	73	0.95
1846488--1846532	24	1.9	23	86	4	63	20	6	2	71	1.20
1848067--1848134	21	3.2	21	82	0	91	36	17	19	26	1.94
1853712--1853746	16	2.2	16	100	0	70	22	8	17	51	1.72
1855224--1855306	41	2.0	40	88	6	123	59	8	13	19	1.59
1862244--1862291	25	2.0	24	84	8	62	41	6	2	50	1.39
1867962--1868011	24	2.2	24	82	13	61	36	0	6	58	1.23
1871960--1871995	14	2.6	14	95	0	63	16	19	19	44	1.87
1873911--1873996	34	2.5	34	87	9	113	24	12	15	47	1.80
1874143--1874215	32	2.3	32	80	0	92	20	28	26	24	1.99
1877043--1877078	14	2.6	14	86	0	54	25	36	19	19	1.95
1877083--1877117	13	2.6	14	95	4	63	17	17	20	45	1.85
1879091--1879163	35	2.1	34	87	2	101	30	12	12	45	1.78
1879606--1879677	31	2.3	32	85	7	103	15	27	30	26	1.96
1880281--1880553	47	5.8	47	93	0	474	21	24	11	42	1.85
1884848--1884919	19	3.9	19	73	14	62	79	1	8	11	1.00
1886757--1886841	10	7.9	11	70	27	51	35	0	8	56	1.29
1886815--1886841	10	2.7	10	100	0	54	33	0	7	59	1.25
1890434--1890485	27	2.0	28	85	11	74	34	5	0	59	1.21
1890557--1890607	24	2.1	25	81	3	59	64	1	5	27	1.27
1899056--1899113	23	2.5	23	88	5	82	18	32	22	25	1.97
1901924--1901971	20	2.4	20	100	0	96	35	29	14	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1906064--1906156	3	32.3	3	84	8	122	65	1	1	32	1.07
1906054--1906157	26	4.2	25	79	13	110	63	0	0	34	1.07
1906064--1906156	41	2.3	41	88	1	134	65	1	1	32	1.07
1906309--1907644	353	3.8	353	93	3	2203	29	19	14	36	1.92
1906309--1907644	233	5.7	237	92	3	2136	29	19	14	36	1.92
1906312--1907641	586	2.3	586	94	2	2328	29	19	14	36	1.92
1908281--1908797	52	9.9	52	95	2	923	36	23	15	24	1.93
1909578--1909619	19	2.2	20	86	4	59	54	11	2	30	1.49
1909952--1910010	14	4.4	13	78	16	66	3	3	6	86	0.78
1909977--1910010	10	3.5	10	88	4	52	0	0	8	91	0.43

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   34   35   36   37   38   39