genome.fa.s8539.2.7.7.80.10.50.1000.10.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: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6067759

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   

This is table  10  of  31  ( 3630 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)
1685037--1685304	80	3.3	80	92	3	419	52	14	0	32	1.44
1685329--1685445	15	7.4	15	79	13	128	51	2	0	46	1.14
1685274--1685433	67	2.4	67	86	5	207	51	5	0	43	1.25
1685284--1685384	22	4.5	22	71	11	87	51	7	0	40	1.31
1686223--1686260	20	1.9	20	88	0	58	34	21	26	18	1.96
1686253--1686301	20	2.5	20	100	0	80	36	6	26	30	1.81
1686233--1686465	99	2.4	98	87	2	333	30	12	24	32	1.92
1687621--1687661	18	2.3	18	91	8	66	48	0	0	51	1.00
1687631--1687669	18	2.2	18	90	4	62	43	0	2	53	1.14
1688093--1688137	13	3.3	13	78	9	54	62	2	2	33	1.20
1688093--1688144	27	2.0	28	85	11	74	61	5	1	30	1.30
1689549--1689615	11	6.0	11	86	6	91	61	0	0	38	0.96
1689549--1689632	19	4.3	21	83	10	99	60	0	0	39	0.97
1689549--1689617	3	23.3	3	85	8	97	60	0	0	39	0.97
1691901--1692027	60	2.1	60	89	7	204	29	22	9	38	1.85
1693668--1693707	16	2.4	17	83	4	55	22	5	25	47	1.71
1694275--1694361	23	3.7	23	74	17	88	20	26	26	26	1.99
1698664--1698703	16	2.4	17	83	4	55	22	5	25	47	1.71
1699269--1699355	23	3.7	23	71	17	79	22	25	25	26	2.00
1699933--1699982	23	2.2	23	82	10	59	40	0	14	46	1.44
1702015--1702136	32	3.8	31	87	6	156	28	18	3	50	1.62
1702015--1702140	64	2.0	65	87	7	186	28	17	3	50	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1709681--1710013	123	2.7	122	74	3	321	34	21	15	27	1.94
1711259--1711356	32	3.2	31	82	11	121	28	15	3	53	1.57
1711527--1711568	15	2.7	16	74	7	50	23	11	7	57	1.59
1712105--1712152	5	9.4	5	81	4	60	18	6	0	75	1.01
1714175--1714227	20	2.7	20	78	0	52	56	11	0	32	1.35
1715066--1715143	28	2.7	28	76	4	75	48	1	2	47	1.23
1716934--1716990	21	2.6	22	77	5	71	21	26	19	33	1.97
1716975--1717045	20	3.5	20	79	7	72	33	19	21	25	1.97
1716999--1717114	40	2.9	39	78	5	117	27	24	21	26	1.99
1717014--1717106	20	4.7	20	90	0	123	26	26	21	24	1.99
1717286--1717328	22	2.0	22	95	0	77	23	41	16	18	1.89
1717713--1717819	20	5.4	20	86	3	110	14	15	23	45	1.84
1719727--1719814	20	4.4	20	92	0	140	38	26	18	17	1.92
1719857--1719971	20	5.8	20	91	2	169	18	17	23	40	1.91
1719857--1719971	39	2.9	40	89	2	169	18	17	23	40	1.91
1719857--1719971	59	1.9	60	87	1	169	18	17	23	40	1.91
1719877--1719982	39	2.7	39	89	4	126	16	17	24	41	1.89
1720471--1720561	21	4.4	21	75	6	87	19	37	17	25	1.94
1720468--1720576	41	2.6	41	75	12	107	19	37	19	23	1.94
1722157--1722194	20	1.9	20	88	0	58	52	15	21	10	1.72
1722237--1722475	20	12.9	20	70	16	174	24	18	22	34	1.96
1722351--1722447	34	2.9	34	95	0	167	21	17	24	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1722276--1722413	54	2.5	55	86	8	210	21	18	25	34	1.96
1722461--1722693	118	2.0	118	98	0	448	42	15	13	28	1.84
1724809--1724841	13	2.6	13	85	4	50	12	21	21	45	1.84
1725033--1725086	24	2.2	24	93	0	90	40	20	18	20	1.91
1725909--1726049	20	6.9	20	77	9	124	29	21	23	25	1.99
1725991--1726049	21	2.9	21	70	12	59	35	20	25	18	1.95
1725984--1726065	41	2.0	42	82	2	103	34	19	24	21	1.97
1727091--1727150	20	3.0	20	97	0	111	53	5	1	40	1.33
1733605--1733898	146	2.0	146	90	2	466	38	6	8	46	1.60
1734801--1734945	64	2.2	64	81	6	168	28	17	23	29	1.97
1734825--1734967	64	2.2	63	85	6	189	29	16	22	31	1.96
1737527--1737562	18	2.0	18	89	10	56	30	0	52	16	1.44
1737648--1737731	24	3.7	22	76	7	80	25	23	23	27	2.00
1737648--1737746	21	4.4	23	76	12	91	25	22	24	28	1.99
1737649--1737746	45	2.2	44	89	5	144	25	21	24	28	1.99
1738658--1738708	25	2.0	25	100	0	102	35	33	0	31	1.58
1745102--1745152	3	17.3	3	80	11	61	60	0	3	35	1.15
1746438--1746602	64	2.6	63	80	8	190	29	17	24	29	1.97
1747169--1747247	34	2.3	35	89	8	126	32	0	22	44	1.53
1751149--1751176	14	2.0	14	100	0	56	14	21	21	42	1.88
1752937--1752977	20	2.0	20	95	0	73	48	21	4	24	1.69
1758608--1758649	19	2.2	20	83	12	52	19	4	0	76	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1761709--1761764	23	2.5	23	77	13	62	82	1	10	5	0.91
1761702--1761764	14	4.2	14	72	11	54	80	1	11	6	0.95
1762797--1762902	31	3.4	32	86	3	153	28	15	24	32	1.95
1763096--1763401	64	4.8	64	87	4	411	38	20	10	29	1.86
1764262--1764742	81	5.9	81	86	3	601	32	24	18	24	1.97
1766137--1766204	30	2.3	30	84	5	84	20	8	7	63	1.47
1771076--1771148	24	3.0	24	85	0	92	23	24	21	30	1.99
1771117--1771162	24	1.9	24	82	8	58	26	19	21	32	1.97
1777968--1778027	26	2.3	26	94	0	102	23	23	16	36	1.94
1778072--1778128	22	2.5	23	85	5	71	57	5	0	36	1.21
1778133--1778434	39	8.0	38	68	25	185	45	6	2	46	1.41
1778127--1778384	39	6.6	39	71	22	188	46	6	1	45	1.37
1778181--1778327	49	3.1	49	83	12	200	46	4	1	46	1.32
1778265--1778301	2	19.0	2	88	5	58	51	0	0	48	1.00
1778289--1778365	28	2.8	27	81	11	93	46	6	2	44	1.43
1779792--1779867	19	3.7	19	74	19	55	30	0	3	65	1.10
1779813--1779878	24	2.9	23	86	6	82	30	1	1	66	1.10
1779833--1779886	21	2.7	19	78	13	54	25	1	3	68	1.16
1779991--1780044	17	3.2	17	72	0	54	31	0	3	64	1.11
1781526--1781573	21	2.3	21	85	0	60	25	39	12	22	1.89
1781581--1781621	21	2.0	21	95	0	73	19	29	26	24	1.98
1781604--1781664	21	2.9	21	95	0	104	19	37	21	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1781583--1781664	42	2.0	42	82	4	103	19	35	23	21	1.96
1782218--1782242	6	4.2	6	100	0	50	84	0	0	16	0.63
1782190--1782272	40	2.0	41	84	6	107	60	3	2	33	1.27
1783459--1783498	16	2.4	17	87	4	55	50	5	2	42	1.37
1784112--1784171	18	3.3	18	79	6	50	70	0	3	26	1.03
1786932--1786963	16	2.0	16	93	0	55	25	18	21	34	1.96
1787286--1787346	18	3.2	19	84	11	79	50	9	13	26	1.72
1793603--1793669	28	2.4	28	84	2	80	4	4	13	77	1.07
1793617--1793669	19	2.8	18	80	8	61	0	5	15	79	0.91
1793624--1793669	9	5.0	9	84	5	65	0	4	13	82	0.81
1804780--1805016	125	1.9	124	94	0	420	32	14	28	24	1.94
1806539--1806648	40	2.7	41	75	4	114	25	23	20	30	1.98
1806324--1807045	214	3.3	214	81	6	849	31	15	19	32	1.94
1806989--1807228	80	3.0	80	84	3	279	32	21	19	26	1.97
1807193--1807344	37	4.1	37	93	0	250	37	21	17	23	1.94
1807530--1807567	3	12.3	3	88	5	58	34	2	0	63	1.09
1809736--1809765	2	15.0	2	92	0	51	50	3	0	46	1.18
1811888--1811944	18	3.2	18	76	0	60	75	1	8	14	1.11
1811889--1811949	23	2.6	24	81	5	79	75	1	8	14	1.11
1811895--1811962	23	3.0	23	82	4	57	75	2	8	13	1.16
1812533--1812559	4	6.8	4	100	0	54	77	0	0	22	0.76
1813561--1813590	13	2.2	14	94	5	53	16	10	0	73	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1816147--1816477	131	2.5	131	88	1	459	38	16	10	33	1.84
1820403--1820433	16	1.9	16	93	0	53	38	3	22	35	1.71
1820492--1820541	17	3.4	17	65	35	51	64	8	0	28	1.22
1820495--1820539	14	3.3	14	81	6	65	62	8	0	28	1.25
1833613--1834230	198	3.1	197	91	2	979	35	11	13	39	1.81
1835589--1835647	23	2.6	23	83	0	64	37	23	10	28	1.88
1835607--1835655	23	2.1	23	88	0	71	36	18	8	36	1.81
1835619--1835688	11	6.2	11	73	6	59	30	20	15	34	1.93
1837827--1837881	7	7.9	7	95	0	83	20	0	36	43	1.52
1837825--1837884	21	2.9	21	89	0	93	21	0	35	43	1.53

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