genome.fa.s8092.2.7.7.80.10.50.1000.9.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: VEPZ01008092.1 Hibiscus syriacus cultivar Beakdansim tig00110607_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2324158

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  9  of  12  ( 1399 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)
1647369--1647510	71	2.0	73	97	2	270	31	14	23	30	1.94
1649049--1649097	19	2.7	18	84	6	55	6	22	0	71	1.08
1653504--1653667	81	2.0	82	98	1	321	36	18	8	36	1.81
1655593--1655619	12	2.2	12	100	0	54	11	29	14	44	1.80
1664895--1664929	18	1.9	18	94	0	61	28	25	22	22	1.99
1665456--1665494	20	2.0	20	89	0	60	35	33	10	20	1.86
1665522--1665574	20	2.7	20	79	2	63	30	28	16	24	1.97
1679527--1679570	23	2.0	22	82	13	54	47	6	0	45	1.29
1681477--1681522	11	4.5	11	76	13	53	65	0	15	19	1.28
1683255--1683299	22	2.0	22	91	0	72	17	24	13	44	1.85
1686646--1686718	36	2.0	36	84	10	96	50	4	0	45	1.20
1687760--1687811	9	6.1	9	76	13	56	34	0	1	63	1.06
1687759--1687808	17	3.0	17	91	2	75	36	0	4	60	1.16
1692614--1693056	221	2.0	221	100	0	886	26	23	22	28	1.99
1706692--1706744	16	3.4	16	75	12	56	45	3	0	50	1.19
1706697--1706743	16	2.9	16	78	12	60	44	2	0	53	1.12
1706883--1706910	2	14.0	2	100	0	56	50	0	0	50	1.00
1708716--1708768	3	18.3	3	81	18	60	66	1	0	32	1.03
1709113--1709747	112	5.7	111	88	5	922	28	20	13	37	1.90
1709119--1709775	336	2.0	336	98	0	1260	28	20	13	37	1.91
1710184--1710257	22	3.4	22	90	0	112	39	12	12	36	1.80
1712724--1713219	83	6.0	83	94	2	838	36	22	13	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1716922--1716946	12	2.1	12	100	0	50	28	24	8	40	1.83
1719034--1719183	68	2.2	67	88	4	214	27	27	27	18	1.98
1719485--1719554	29	2.4	29	92	0	113	38	10	12	38	1.77
1719570--1719628	30	1.9	31	89	3	93	35	6	23	33	1.82
1719844--1719931	43	2.0	44	97	2	169	18	27	27	27	1.98
1719844--1719931	22	4.0	22	97	2	169	18	27	27	27	1.98
1725951--1725993	21	2.0	21	81	0	50	30	30	25	13	1.94
1725973--1726120	69	2.2	69	88	3	219	28	25	29	17	1.97
1726430--1726501	29	2.5	29	93	0	117	38	9	12	38	1.76
1726515--1726579	29	2.2	32	81	13	84	33	9	23	33	1.86
1726793--1726881	22	4.0	22	100	0	178	19	26	26	26	1.99
1727865--1727918	14	3.8	14	82	9	56	50	9	14	25	1.73
1730017--1730069	16	3.4	16	75	12	56	45	3	0	50	1.19
1730022--1730068	16	2.9	16	78	12	60	44	2	0	53	1.12
1730212--1730241	2	15.0	2	100	0	60	50	0	0	50	1.00
1732075--1732125	3	18.3	3	80	15	56	66	1	0	31	1.03
1732075--1732130	19	3.1	17	82	12	67	67	1	0	30	1.01
1732092--1732136	23	2.0	22	95	4	81	68	4	0	26	1.08
1733967--1734032	22	2.9	23	80	8	64	50	1	3	45	1.26
1734049--1734107	19	3.3	18	71	28	54	40	1	1	55	1.20
1734228--1734305	34	2.2	37	84	6	99	51	2	1	44	1.23
1734248--1734302	23	2.4	23	77	16	62	47	1	1	49	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1734644--1734685	18	2.3	18	95	0	75	47	0	7	45	1.30
1739297--1739339	22	1.9	23	81	13	54	53	6	0	39	1.28
1744921--1745046	54	2.3	56	81	2	148	29	15	29	25	1.96
1745714--1745789	35	2.2	35	92	0	125	39	23	1	35	1.63
1746174--1746429	128	2.0	124	90	3	395	36	14	12	36	1.83
1746752--1746814	28	2.3	27	78	8	63	46	1	3	49	1.27
1746891--1746924	16	2.0	18	88	11	54	64	5	2	26	1.30
1754895--1755105	29	7.4	28	79	9	194	34	3	18	44	1.67
1754895--1755105	57	3.7	57	80	8	232	34	3	18	44	1.67
1759468--1759523	28	2.0	28	92	0	94	19	14	32	33	1.92
1762458--1762642	29	6.4	29	79	9	162	35	2	17	44	1.63
1764379--1764431	21	2.5	21	93	0	88	30	32	20	16	1.95
1764427--1764493	21	3.3	19	74	13	71	20	20	20	37	1.95
1764443--1764521	21	3.8	21	77	12	99	21	21	25	31	1.98
1764427--1764514	42	2.1	41	93	4	151	20	20	23	35	1.96
1765388--1765541	21	7.4	21	71	15	90	36	21	20	22	1.95
1765381--1765606	61	3.7	60	81	8	251	34	22	20	22	1.97
1765437--1765606	42	4.1	41	78	9	159	34	21	21	22	1.97
1765468--1765587	21	5.7	21	79	7	109	35	24	21	19	1.96
1765602--1765648	21	2.2	21	96	0	85	21	19	31	27	1.97
1769936--1769999	23	2.7	24	82	4	85	48	9	4	37	1.56
1770343--1770400	16	3.7	15	75	11	53	31	1	3	63	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1781827--1781863	19	1.9	19	94	0	65	32	29	16	21	1.95
1781909--1782026	21	5.7	21	78	2	96	24	20	18	36	1.95
1781957--1782104	20	7.4	19	73	8	107	33	18	19	28	1.96
1781936--1782066	61	2.1	61	97	0	244	30	19	19	31	1.96
1782035--1782156	40	3.0	40	91	3	183	31	23	19	25	1.98
1782051--1782156	20	5.2	20	72	10	90	29	25	19	25	1.99
1782035--1782179	40	3.6	41	85	4	172	33	22	19	24	1.97
1782049--1782179	41	3.2	40	82	3	147	32	23	19	24	1.97
1782330--1782402	22	3.3	22	94	0	128	23	43	12	20	1.85
1782809--1782855	20	2.3	20	92	0	76	12	14	23	48	1.78
1782818--1782858	20	2.0	20	100	0	82	9	14	19	56	1.66
1784770--1784836	20	3.3	20	87	0	89	37	22	20	19	1.95
1784769--1784874	40	2.9	37	78	12	119	38	21	22	16	1.93
1784939--1785011	20	3.7	20	84	0	101	16	16	23	43	1.87
1785458--1785565	21	5.1	21	75	4	101	19	35	19	25	1.95
1785458--1785571	42	2.7	42	76	10	117	19	37	18	24	1.94
1787051--1787106	20	2.8	20	83	0	76	32	19	17	30	1.95
1787103--1787141	20	2.0	20	94	0	69	46	25	20	7	1.77
1787187--1787467	20	14.7	20	78	10	230	28	18	21	31	1.97
1787051--1787467	40	10.9	40	69	10	255	28	19	21	30	1.98
1787267--1787459	74	2.6	74	86	2	264	23	18	23	34	1.96
1787017--1787377	133	2.7	133	91	0	569	28	20	20	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1787337--1787439	54	1.9	54	91	0	170	22	16	26	34	1.95
1787438--1787720	140	2.0	140	93	0	476	45	14	12	26	1.81
1790068--1790119	24	2.2	24	82	0	59	36	21	19	23	1.95
1790949--1790989	21	2.0	21	95	0	73	24	12	19	43	1.85
1790905--1791094	20	9.3	20	77	10	91	28	17	22	31	1.97
1790981--1791094	20	5.6	20	78	4	102	29	19	21	29	1.97
1790981--1791103	41	3.0	41	80	3	140	30	18	21	29	1.97
1791120--1791156	19	1.9	19	88	0	56	21	13	29	35	1.92
1791440--1791794	175	2.0	175	97	0	674	38	5	18	37	1.75
1798662--1798757	19	5.1	19	88	2	122	42	10	18	28	1.83
1806521--1806612	41	2.2	41	90	0	139	22	20	21	34	1.96
1806732--1806782	6	8.5	6	100	0	102	33	50	15	0	1.44
1807426--1807521	41	2.3	41	98	0	183	32	21	21	23	1.98
1807455--1807520	21	3.2	21	60	4	53	30	24	21	24	1.99
1810776--1810809	18	1.9	17	88	5	50	64	2	2	29	1.22
1817336--1817397	3	22.0	3	84	12	87	67	0	1	30	1.00
1817336--1817397	11	5.3	11	85	14	88	67	0	1	30	1.00
1817643--1817812	90	1.9	89	91	3	279	24	18	30	27	1.98
1817643--1817776	46	3.0	46	66	10	123	23	19	29	27	1.98
1817660--1817802	46	3.2	44	70	10	130	24	18	29	27	1.98
1817676--1817813	43	3.1	44	71	11	120	24	18	28	28	1.98
1830614--1830678	3	23.0	3	84	12	93	67	0	1	30	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1830614--1830678	11	5.8	11	89	3	87	67	0	1	30	1.00
1831596--1831627	2	16.5	2	93	6	57	0	50	0	50	1.00
1831933--1831972	20	2.0	20	95	0	71	25	25	22	27	2.00
1833574--1833640	32	2.0	33	88	11	102	61	14	5	17	1.53
1834422--1834682	32	7.8	32	70	13	121	41	6	16	35	1.74
1834308--1834648	139	2.5	139	83	3	400	39	5	19	36	1.76
1834547--1834687	32	4.2	33	78	13	137	38	7	14	39	1.74
1838241--1838457	108	2.0	108	99	0	425	30	19	22	27	1.98
1840265--1840296	12	2.6	13	85	14	50	50	18	9	21	1.75
1841633--1841701	24	2.6	27	91	8	108	43	18	14	23	1.87

Tables:   1   2   3   4   5   6   7   8   9   10   11   12