genome.fa.s7985.2.7.7.80.10.50.1000.8.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: VEPZ01007985.1 Hibiscus syriacus cultivar Beakdansim tig00110430_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2235968

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 1062 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)
1647613--1647667	21	2.6	21	91	0	83	38	12	5	43	1.66
1650107--1650153	25	1.9	24	83	12	60	36	2	0	61	1.08
1650107--1650155	12	4.0	12	82	10	55	38	2	0	59	1.09
1654786--1654835	16	2.9	17	72	21	59	32	22	12	34	1.90
1654776--1654828	18	3.1	18	73	18	58	28	24	13	33	1.93
1655708--1655766	31	1.9	31	82	0	73	35	1	10	52	1.45
1660017--1660049	17	1.9	17	93	0	57	42	9	12	36	1.74
1660078--1660141	20	3.2	20	86	2	94	29	25	10	34	1.90
1660215--1660249	16	2.2	16	94	0	61	40	25	5	28	1.78
1668067--1668098	2	16.5	2	93	6	57	50	0	0	50	1.00
1671138--1671164	14	1.9	14	100	0	54	18	29	7	44	1.77
1671386--1671423	12	3.2	12	81	3	51	47	0	0	52	1.00
1671368--1671425	23	2.4	23	82	5	71	50	1	0	48	1.11
1671421--1671468	20	2.5	20	96	3	89	52	8	0	39	1.32
1671767--1671817	15	3.5	15	72	5	50	49	0	0	50	1.00
1671849--1671902	22	2.5	20	80	16	63	46	0	1	51	1.11
1673694--1673775	37	2.3	34	78	12	85	52	1	2	43	1.22
1685250--1685335	38	2.3	39	82	6	99	12	6	33	46	1.69
1685268--1685341	38	1.9	39	91	2	123	13	6	32	47	1.69
1686328--1686455	31	4.0	31	88	7	168	35	26	18	18	1.94
1686368--1686466	34	3.0	34	89	4	141	32	29	18	20	1.96
1704607--1704636	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1711780--1711807	2	14.0	2	100	0	56	50	0	0	50	1.00
1718878--1719069	4	48.5	4	97	2	325	21	0	28	50	1.49
1718982--1719006	2	12.5	2	100	0	50	0	0	48	52	1.00
1734750--1734784	18	1.9	18	88	0	52	40	8	0	51	1.33
1740384--1740475	41	2.2	41	90	0	139	40	20	11	27	1.88
1746482--1746520	19	2.2	17	90	9	60	64	0	7	28	1.21
1751684--1751726	18	2.5	18	92	7	72	41	4	25	27	1.75
1752305--1752389	38	2.3	37	89	4	136	36	37	11	14	1.82
1752617--1752726	31	3.5	31	65	18	84	37	32	12	17	1.87
1752588--1752756	62	2.7	62	90	1	259	37	31	13	17	1.88
1753583--1753647	30	2.2	30	82	0	76	15	20	35	29	1.93
1759743--1759822	28	2.7	30	77	17	87	48	2	1	47	1.23
1767882--1768012	65	2.0	65	95	0	235	45	21	11	22	1.83
1780329--1780367	20	2.0	20	89	0	60	35	2	17	43	1.63
1780328--1780478	53	2.9	53	91	2	234	31	5	13	49	1.64
1780435--1780474	20	2.0	20	90	9	64	37	5	10	47	1.59
1784979--1785017	20	2.0	20	94	0	69	35	5	17	41	1.72
1784978--1785128	53	2.9	53	92	2	252	32	6	12	48	1.67
1785085--1785124	20	2.0	20	95	0	71	37	5	12	45	1.64
1786194--1786222	3	9.7	3	100	0	58	31	0	0	68	0.89
1795915--1796024	21	5.2	21	67	20	86	20	17	26	35	1.95
1795915--1796034	42	2.9	42	94	0	213	20	17	25	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1796802--1796854	2	26.5	2	100	0	106	49	0	0	50	1.00
1797185--1797265	24	3.3	24	74	19	78	69	0	11	19	1.18
1797201--1797234	14	2.4	14	90	9	52	73	0	2	23	0.97
1797200--1797288	9	9.9	9	68	18	51	70	1	6	21	1.16
1797200--1797278	24	3.3	23	80	7	86	70	1	7	20	1.18
1797338--1797400	27	2.4	26	80	15	67	77	3	7	11	1.08
1797508--1797561	17	3.1	17	79	12	56	70	0	9	20	1.14
1797527--1797611	18	4.2	20	76	19	70	72	0	4	22	1.02
1797540--1797611	9	7.8	9	77	14	67	72	0	4	23	1.02
1798118--1798156	14	2.8	14	85	14	62	64	0	0	35	0.94
1798120--1798156	13	2.8	13	91	4	56	64	0	0	35	0.94
1801914--1801955	15	2.8	15	88	0	57	54	0	4	40	1.21
1802406--1802452	22	2.1	22	84	4	58	38	2	4	55	1.31
1806417--1806494	36	2.2	35	88	2	120	39	32	2	25	1.69
1826371--1826513	77	1.9	77	88	2	216	20	13	18	47	1.82
1828044--1828147	31	3.4	30	76	9	93	41	9	10	38	1.72
1828445--1828562	29	4.1	29	95	0	209	15	30	35	18	1.92
1828883--1828936	10	5.4	10	77	16	58	25	37	25	11	1.89
1828883--1828937	20	2.8	20	88	0	92	27	36	25	10	1.89
1828924--1828982	23	2.6	23	91	0	100	25	27	33	13	1.93
1828956--1829028	33	2.3	31	90	4	110	28	27	35	8	1.86
1829078--1829162	33	2.6	33	92	0	134	8	36	27	28	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1829144--1829176	14	2.4	14	94	0	57	6	30	39	24	1.79
1832065--1832099	2	18.5	2	88	11	56	45	0	0	54	0.99
1851031--1851095	23	2.8	23	83	0	94	20	23	24	32	1.98
1854577--1854608	15	2.2	15	94	5	57	50	0	6	43	1.27
1855083--1855121	21	1.9	19	85	10	51	46	2	2	48	1.29
1860826--1860859	17	2.1	16	88	5	50	32	0	2	64	1.08
1860826--1860859	16	2.1	17	88	5	52	32	0	2	64	1.08
1861097--1861142	23	2.0	23	82	0	56	50	0	2	47	1.13
1861799--1862545	226	3.3	228	85	5	931	30	16	12	39	1.87
1864582--1864729	59	2.5	60	77	7	158	33	18	4	44	1.68
1869247--1869712	232	2.0	232	99	0	916	32	19	24	24	1.98
1883047--1883112	24	2.7	24	95	2	114	28	22	25	22	1.99
1885643--1885916	124	2.2	125	89	2	408	29	13	18	37	1.89
1886249--1886719	199	2.4	198	86	5	639	39	14	15	30	1.87
1886249--1886772	198	2.6	197	82	7	630	39	13	15	30	1.86
1886770--1886794	11	2.3	11	100	0	50	32	32	16	20	1.94
1886839--1886883	23	2.0	23	86	8	65	37	17	6	37	1.76
1886926--1886970	23	2.0	23	86	0	63	40	15	8	35	1.79
1886781--1887004	87	2.6	87	94	0	385	32	12	12	42	1.80
1887027--1887078	16	3.2	16	91	8	79	28	23	7	40	1.82
1888167--1888209	20	2.3	18	80	8	50	18	9	2	69	1.26
1901067--1901097	16	1.9	16	93	0	53	0	22	0	77	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1904986--1905134	74	2.0	74	100	0	298	32	14	8	44	1.75
1905111--1905147	19	1.9	19	94	0	65	35	21	8	35	1.83
1909490--1909637	73	2.0	74	97	1	280	33	14	7	44	1.73
1933716--1933757	6	7.0	6	100	0	84	16	50	0	33	1.46
1944116--1944171	25	2.2	25	96	0	103	17	19	19	42	1.89
1948209--1948485	142	2.0	142	92	0	464	25	16	15	41	1.88
1948401--1948549	48	3.0	50	90	6	225	21	15	20	42	1.88
1950737--1950834	31	3.2	31	80	8	110	44	13	4	37	1.62
1952436--1952541	53	2.0	54	81	5	126	49	6	5	38	1.53
1959787--1959843	23	2.4	23	77	8	62	36	10	5	47	1.61
1960126--1960171	12	4.1	12	75	13	53	43	23	8	23	1.82
1960464--1960603	36	3.9	35	79	10	140	32	17	13	36	1.89
1960476--1960624	36	4.0	36	78	11	133	30	18	13	37	1.89
1960469--1960605	71	1.9	73	85	5	190	29	18	13	37	1.89
1960641--1960776	36	3.8	35	78	7	132	33	17	13	35	1.89
1960669--1960776	34	3.1	34	80	6	119	33	17	12	37	1.87
1960954--1961001	22	2.2	22	100	0	96	33	14	8	43	1.75
1961139--1961217	33	2.5	32	80	8	90	31	18	8	40	1.82
1961189--1961298	29	3.8	28	84	8	132	23	10	16	50	1.75
1961553--1961658	38	2.8	38	81	8	119	33	15	12	38	1.84
1961555--1961687	36	3.8	33	76	14	108	31	16	12	39	1.85
1962096--1962135	18	2.2	18	95	0	71	32	35	12	20	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1962454--1962479	3	8.7	3	100	0	52	30	0	0	69	0.89
1963302--1963339	10	4.0	10	80	13	53	0	44	0	55	0.99
1964106--1964236	64	2.0	65	100	0	230	31	10	9	48	1.71
1969290--1969340	21	2.4	21	93	0	84	19	21	29	29	1.98
1976153--1976200	2	24.0	2	82	0	60	45	8	0	45	1.33
1977575--1977621	22	2.1	22	84	0	58	57	12	12	17	1.65
1984709--1984740	14	2.3	14	94	0	55	53	0	9	37	1.34
1995233--1995274	20	2.1	20	86	0	57	23	9	7	59	1.53
2008090--2008162	23	3.2	23	96	0	137	16	31	4	47	1.65
2009575--2009659	40	2.1	40	89	4	127	34	11	28	25	1.91

Tables:   1   2   3   4   5   6   7   8   9