genome.fa.s8302.2.7.7.80.10.50.1000.10.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: VEPZ01008302.1 Hibiscus syriacus cultivar Beakdansim tig00110988_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3402722

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

This is table  10  of  17  ( 1926 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)
1833482--1833535	24	2.2	24	90	0	81	24	16	20	38	1.92
1836480--1836539	20	3.0	20	82	0	75	46	18	21	13	1.83
1836528--1836564	14	2.6	14	100	0	74	40	24	27	8	1.83
1836504--1836597	47	2.0	48	91	2	154	39	24	24	11	1.89
1836588--1836657	19	3.7	19	96	0	122	47	21	20	11	1.81
1836653--1836697	19	2.4	19	84	0	63	8	15	22	53	1.69
1837249--1837302	20	2.7	19	88	8	81	29	20	25	24	1.99
1837311--1837364	20	2.7	20	94	0	90	25	20	24	29	1.99
1837251--1837367	61	1.9	61	82	0	144	24	18	23	32	1.97
1837435--1837475	21	2.0	21	85	0	55	34	31	17	17	1.93
1839027--1839071	18	2.5	18	85	0	63	60	15	11	13	1.60
1840368--1840401	14	2.3	15	90	10	52	55	0	20	23	1.43
1848578--1848631	19	2.8	19	88	5	74	20	27	31	20	1.97
1848581--1848670	10	9.3	9	75	9	54	28	25	27	17	1.98
1855828--1855860	17	1.9	17	100	0	66	15	24	42	18	1.88
1857242--1857440	84	2.4	84	90	1	310	30	15	16	37	1.90
1861389--1861458	18	3.7	18	80	14	86	24	31	24	20	1.98
1866543--1866612	18	3.7	18	80	14	86	24	31	24	20	1.98
1871686--1871755	18	3.7	18	75	14	68	27	31	20	21	1.98
1871701--1871743	22	2.0	22	90	0	68	30	27	13	27	1.95
1876639--1876706	29	2.3	29	82	0	82	42	22	7	27	1.80
1876683--1876793	29	3.8	29	91	0	177	42	23	10	23	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1876820--1876844	13	1.9	13	100	0	50	16	24	40	20	1.91
1884116--1884221	29	3.7	29	90	0	149	46	18	7	27	1.76
1884228--1884261	18	1.9	18	94	5	61	14	23	44	17	1.86
1884362--1884411	20	2.5	20	96	0	91	54	14	6	26	1.63
1885371--1885408	19	2.0	20	94	5	69	73	0	5	21	1.02
1885371--1885407	11	3.6	11	82	17	53	75	0	5	18	0.99
1885510--1885603	19	5.3	19	71	17	76	45	8	0	45	1.33
1885499--1885603	33	3.0	34	86	6	140	46	7	0	44	1.38
1886074--1886276	38	5.5	39	74	14	127	45	3	8	42	1.53
1886074--1886276	37	5.6	36	70	20	115	45	3	8	42	1.53
1886155--1886222	31	2.2	31	84	5	84	47	2	8	41	1.50
1886130--1886260	69	1.9	70	82	7	169	47	4	7	40	1.53
1886265--1886314	25	2.0	25	88	7	75	42	8	10	40	1.68
1886294--1886350	30	2.0	28	86	6	78	49	5	1	43	1.35
1886315--1886438	38	3.2	39	80	6	128	50	0	4	45	1.26
1886443--1886472	4	7.5	4	100	0	60	23	0	0	76	0.78
1890794--1890826	2	17.0	2	93	6	59	48	0	0	51	1.00
1891371--1891421	14	3.9	14	73	19	56	11	11	19	56	1.65
1891370--1891421	24	2.2	24	96	0	95	11	11	19	57	1.63
1891600--1891654	23	2.4	23	81	0	65	16	14	14	54	1.71
1894024--1894056	13	2.8	12	86	13	50	63	0	3	33	1.10
1894149--1894195	11	4.4	11	89	5	78	53	0	2	44	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1894153--1894195	21	2.0	21	95	0	77	53	0	2	44	1.13
1894222--1894273	15	3.1	15	75	20	50	57	0	1	40	1.10
1894222--1894278	19	3.2	19	70	29	61	57	0	1	40	1.09
1894253--1894329	23	3.2	23	81	5	91	58	1	2	37	1.20
1903710--1903792	21	3.8	21	74	16	62	16	24	37	21	1.94
1903732--1903793	22	2.8	22	82	9	72	19	24	35	20	1.96
1909999--1910050	28	1.9	26	84	7	68	34	5	1	57	1.33
1919043--1919078	15	2.4	15	95	0	63	33	8	5	52	1.55
1918600--1919559	496	2.0	479	83	6	1203	29	17	17	35	1.92
1920783--1920809	2	13.5	2	100	0	54	51	48	0	0	1.00
1921223--1922027	401	2.0	401	99	0	1574	31	23	19	25	1.98
1922486--1922519	13	2.7	13	90	4	52	20	26	0	52	1.46
1924224--1924613	195	2.0	195	92	1	647	35	16	25	21	1.94
1927992--1928025	17	2.0	17	94	0	59	35	29	8	26	1.87
1942067--1942104	20	1.9	20	88	0	58	26	34	26	13	1.93
1943782--1943807	12	2.2	12	100	0	52	26	34	38	0	1.57
1944898--1944935	20	1.9	20	88	0	58	23	36	18	21	1.95
1947759--1947808	2	25.0	2	100	0	100	50	0	0	50	1.00
1956582--1956611	2	15.0	2	100	0	60	50	0	0	50	1.00
1964770--1964822	27	2.0	27	92	0	88	45	11	1	41	1.51
1973897--1973943	24	2.0	23	91	4	76	25	27	25	21	1.99
1976014--1976078	23	2.8	23	78	0	76	29	23	24	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1979700--1979754	14	3.9	14	80	0	56	21	0	34	43	1.53
1979700--1979749	21	2.4	21	75	0	55	20	0	38	42	1.52
1979701--1979757	28	2.0	28	86	6	80	22	0	33	43	1.54
1979710--1979773	28	2.3	28	81	10	69	28	0	28	43	1.55
1979870--1979904	7	5.3	7	93	6	56	14	0	42	42	1.45
1979871--1979904	6	5.3	6	89	10	50	14	0	44	41	1.45
1979870--1979904	13	2.7	13	86	13	54	14	0	42	42	1.45
1979953--1980054	42	2.5	42	98	1	197	40	1	5	51	1.37
1981948--1982028	36	2.2	36	91	0	135	32	13	18	35	1.90
1988888--1989009	64	1.9	63	83	3	156	52	9	9	28	1.65
1990924--1991047	25	5.0	25	97	1	223	29	15	19	36	1.92
1991111--1991157	3	16.0	3	87	12	71	68	0	0	31	0.90
1991314--1991421	43	2.4	44	84	6	128	25	20	27	25	1.99
1991446--1991679	40	5.9	40	95	0	416	27	17	34	20	1.95
1991740--1991793	28	1.9	28	88	7	83	48	16	12	22	1.80
1992252--1992399	66	2.3	66	98	1	289	37	10	19	32	1.85
1992509--1992570	27	2.3	27	94	2	106	45	12	8	33	1.72
1992669--1992792	29	4.5	25	77	16	88	49	14	8	27	1.73
1992684--1992785	29	3.7	29	85	6	133	48	15	7	28	1.73
1993035--1993138	36	3.0	35	81	4	129	34	11	20	33	1.88
1993036--1993165	35	3.8	32	78	12	109	33	13	20	33	1.91
1993106--1993337	105	2.3	100	82	7	252	37	13	18	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1993801--1993840	4	10.5	4	89	10	66	25	0	25	50	1.50
1995021--1995058	11	3.4	11	89	7	58	5	13	10	71	1.30
1995650--1995724	20	3.5	20	70	20	62	37	10	25	26	1.89
1995660--1995739	26	3.3	26	68	20	82	42	10	23	23	1.84
1995648--1995741	46	2.1	45	91	2	152	38	9	25	26	1.87
2001812--2001910	25	4.0	25	96	1	173	29	15	19	36	1.92
2001975--2002021	3	16.0	3	87	12	71	68	0	0	31	0.90
2004287--2004314	2	14.0	2	100	0	56	50	0	0	50	1.00
2009362--2009393	16	2.1	15	94	5	55	31	25	31	12	1.92
2010494--2010827	4	83.5	4	100	0	668	24	0	25	50	1.50
2012049--2012091	18	2.4	18	92	0	68	72	0	6	20	1.08
2012678--2012884	76	2.7	75	88	3	290	59	13	1	25	1.44
2012777--2012881	25	4.2	24	68	18	70	60	14	1	22	1.43
2012834--2012889	25	2.3	24	84	3	67	60	14	1	23	1.43
2014945--2014977	16	2.1	16	94	0	57	75	6	3	15	1.11
2017348--2017440	32	2.9	31	74	6	87	30	18	18	33	1.95
2018171--2018223	18	2.9	18	91	5	81	28	30	22	18	1.98
2018170--2018306	22	6.6	22	82	7	139	28	29	25	16	1.96
2018684--2018736	22	2.5	20	71	17	52	32	16	1	49	1.57
2019015--2019055	2	20.5	2	100	0	82	48	0	0	51	1.00
2019676--2019836	64	2.5	64	86	6	209	26	19	19	34	1.96
2023107--2023181	22	3.4	22	88	0	105	30	32	24	13	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2023894--2023926	2	16.5	2	100	0	66	48	0	0	51	1.00
2028433--2028489	18	3.2	17	80	9	60	68	0	3	28	1.06
2028530--2028572	18	2.4	18	92	0	68	72	2	6	18	1.19
2032684--2032758	34	2.2	35	85	7	100	56	0	5	38	1.22
2039696--2039720	3	8.3	3	100	0	50	64	0	36	0	0.94
2041626--2041657	13	2.4	14	94	5	57	25	6	6	62	1.42
2043702--2043751	22	2.3	22	96	0	91	14	6	40	40	1.70
2045932--2046024	32	3.0	31	73	9	98	35	7	8	48	1.62
2051464--2051524	28	2.2	27	85	2	77	26	18	27	27	1.98
2052242--2052314	30	2.4	30	93	0	119	26	19	24	30	1.98

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