genome.fa.s7805.2.7.7.80.10.50.1000.8.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: VEPZ01007805.1 Hibiscus syriacus cultivar Beakdansim tig00110123_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2708727

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

This is table  8  of  11  ( 1278 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)
1950801--1950848	3	16.0	3	87	8	71	62	0	0	37	0.95
1951262--1951801	113	4.8	113	90	2	782	27	18	14	39	1.89
1952561--1952948	83	4.7	83	95	0	686	38	22	11	26	1.88
1954308--1954381	31	2.4	30	84	10	89	0	18	0	81	0.70
1954309--1954374	26	2.7	24	83	11	89	0	16	0	83	0.65
1954308--1954378	12	5.6	13	77	15	78	0	18	0	81	0.69
1961636--1961668	15	2.2	15	94	0	57	48	9	18	24	1.76
1965740--1965782	15	2.8	16	79	10	54	67	6	2	23	1.27
1967090--1967152	3	21.0	3	87	6	92	61	0	0	38	0.96
1969096--1969175	3	27.0	3	85	7	110	65	0	1	33	1.01
1969492--1970260	113	6.7	115	86	6	672	29	19	13	37	1.90
1969627--1970299	113	6.0	113	90	4	1017	29	19	13	36	1.91
1971845--1971887	15	2.8	15	89	3	59	11	16	0	72	1.13
1971846--1971891	18	2.6	17	86	6	56	10	17	0	71	1.13
1979078--1979109	16	2.1	16	88	11	50	31	3	12	53	1.54
1982344--1982388	18	2.5	19	79	17	51	75	2	0	22	0.91
1984666--1984748	3	28.0	3	80	7	62	60	3	2	33	1.27
1988631--1988732	22	4.6	22	82	2	107	39	21	20	18	1.93
1994956--1995037	31	2.6	31	88	0	119	30	20	4	43	1.73
1995267--1995313	24	2.0	24	95	0	85	46	21	14	17	1.83
1998682--1998742	13	4.8	12	75	16	52	37	1	1	59	1.17
1998863--1998909	13	3.5	13	82	8	51	40	19	2	38	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1998876--1998943	13	5.1	14	73	8	61	35	20	5	38	1.77
2000029--2000126	49	2.0	49	97	0	187	53	14	13	19	1.73
2002364--2002722	44	8.2	43	81	4	326	30	20	15	32	1.94
2002346--2002722	132	2.9	131	80	6	377	31	20	15	32	1.94
2005720--2006238	139	3.8	137	80	6	550	28	11	14	45	1.80
2006543--2006579	19	1.9	19	100	0	74	24	0	5	70	1.08
2008530--2008689	65	2.5	63	84	6	205	31	23	16	28	1.96
2014094--2014191	44	2.2	44	82	10	112	30	21	20	27	1.98
2016553--2016585	15	2.3	15	94	5	59	33	6	0	60	1.21
2018057--2018575	139	3.8	139	80	4	550	27	10	15	46	1.78
2018057--2018577	276	1.9	277	81	4	631	27	10	15	46	1.78
2018880--2018917	19	2.0	19	94	0	67	26	0	2	71	1.00
2020857--2021366	139	3.7	138	80	5	458	26	12	15	45	1.81
2021672--2021712	19	2.1	20	90	4	66	24	0	4	70	1.06
2023095--2023119	13	1.9	13	100	0	50	56	8	4	32	1.47
2024508--2024537	13	2.3	13	100	0	60	50	0	0	50	1.00
2025761--2025842	40	2.0	40	100	0	164	41	17	21	19	1.90
2033961--2034002	21	2.0	21	86	9	59	38	14	2	45	1.58
2033996--2034020	2	12.5	2	100	0	50	48	0	0	52	1.00
2033975--2034089	45	2.8	39	80	13	108	42	11	0	46	1.40
2034000--2034060	29	2.1	29	87	6	88	44	11	0	44	1.40
2034011--2034132	47	2.6	46	88	7	176	41	12	0	45	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2034041--2034168	20	7.3	19	72	25	113	42	11	0	45	1.40
2034085--2034168	37	2.2	39	83	10	111	42	11	0	45	1.41
2036835--2036892	23	2.5	23	94	0	98	36	10	17	36	1.84
2037058--2037571	199	2.6	198	86	4	678	29	14	14	40	1.87
2037886--2037944	25	2.4	25	94	0	100	20	22	23	33	1.97
2039834--2039869	18	2.0	18	88	0	54	22	25	5	47	1.73
2041406--2042513	200	5.5	199	84	4	1308	31	17	14	36	1.90
2041406--2042513	402	2.8	397	84	5	1373	31	17	14	36	1.90
2041398--2042513	602	1.9	598	90	3	1776	31	17	14	36	1.90
2044441--2044476	18	2.0	18	88	0	54	2	33	0	63	1.08
2044664--2044730	33	2.0	33	91	0	107	23	43	1	31	1.63
2044890--2044922	15	2.2	15	94	0	57	15	63	3	18	1.43
2047214--2047701	182	2.7	182	87	0	699	26	16	14	42	1.86
2058239--2058288	22	2.2	23	82	10	59	22	6	6	66	1.36
2059592--2059630	20	2.0	20	85	10	53	38	20	10	30	1.86
2063032--2063096	29	2.3	29	97	2	123	26	16	26	30	1.97
2069731--2070196	116	4.0	116	82	0	529	36	15	22	25	1.94
2069731--2070196	232	2.0	233	83	2	589	36	15	22	25	1.94
2070279--2070401	38	3.3	38	80	11	114	32	17	9	39	1.83
2070294--2070407	38	3.1	36	81	9	115	33	15	8	42	1.78
2070339--2070415	38	2.1	37	82	2	91	36	16	10	36	1.83
2070395--2070426	14	2.2	15	94	5	57	18	21	15	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2074117--2074162	3	15.3	3	90	0	74	2	32	2	63	1.19
2075794--2075819	12	2.2	12	100	0	52	42	15	0	42	1.47
2082499--2082537	19	2.0	20	85	14	55	76	7	0	15	0.99
2082499--2082555	21	2.8	20	82	15	57	73	7	1	17	1.14
2084125--2084228	42	2.5	41	75	4	93	30	25	18	25	1.98
2084222--2084554	98	3.4	98	91	0	533	36	19	12	31	1.90
2084553--2085420	39	22.3	39	87	0	1146	36	15	17	30	1.91
2085423--2085812	76	5.1	76	82	4	466	39	11	16	32	1.84
2085422--2085544	40	3.2	40	67	13	103	41	10	15	32	1.81
2090486--2090534	21	2.3	21	82	10	55	69	6	6	18	1.31
2090457--2090534	5	15.4	5	73	12	61	74	5	3	16	1.15
2091413--2091462	26	1.9	26	100	0	100	56	20	8	16	1.65
2093339--2093369	2	15.5	2	100	0	62	51	0	0	48	1.00
2093656--2093697	17	2.5	17	92	0	66	30	14	9	45	1.77
2093704--2093762	17	3.5	17	68	13	50	28	16	8	45	1.77
2094320--2094348	8	3.8	8	90	9	51	79	10	0	10	0.94
2094318--2094347	15	2.0	15	93	0	51	76	10	0	13	1.01
2097128--2097179	17	3.1	17	80	0	59	36	13	7	42	1.73
2098815--2098867	26	2.0	26	88	0	79	37	20	1	39	1.64
2098986--2099018	16	1.9	18	88	11	52	57	0	3	39	1.14
2102798--2102841	21	2.1	21	83	8	54	40	0	2	56	1.11
2104387--2104421	17	2.1	17	94	0	61	34	20	11	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2104431--2104847	131	3.2	131	78	4	464	40	14	11	33	1.83
2106343--2106430	25	3.6	25	98	1	169	29	14	4	51	1.62
2106775--2106823	3	16.3	3	100	0	98	65	0	0	34	0.93
2106956--2107819	133	6.5	134	81	3	915	31	15	21	31	1.94
2106949--2107819	265	3.3	264	82	4	912	31	15	21	32	1.94
2106956--2107819	398	2.2	400	82	3	1010	31	15	21	31	1.94
2107852--2108097	133	1.8	133	86	3	352	36	13	17	32	1.89
2108111--2108339	46	5.0	45	66	9	140	31	14	21	31	1.94
2108111--2108339	92	2.5	92	86	1	298	31	14	21	31	1.94
2112685--2112717	17	2.0	17	94	5	59	6	24	6	63	1.40
2113975--2114015	20	2.0	20	86	9	57	36	24	2	36	1.69
2115760--2116261	131	3.8	132	82	4	541	42	15	10	32	1.80
2118200--2118266	3	22.3	3	100	0	134	65	0	0	34	0.93
2120064--2120160	36	2.7	36	85	7	135	27	36	5	30	1.79
2120546--2120592	25	2.0	24	84	16	62	74	8	17	0	1.05
2125765--2125861	36	2.7	36	84	7	126	27	35	5	31	1.79
2126574--2126625	25	2.1	25	100	0	104	34	34	7	23	1.83
2128869--2129077	65	3.2	64	79	9	194	32	22	17	26	1.97
2128917--2129077	65	2.5	64	87	6	227	32	21	18	27	1.96
2134843--2134906	21	2.9	22	68	23	53	28	23	18	29	1.98
2137140--2137166	14	1.9	14	100	0	54	40	0	44	14	1.46
2137564--2137724	65	2.5	65	88	7	231	31	21	19	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2142483--2142782	153	2.0	152	81	4	354	37	19	8	34	1.82
2143835--2143868	11	3.1	11	91	0	50	29	32	23	14	1.94
2144897--2144955	5	11.6	5	78	3	64	74	3	3	18	1.10
2144908--2144956	16	3.1	16	82	5	64	75	2	4	18	1.06
2144898--2144956	31	1.9	31	85	0	82	74	3	3	18	1.10
2145136--2145166	2	16.0	2	93	6	55	51	0	0	48	1.00
2145641--2145773	65	2.1	65	88	4	198	28	23	17	30	1.97
2145641--2145793	65	2.4	64	85	5	175	28	22	16	32	1.96
2147214--2147238	12	2.1	12	100	0	50	76	0	24	0	0.80
2148310--2148670	108	3.3	107	69	19	339	37	11	9	41	1.74

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