genome.fa.s9586.2.7.7.80.10.50.1000.10.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: VEPZ01009586.1 Hibiscus syriacus cultivar Beakdansim tig00116964_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3773412

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  10  of  19  ( 2170 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)
1847143--1847802	8	88.8	8	70	20	393	40	3	6	50	1.44
1847171--1847810	203	3.1	203	86	11	889	40	3	6	50	1.44
1847159--1847707	37	14.7	37	85	10	470	40	3	6	49	1.45
1847559--1847845	42	6.7	40	77	14	165	40	2	6	50	1.42
1850856--1850899	23	1.9	23	100	0	88	25	40	25	9	1.84
1850927--1850971	22	2.0	22	95	0	81	13	35	17	33	1.89
1851928--1851953	13	2.0	13	100	0	52	23	7	23	46	1.78
1871296--1871337	22	1.9	22	90	0	66	23	0	4	71	1.05
1873912--1873936	10	2.5	10	100	0	50	88	0	12	0	0.53
1875389--1875456	36	1.9	36	87	3	102	50	11	4	33	1.59
1893506--1893652	35	4.2	36	84	7	178	41	19	6	32	1.76
1893557--1893617	21	3.2	21	61	29	55	40	21	6	31	1.78
1893509--1893656	72	2.1	68	81	9	183	42	19	6	31	1.76
1896461--1896490	15	1.9	16	93	6	53	40	0	20	40	1.52
1928414--1928467	2	27.0	2	100	0	108	50	0	0	50	1.00
1934168--1934204	13	2.8	13	87	0	56	62	16	8	13	1.54
1934524--1934602	40	2.0	39	85	7	106	29	17	13	39	1.89
1942158--1942225	31	2.2	31	91	0	109	26	7	25	41	1.81
1942158--1942234	31	2.5	31	85	4	104	31	6	24	37	1.81
1945137--1945388	106	2.4	108	82	3	303	42	11	10	35	1.76
1945706--1945771	21	3.1	21	64	23	57	28	16	18	36	1.93
1946140--1946306	76	2.2	76	87	1	235	32	15	12	38	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1946216--1946398	100	1.8	100	87	0	276	32	14	12	40	1.82
1946043--1946477	176	2.5	176	85	3	563	33	12	12	42	1.80
1946316--1946554	79	3.1	76	81	7	275	32	10	11	45	1.75
1946140--1946653	255	2.0	252	86	3	701	33	12	12	42	1.80
1946471--1946666	99	2.0	101	82	4	245	32	10	14	43	1.79
1946926--1947131	70	2.9	69	81	7	225	35	10	7	46	1.65
1951713--1951743	7	4.4	7	91	0	53	29	29	25	16	1.96
1951733--1951775	22	2.0	22	100	0	86	9	23	48	18	1.76
1951772--1951841	10	7.3	9	80	7	68	25	28	30	15	1.96
1951774--1951841	19	3.5	20	86	11	90	26	29	27	16	1.97
1951785--1951846	20	3.2	20	86	11	76	30	25	27	16	1.96
1951814--1951862	20	2.5	20	86	6	64	32	20	28	18	1.96
1959034--1959076	22	2.0	22	100	0	86	9	23	48	18	1.76
1959075--1959172	19	5.1	19	80	14	101	29	27	24	18	1.98
1959079--1959172	9	9.7	10	76	12	90	29	27	24	18	1.98
1959098--1959172	29	2.5	31	91	8	129	30	28	24	17	1.97
1962436--1962476	17	2.4	17	100	0	82	4	24	4	65	1.32
1963040--1963067	2	14.0	2	100	0	56	50	0	0	50	1.00
1968763--1968831	35	2.0	35	94	0	120	31	20	14	33	1.92
1970531--1970584	26	2.1	26	89	3	83	64	11	1	22	1.35
1972906--1973477	288	2.0	287	96	0	1045	39	11	16	32	1.85
1979737--1979808	29	2.4	29	76	17	67	61	2	5	30	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1980390--1980459	3	23.3	3	94	0	122	32	2	0	64	1.08
1995190--1995219	2	15.0	2	100	0	60	50	0	0	50	1.00
1997963--1997992	3	10.0	3	100	0	60	33	0	0	66	0.92
1998760--1998798	21	1.9	20	84	5	51	35	7	2	53	1.43
1998815--1998855	15	2.7	16	77	11	50	36	0	0	63	0.95
2011825--2011990	90	1.9	89	92	1	278	41	10	5	42	1.62
2013787--2013811	11	2.3	11	100	0	50	24	0	16	60	1.36
2022401--2022438	20	1.9	20	88	0	58	28	23	15	31	1.96
2025350--2025417	30	2.3	30	82	10	77	57	25	1	16	1.47
2028726--2028888	83	2.0	83	98	1	319	43	14	10	31	1.79
2040584--2040653	34	2.1	32	89	5	104	24	27	15	32	1.95
2040986--2041028	21	2.0	21	86	8	61	13	23	41	20	1.88
2043039--2043128	34	2.6	34	96	0	162	26	28	16	27	1.97
2043474--2043580	22	5.0	21	84	5	144	14	27	38	19	1.91
2043474--2043580	41	2.5	43	89	4	155	14	27	38	19	1.91
2044424--2044460	18	2.1	18	94	0	65	18	18	10	51	1.75
2046262--2046291	3	10.0	3	100	0	60	66	0	0	33	0.92
2053811--2054038	80	2.8	80	93	0	384	29	18	20	31	1.96
2054436--2054494	29	2.0	29	93	0	100	50	15	15	18	1.78
2055685--2055731	22	2.1	22	88	0	67	29	40	6	23	1.79
2056098--2056176	19	4.4	19	74	18	80	11	16	21	50	1.76
2056108--2056176	33	2.1	33	88	0	102	10	17	20	52	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2057830--2057882	21	2.5	21	75	6	54	30	11	28	30	1.91
2057957--2058005	21	2.3	21	78	0	53	22	16	28	32	1.95
2058287--2058391	21	5.0	21	78	0	93	20	33	19	27	1.96
2058289--2058400	42	2.7	42	84	0	134	19	35	18	25	1.95
2058335--2058405	21	3.4	21	80	0	88	18	38	23	19	1.93
2059810--2059846	14	2.6	14	100	0	74	29	0	21	48	1.50
2059749--2059910	78	2.1	78	92	0	270	30	1	17	50	1.56
2059974--2060012	20	2.0	20	94	0	69	46	25	12	15	1.81
2059978--2060071	49	1.9	49	91	0	152	34	19	23	23	1.97
2060029--2060122	20	4.8	20	74	7	93	38	20	19	22	1.94
2062111--2062147	18	2.1	18	89	0	56	51	10	5	32	1.60
2062526--2062575	25	2.0	25	96	0	91	44	22	8	26	1.80
2062704--2062762	29	2.0	29	90	0	91	22	15	27	35	1.94
2070003--2070073	22	3.3	22	84	2	90	12	21	45	21	1.84
2070074--2070125	10	5.4	10	72	9	54	28	32	23	15	1.95
2070070--2070138	19	3.6	19	98	0	129	30	30	20	18	1.97
2077272--2077310	17	2.3	17	100	0	78	12	23	46	17	1.83
2077306--2077335	9	3.3	9	95	0	51	26	30	30	13	1.94
2083594--2083633	20	2.0	20	95	0	71	52	15	7	25	1.68
2083953--2083990	19	2.0	19	85	10	51	57	10	0	31	1.32
2083871--2084169	147	2.0	150	97	2	568	54	9	8	28	1.61
2084100--2084137	19	2.0	19	85	10	51	57	10	0	31	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2085324--2085369	15	3.2	14	81	12	58	39	0	0	60	0.97
2093799--2093841	9	4.8	9	82	0	50	67	2	2	27	1.15
2093860--2094203	178	1.9	175	92	5	575	40	5	7	45	1.56
2094774--2094805	15	2.1	16	94	5	57	40	0	0	59	0.97
2094797--2094841	15	2.9	15	83	6	54	28	0	2	68	1.01
2095705--2096203	246	2.0	248	98	1	975	28	13	14	44	1.82
2102704--2102767	33	1.9	34	90	3	103	53	0	4	42	1.22
2102920--2102957	20	1.9	20	88	0	58	26	23	5	44	1.74
2117040--2117069	11	2.7	11	100	0	60	36	0	16	46	1.47
2118254--2118293	12	3.4	12	93	6	73	35	0	0	65	0.93
2118438--2118815	191	2.0	185	94	5	668	21	33	23	21	1.97
2120284--2120371	31	2.8	31	82	0	122	48	7	3	39	1.49
2125528--2125577	23	2.1	25	85	10	70	16	18	8	58	1.62
2138834--2138885	23	2.3	23	86	0	68	28	19	26	25	1.98
2144871--2144994	41	3.0	41	98	0	239	25	18	24	32	1.97
2148974--2149001	2	14.0	2	100	0	56	50	0	0	50	1.00
2153296--2153385	23	3.9	23	86	0	108	31	25	24	18	1.98
2159215--2159262	22	2.2	20	82	13	60	43	0	0	56	0.99
2159193--2159260	29	2.4	29	79	13	70	41	1	0	57	1.08
2159524--2159566	21	2.0	21	81	0	50	53	11	6	27	1.63
2160474--2160563	42	2.1	42	85	0	117	51	18	7	22	1.72
2171926--2172018	33	2.8	33	85	1	114	44	23	20	11	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2172026--2172127	20	5.5	19	76	15	115	11	22	18	47	1.81
2172026--2172119	33	2.6	35	82	14	111	11	22	20	45	1.83
2173814--2174189	94	4.1	93	93	2	598	22	12	18	47	1.81
2174288--2174377	19	4.9	19	69	15	73	12	20	20	47	1.81
2174837--2174897	21	3.0	20	71	7	59	22	37	19	19	1.94
2176249--2176284	14	2.6	14	95	0	63	33	0	22	44	1.53
2176391--2176522	19	7.7	18	68	26	83	46	21	20	10	1.80
2176391--2176515	33	3.8	33	92	2	198	46	22	20	11	1.82
2176409--2176465	14	3.7	14	70	20	51	43	22	22	10	1.84
2176456--2176532	19	4.3	19	75	18	76	46	24	16	11	1.81

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19