genome.fa.s482.2.7.7.80.10.50.1000.10.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: VEPZ01000482.1 Hibiscus syriacus cultivar Beakdansim tig00000916_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2886609

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

This is table  10  of  16  ( 1801 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)
1803234--1803280	21	2.1	21	88	7	67	8	6	2	82	0.90
1803311--1803354	23	1.9	23	85	0	61	2	9	4	84	0.85
1804425--1804482	25	2.3	25	93	0	98	20	36	8	34	1.84
1813865--1813934	23	3.1	22	78	11	72	77	4	7	11	1.11
1815497--1815577	25	3.4	25	69	19	82	32	6	16	45	1.71
1815492--1815584	46	2.0	46	95	0	168	29	6	18	46	1.74
1818713--1818745	2	17.0	2	93	6	59	48	0	0	51	1.00
1819694--1819745	22	2.4	21	76	17	54	53	1	0	44	1.11
1833814--1833879	22	3.0	21	82	8	78	25	24	19	30	1.98
1834707--1834745	19	2.1	19	95	0	69	20	38	15	25	1.92
1834693--1834853	65	2.5	64	83	3	198	29	26	16	27	1.97
1840645--1840700	22	2.7	21	83	10	62	30	23	17	28	1.97
1842220--1842263	21	2.1	21	86	0	61	9	36	15	38	1.80
1843285--1843323	19	2.1	19	95	0	69	20	38	15	25	1.92
1843306--1843411	45	2.3	46	85	4	144	30	22	16	31	1.95
1851708--1851778	22	3.2	22	80	9	81	26	22	19	30	1.98
1854252--1854753	251	2.0	250	89	0	761	32	28	22	17	1.96
1855563--1855593	7	4.6	7	92	8	55	61	0	0	38	0.96
1855564--1855592	13	2.2	13	100	0	58	58	0	0	41	0.98
1857668--1857707	21	1.9	21	94	0	71	42	10	22	25	1.84
1857669--1857714	21	2.2	21	88	0	65	41	15	21	21	1.90
1857711--1857886	65	2.7	65	95	0	307	38	12	19	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1866014--1866074	20	3.1	19	77	11	68	27	36	24	11	1.90
1868057--1868090	17	2.0	17	88	0	50	14	2	29	52	1.56
1868858--1868908	20	2.5	20	100	0	102	19	35	21	23	1.96
1869620--1869669	27	1.9	25	92	8	82	4	18	4	74	1.14
1869621--1869670	13	3.8	13	85	15	68	2	18	6	74	1.12
1869626--1869684	26	2.3	26	80	8	66	1	18	6	72	1.15
1876543--1876641	42	2.4	42	84	3	137	37	12	5	45	1.63
1881443--1881469	2	13.5	2	100	0	54	51	0	0	48	1.00
1883446--1883530	30	2.8	30	78	7	82	49	5	1	43	1.34
1916352--1916404	26	2.0	26	85	0	70	41	13	15	30	1.85
1924919--1924969	21	2.4	21	100	0	102	29	25	19	25	1.99
1925839--1925885	2	23.5	2	100	0	94	51	0	0	48	1.00
1926680--1926741	23	2.7	23	87	0	97	17	25	24	32	1.97
1930668--1930706	19	2.1	19	100	0	78	30	10	23	35	1.88
1931154--1931653	59	8.4	59	82	7	443	37	10	23	29	1.88
1931145--1931713	118	4.8	116	76	11	462	37	11	22	28	1.89
1931154--1931713	177	3.2	174	76	10	485	37	10	22	29	1.88
1931463--1931637	60	2.9	59	91	2	269	35	13	22	28	1.92
1931790--1932232	44	10.0	44	91	1	618	41	5	19	33	1.76
1932732--1932761	7	4.3	7	100	0	60	16	16	13	53	1.73
1932747--1932799	23	2.5	20	80	16	70	18	15	18	47	1.83
1932752--1932798	23	2.0	23	95	0	85	19	17	19	44	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1937927--1937978	20	2.5	21	81	3	61	40	19	23	17	1.91
1937967--1938080	20	5.7	20	83	6	113	31	25	18	24	1.97
1937964--1938080	61	1.9	61	85	0	162	33	24	17	23	1.97
1938635--1938676	19	2.2	19	86	0	57	50	28	16	4	1.66
1938672--1938750	19	4.1	19	90	3	122	12	22	17	46	1.82
1938672--1938750	39	2.1	38	90	2	122	12	22	17	46	1.82
1940203--1940333	63	2.1	63	97	0	244	22	17	36	23	1.95
1940615--1940647	17	1.9	17	88	11	50	24	18	12	45	1.83
1942194--1942229	14	2.6	14	95	0	63	30	0	25	44	1.54
1942354--1942410	14	3.7	14	72	20	51	45	21	24	8	1.80
1942336--1942425	33	2.7	33	89	0	135	44	20	22	13	1.85
1942336--1942396	19	3.5	18	72	21	58	44	19	22	13	1.85
1942421--1942571	19	8.7	19	61	21	53	15	19	20	43	1.88
1942425--1942551	33	3.9	32	84	8	166	15	19	19	44	1.86
1942418--1942550	66	2.0	66	91	0	212	17	19	19	43	1.88
1944843--1944867	12	2.1	12	100	0	50	0	28	0	72	0.86
1945042--1945095	24	2.2	24	90	0	81	38	20	16	24	1.92
1946156--1946213	20	2.9	20	97	0	107	37	24	22	15	1.93
1946232--1946347	33	3.4	33	81	11	142	13	21	19	44	1.85
1946232--1946318	19	4.8	19	87	9	130	13	20	17	48	1.81
1946435--1946471	14	2.6	14	86	0	56	48	21	0	29	1.50
1947891--1947972	42	2.0	42	87	0	119	21	13	42	21	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1948339--1948477	19	7.9	18	75	18	123	45	22	20	12	1.84
1948396--1948453	14	3.9	14	81	16	71	50	24	17	8	1.74
1948338--1948470	32	3.9	33	80	11	160	45	22	19	12	1.83
1948380--1948494	19	6.6	19	73	20	83	46	22	19	12	1.83
1948484--1948561	14	4.7	16	79	15	56	11	19	21	47	1.81
1948506--1948545	14	2.9	14	96	0	71	7	15	25	52	1.68
1948546--1948600	20	2.8	19	83	8	65	16	23	23	36	1.94
1949082--1949126	18	2.5	18	88	0	72	13	15	44	26	1.83
1950446--1950504	20	3.0	20	87	0	73	42	22	18	16	1.89
1950759--1950797	21	1.9	21	89	5	62	25	12	35	25	1.92
1950998--1951069	20	3.6	20	90	0	90	27	18	27	26	1.98
1951080--1951172	20	4.6	20	78	4	96	17	24	18	39	1.91
1951080--1951172	41	2.3	41	100	0	186	17	24	18	39	1.91
1953477--1953501	2	12.5	2	100	0	50	48	0	0	52	1.00
1959384--1959416	15	2.2	15	100	0	66	33	0	0	66	0.92
1967320--1967377	3	19.3	3	100	0	116	32	0	0	67	0.91
1967513--1967577	29	2.2	29	83	5	78	40	7	0	52	1.30
1977500--1977524	12	2.1	12	100	0	50	68	24	8	0	1.16
1978300--1978339	14	2.9	14	88	3	64	60	27	10	2	1.42
1978595--1978640	14	3.1	14	93	6	74	52	17	15	15	1.76
1979414--1979481	3	22.7	3	79	11	68	33	2	1	61	1.20
1979428--1979482	27	2.0	28	89	3	85	32	5	0	61	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1990098--1990137	21	1.9	21	85	10	55	15	10	37	37	1.80
1990250--1990364	20	5.7	20	76	4	104	31	22	26	20	1.98
1990241--1990364	41	3.0	41	88	2	187	30	24	25	20	1.98
1990268--1990345	21	3.8	21	81	3	104	32	23	23	21	1.98
1990555--1990614	30	2.0	30	93	6	104	45	15	6	33	1.72
1993829--1993948	21	5.8	20	86	12	152	21	20	35	21	1.96
1994028--1994085	30	2.0	29	90	10	91	44	17	5	32	1.70
1994028--1994087	29	2.0	30	93	6	104	43	16	6	33	1.74
1994126--1994199	36	2.1	36	82	5	89	35	13	12	39	1.82
1994385--1994503	31	3.7	32	69	15	82	28	18	12	40	1.87
1994344--1994503	67	2.4	68	85	4	207	27	18	11	42	1.84
1994408--1994509	31	3.2	30	70	18	89	28	18	12	40	1.87
1994507--1995111	131	4.6	131	81	1	575	26	29	17	26	1.97
1994507--1995111	262	2.3	262	82	3	696	26	29	17	26	1.97
1995317--1995381	3	21.7	3	80	12	71	35	3	1	60	1.22
1995317--1995378	27	2.3	27	86	8	90	35	3	1	59	1.23
1997661--1997745	32	2.7	29	80	8	80	44	4	4	45	1.45
1999173--1999249	31	2.5	31	87	2	102	27	22	11	38	1.88
2003664--2003698	18	1.9	18	100	0	70	8	34	22	34	1.85
2013453--2013501	20	2.8	17	81	12	55	22	24	20	32	1.98
2016831--2016957	32	4.0	32	95	0	218	31	25	18	25	1.97
2020464--2020541	31	2.5	31	91	4	122	32	14	28	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2022509--2022546	16	2.4	16	82	4	51	39	0	15	44	1.47
2025119--2025203	38	2.2	38	82	0	107	35	31	10	22	1.88
2025450--2027035	4	398.0	4	98	0	2887	25	1	24	48	1.60
2032285--2032430	41	3.6	41	76	7	127	30	16	17	35	1.92
2032290--2032430	42	3.5	41	76	7	135	29	16	18	35	1.93
2033131--2033202	36	2.0	36	100	0	144	38	8	11	41	1.71
2035752--2035818	31	2.2	32	89	5	111	37	5	16	40	1.73
2037508--2037537	15	2.0	15	100	0	60	46	33	13	6	1.69
2038196--2038347	60	2.5	61	83	8	179	31	19	5	42	1.75
2038213--2038368	60	2.6	60	80	7	167	32	23	5	38	1.79

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