genome.fa.s8772.2.7.7.80.10.50.1000.10.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: VEPZ01008772.1 Hibiscus syriacus cultivar Beakdansim tig00111877_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3098974

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

This is table  10  of  16  ( 1817 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)
1872891--1873021	33	3.8	33	88	5	172	46	21	21	10	1.81
1872890--1873026	52	2.6	50	74	7	130	45	21	21	10	1.82
1873038--1873096	14	3.9	14	76	20	64	6	16	28	47	1.72
1873022--1873145	33	3.7	33	91	1	185	8	17	27	45	1.78
1873022--1873113	19	5.4	18	72	24	83	7	17	28	46	1.75
1873071--1873127	14	3.7	14	72	20	51	8	22	24	43	1.81
1873243--1873557	93	3.4	93	97	0	596	45	18	13	22	1.85
1875236--1875332	20	5.2	20	72	18	100	46	17	24	11	1.81
1875234--1875298	21	3.1	21	82	4	96	47	15	26	10	1.78
1875283--1875339	14	3.7	14	75	20	60	43	22	24	8	1.81
1875234--1875356	33	3.5	33	90	8	165	46	18	24	10	1.81
1875384--1875476	21	4.6	20	81	7	116	13	20	18	47	1.82
1875384--1875476	42	2.3	40	87	5	132	13	20	18	47	1.82
1875556--1875626	33	2.2	33	94	0	124	47	16	23	11	1.79
1876006--1876197	20	9.6	20	86	4	253	19	19	27	34	1.96
1877605--1877633	2	14.5	2	100	0	58	51	0	0	48	1.00
1885962--1886027	31	2.1	31	94	0	114	53	4	19	22	1.64
1885978--1886049	31	2.3	31	83	4	83	58	5	12	23	1.55
1894237--1894261	12	2.1	12	100	0	50	40	0	16	44	1.47
1906533--1906576	21	2.1	21	95	0	79	20	2	9	68	1.28
1906672--1906725	9	5.4	10	76	14	58	79	7	3	9	1.03
1907070--1907110	16	2.5	17	84	15	59	36	0	2	60	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1908069--1908108	21	1.9	21	85	10	55	22	2	5	70	1.19
1908110--1908181	2	36.5	2	91	2	119	47	0	2	50	1.15
1908205--1908396	33	5.5	33	82	11	217	43	3	6	46	1.46
1908369--1908437	35	2.0	34	88	8	104	43	1	4	50	1.30
1908371--1908437	34	2.0	34	88	5	100	43	1	4	50	1.31
1908449--1908512	3	20.7	3	82	17	53	28	4	0	67	1.11
1909232--1909256	10	2.5	10	100	0	50	8	48	32	12	1.69
1911556--1911600	19	2.4	19	92	3	74	11	13	8	66	1.44
1914949--1915979	165	6.2	164	85	2	1343	29	25	20	24	1.99
1914962--1916044	249	4.4	248	83	3	1270	30	25	20	24	1.99
1914949--1916027	330	3.3	330	87	3	1528	29	25	20	24	1.99
1916638--1916705	2	34.5	2	94	2	120	48	0	1	50	1.10
1916693--1916971	36	7.4	37	85	6	323	44	3	5	46	1.44
1916990--1917051	3	19.7	3	82	15	56	29	3	0	67	1.06
1917773--1917797	10	2.5	10	100	0	50	8	48	32	12	1.69
1923876--1923900	12	2.1	12	100	0	50	28	16	16	40	1.89
1927982--1928026	22	2.0	24	86	8	67	28	6	17	46	1.73
1948578--1948647	18	3.9	18	78	0	68	31	10	14	44	1.78
1948777--1948858	41	2.0	41	87	0	119	24	14	15	45	1.84
1953222--1953260	21	1.9	20	89	5	60	46	0	0	53	1.00
1961226--1961269	18	2.4	18	100	0	88	22	27	4	45	1.72
1961788--1962129	30	11.6	29	79	7	228	40	8	0	50	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1961788--1961978	59	3.2	60	80	7	201	37	9	1	51	1.44
1962051--1962113	25	2.5	26	82	10	76	44	4	0	50	1.23
1962152--1962297	29	5.2	28	73	16	108	49	0	10	39	1.42
1962255--1962326	24	2.9	25	76	12	69	48	0	8	43	1.33
1962257--1962326	25	2.7	27	75	14	69	48	0	8	42	1.33
1963258--1963307	23	2.2	23	82	7	57	40	4	2	54	1.31
1962685--1963349	361	1.8	361	85	2	924	38	10	12	38	1.77
1963721--1963778	27	2.1	27	90	0	89	31	13	17	37	1.89
1964300--1964334	16	2.2	16	89	0	52	28	0	0	71	0.86
1966827--1966894	3	21.3	3	80	14	50	61	1	2	33	1.20
1966827--1966894	21	3.4	19	77	20	59	61	1	2	33	1.20
1973192--1973234	2	21.5	2	87	0	59	53	41	2	2	1.26
1973804--1973840	19	1.9	19	94	0	65	32	29	13	24	1.93
1974331--1974369	19	2.1	19	85	9	53	30	33	12	23	1.92
1974395--1974485	21	4.3	21	95	0	164	20	27	21	29	1.98
1974894--1974964	21	3.4	21	96	0	133	28	25	26	19	1.99
1981350--1981374	6	4.2	6	100	0	50	20	16	64	0	1.30
1981431--1981475	13	3.5	13	84	6	65	24	46	15	13	1.82
1981603--1981657	12	4.6	12	86	8	67	27	49	14	9	1.73
1985234--1985295	29	2.2	29	88	8	92	53	19	0	27	1.45
1985244--1985306	28	2.2	29	83	8	76	55	22	0	22	1.44
1985788--1985858	28	2.5	30	81	9	94	22	0	22	54	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1985799--1985859	29	2.2	27	88	5	86	26	0	21	52	1.47
1985788--1985866	29	2.8	27	74	14	70	25	0	20	54	1.45
1986897--1986934	19	2.1	19	85	9	53	50	0	5	44	1.24
2002442--2002508	23	2.7	23	82	11	64	52	0	2	44	1.16
2002508--2002565	25	2.5	24	79	20	77	51	0	5	43	1.24
2002507--2002566	22	2.5	24	86	7	88	51	0	5	43	1.23
2002507--2002575	25	2.8	25	77	16	74	52	0	4	43	1.21
2002823--2002864	22	1.9	22	85	9	59	52	2	11	33	1.51
2004419--2004571	21	7.4	21	82	2	202	22	17	26	33	1.96
2004415--2004595	41	4.4	42	82	2	197	20	18	25	35	1.95
2004419--2004595	62	2.9	62	99	0	345	20	18	25	35	1.95
2005254--2005290	6	6.5	6	96	3	60	0	16	54	29	1.43
2005381--2005497	21	5.6	21	79	6	105	38	26	19	15	1.91
2005400--2005477	21	3.8	21	82	3	113	37	26	17	17	1.93
2005403--2005561	41	3.9	41	86	1	230	40	22	20	16	1.91
2005424--2005536	20	5.6	20	86	2	163	42	22	23	12	1.87
2005375--2005517	61	2.3	63	86	4	193	39	23	20	15	1.91
2019183--2019267	44	1.9	44	87	0	125	23	18	35	22	1.96
2019436--2019656	4	55.2	4	92	0	352	45	24	4	25	1.71
2026170--2026204	17	2.1	17	88	0	52	40	2	0	57	1.14
2026208--2026261	20	2.7	21	75	16	60	40	0	3	55	1.17
2026288--2026348	27	2.3	27	77	5	70	55	0	4	39	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2026388--2026452	27	2.4	28	86	2	96	60	0	0	40	0.97
2026388--2026474	27	3.3	28	82	9	94	57	1	0	41	1.06
2026410--2026510	26	3.9	26	74	15	77	48	0	0	49	1.14
2029654--2029759	39	2.7	39	89	1	160	36	16	14	33	1.88
2030130--2030287	61	2.6	61	79	12	168	44	2	18	34	1.63
2034925--2034949	3	8.3	3	100	0	50	32	0	0	68	0.90
2035318--2035354	18	2.0	20	89	10	60	45	21	0	32	1.52
2038947--2038987	12	3.5	12	90	3	66	34	0	39	26	1.57
2043682--2043725	12	3.7	12	87	0	70	36	0	36	27	1.57
2045730--2046303	286	2.0	287	99	0	1132	28	28	14	27	1.96
2056311--2056394	17	5.0	17	91	2	143	23	25	27	23	2.00
2056311--2056394	33	2.5	34	90	1	143	23	25	27	23	2.00
2057344--2057548	2	106.5	2	78	16	211	48	2	2	46	1.30
2057481--2057527	19	2.5	19	82	3	60	48	0	4	46	1.21
2062754--2062859	21	5.0	21	82	2	140	44	19	16	18	1.87
2062735--2062856	43	2.9	43	85	3	140	44	18	19	17	1.87
2068106--2068406	125	2.4	125	89	1	460	32	16	27	23	1.96
2069137--2069209	36	2.0	37	89	2	112	36	23	19	20	1.95
2069323--2069424	42	2.5	41	85	1	141	25	23	22	28	1.99
2069205--2071173	216	9.1	215	94	1	3336	32	15	20	31	1.93
2069205--2071173	645	3.0	646	94	1	3435	32	15	20	31	1.93
2071045--2071147	42	2.5	42	75	1	109	25	20	21	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2075303--2075330	2	14.0	2	100	0	56	50	0	0	50	1.00
2076226--2076590	192	1.9	190	83	6	468	41	8	22	26	1.83
2092991--2093073	29	2.8	29	92	1	139	43	9	14	32	1.78
2097754--2097836	29	2.8	29	92	1	139	43	9	14	32	1.78
2111546--2111582	19	1.9	19	100	0	74	21	40	16	21	1.91
2111532--2111690	65	2.5	65	84	3	187	31	25	16	27	1.96
2113008--2113218	114	1.8	114	80	8	250	51	7	16	25	1.70
2113750--2113789	20	2.0	21	85	14	57	37	15	5	42	1.68
2113749--2113793	20	2.2	20	80	11	56	40	13	4	42	1.64
2118222--2118293	31	2.4	31	88	4	103	33	2	36	27	1.72

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