genome.fa.s9581.2.7.7.80.10.50.1000.10.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: VEPZ01009581.1 Hibiscus syriacus cultivar Beakdansim tig00116958_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2551150

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

This is table  10  of  13  ( 1494 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)
1862941--1862984	22	1.9	23	82	17	56	15	20	15	47	1.82
1863591--1863620	4	7.2	4	96	3	51	70	0	3	26	1.03
1864599--1864659	26	2.4	27	74	20	67	67	0	4	27	1.11
1869408--1869469	23	2.9	21	85	7	81	20	35	25	17	1.95
1873732--1873770	20	2.0	20	89	0	60	33	23	10	33	1.88
1874250--1874330	40	2.0	40	90	0	126	20	19	30	28	1.97
1875101--1875317	94	2.3	94	88	0	335	41	14	6	37	1.71
1875101--1875460	81	4.1	92	81	13	397	39	14	6	38	1.73
1875615--1875824	93	2.2	94	93	0	350	36	9	14	40	1.77
1879201--1879231	16	1.9	16	93	0	53	41	0	6	51	1.27
1883503--1883549	23	2.0	23	95	0	85	51	2	17	29	1.57
1883776--1883821	2	23.0	2	100	0	92	50	0	0	50	1.00
1885029--1885069	21	2.0	21	90	0	64	51	4	9	34	1.56
1885547--1885624	37	2.1	36	83	9	95	47	1	3	47	1.28
1885600--1885647	18	2.7	18	80	9	62	54	4	0	41	1.20
1890350--1890394	22	2.0	22	95	0	81	28	8	17	44	1.79
1891131--1891257	24	5.4	24	75	2	114	56	18	14	10	1.66
1891459--1891498	14	2.9	14	76	0	53	55	17	12	15	1.70
1893517--1893554	19	2.0	19	94	0	67	18	26	26	28	1.98
1893638--1893702	30	2.2	30	91	0	103	13	24	36	24	1.92
1895145--1895278	29	4.7	29	76	11	118	39	5	9	44	1.62
1895366--1895438	31	2.4	30	86	2	92	36	10	10	41	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1896499--1896525	2	13.5	2	100	0	54	51	0	0	48	1.00
1898815--1898842	12	2.3	12	100	0	56	35	7	14	42	1.73
1898813--1898844	12	2.4	14	80	20	50	37	6	12	43	1.68
1900126--1900180	18	3.1	18	81	0	74	27	23	41	7	1.80
1900253--1901047	160	5.0	160	90	2	1234	34	15	20	29	1.94
1900253--1901047	316	2.5	314	89	3	1243	34	15	20	29	1.94
1905788--1905860	21	3.5	21	77	3	94	39	17	24	17	1.91
1905849--1905943	20	4.7	20	80	2	91	34	24	17	23	1.96
1905846--1905923	41	1.9	41	86	0	111	39	21	16	21	1.92
1906131--1906174	22	2.0	22	95	0	79	20	45	15	18	1.85
1906408--1906460	20	2.7	19	80	5	61	13	16	22	47	1.82
1907777--1907821	18	2.5	18	88	0	72	26	44	15	13	1.83
1908303--1908369	20	3.4	20	81	2	73	38	23	22	14	1.92
1908358--1908415	14	3.9	14	79	16	71	50	24	17	8	1.74
1908342--1908432	32	2.8	33	93	3	157	48	21	18	10	1.79
1908303--1908437	19	7.6	19	71	19	76	43	22	20	12	1.86
1908449--1908506	14	3.9	14	81	16	71	8	17	24	50	1.74
1908444--1908522	32	2.4	33	93	2	133	10	18	22	48	1.78
1908463--1908580	20	6.4	19	79	11	104	13	20	23	42	1.88
1909848--1909931	42	2.0	42	85	0	114	22	16	39	21	1.92
1911932--1912112	20	9.8	19	73	17	116	44	22	20	11	1.84
1912027--1912117	20	4.7	19	93	2	146	46	23	19	10	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1911932--1912117	33	5.1	38	79	13	151	44	22	21	11	1.85
1912113--1912157	19	2.4	19	88	0	63	8	13	26	51	1.70
1912710--1912762	20	2.7	20	93	0	88	26	20	28	24	1.99
1912771--1912824	20	2.7	20	97	0	99	25	18	24	31	1.97
1912711--1912827	61	1.9	61	85	0	162	23	17	24	33	1.97
1912711--1912845	61	2.2	61	81	2	155	22	20	24	32	1.98
1912895--1912935	21	2.0	21	85	0	55	34	31	17	17	1.93
1930585--1930845	109	2.4	111	95	2	474	17	27	27	27	1.98
1931101--1931141	18	2.3	18	100	0	82	24	14	34	26	1.94
1934334--1934692	172	2.1	173	90	1	560	36	18	5	39	1.73
1935154--1935197	23	1.9	23	95	0	79	27	38	25	9	1.86
1935214--1935267	22	2.5	22	87	0	90	16	35	18	29	1.93
1936035--1936059	2	12.5	2	100	0	50	48	0	0	52	1.00
1936501--1936546	21	2.1	21	84	8	56	43	8	10	36	1.71
1936824--1936862	20	2.0	20	100	0	78	10	30	10	48	1.70
1941878--1941910	3	11.0	3	93	0	57	63	0	3	33	1.10
1944519--1944577	2	29.5	2	100	0	118	50	0	0	49	1.00
1944720--1944836	39	3.0	38	76	8	112	47	0	14	37	1.51
1944838--1944862	13	1.9	13	100	0	50	80	0	4	16	0.87
1944864--1944914	2	25.5	2	100	0	102	50	0	0	49	1.00
1947483--1947527	22	2.1	22	87	4	65	31	22	24	22	1.99
1947999--1948055	18	3.3	17	77	18	55	36	14	1	47	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1948307--1948367	22	2.8	22	80	5	70	26	26	18	29	1.98
1948807--1948853	2	23.5	2	100	0	94	51	0	0	48	1.00
1953613--1953675	22	2.9	22	83	4	74	25	25	20	28	1.99
1957295--1957322	13	2.2	13	100	0	56	39	14	39	7	1.73
1958455--1958488	18	1.9	17	94	5	59	64	0	17	17	1.29
1967232--1967433	98	2.1	98	91	0	325	38	17	17	26	1.92
1968933--1968958	5	5.2	5	100	0	52	19	0	80	0	0.71
1972375--1972399	3	8.3	3	100	0	50	32	32	0	36	1.58
1973883--1973946	21	3.0	21	79	4	83	25	25	21	28	1.99
1975633--1975749	59	2.0	59	87	0	171	43	8	23	24	1.81
1975869--1975973	31	3.3	32	78	9	117	35	16	15	33	1.90
1975888--1975985	31	3.2	31	89	0	151	33	14	15	36	1.88
1975856--1976004	62	2.4	61	78	7	165	36	15	14	32	1.88
1978110--1978162	22	2.4	21	84	6	61	28	22	26	22	1.99
1978189--1978269	22	3.8	22	77	4	78	25	13	13	46	1.80
1979013--1979198	93	2.0	94	90	4	297	46	8	3	41	1.52
1981957--1982016	29	2.1	29	100	0	120	35	13	16	35	1.88
1983824--1983906	43	1.9	43	82	0	103	43	15	10	30	1.81
1986505--1986557	3	17.7	3	96	0	97	64	0	1	33	1.05
1987350--1987419	37	1.9	36	88	8	106	45	7	17	30	1.75
1987383--1987429	14	3.1	15	72	9	51	44	8	17	29	1.78
1987565--1987663	49	2.0	48	80	9	110	46	2	0	51	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1987642--1987710	32	2.3	30	82	12	79	44	0	4	50	1.21
1987752--1987814	23	2.7	23	80	5	63	46	1	1	50	1.20
1987798--1987886	28	3.3	26	79	17	92	53	1	1	43	1.15
1987919--1987961	22	2.0	22	86	9	61	58	0	0	41	0.98
1987807--1987977	31	5.7	32	71	19	95	55	1	1	42	1.15
1987923--1988041	63	2.0	59	82	11	143	55	0	3	41	1.16
1988153--1988267	41	2.8	42	90	2	196	46	21	15	15	1.83
1988710--1988738	5	5.8	5	100	0	58	20	58	20	0	1.39
1991458--1991599	71	2.0	71	100	0	284	42	7	5	45	1.55
2000820--2001188	20	18.5	20	85	4	458	34	26	18	20	1.96
2001870--2001916	24	2.0	24	87	8	69	25	14	21	38	1.92
2002091--2002115	12	2.1	12	100	0	50	72	0	28	0	0.86
2004393--2004716	33	9.5	34	81	14	254	46	18	20	13	1.83
2004421--2004694	52	5.2	52	92	4	423	47	17	21	13	1.82
2004479--2004716	85	2.8	85	89	6	351	46	18	21	14	1.83
2004723--2004824	19	5.6	19	85	12	151	14	23	17	44	1.86
2004931--2004967	14	2.6	14	91	0	65	45	21	0	32	1.52
2006943--2006999	14	3.7	14	77	20	60	45	22	21	10	1.82
2006924--2007016	33	2.8	33	95	0	168	47	21	20	10	1.80
2006887--2007021	19	7.6	19	76	16	128	45	23	19	11	1.82
2007017--2007145	19	7.3	19	75	17	125	8	17	28	45	1.77
2007017--2007108	33	2.8	33	93	3	150	7	18	28	45	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2007177--2007643	93	5.0	93	99	0	918	46	19	12	21	1.83
2007177--2007643	185	2.5	186	99	0	918	46	19	12	21	1.83
2009344--2009432	14	5.7	14	73	21	79	41	22	25	10	1.85
2009390--2009454	19	3.7	19	74	19	77	44	21	23	10	1.83
2009336--2009449	33	3.5	33	89	2	185	44	20	24	10	1.82
2009466--2009520	14	3.6	14	73	21	56	9	25	23	41	1.83
2009450--2009520	33	2.2	33	94	0	124	8	22	25	43	1.81
2009461--2009540	33	2.5	33	89	2	117	10	25	22	42	1.84
2009477--2009546	18	4.1	18	73	16	67	11	24	20	44	1.84
2009639--2009708	33	2.2	32	89	2	104	47	18	22	11	1.81

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