genome.fa.s9628.2.7.7.80.10.50.1000.8.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: VEPZ01009628.1 Hibiscus syriacus cultivar Beakdansim tig00117021_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2284295

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

This is table  8  of  10  ( 1154 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)
1764212--1764279	35	1.9	35	90	0	109	42	30	16	10	1.81
1766040--1766137	34	2.9	34	75	17	87	40	6	10	42	1.63
1769272--1769301	2	15.0	2	100	0	60	50	0	0	50	1.00
1773884--1773963	20	4.1	19	66	7	52	31	2	23	42	1.67
1774493--1774596	51	2.0	51	98	0	199	50	12	1	35	1.52
1778966--1778993	2	14.0	2	100	0	56	50	0	0	50	1.00
1783276--1783306	3	10.7	3	93	6	55	67	0	0	32	0.91
1797646--1797687	19	2.2	19	100	0	84	69	14	11	4	1.34
1801953--1801987	18	1.9	18	100	0	70	25	34	22	17	1.96
1804382--1804431	12	4.1	12	74	23	50	68	10	10	12	1.41
1806137--1806178	20	2.1	20	86	0	57	30	21	14	33	1.93
1810840--1810891	27	1.9	27	84	0	68	51	19	7	21	1.71
1812286--1812599	51	6.0	51	89	4	403	28	27	15	29	1.96
1812286--1812599	106	3.0	105	89	1	454	28	27	15	29	1.96
1813922--1814087	9	18.7	9	69	23	56	9	17	0	73	1.08
1813924--1813958	7	4.7	7	89	10	52	11	14	0	74	1.08
1813907--1814049	34	3.9	35	70	26	93	7	18	0	74	1.05
1813941--1814104	56	3.0	54	77	15	162	8	18	0	73	1.08
1813971--1814048	40	1.9	41	82	7	97	6	20	0	73	1.05
1813912--1814104	55	3.6	54	78	15	179	8	18	0	73	1.07
1813923--1814088	16	10.4	16	70	24	79	9	18	0	72	1.09
1823676--1823750	24	3.4	24	66	21	72	28	36	8	28	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1823675--1823763	42	2.1	42	100	0	178	28	38	6	26	1.82
1823779--1823880	46	2.2	47	85	1	143	41	18	12	27	1.87
1825608--1825659	27	1.9	27	84	0	68	51	19	7	21	1.71
1828942--1829019	23	3.3	23	76	1	75	33	21	19	25	1.97
1829026--1829243	103	2.1	103	91	0	364	36	22	12	27	1.91
1832803--1832855	18	2.9	18	91	0	88	28	33	18	18	1.95
1833149--1833266	55	2.1	55	96	0	218	38	16	11	33	1.86
1833538--1833588	21	2.4	21	96	0	93	31	21	21	25	1.98
1837793--1837830	2	19.0	2	94	0	67	50	2	0	47	1.15
1838292--1838336	22	2.0	22	86	4	63	46	0	2	51	1.13
1838321--1838371	23	2.2	23	86	6	68	50	3	0	45	1.20
1838450--1838498	20	2.7	18	87	12	66	51	0	0	48	1.00
1838463--1838506	20	2.2	20	87	0	61	47	0	0	52	1.00
1855716--1855748	11	3.0	11	91	8	50	63	6	12	18	1.48
1859036--1859063	2	14.0	2	100	0	56	50	0	0	50	1.00
1862160--1862250	30	3.0	31	85	6	123	21	19	19	38	1.94
1864618--1864651	16	2.1	16	89	10	52	26	2	5	64	1.30
1867052--1867150	46	2.2	46	90	5	157	36	16	19	28	1.93
1870668--1870705	18	2.1	18	85	9	51	47	2	0	50	1.15
1870941--1870972	17	1.9	17	93	6	57	34	0	3	62	1.11
1872341--1872396	24	2.3	24	81	0	67	53	17	12	16	1.73
1879766--1879799	17	2.0	17	94	0	59	55	0	14	29	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1882607--1882648	22	1.9	22	85	0	57	21	0	2	76	0.90
1882641--1882722	26	3.2	26	62	16	62	41	3	6	48	1.45
1891226--1891259	2	17.0	2	100	0	68	50	0	0	50	1.00
1897827--1897871	23	2.0	23	86	0	63	20	26	26	26	1.99
1899021--1899067	25	1.9	25	95	4	87	36	2	4	57	1.30
1899047--1899076	16	1.9	16	93	6	53	30	0	6	63	1.20
1899020--1899074	25	2.2	24	87	3	83	32	1	7	58	1.36
1900975--1901026	20	2.6	20	96	0	95	38	26	13	21	1.90
1901016--1901114	21	4.8	20	72	6	72	36	23	19	21	1.95
1901081--1901274	20	9.6	20	81	5	221	35	25	19	19	1.95
1901081--1901274	60	3.2	60	83	0	253	35	25	19	19	1.95
1901656--1901726	33	2.2	33	92	0	115	11	22	18	47	1.80
1901847--1901901	14	3.6	14	73	21	56	41	23	25	9	1.83
1901847--1901917	33	2.2	33	94	0	124	43	25	22	8	1.81
1901913--1902010	19	5.7	19	70	22	81	10	24	22	42	1.84
1901935--1902024	14	5.7	14	74	23	81	8	25	23	42	1.83
1901918--1902032	33	3.5	33	95	0	212	9	24	20	45	1.81
1903731--1904110	185	2.0	186	99	0	753	22	12	18	46	1.83
1903731--1904110	93	4.1	93	99	0	753	22	12	18	46	1.83
1904154--1904282	19	7.3	19	75	17	125	45	28	17	8	1.77
1904190--1904282	33	2.8	32	91	4	150	46	27	18	7	1.76
1904154--1904282	52	2.5	52	74	14	140	45	28	17	8	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1904278--1904396	19	6.8	18	74	19	110	8	19	25	47	1.77
1904300--1904356	14	3.7	14	72	20	51	7	19	28	45	1.76
1904283--1904375	33	2.8	33	91	0	159	8	19	24	47	1.77
1904278--1904412	19	7.6	19	73	20	105	9	18	25	45	1.80
1906227--1906299	38	1.9	38	97	0	137	28	1	16	53	1.51
1906222--1906286	19	3.4	19	64	8	51	24	1	15	58	1.46
1906281--1906316	14	2.6	14	95	0	63	33	0	22	44	1.53
1906423--1906524	19	5.6	19	84	13	151	44	17	23	14	1.86
1906553--1906878	19	18.4	19	80	15	405	14	20	17	47	1.82
1906531--1906850	52	6.0	52	94	4	550	14	21	16	46	1.83
1906553--1906878	71	4.6	72	82	13	389	14	20	17	47	1.82
1906531--1906850	161	2.0	157	93	3	552	14	21	16	46	1.83
1906572--1906878	33	8.8	33	80	12	280	14	20	17	47	1.82
1909185--1909209	12	2.1	12	100	0	50	0	28	0	72	0.86
1909384--1909430	24	2.0	24	87	8	69	38	21	14	25	1.92
1910104--1910472	20	18.5	20	86	4	458	20	18	26	34	1.96
1913841--1913930	44	2.0	44	100	0	180	45	10	11	33	1.73
1928954--1929186	114	2.0	115	98	0	450	38	18	13	29	1.89
1931831--1931878	2	24.0	2	100	0	96	50	0	0	50	1.00
1932112--1932137	4	6.5	4	100	0	52	26	0	0	73	0.84
1938035--1938068	16	2.0	18	88	11	54	26	2	5	64	1.30
1938537--1938784	130	1.9	130	93	0	424	35	12	14	37	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1939184--1939252	35	2.0	35	91	0	111	36	1	24	37	1.65
1939777--1939818	19	2.3	18	80	11	50	50	0	2	47	1.14
1944899--1944957	2	29.5	2	96	0	109	50	1	0	47	1.11
1945044--1945092	25	2.0	25	87	0	71	36	22	8	32	1.84
1949947--1949988	21	2.0	21	86	9	59	59	4	26	9	1.48
1952284--1952322	20	1.9	21	89	5	62	38	0	10	51	1.36
1953055--1953117	21	3.0	21	81	4	74	31	28	12	26	1.93
1953637--1953661	13	1.9	13	100	0	50	24	0	12	64	1.27
1953581--1953671	27	3.3	27	71	17	71	21	1	9	67	1.27
1955019--1955093	38	2.0	38	94	0	132	22	24	17	36	1.95
1961505--1961541	16	2.3	16	95	0	65	21	16	18	43	1.88
1977991--1978032	2	21.0	2	100	0	84	50	0	0	50	1.00
1978082--1978128	22	2.2	21	81	11	51	65	12	0	21	1.25
1980347--1980417	25	2.9	24	76	17	65	19	11	1	67	1.29
1980355--1980417	25	2.5	25	82	12	67	19	9	0	71	1.13
1980466--1980546	27	3.0	27	74	7	83	27	11	1	60	1.38
1985031--1985085	14	4.0	13	81	9	65	83	7	9	0	0.81
1985029--1985098	13	5.8	12	77	13	65	81	7	11	0	0.87
1985029--1985085	10	5.9	9	78	15	60	82	7	10	0	0.84
1985029--1985083	27	2.0	27	86	13	78	81	7	10	0	0.86
1985040--1985098	21	2.8	21	82	10	66	83	6	10	0	0.82
1985029--1985098	30	2.3	29	81	11	88	81	7	11	0	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1985740--1985795	22	2.5	22	97	0	103	39	25	8	26	1.85
1987013--1987430	65	6.5	65	92	1	648	33	26	18	21	1.96
1987344--1987558	105	2.0	107	87	1	308	32	25	20	21	1.98
1989260--1989340	27	3.0	27	74	7	83	27	11	1	60	1.38
1992072--1992096	13	1.9	13	100	0	50	44	8	0	48	1.32
2011014--2011112	49	2.0	49	84	3	128	36	20	12	31	1.89
2015841--2015999	80	2.0	80	91	2	257	44	15	20	20	1.87
2016426--2016457	6	5.2	6	96	3	55	0	34	18	46	1.49
2040919--2040960	23	1.9	22	85	9	59	38	19	9	33	1.84
2060501--2060554	2	27.0	2	96	0	99	50	1	0	48	1.11

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