genome.fa.s9582.2.7.7.80.10.50.1000.9.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: VEPZ01009582.1 Hibiscus syriacus cultivar Beakdansim tig00116959_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4978262

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   

This is table  9  of  24  ( 2799 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)
1833720--1834183	54	8.6	54	90	1	700	35	20	18	25	1.95
1849850--1849874	12	2.1	12	100	0	50	0	24	0	76	0.80
1850106--1850157	24	2.2	24	100	0	104	36	26	15	21	1.93
1850068--1850215	78	1.9	78	92	0	251	35	20	17	26	1.95
1850133--1850475	54	6.4	54	85	5	426	34	18	18	28	1.94
1850133--1850467	162	2.1	162	86	3	469	35	18	17	28	1.94
1853167--1853211	23	2.0	22	91	4	72	46	2	0	51	1.13
1854181--1854213	15	2.2	15	94	0	57	30	24	27	18	1.98
1854789--1854839	19	2.6	19	84	6	57	62	3	1	31	1.24
1854817--1854863	17	2.6	18	80	16	53	68	2	2	27	1.13
1855234--1855277	20	2.2	20	84	11	56	36	2	0	61	1.09
1857878--1857917	21	2.0	20	90	5	62	45	27	5	22	1.73
1859369--1859682	157	2.0	157	98	0	610	36	12	14	35	1.84
1859685--1860156	250	1.9	250	88	1	721	31	14	12	40	1.84
1860967--1861021	24	2.3	24	93	0	101	9	41	0	49	1.34
1865594--1865625	2	16.5	2	93	6	57	50	0	0	50	1.00
1867238--1867306	20	3.5	20	81	11	79	21	20	26	31	1.98
1870200--1870253	20	2.7	21	86	11	69	35	5	3	55	1.41
1870274--1870300	14	1.9	14	100	0	54	29	11	22	37	1.89
1872556--1872601	24	1.9	24	95	0	83	28	19	17	34	1.94
1872557--1872609	24	2.2	24	86	0	70	32	18	13	35	1.90
1874877--1874936	20	3.0	20	97	0	111	26	15	18	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1874930--1875007	19	4.1	19	66	12	61	23	12	24	39	1.89
1874910--1874995	38	2.2	38	93	2	145	23	13	23	39	1.90
1883948--1883997	24	2.1	24	96	0	91	58	18	8	16	1.62
1884279--1884399	58	2.1	59	84	1	154	29	13	9	47	1.73
1885741--1885765	2	12.5	2	100	0	50	48	0	0	52	1.00
1900412--1900461	23	2.2	22	89	6	82	22	4	16	58	1.55
1903155--1903204	24	2.1	24	88	0	73	22	20	24	34	1.97
1905846--1905941	45	2.1	45	96	0	174	46	11	19	21	1.81
1908256--1908335	12	6.1	12	69	22	54	73	0	1	25	0.90
1908263--1908330	17	4.2	16	81	10	68	72	0	1	26	0.94
1908290--1908335	3	15.7	3	78	13	51	76	0	0	23	0.79
1910065--1910235	82	2.0	81	86	7	234	25	18	23	32	1.97
1911047--1911133	20	4.3	20	81	11	97	2	18	0	79	0.84
1911047--1911131	27	3.3	26	78	15	88	2	17	0	80	0.83
1911050--1911131	6	13.3	6	74	21	64	2	18	0	79	0.84
1914651--1914677	12	2.2	12	100	0	54	59	0	25	14	1.36
1924038--1924115	29	2.8	28	71	22	74	71	1	1	25	1.01
1924038--1924126	32	2.9	30	74	21	85	73	1	1	24	0.98
1924089--1924138	22	2.2	22	85	7	64	76	6	0	18	0.99
1928107--1928156	24	2.1	24	84	0	64	26	20	22	32	1.98
1929834--1929867	13	2.6	13	90	0	50	55	8	5	29	1.54
1933775--1933805	14	2.2	14	94	0	53	70	0	9	19	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1937965--1938024	2	30.0	2	100	0	120	50	0	0	50	1.00
1942900--1942997	49	2.0	49	100	0	196	53	16	12	18	1.73
1943217--1943255	3	12.7	3	94	5	69	66	2	30	0	1.05
1944361--1944453	25	3.7	26	73	12	70	47	0	4	48	1.21
1945345--1945385	14	2.9	14	81	0	55	58	7	7	26	1.51
1945522--1945567	24	1.9	25	86	8	69	52	0	0	47	1.00
1945522--1945569	23	2.1	23	84	7	62	54	0	0	45	0.99
1946312--1946411	50	2.0	50	96	0	182	40	15	9	36	1.78
1948666--1948740	33	2.3	33	85	0	96	50	21	14	13	1.77
1949603--1949643	15	2.7	15	92	0	64	14	19	21	43	1.87
1949604--1949648	15	3.0	15	83	6	56	15	20	20	44	1.87
1949725--1949768	16	2.6	17	78	7	54	18	15	34	31	1.92
1953175--1953341	37	4.5	38	82	8	173	46	4	5	43	1.47
1953255--1953314	19	3.2	19	63	13	52	50	3	8	38	1.49
1953254--1953317	21	3.3	21	66	20	66	48	3	7	40	1.48
1953174--1953320	75	2.0	75	81	8	174	46	3	6	44	1.45
1953262--1953326	19	3.4	19	66	21	55	50	3	7	38	1.47
1956835--1956950	58	2.0	58	100	0	232	20	13	25	39	1.90
1961192--1961238	23	2.0	25	87	8	71	19	25	25	29	1.98
1963142--1963185	17	2.6	18	82	10	56	25	2	22	50	1.61
1963155--1963192	16	2.4	16	84	16	53	21	0	28	50	1.49
1965950--1965975	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1970315--1970354	21	1.9	21	94	0	71	30	5	5	60	1.40
1972646--1972731	29	3.0	29	71	0	100	40	12	22	24	1.89
1972646--1972758	58	1.9	58	92	0	190	43	11	21	23	1.85
1972655--1972849	29	6.8	28	73	8	149	44	14	17	22	1.86
1972655--1972849	58	3.4	57	79	4	167	44	14	17	22	1.86
1973484--1973761	143	1.9	143	93	1	477	30	16	24	28	1.96
1977159--1977185	13	2.1	13	100	0	54	77	0	0	22	0.76
1978537--1978582	14	3.2	14	84	12	58	60	0	0	39	0.97
1978661--1978958	151	2.0	153	87	2	438	45	11	2	40	1.53
1978911--1978941	16	2.0	15	93	6	53	45	19	3	32	1.66
1991286--1991824	180	3.0	180	95	0	967	20	20	11	47	1.81
1994466--1994511	9	5.1	9	82	10	58	78	0	4	17	0.91
1994465--1994499	13	2.6	13	90	4	52	77	0	2	20	0.90
1994552--1994612	2	30.5	2	100	0	122	50	0	0	49	1.00
1994803--1994827	2	12.5	2	100	0	50	52	0	0	48	1.00
1996045--1997516	100	14.3	100	90	4	2161	22	17	25	33	1.96
1996045--1997516	205	7.2	205	92	2	2264	22	17	25	33	1.96
1996045--1997516	305	4.8	305	92	2	2270	22	17	25	33	1.96
1998350--1998499	67	2.2	67	88	4	223	34	10	24	31	1.88
1998383--1998859	36	13.9	36	65	17	237	36	12	21	28	1.91
1998551--1998859	37	8.9	37	69	17	232	37	13	21	27	1.91
1998450--1998841	102	3.9	102	93	0	651	36	12	21	29	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2000357--2000418	20	3.0	21	79	9	65	1	16	6	75	1.08
2000375--2000427	23	2.4	22	84	6	72	0	15	5	79	0.91
2001572--2001614	8	5.6	8	91	5	63	55	13	16	13	1.69
2001572--2001614	15	2.8	15	86	13	61	55	13	16	13	1.69
2003406--2003435	9	3.3	9	95	0	51	76	0	3	20	0.92
2003405--2003447	14	3.1	14	80	12	52	79	0	4	16	0.90
2003488--2003518	2	15.5	2	100	0	62	51	0	0	48	1.00
2003914--2003956	18	2.5	17	81	7	52	69	2	2	25	1.12
2003916--2003954	14	2.8	13	88	11	51	71	2	2	23	1.10
2004669--2004736	34	2.0	34	91	0	109	23	10	17	48	1.78
2008115--2008166	17	3.1	17	83	10	79	63	11	9	15	1.52
2010046--2010096	26	2.0	26	92	0	84	21	19	15	43	1.88
2010971--2011021	26	2.0	26	96	0	93	21	21	15	41	1.90
2009624--2011514	925	2.0	926	97	0	3559	31	20	11	36	1.88
2024545--2024598	20	2.7	20	74	8	56	31	35	12	20	1.90
2024590--2024677	20	4.3	20	75	2	86	35	23	15	25	1.95
2024671--2024997	20	16.3	19	78	11	257	41	24	14	19	1.89
2024671--2024997	60	5.4	60	80	10	346	41	24	14	19	1.89
2025157--2025207	22	2.3	22	82	0	66	23	43	11	21	1.85
2025572--2025598	14	1.9	14	100	0	54	7	22	22	48	1.75
2025581--2025624	20	2.2	20	83	0	52	13	18	18	50	1.79
2027372--2027414	21	2.0	21	86	0	59	25	18	25	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2027511--2027552	12	3.5	12	83	0	57	28	2	2	66	1.16
2027696--2027814	21	5.7	20	73	11	87	21	32	21	24	1.98
2027696--2027814	42	2.8	41	83	5	139	21	32	21	24	1.98
2029145--2029315	65	2.6	66	85	9	208	28	3	16	51	1.61
2029176--2029315	65	2.2	64	89	2	210	30	2	17	49	1.61
2029450--2029495	20	2.3	20	84	0	65	32	17	23	26	1.97
2032043--2032097	24	2.3	24	83	0	65	38	20	14	27	1.91
2032209--2032242	12	2.8	12	90	0	50	14	0	29	55	1.40
2033033--2033140	19	5.6	19	85	2	128	32	10	20	37	1.86
2033128--2033214	40	2.2	40	97	0	165	18	14	26	40	1.89

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24