genome.fa.s9633.2.7.7.80.10.50.1000.10.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: VEPZ01009633.1 Hibiscus syriacus cultivar Beakdansim tig00117032_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2608659

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

This is table  10  of  13  ( 1552 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)
1722751--1722795	23	2.0	22	83	12	56	31	0	4	64	1.13
1722765--1722803	18	2.2	18	95	4	71	33	0	2	64	1.08
1725122--1725204	35	2.4	36	81	18	104	27	8	9	54	1.62
1730196--1730261	2	33.0	2	100	0	132	50	0	0	50	1.00
1732006--1732045	18	2.2	19	86	4	55	35	15	22	27	1.94
1736784--1736821	20	1.9	20	94	0	67	39	36	13	10	1.79
1758367--1758450	30	2.8	30	87	0	96	59	14	5	20	1.56
1758617--1758666	26	1.9	26	88	8	75	64	6	6	24	1.39
1765573--1765606	4	8.5	4	100	0	68	76	23	0	0	0.79
1769025--1769063	20	2.0	20	90	10	62	30	28	5	35	1.79
1769245--1769270	2	13.0	2	100	0	52	50	0	0	50	1.00
1773267--1773679	203	2.0	203	97	0	783	37	14	16	31	1.89
1786302--1786722	46	9.2	46	88	1	594	45	12	20	21	1.84
1786317--1786385	20	3.2	20	69	21	57	43	10	23	23	1.84
1786335--1786695	26	15.6	25	62	23	148	45	11	21	21	1.83
1786497--1786713	20	9.7	20	67	24	96	44	11	22	22	1.84
1792405--1792452	19	2.5	19	96	0	87	35	0	33	31	1.58
1792627--1792671	16	2.7	17	89	3	74	24	11	31	33	1.90
1793283--1793531	20	10.8	25	66	25	156	45	12	20	22	1.83
1793282--1793566	46	6.2	46	88	4	416	44	12	20	21	1.84
1813822--1813846	12	2.1	12	100	0	50	48	44	0	8	1.32
1823627--1823665	2	19.5	2	94	0	69	48	0	2	48	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1824914--1824946	8	3.7	9	88	11	50	51	0	0	48	1.00
1832440--1832480	19	2.2	19	86	0	55	21	29	24	24	1.99
1834695--1834796	31	3.2	30	67	24	73	35	19	22	22	1.96
1834695--1834821	66	1.9	66	86	0	182	34	21	22	21	1.97
1841221--1841263	13	3.3	13	90	0	68	18	46	18	16	1.84
1841239--1841285	8	6.5	8	72	22	50	17	36	25	21	1.94
1841199--1841244	18	2.6	18	89	0	65	21	52	15	10	1.73
1841255--1841286	7	4.4	7	92	7	55	15	31	28	25	1.96
1841252--1841295	15	2.8	15	89	6	61	18	29	29	22	1.97
1842581--1842616	18	2.0	18	88	0	54	52	0	16	30	1.44
1843755--1843857	24	4.4	23	78	12	86	24	12	19	43	1.85
1843759--1843848	24	3.8	24	80	11	96	24	14	18	42	1.88
1843759--1843850	47	2.0	47	80	8	107	23	14	19	42	1.88
1846044--1846084	13	3.2	13	89	6	66	19	46	19	14	1.84
1846029--1846066	17	2.2	18	90	4	60	18	52	18	10	1.73
1846074--1846105	14	2.3	14	94	0	55	18	28	28	25	1.98
1847379--1847413	17	2.1	17	88	0	52	54	0	17	28	1.43
1848542--1848625	24	3.6	24	78	10	86	23	14	19	42	1.87
1854826--1854883	30	2.0	29	90	10	91	50	8	20	20	1.75
1856983--1857029	21	2.2	21	80	0	58	21	27	14	36	1.93
1857025--1857190	20	8.3	20	90	4	196	33	19	19	27	1.96
1858046--1858099	24	2.2	24	96	0	99	20	16	20	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1860607--1860665	19	3.1	19	87	2	73	38	20	22	18	1.93
1860660--1860716	19	3.3	18	74	23	59	12	17	24	45	1.83
1860671--1860725	19	3.2	19	82	17	75	9	18	20	52	1.71
1860821--1860857	14	2.6	14	91	0	65	45	21	0	32	1.52
1862882--1863152	94	3.0	94	84	8	380	48	18	12	20	1.80
1864817--1864906	20	4.9	19	69	19	57	46	20	20	13	1.83
1864866--1864919	14	3.5	14	73	22	54	46	22	22	9	1.80
1864857--1864919	33	1.9	33	93	0	108	46	20	22	11	1.82
1865528--1865641	20	5.7	20	83	2	129	19	21	19	40	1.92
1865528--1865641	41	2.8	41	87	1	176	19	21	19	40	1.92
1865638--1865683	21	2.2	21	88	0	65	36	17	28	17	1.92
1866442--1866481	19	2.0	20	85	4	55	42	0	2	55	1.13
1866442--1866480	20	2.0	20	85	10	53	41	0	2	56	1.13
1867479--1867530	15	3.2	17	72	22	58	40	17	0	42	1.49
1869872--1869935	21	3.2	21	65	24	57	26	6	10	56	1.57
1877287--1877340	25	2.0	25	82	10	63	48	1	1	48	1.23
1878242--1878353	31	3.5	31	70	13	100	35	18	22	23	1.96
1878245--1878368	66	1.9	66	93	0	212	33	20	22	22	1.97
1878264--1878367	31	3.2	31	67	19	77	35	23	20	21	1.96
1883912--1883945	10	3.8	9	88	11	52	0	8	0	91	0.43
1885337--1885583	30	8.2	30	82	7	279	17	12	6	63	1.49
1885337--1885573	91	2.6	88	81	7	289	16	11	6	64	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1885337--1885583	59	4.1	60	84	4	282	17	12	6	63	1.49
1891010--1891066	29	2.0	29	86	6	80	50	0	1	47	1.11
1891122--1891163	20	2.2	19	86	4	57	64	0	0	35	0.94
1893018--1893961	76	12.4	76	95	0	1674	34	21	19	23	1.96
1899416--1899519	17	6.2	16	70	12	66	3	21	0	75	0.97
1899420--1899520	41	2.4	41	91	5	157	3	22	0	73	1.00
1899416--1899523	8	13.1	8	73	9	83	3	21	0	75	0.96
1899431--1899521	17	5.5	16	75	18	89	4	20	0	74	0.98
1904624--1904685	24	2.7	22	82	9	63	67	3	1	27	1.15
1904645--1904685	21	1.9	21	90	5	64	73	0	0	26	0.84
1904650--1904698	25	2.0	25	88	8	73	71	0	2	26	0.97
1904645--1904701	17	3.0	18	85	12	62	71	0	1	26	0.95
1905175--1905231	29	2.0	29	86	6	80	50	0	1	47	1.11
1905196--1905428	117	2.0	117	82	9	282	46	7	7	37	1.61
1905480--1905516	2	19.0	2	88	5	58	45	0	0	54	1.00
1916005--1916036	17	2.0	17	88	11	50	59	0	6	34	1.23
1916152--1916196	22	2.0	22	100	0	90	31	13	28	26	1.94
1921536--1921566	15	2.1	15	93	0	53	45	0	0	54	0.99
1921727--1921764	20	1.9	20	88	0	58	21	26	10	42	1.85
1923134--1923184	20	2.5	20	81	12	68	41	0	1	56	1.10
1923255--1923298	17	2.6	18	86	10	58	15	11	18	54	1.70
1923530--1923620	33	2.8	33	89	3	130	35	8	17	38	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1923828--1923952	16	7.8	16	66	10	58	16	11	20	52	1.74
1927197--1927287	5	18.4	5	97	2	175	39	0	19	40	1.52
1927289--1927346	3	21.0	3	77	22	65	63	0	0	36	0.94
1927194--1927539	5	69.2	5	76	14	124	48	3	8	39	1.50
1927287--1927346	8	7.4	8	82	17	79	63	0	0	36	0.95
1927341--1927442	41	2.6	37	79	17	118	47	4	12	35	1.63
1927349--1927456	46	2.4	45	79	11	116	48	4	12	35	1.61
1927448--1927538	2	48.5	2	70	23	56	50	5	0	43	1.25
1927463--1927535	24	3.0	25	80	13	98	47	5	0	46	1.25
1938097--1938181	31	2.7	32	85	1	109	12	25	31	29	1.93
1940137--1940195	5	11.4	5	80	7	55	52	16	5	25	1.64
1940129--1940170	17	2.5	16	92	3	66	54	11	7	26	1.62
1940216--1940270	18	2.9	19	76	15	60	50	0	3	45	1.19
1940195--1940251	27	2.2	26	84	12	73	50	1	1	45	1.22
1940687--1940835	27	5.6	26	71	19	110	50	6	2	41	1.38
1940792--1940836	12	3.5	12	83	16	63	46	8	0	44	1.34
1940699--1940835	7	19.1	7	67	18	61	50	5	2	42	1.36
1941989--1942028	20	2.0	21	90	5	64	32	20	20	27	1.97
1942129--1942169	20	2.0	21	85	4	57	41	34	9	14	1.79
1942901--1942940	20	2.0	20	90	0	62	27	10	5	57	1.52
1948951--1949023	22	3.5	21	69	16	53	35	21	12	30	1.90
1948913--1949042	42	3.1	41	79	7	136	34	23	13	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1949615--1949740	55	2.3	55	89	8	188	31	23	17	26	1.97
1950760--1950796	15	2.5	15	90	0	65	5	67	18	8	1.36
1951857--1952140	117	2.4	118	87	5	414	27	26	24	21	1.99
1951945--1952135	59	3.3	59	69	14	178	27	26	23	21	1.99
1952427--1952460	16	2.1	16	94	0	59	55	8	11	23	1.63
1953003--1953027	13	1.9	13	100	0	50	40	20	24	16	1.91
1953055--1953101	19	2.6	18	80	6	58	27	25	31	14	1.95
1953115--1953159	20	2.2	20	96	0	81	15	22	35	26	1.94
1953143--1953182	15	2.7	15	88	3	55	15	20	37	27	1.92
1957308--1957367	27	2.2	27	81	0	66	40	23	10	26	1.86

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