genome.fa.s8092.2.7.7.80.10.50.1000.10.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: VEPZ01008092.1 Hibiscus syriacus cultivar Beakdansim tig00110607_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2324158

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

This is table  10  of  12  ( 1399 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)
1842581--1842612	2	16.0	2	100	0	64	50	0	0	50	1.00
1845572--1845663	48	1.9	48	93	0	157	34	10	11	42	1.77
1853864--1853947	29	2.9	29	89	1	123	42	20	21	15	1.88
1854762--1854836	20	3.8	20	94	0	123	28	20	17	34	1.95
1858978--1859056	31	2.6	30	74	20	76	13	10	5	70	1.30
1859126--1859155	14	2.2	13	94	5	51	13	16	0	70	1.18
1859196--1859228	15	2.2	15	100	0	66	18	0	6	75	1.00
1862469--1862732	96	2.7	96	85	6	329	33	16	17	32	1.92
1864069--1864726	36	18.8	34	77	12	499	25	20	13	40	1.89
1864184--1864726	36	15.4	36	79	9	548	25	19	13	40	1.88
1864258--1864322	21	3.4	21	64	24	61	24	21	10	43	1.84
1864069--1864697	174	3.6	174	86	6	818	26	19	13	41	1.88
1864256--1864541	109	2.7	102	80	7	308	26	18	12	41	1.87
1864190--1864726	246	2.2	246	90	0	858	26	19	13	40	1.89
1866294--1866319	10	2.6	10	100	0	52	0	7	0	92	0.39
1866459--1866519	25	2.4	24	76	15	61	21	1	4	72	1.13
1866900--1866950	25	2.0	25	100	0	102	19	7	27	45	1.78
1867550--1867609	3	19.7	3	93	3	102	33	1	0	65	1.03
1867605--1867634	11	2.8	11	95	5	53	56	0	0	43	0.99
1868066--1868103	18	2.1	18	90	5	58	71	10	18	0	1.14
1869709--1869788	28	2.7	30	75	21	71	30	5	1	63	1.23
1869760--1869814	15	3.9	13	80	15	56	23	7	3	65	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1881309--1882038	84	8.7	84	94	1	1184	28	13	21	36	1.91
1882769--1883312	113	4.8	114	86	5	742	38	12	20	29	1.89
1882783--1883311	230	2.3	227	93	2	916	38	12	20	29	1.89
1883634--1883713	3	26.7	3	97	0	151	33	1	0	65	1.01
1883709--1883738	11	2.8	11	95	5	53	56	0	0	43	0.99
1884276--1885434	578	2.0	578	99	0	2273	30	20	21	26	1.98
1887232--1887267	12	2.8	13	83	8	56	44	0	0	55	0.99
1893567--1893609	18	2.4	18	88	0	59	34	32	18	13	1.90
1897911--1897945	18	1.9	18	94	0	61	22	34	22	20	1.97
1900018--1900173	63	2.5	64	78	5	174	26	21	19	32	1.97
1900018--1900194	64	2.8	62	78	7	178	25	20	20	33	1.97
1901520--1901570	20	2.5	20	100	0	102	11	29	25	33	1.91
1902405--1902468	2	32.0	2	100	0	128	50	0	0	50	1.00
1902607--1902643	17	2.2	17	90	4	58	56	8	0	35	1.29
1906187--1906230	22	2.0	23	90	4	72	47	0	0	52	1.00
1906371--1906417	23	2.1	23	84	7	62	51	0	0	48	1.00
1906371--1906433	23	2.8	22	77	13	58	47	0	3	49	1.17
1906533--1906631	52	2.0	49	82	9	119	48	0	3	48	1.17
1906557--1906669	10	9.8	12	70	18	62	48	0	2	48	1.15
1906628--1906684	23	2.4	23	88	5	78	50	0	0	49	1.00
1907350--1907392	15	2.8	16	82	7	52	23	32	30	13	1.93
1908572--1908627	28	2.0	28	85	0	76	48	1	8	41	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1916718--1916775	28	2.0	28	86	10	80	51	1	0	46	1.11
1922443--1922498	23	2.4	23	79	8	60	12	14	16	57	1.66
1923717--1924090	191	2.0	190	95	0	667	27	24	23	24	2.00
1926725--1926771	3	16.3	3	78	8	53	65	0	0	34	0.93
1927130--1927234	29	3.5	31	75	15	112	34	10	19	36	1.86
1927083--1927338	67	3.9	66	72	11	190	36	9	20	33	1.86
1927307--1927377	21	3.6	21	67	23	64	43	11	19	25	1.84
1927288--1927375	37	2.4	37	86	1	142	39	12	20	27	1.88
1927361--1927475	35	3.4	34	86	10	166	33	12	17	36	1.87
1927461--1927536	33	2.2	36	82	13	90	40	14	17	27	1.88
1929317--1929343	11	2.5	11	100	0	54	0	14	14	70	1.17
1929339--1929376	16	2.3	16	86	13	51	0	13	5	81	0.85
1929348--1929389	12	3.4	12	81	15	50	0	16	2	80	0.81
1929328--1929381	25	2.1	26	86	6	74	0	14	7	77	0.97
1930414--1930550	64	2.1	64	86	2	186	32	17	24	26	1.97
1930539--1930596	20	2.6	22	89	10	84	31	20	22	25	1.98
1931048--1931137	45	1.9	46	93	6	155	47	8	22	21	1.78
1931706--1931771	23	2.9	23	83	0	87	18	24	24	33	1.97
1932129--1932162	2	17.0	2	100	0	68	50	0	0	50	1.00
1935100--1935157	20	2.6	22	89	10	84	31	20	22	25	1.98
1936208--1936276	23	3.0	23	84	0	102	17	23	24	34	1.96
1939755--1939784	14	2.1	14	93	0	51	70	0	3	26	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1939806--1939876	30	2.3	30	75	15	65	77	1	5	15	1.02
1939797--1939846	18	3.1	16	74	25	52	78	2	6	14	1.03
1939809--1939875	25	2.7	24	86	9	89	77	1	5	14	1.03
1940962--1941054	21	4.6	20	78	4	96	38	18	24	18	1.92
1940959--1941054	41	2.3	41	98	0	183	39	17	23	18	1.92
1940962--1941054	20	4.6	20	78	4	96	38	18	24	18	1.92
1941043--1941136	20	4.7	20	77	2	80	35	24	17	23	1.95
1941040--1941117	41	1.9	41	83	0	102	41	21	15	21	1.90
1941689--1941733	19	2.4	19	92	0	72	48	26	15	8	1.74
1941729--1941913	19	10.1	19	77	14	174	12	22	22	43	1.86
1941729--1941818	39	2.3	38	94	1	153	12	20	22	45	1.83
1941801--1941888	33	2.6	33	92	1	140	11	25	25	38	1.89
1941856--1941913	20	2.9	20	80	10	64	13	24	18	43	1.87
1943906--1943989	42	2.0	42	85	0	114	21	39	16	22	1.92
1945379--1945414	14	2.6	14	95	0	63	30	0	25	44	1.54
1945592--1945709	19	6.7	19	66	19	76	13	23	20	42	1.88
1945596--1945689	33	2.8	33	98	0	179	12	24	19	43	1.85
1947982--1948006	12	2.1	12	100	0	50	0	28	0	72	0.86
1949295--1949345	20	2.5	20	93	0	84	33	23	23	19	1.97
1949375--1949447	14	4.5	15	74	22	60	13	20	19	46	1.83
1949371--1949437	18	3.8	19	83	16	92	13	22	17	46	1.83
1949554--1949590	14	2.6	14	86	0	56	48	21	0	29	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1951456--1951522	19	3.5	19	83	4	89	37	23	23	14	1.93
1951511--1951568	14	3.9	14	79	16	71	48	25	17	8	1.75
1951495--1951573	32	2.4	33	95	2	142	46	24	18	10	1.80
1951580--1951675	19	5.6	17	72	21	78	11	19	22	45	1.82
1951602--1951659	14	3.9	14	79	16	71	8	17	25	48	1.75
1951585--1951675	32	2.8	33	94	3	166	10	18	23	47	1.80
1951660--1951714	20	2.8	19	83	8	65	16	23	23	36	1.94
1952186--1952230	18	2.5	18	85	0	63	15	15	42	26	1.87
1953848--1953891	22	2.0	22	95	0	79	18	15	45	20	1.85
1954079--1954131	20	2.7	20	93	0	88	24	18	28	28	1.98
1954059--1954174	20	5.7	20	76	7	81	23	17	23	36	1.95
1954163--1954255	20	4.6	20	78	4	96	18	24	18	38	1.92
1954163--1954258	41	2.3	41	98	0	183	18	23	17	39	1.92
1954559--1954592	3	12.0	3	87	12	54	64	0	0	35	0.94
1959763--1959805	23	1.9	23	86	13	63	11	4	9	74	1.20
1960364--1960457	20	4.8	19	79	14	102	47	20	19	12	1.81
1960568--1960738	6	28.5	6	100	0	342	33	50	16	0	1.45
1961240--1961330	6	15.2	6	100	0	182	0	16	49	34	1.46
1961431--1961710	20	13.8	20	84	12	367	16	20	26	37	1.93
1961424--1961714	40	7.2	40	94	2	467	16	19	25	38	1.92
1961424--1961791	20	18.2	20	78	13	314	15	19	24	40	1.90
1963621--1963664	19	2.3	19	84	0	52	54	15	15	13	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1966146--1966274	32	4.3	32	75	17	107	29	17	17	35	1.93
1966146--1966256	56	2.0	56	83	3	143	29	18	16	36	1.92
1966176--1966224	24	2.0	24	100	0	98	26	20	16	36	1.93
1966194--1966305	32	3.5	30	83	8	100	33	17	16	33	1.92
1966252--1966339	31	2.8	31	85	0	113	34	18	17	30	1.93
1971841--1971884	21	2.1	21	82	0	52	18	0	31	50	1.47
1972357--1972419	11	5.9	11	73	14	60	39	1	1	57	1.18
1974923--1974954	15	2.1	16	88	11	50	34	6	6	53	1.51
1977050--1977118	32	2.2	32	83	0	84	28	15	15	39	1.89
1978614--1978648	18	1.9	18	100	0	70	17	22	34	25	1.96

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