genome.fa.s8243.2.7.7.80.10.50.1000.11.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: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10265705

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   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   

This is table  11  of  49  ( 5786 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)
1775891--1775943	21	2.5	21	90	0	79	33	16	26	22	1.96
1782101--1782150	22	2.4	22	80	9	61	64	0	4	32	1.12
1782261--1782285	13	1.9	13	100	0	50	40	8	4	48	1.51
1782262--1782406	76	1.9	74	84	5	193	44	5	4	46	1.46
1782254--1782481	36	6.2	37	79	9	241	43	6	4	45	1.50
1788473--1788513	21	2.0	21	100	0	82	29	19	19	31	1.96
1789240--1789372	66	2.0	66	94	0	230	36	22	19	21	1.95
1792929--1792989	26	2.3	28	75	18	67	37	1	1	59	1.17
1792942--1792997	26	2.2	26	81	9	62	42	1	1	53	1.21
1797526--1797611	3	28.7	3	100	0	172	67	0	0	32	0.91
1801335--1801408	2	37.0	2	100	0	148	50	0	0	50	1.00
1801971--1802028	3	19.7	3	89	3	91	62	1	0	36	1.06
1810335--1810399	32	2.0	33	91	5	107	44	13	6	35	1.69
1814162--1814543	195	2.0	195	100	0	764	24	23	15	37	1.93
1815274--1815314	20	2.0	20	100	0	82	19	24	19	36	1.95
1818371--1818434	23	2.8	22	69	6	65	25	15	3	56	1.54
1819746--1819787	18	2.3	18	100	0	84	30	21	0	47	1.51
1827371--1827423	22	2.5	22	81	9	65	20	26	16	35	1.94
1835485--1835509	13	1.9	13	100	0	50	44	0	0	56	0.99
1835920--1836056	73	1.9	73	96	0	256	37	16	21	24	1.93
1837995--1838050	17	3.2	17	74	16	60	42	1	1	53	1.21
1838003--1838092	42	2.1	42	85	4	119	41	1	1	56	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1838035--1838124	36	2.6	33	85	11	119	45	0	0	54	0.99
1841325--1841669	171	2.0	174	97	1	660	24	13	15	46	1.82
1847020--1847073	28	1.9	28	84	0	72	31	7	22	38	1.82
1847201--1847268	24	2.8	24	86	0	100	17	25	27	29	1.97
1847634--1847715	40	2.0	40	100	0	164	40	9	7	42	1.66
1847803--1847835	17	2.0	17	88	5	50	45	6	18	30	1.73
1848371--1848465	41	2.3	41	82	8	104	52	4	15	27	1.61
1848432--1848533	43	2.4	43	75	9	102	57	6	11	23	1.58
1848921--1849743	175	4.7	178	86	6	1057	39	15	17	27	1.90
1851984--1852015	15	2.1	15	94	0	55	21	6	59	12	1.55
1852096--1852139	21	2.1	21	91	0	70	43	11	31	13	1.80
1852173--1852239	33	2.0	33	100	0	134	28	0	47	23	1.52
1852421--1852485	18	3.6	18	93	0	112	56	0	36	6	1.24
1854346--1855404	190	5.6	193	78	11	994	37	14	16	32	1.88
1858219--1858265	24	2.0	24	86	0	67	36	4	12	46	1.62
1859598--1860534	399	2.3	398	85	3	1244	38	13	16	31	1.88
1859598--1860562	199	4.9	198	84	3	1177	37	13	16	32	1.88
1862141--1862189	19	2.6	19	80	0	62	34	6	8	51	1.57
1864666--1865367	199	3.5	200	81	4	787	39	13	14	32	1.85
1866808--1866862	18	3.1	18	83	0	74	14	12	54	18	1.71
1868196--1868239	23	1.9	23	86	9	63	29	0	2	68	1.02
1871021--1871204	47	3.9	48	84	2	239	30	8	19	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1872312--1872368	3	18.0	3	85	7	69	38	0	0	61	0.96
1872312--1872380	22	3.0	23	83	10	97	42	0	0	57	0.98
1873837--1874074	113	2.1	109	77	9	244	37	6	7	47	1.59
1874047--1874083	16	2.2	17	90	4	58	43	0	0	56	0.99
1874033--1874083	26	2.0	26	84	7	68	43	0	0	56	0.99
1881535--1881752	114	1.9	114	89	1	339	32	15	21	30	1.94
1884071--1884125	22	2.5	22	90	0	92	34	12	14	38	1.84
1884804--1885779	76	12.9	76	95	1	1631	22	20	21	34	1.96
1885926--1886015	20	4.4	20	77	15	87	41	1	0	57	1.06
1885948--1886003	3	18.0	3	85	7	60	39	0	0	60	0.97
1885942--1885999	18	3.1	18	87	7	71	43	0	0	56	0.99
1885948--1886015	23	3.0	23	84	16	90	42	0	0	57	0.98
1887431--1887479	26	2.0	26	84	8	66	40	0	0	59	0.98
1887426--1887486	26	2.3	26	78	10	63	45	0	0	54	1.00
1887427--1887485	30	2.0	30	83	6	75	44	0	0	55	0.99
1894364--1894429	23	2.9	23	88	0	87	30	24	24	21	1.99
1895914--1895974	21	2.9	21	95	2	104	18	27	24	29	1.98
1897704--1897737	13	2.5	14	85	9	52	50	5	20	23	1.70
1899201--1899255	24	2.3	23	75	3	56	34	3	1	60	1.25
1899374--1899418	23	2.0	23	82	8	56	33	0	4	62	1.15
1900270--1900329	30	2.0	31	90	3	95	30	8	8	53	1.60
1900816--1900854	10	3.7	10	90	10	60	25	10	43	20	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1901236--1901278	20	2.2	20	87	4	61	34	9	6	48	1.62
1903307--1903374	24	2.8	24	81	0	82	33	17	19	29	1.95
1903314--1903390	24	3.2	23	78	10	75	36	19	16	27	1.93
1904416--1904475	30	2.0	31	83	3	77	28	6	10	55	1.58
1910914--1910954	8	5.2	8	88	5	66	36	0	26	36	1.57
1910914--1910954	15	2.6	16	84	7	66	36	0	26	36	1.57
1911025--1911891	126	6.9	128	92	4	1475	23	24	19	32	1.98
1911025--1911891	253	3.5	254	93	4	1476	23	24	19	32	1.98
1912286--1912386	33	3.0	33	83	4	130	38	1	3	55	1.30
1912901--1912980	21	3.8	21	91	4	117	21	23	36	18	1.95
1914558--1914605	18	2.5	19	80	13	53	58	6	6	29	1.47
1918473--1918888	38	11.6	35	70	19	195	44	5	6	42	1.53
1918452--1918588	64	2.1	63	76	9	143	44	4	8	42	1.55
1918486--1918548	29	2.2	29	88	2	92	44	4	9	41	1.58
1918512--1918888	36	10.3	36	71	16	176	44	5	6	43	1.53
1918740--1918808	31	2.3	30	82	2	84	47	2	7	42	1.46
1918893--1918940	3	16.7	3	91	8	82	29	0	0	70	0.87
1918940--1918985	23	2.0	23	91	0	74	41	0	6	52	1.27
1930115--1930203	38	2.3	38	98	0	169	44	3	14	37	1.62
1930131--1930194	22	3.2	22	60	32	52	42	1	15	40	1.57
1932136--1932186	15	3.5	15	83	2	59	29	1	0	68	1.00
1932136--1932173	5	7.6	5	96	0	58	26	0	0	73	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1938715--1938821	49	2.1	51	89	5	164	43	2	3	49	1.35
1944682--1944764	43	1.9	43	90	0	130	26	18	8	46	1.77
1945303--1945496	107	1.8	106	98	1	379	50	6	6	36	1.55
1954185--1954232	25	1.9	25	91	0	78	39	6	16	37	1.74
1955320--1955359	21	1.9	21	89	0	62	45	5	12	37	1.64
1957969--1957995	14	1.9	14	100	0	54	40	0	0	59	0.98
1974656--1974680	3	8.3	3	100	0	50	68	32	0	0	0.90
1986236--1986293	30	1.9	30	92	0	98	48	8	10	32	1.68
1986845--1986876	13	2.3	15	89	10	50	68	3	0	28	1.04
1986863--1986946	42	1.9	44	80	7	100	57	9	2	30	1.44
1990323--1990360	2	19.0	2	100	0	76	50	0	0	50	1.00
1992079--1992125	23	2.1	22	84	11	60	44	0	12	42	1.42
1993038--1993140	32	3.4	32	63	22	87	42	10	9	36	1.73
1993124--1993157	9	3.8	9	96	0	59	47	0	8	44	1.34
1993035--1993165	57	2.3	57	84	7	142	44	9	8	38	1.67
1993192--1993272	2	40.5	2	100	0	162	50	0	0	49	1.00
2000151--2000201	17	3.5	14	82	17	68	50	31	13	3	1.60
2003883--2004136	73	3.5	72	81	4	296	34	11	14	40	1.81
2006090--2006120	16	1.9	16	100	0	62	51	19	9	19	1.74
2016493--2016517	2	12.5	2	100	0	50	52	0	0	48	1.00
2018507--2018676	90	1.9	90	92	2	288	34	22	18	24	1.96
2018681--2018810	39	3.3	38	82	10	156	34	16	16	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2018680--2018970	40	7.4	39	83	6	176	38	15	15	30	1.89
2018791--2020081	40	32.3	40	93	1	2052	42	11	15	30	1.83
2018878--2018946	23	3.3	23	61	23	60	39	15	14	30	1.88
2034137--2034192	21	2.7	21	85	0	76	28	16	21	33	1.95
2034244--2034291	23	2.2	22	81	7	53	37	18	12	31	1.88
2036499--2036571	30	2.4	30	86	4	94	41	8	17	32	1.79
2037510--2037570	31	2.0	31	90	3	97	27	6	26	39	1.81
2038355--2038407	26	2.0	26	85	0	70	26	3	18	50	1.64
2038614--2038685	33	2.2	32	85	9	101	47	9	15	27	1.77
2038796--2038862	21	3.4	21	65	23	63	25	26	23	23	2.00

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   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49