genome.fa.s8138.2.7.7.80.10.50.1000.9.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: VEPZ01008138.1 Hibiscus syriacus cultivar Beakdansim tig00110694_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3838456

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  9  of  18  ( 2117 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)
1785208--1785254	17	2.7	17	96	3	85	53	0	0	46	1.00
1788054--1788660	134	4.5	134	82	4	698	30	14	22	32	1.94
1788055--1788660	274	2.2	268	84	4	745	30	14	22	32	1.94
1788811--1788835	13	1.9	13	100	0	50	28	8	24	40	1.83
1789820--1789856	19	1.9	19	88	0	56	8	16	2	72	1.19
1789829--1789952	17	6.7	19	71	24	65	8	12	0	78	1.01
1789829--1789964	39	3.5	38	78	13	107	9	11	0	77	1.02
1789871--1789958	7	12.7	7	77	15	67	10	7	0	81	0.86
1789887--1789958	21	3.6	20	79	5	83	11	5	0	83	0.80
1789843--1789951	14	7.6	14	74	20	77	9	10	0	79	0.97
1789871--1789958	14	6.4	14	83	11	85	10	7	0	81	0.86
1799572--1799620	19	2.6	19	84	9	57	24	28	20	26	1.99
1804843--1804893	21	2.4	21	86	0	75	43	11	11	33	1.78
1807002--1807045	21	2.1	21	86	0	61	6	43	15	34	1.74
1807725--1807762	19	2.0	19	100	0	76	42	0	21	36	1.53
1812609--1812690	23	3.6	22	69	14	69	31	23	24	20	1.98
1818481--1818548	19	3.6	19	90	9	97	35	19	22	23	1.96
1822277--1822318	3	14.0	3	100	0	84	66	0	0	33	0.92
1823628--1823670	23	1.9	22	85	4	59	74	4	2	18	1.10
1823730--1823787	23	2.7	21	79	10	64	70	0	5	24	1.07
1823748--1823802	20	2.7	21	82	5	67	76	0	7	16	1.00
1823899--1823941	18	2.4	18	88	0	59	72	0	4	23	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1824726--1825500	200	3.9	200	87	1	1059	26	22	18	32	1.97
1832314--1832367	18	3.0	18	100	0	108	50	5	33	11	1.61
1833488--1833551	24	2.7	24	82	0	83	18	17	20	43	1.88
1833512--1833608	48	2.0	48	84	4	124	22	9	18	49	1.76
1833536--1833608	24	3.0	24	75	0	65	26	5	17	50	1.68
1837710--1837813	5	21.4	5	75	16	55	74	1	4	19	1.10
1837745--1837820	4	19.5	4	79	17	81	75	0	1	23	0.89
1837769--1837835	15	4.5	15	78	12	59	71	0	4	23	1.04
1843363--1843392	15	2.0	15	100	0	60	13	26	46	13	1.80
1849645--1849685	21	1.9	22	95	5	75	39	19	19	21	1.93
1850867--1850910	20	2.2	20	88	8	63	59	4	11	25	1.51
1857729--1857765	3	12.0	3	94	5	65	32	0	2	64	1.07
1862862--1862948	32	2.7	32	82	7	104	28	17	20	33	1.95
1872510--1872548	3	13.0	3	88	0	60	35	0	2	61	1.10
1879430--1879475	19	2.4	19	96	0	83	54	30	8	6	1.56
1880787--1880849	32	2.0	32	96	0	117	42	19	19	19	1.89
1883476--1883650	75	2.3	75	89	1	262	28	18	23	29	1.98
1884787--1884863	22	3.5	22	80	0	73	32	14	14	38	1.86
1885637--1885783	46	3.2	46	96	2	269	24	24	19	31	1.98
1885627--1885776	45	3.3	45	94	1	264	24	22	19	34	1.97
1885529--1885949	167	2.5	167	94	1	720	24	22	19	34	1.96
1885794--1886043	45	5.5	45	91	2	392	24	22	19	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1885794--1886043	91	2.7	91	93	0	419	24	22	19	34	1.96
1886274--1886318	3	15.0	3	95	0	63	33	0	6	60	1.23
1888251--1888462	115	1.8	115	84	0	289	38	9	9	42	1.70
1888458--1888502	2	22.5	2	90	0	72	48	4	0	46	1.22
1892742--1892854	36	3.2	36	92	1	174	32	36	3	27	1.74
1892742--1892840	13	8.3	11	71	23	67	31	36	3	29	1.73
1892754--1892893	36	4.1	33	83	9	97	30	36	2	30	1.72
1897268--1897380	36	3.2	36	92	1	174	32	36	3	27	1.74
1897268--1897366	13	8.3	11	71	23	67	31	36	3	29	1.73
1897280--1897419	36	4.1	33	83	9	97	30	36	2	30	1.72
1916172--1916555	183	2.1	184	91	3	625	43	3	8	45	1.49
1919179--1919222	23	1.9	23	81	9	54	34	6	6	52	1.55
1919828--1919937	43	2.7	40	84	12	136	63	1	10	24	1.35
1919818--1919919	43	2.4	43	98	0	195	60	1	12	24	1.42
1923303--1923341	20	2.0	20	84	0	51	23	7	23	46	1.78
1923520--1923580	20	2.9	21	78	9	70	22	24	31	21	1.98
1929975--1930000	3	8.7	3	100	0	52	69	0	0	30	0.89
1930030--1930078	20	2.4	20	86	3	62	46	12	2	38	1.53
1930079--1930343	72	3.7	71	72	14	215	41	8	2	47	1.46
1930084--1930343	47	5.5	46	76	16	205	41	8	1	48	1.45
1930040--1930317	93	2.9	92	80	13	307	42	8	2	46	1.47
1930208--1930343	25	5.7	23	72	20	102	40	8	2	48	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1930040--1930274	22	10.2	22	71	20	135	42	8	2	45	1.49
1930079--1930321	22	10.4	23	71	20	136	41	8	2	48	1.45
1930263--1930341	22	3.5	22	71	20	58	37	8	2	50	1.47
1940635--1940676	21	2.0	20	86	4	57	40	7	14	38	1.73
1945579--1945717	37	3.8	37	93	1	226	25	19	21	33	1.97
1951468--1951496	15	1.9	15	100	0	58	34	27	24	13	1.93
1955689--1955848	65	2.5	65	91	7	256	29	16	21	32	1.95
1955689--1955890	65	3.1	64	82	11	243	28	16	22	32	1.96
1956370--1956434	19	3.4	19	91	0	103	32	13	10	43	1.79
1958871--1958911	16	2.6	16	88	3	57	36	7	21	34	1.82
1961844--1961989	72	2.0	72	80	5	161	47	11	13	28	1.77
1965053--1965094	20	2.1	20	100	0	84	28	9	14	47	1.75
1969899--1969997	50	2.0	50	89	0	153	49	4	9	37	1.53
1975604--1975653	26	1.9	26	91	0	82	32	2	52	14	1.53
1977547--1977692	32	4.5	33	82	7	156	15	8	30	45	1.75
1977547--1977675	32	4.0	32	89	2	168	15	7	30	46	1.74
1977548--1977692	65	2.2	66	84	7	188	14	8	31	46	1.74
1977878--1977941	26	2.5	26	100	0	128	12	12	39	35	1.81
1980684--1980723	14	2.7	14	84	7	53	32	2	0	65	1.06
1980788--1980818	12	2.7	12	95	5	55	32	0	0	67	0.91
1983590--1983631	22	2.0	21	85	4	57	78	0	16	4	0.91
1983594--1983637	15	2.9	16	80	6	56	77	0	15	6	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1983718--1983846	69	1.9	69	93	0	222	39	22	11	26	1.88
1984337--1984373	15	2.5	15	95	0	65	37	27	8	27	1.84
1984798--1984883	32	2.7	32	90	0	127	31	9	19	39	1.84
1985462--1985783	106	3.0	106	90	0	482	34	25	18	21	1.96
1985989--1986059	37	1.9	37	88	0	106	22	19	14	43	1.87
1986010--1986117	52	2.1	52	92	0	180	20	17	16	45	1.86
1986021--1986129	52	2.1	52	85	0	146	22	18	14	44	1.86
1986058--1986252	102	1.9	98	87	5	259	26	18	13	41	1.88
1985931--1986213	154	1.8	154	96	0	521	24	19	13	43	1.86
1986273--1986415	65	2.2	65	84	2	198	31	20	11	36	1.89
1986370--1986444	29	2.6	29	93	0	123	32	18	12	37	1.88
1986104--1986705	292	2.1	292	89	4	937	29	19	12	37	1.89
1986358--1986599	131	1.9	130	80	6	292	28	18	14	39	1.89
1986691--1986774	36	2.4	34	85	12	118	41	15	9	33	1.79
1988016--1988055	14	2.7	14	84	7	53	32	2	0	65	1.06
1988020--1988083	19	3.2	20	76	13	60	35	3	3	57	1.30
1988174--1988241	17	3.9	17	78	19	61	26	2	0	70	1.01
1988220--1988304	36	2.3	37	86	9	113	23	3	3	69	1.20
1993697--1993722	2	13.0	2	100	0	52	0	50	0	50	1.00
1999491--1999853	119	3.1	119	84	4	488	24	18	13	43	1.86
1999880--1999934	25	2.3	23	82	14	76	23	10	3	61	1.44
2000014--2000078	32	2.0	32	85	5	87	16	10	6	66	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2002021--2002068	25	2.0	24	83	4	60	64	0	0	35	0.94
2002077--2002110	2	17.5	2	93	6	61	50	0	0	50	1.00
2002004--2002092	36	2.5	36	89	10	139	60	0	0	39	0.97
2002004--2002090	34	2.5	34	94	3	147	60	0	0	39	0.97
2003644--2003685	16	2.7	15	82	17	59	42	2	0	54	1.13
2013037--2013061	12	2.1	12	100	0	50	44	24	16	16	1.86
2014076--2014250	90	2.0	89	94	1	305	45	6	10	37	1.65
2017685--2017724	21	1.9	21	89	0	62	30	22	20	27	1.98
2017839--2017896	20	2.7	20	81	10	62	32	18	20	27	1.97
2018613--2018737	31	4.0	31	73	14	103	28	18	20	32	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18