genome.fa.s9643.2.7.7.80.10.50.1000.9.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: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8859806

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   

This is table  9  of  41  ( 4862 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)
1806188--1806276	30	2.9	29	83	8	97	42	12	10	34	1.76
1807847--1807874	14	2.0	14	100	0	56	28	14	21	35	1.92
1820504--1820553	17	3.0	16	80	8	64	56	2	8	34	1.40
1821155--1821232	38	2.1	38	87	0	111	35	14	17	32	1.90
1822867--1822896	12	2.4	13	94	5	53	10	40	3	46	1.54
1827827--1827858	12	2.8	11	90	9	55	81	0	9	9	0.88
1829687--1830035	116	3.0	116	90	2	524	32	25	18	23	1.97
1830134--1830218	37	2.3	37	88	9	138	25	18	15	40	1.90
1830332--1830507	84	2.1	84	91	0	280	31	23	18	26	1.97
1831305--1831334	12	2.4	13	94	5	53	10	40	3	46	1.54
1835572--1835622	24	2.1	25	85	10	70	29	27	35	7	1.85
1835587--1835636	24	2.1	24	92	0	82	32	26	32	10	1.89
1836525--1836582	30	1.9	30	96	0	107	39	20	24	15	1.91
1845791--1845828	18	2.1	18	85	9	51	7	34	2	55	1.43
1856699--1856732	6	5.7	6	92	0	50	35	5	14	44	1.70
1870148--1870234	9	10.2	9	80	16	57	81	2	13	2	0.88
1870152--1870292	7	17.4	8	75	16	89	78	1	14	4	0.98
1870289--1870377	46	2.0	46	86	6	128	38	17	30	13	1.89
1871405--1871785	51	7.3	51	78	7	338	29	16	24	30	1.96
1871405--1871728	158	2.1	154	88	3	488	28	16	25	29	1.97
1871405--1871817	209	2.0	207	83	7	523	28	16	24	29	1.97
1871421--1871785	158	2.3	155	82	10	465	29	16	24	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1871471--1871817	106	3.3	106	77	12	279	29	17	24	29	1.97
1875414--1875627	103	2.1	101	93	3	369	25	13	23	37	1.92
1875651--1875709	23	2.6	23	86	0	73	23	23	23	28	1.99
1875668--1875715	23	2.0	24	92	4	80	20	18	27	33	1.96
1879330--1879491	64	2.5	65	76	8	161	33	20	19	26	1.96
1880277--1880495	103	2.1	104	92	0	359	26	12	23	37	1.90
1880502--1880579	23	3.3	23	81	1	93	24	20	23	32	1.98
1882202--1882257	28	2.0	29	86	6	80	21	5	1	71	1.15
1887167--1887384	123	1.8	122	82	11	290	42	5	5	47	1.47
1887439--1887469	15	2.1	15	93	0	53	45	0	0	54	0.99
1888341--1888501	77	2.1	77	86	0	223	32	22	14	29	1.94
1888419--1888466	20	2.4	20	96	0	87	29	25	16	29	1.97
1888516--1888625	20	5.5	19	72	12	80	32	12	24	30	1.92
1888598--1888668	19	3.6	19	77	5	70	22	11	30	35	1.89
1889340--1889392	21	2.5	21	93	0	88	30	32	20	16	1.95
1889424--1889537	21	5.4	21	67	15	74	24	20	18	36	1.94
1889388--1889549	42	3.9	42	88	2	240	24	20	19	36	1.95
1889396--1889568	19	8.5	19	69	13	103	24	20	19	35	1.96
1889388--1889605	61	3.6	61	80	10	241	24	20	19	35	1.95
1890423--1890601	21	8.6	20	74	13	123	35	20	21	22	1.96
1890451--1890601	42	3.7	43	82	11	183	35	21	21	21	1.96
1890423--1890543	63	1.9	63	96	0	224	33	23	21	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1890597--1890646	21	2.4	21	89	0	73	16	18	32	34	1.92
1898958--1899015	24	2.4	24	79	0	71	55	18	15	10	1.68
1899197--1899235	14	2.8	14	88	0	60	61	17	10	10	1.55
1905558--1905600	21	2.0	21	86	0	59	18	30	25	25	1.98
1906191--1906238	23	2.1	23	84	0	60	35	4	18	41	1.70
1906255--1906292	14	2.7	14	87	0	58	42	10	13	34	1.78
1906701--1906939	116	2.1	116	91	0	388	27	15	12	44	1.83
1906945--1907401	112	4.1	112	94	2	792	25	15	13	45	1.82
1909026--1909377	175	2.0	175	92	0	587	17	21	17	43	1.88
1913345--1913423	29	2.7	29	88	0	122	31	20	8	39	1.83
1913783--1913834	9	6.1	9	76	13	56	32	1	1	63	1.16
1913782--1913831	17	3.0	17	91	2	75	34	2	4	60	1.27
1913791--1913836	16	2.9	16	87	6	58	30	2	2	65	1.16
1915700--1915756	9	6.7	9	74	11	57	33	0	1	64	1.04
1915699--1915748	17	3.0	17	91	2	75	36	0	4	60	1.16
1919159--1919186	14	2.0	14	100	0	56	35	50	14	0	1.43
1919186--1919236	2	25.5	2	100	0	102	50	0	0	49	1.00
1921650--1921758	36	3.0	36	93	0	182	31	31	9	28	1.88
1926560--1926610	24	2.1	24	100	0	102	41	11	25	21	1.87
1928143--1928168	12	2.2	12	100	0	52	34	0	15	50	1.45
1928480--1928524	22	2.0	22	86	4	63	28	31	26	13	1.94
1929735--1929765	16	1.9	16	100	0	62	45	6	9	38	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1929834--1930054	103	2.1	103	94	1	381	26	13	23	36	1.92
1930062--1930153	23	4.0	23	84	0	103	22	26	22	28	1.99
1942316--1942349	16	2.1	16	88	0	50	82	0	17	0	0.67
1942313--1942352	19	2.1	19	85	0	53	82	0	17	0	0.67
1946179--1946212	2	17.0	2	100	0	68	50	0	0	50	1.00
1947384--1947461	31	2.5	30	87	6	120	25	24	12	37	1.91
1951979--1952023	23	2.0	23	86	0	63	26	26	26	20	1.99
1951991--1952308	152	2.1	149	92	2	530	34	21	17	26	1.95
1957217--1957268	21	2.5	21	96	0	95	34	42	17	5	1.73
1958961--1959005	23	2.0	23	86	0	63	26	26	26	20	1.99
1962936--1963073	69	2.0	69	100	0	276	28	26	21	23	1.99
1963540--1963618	37	2.1	37	97	0	149	37	32	7	21	1.82
1968569--1968593	3	8.3	3	100	0	50	36	0	0	64	0.94
1968783--1968807	12	2.1	12	100	0	50	16	40	0	44	1.47
1973078--1973125	23	2.1	23	88	0	69	35	12	18	33	1.89
1973507--1973558	23	2.3	22	90	6	77	44	19	1	34	1.62
1973517--1973579	23	2.7	23	90	0	90	38	19	6	36	1.77
1973983--1974069	39	2.2	39	95	0	156	17	13	20	48	1.81
1974328--1974364	18	2.1	18	89	0	56	51	10	5	32	1.60
1974659--1974709	25	2.0	25	92	0	84	39	19	7	33	1.81
1974978--1975029	23	2.3	22	90	6	77	44	19	1	34	1.62
1974988--1975050	23	2.7	23	90	0	90	38	19	6	36	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1975337--1975402	25	2.6	25	80	0	87	42	13	9	34	1.76
1976947--1977290	184	1.9	184	93	0	589	33	16	14	35	1.89
1978756--1978833	3	26.0	3	74	0	66	23	34	6	35	1.80
1978757--1978845	42	2.1	42	89	0	133	21	34	7	35	1.82
1978756--1978833	18	4.3	18	76	0	75	23	34	6	35	1.80
1978764--1978848	21	4.6	18	68	22	59	20	35	8	36	1.82
1978760--1978848	6	14.3	6	74	6	61	20	34	7	37	1.82
1979497--1980407	198	4.6	199	98	0	1749	31	14	16	37	1.89
1979497--1980407	397	2.3	397	98	0	1747	31	14	16	37	1.89
1980526--1980574	19	2.6	19	93	0	80	57	10	2	30	1.43
1982366--1982431	33	2.0	33	90	0	105	22	48	0	28	1.51
1982465--1982529	21	3.1	21	80	6	69	15	29	15	40	1.88
1984757--1984799	20	2.3	18	82	17	61	18	16	11	53	1.72
1984762--1984808	20	2.3	20	89	10	78	17	17	10	55	1.69
1984929--1984974	20	2.3	20	89	10	76	17	17	10	54	1.70
1985039--1985486	228	2.0	226	93	3	765	39	6	8	45	1.61
1986740--1987110	184	2.0	184	97	0	697	38	6	10	45	1.65
1994475--1994511	16	2.3	16	100	0	74	35	0	5	59	1.20
1994847--1994894	19	2.5	19	96	3	87	0	43	4	52	1.20
1995619--1995741	41	3.2	40	67	25	113	23	18	17	39	1.92
1995589--1995774	72	2.6	72	91	0	291	23	18	18	39	1.92
1995637--1995753	35	3.3	35	66	29	93	24	17	17	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2006927--2006989	21	2.9	21	85	4	81	20	36	25	17	1.94
2014070--2014152	23	3.8	21	76	6	67	25	30	21	22	1.99
2014071--2014134	23	2.8	23	85	2	76	23	29	21	25	1.99
2016403--2016451	19	2.6	19	100	0	98	14	42	22	20	1.88
2023871--2023902	2	16.0	2	100	0	64	50	0	0	50	1.00
2028278--2028360	6	13.8	6	83	0	67	34	53	1	10	1.44
2028276--2028348	15	4.9	15	87	0	101	35	52	0	12	1.39
2028297--2028355	21	2.8	21	92	0	100	33	52	0	13	1.41
2028281--2028361	12	7.0	12	76	8	87	34	51	1	12	1.47
2031515--2031586	36	2.0	36	97	0	135	44	15	8	31	1.76

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