genome.fa.s8539.2.7.7.80.10.50.1000.11.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: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6067759

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   

This is table  11  of  31  ( 3630 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)
1837991--1838053	11	5.9	11	73	14	60	39	1	1	57	1.18
1843650--1843678	2	14.5	2	100	0	58	51	0	0	48	1.00
1844313--1844387	3	24.7	3	75	2	69	25	0	4	70	1.04
1844796--1844871	6	12.2	6	84	9	64	72	1	21	5	1.12
1844813--1844870	18	3.2	18	85	0	71	72	1	22	3	1.09
1845112--1845148	2	18.5	2	100	0	74	48	0	0	51	1.00
1852954--1852995	17	2.5	17	88	0	57	19	28	26	26	1.98
1855325--1855406	24	3.5	24	83	3	103	28	18	19	34	1.95
1855481--1855652	57	3.0	57	90	0	272	15	20	29	34	1.93
1856150--1856192	20	2.0	21	86	8	61	32	4	6	55	1.47
1858545--1858610	34	1.9	34	96	0	123	30	12	10	46	1.75
1860274--1860332	23	2.6	23	83	0	82	37	5	18	38	1.73
1860745--1860807	22	2.8	22	85	2	81	39	4	19	36	1.72
1861223--1861286	23	2.8	23	90	0	101	35	4	21	37	1.75
1860043--1863116	477	6.5	477	96	1	5542	41	7	10	40	1.68
1861703--1861766	23	2.8	23	90	0	101	35	4	21	37	1.75
1862180--1862243	23	2.8	23	90	0	101	35	4	21	37	1.75
1860043--1863116	957	3.2	955	95	2	5573	41	7	10	40	1.68
1862657--1862718	21	2.8	23	80	7	74	37	4	20	37	1.75
1863420--1863502	27	3.2	25	62	18	60	43	16	14	25	1.86
1863401--1863510	54	2.0	55	98	1	213	44	15	14	25	1.84
1867232--1867290	25	2.4	25	82	5	66	22	22	3	52	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1867308--1867360	19	2.8	20	80	8	65	33	15	5	45	1.69
1867352--1867428	19	4.1	19	83	6	93	29	18	7	44	1.78
1868681--1868709	14	2.1	14	100	0	58	51	6	0	41	1.28
1869886--1869938	16	3.3	16	70	19	56	54	5	1	37	1.35
1873160--1873365	111	1.8	113	86	5	301	41	12	10	35	1.76
1874917--1874965	3	16.3	3	83	8	64	59	0	0	40	0.98
1874905--1874965	21	3.4	18	84	13	65	57	0	0	42	0.98
1874905--1874965	18	3.2	19	84	11	81	57	0	0	42	0.98
1875187--1878068	76	38.4	76	93	3	4727	34	22	19	22	1.96
1878072--1878389	162	1.9	166	89	3	493	38	12	14	34	1.84
1878905--1878952	22	2.2	22	92	0	78	43	12	10	33	1.77
1879324--1879532	54	3.9	54	92	1	321	24	22	14	38	1.92
1880412--1880585	74	2.3	73	82	3	204	29	20	16	33	1.95
1881692--1882031	114	3.0	114	88	0	482	31	19	17	32	1.95
1884270--1884316	17	3.0	15	77	19	51	0	23	2	74	0.93
1884300--1884346	22	2.0	24	80	12	62	4	14	12	68	1.36
1889461--1889666	111	1.8	113	84	3	281	41	10	10	37	1.75
1891206--1891282	3	26.3	3	79	10	88	58	0	0	41	0.98
1891194--1891286	15	7.0	14	75	23	94	56	0	0	43	0.99
1891196--1891259	9	6.7	9	76	16	58	57	0	0	42	0.98
1891194--1891279	12	6.8	12	76	17	77	56	0	0	43	0.99
1892805--1893078	85	3.2	85	85	1	343	35	20	9	35	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1893987--1894017	6	5.2	6	92	0	53	38	0	16	45	1.47
1893945--1894015	18	4.0	17	74	7	52	38	1	9	50	1.44
1894911--1894964	21	2.7	20	82	5	72	35	11	1	51	1.48
1897191--1897244	28	2.0	27	92	3	90	27	22	24	25	2.00
1898771--1898830	14	4.4	14	81	10	63	1	16	3	78	0.97
1898771--1898830	26	2.2	28	85	14	81	1	16	3	78	0.97
1898776--1898828	14	3.8	14	82	12	65	1	18	3	75	1.05
1904214--1904269	14	3.9	14	76	4	58	42	5	17	33	1.72
1904214--1904271	29	2.0	29	89	0	89	43	6	17	32	1.75
1904279--1904313	14	2.5	14	90	0	52	40	14	14	31	1.86
1904512--1904581	31	2.2	29	77	20	70	48	0	2	48	1.16
1904612--1904679	23	3.0	22	74	8	55	44	1	2	51	1.25
1904850--1904907	22	2.5	22	81	10	64	46	0	1	51	1.11
1905106--1905196	42	2.2	42	93	0	155	46	18	16	18	1.85
1908073--1908123	23	2.3	22	86	6	68	23	17	27	31	1.97
1916041--1916109	34	2.0	34	100	0	138	50	26	0	23	1.49
1916052--1916112	11	5.5	11	74	14	54	50	29	0	19	1.48
1920513--1920564	20	2.6	20	75	9	61	28	15	34	21	1.94
1921059--1921434	45	8.3	45	88	4	492	37	9	21	31	1.86
1921059--1921434	90	4.2	90	89	1	549	37	9	21	31	1.86
1921053--1921434	135	2.8	135	89	2	552	38	9	20	30	1.85
1927947--1928234	45	6.4	45	88	4	231	36	10	23	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1927986--1928234	45	5.5	45	86	7	289	37	9	22	30	1.86
1927986--1928234	90	2.8	89	87	5	326	37	9	22	30	1.86
1927986--1928230	135	1.8	134	86	7	354	37	9	22	30	1.86
1928207--1928264	30	1.9	30	100	0	116	27	6	24	41	1.80
1929700--1929741	22	1.9	22	85	0	57	33	11	33	21	1.90
1930182--1930236	25	2.2	25	84	15	71	27	5	7	60	1.46
1933067--1933107	21	2.0	21	85	0	55	46	26	9	17	1.79
1934218--1934258	19	2.2	19	86	4	57	41	4	14	39	1.67
1935532--1935611	38	2.1	38	97	0	151	43	15	10	31	1.79
1936835--1936917	33	2.6	32	88	7	125	39	7	2	50	1.43
1938769--1938834	30	2.2	30	83	2	78	31	24	6	37	1.80
1951493--1951630	36	3.9	36	92	0	224	25	15	15	43	1.86
1952760--1952817	3	20.3	3	86	10	86	37	0	0	62	0.96
1954217--1954256	13	3.0	13	85	7	53	32	2	2	62	1.22
1954317--1954703	140	2.8	140	79	6	392	39	6	8	45	1.62
1954664--1954734	24	3.0	22	78	15	63	50	2	1	45	1.25
1956370--1956415	7	6.4	7	79	20	51	13	13	6	67	1.41
1956368--1956426	14	4.2	14	97	0	109	15	16	6	61	1.55
1962233--1962411	75	2.4	75	81	0	223	32	15	21	30	1.94
1963263--1963518	54	4.8	54	87	1	327	36	14	23	26	1.93
1963258--1963518	108	2.4	108	87	0	371	37	14	22	25	1.92
1966477--1966804	92	3.7	89	88	2	401	31	24	22	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1966443--1966804	91	4.0	90	86	3	424	31	24	22	21	1.98
1969513--1969544	17	1.9	16	93	6	55	31	25	31	12	1.92
1971562--1971904	92	3.8	90	82	5	379	31	24	22	21	1.99
1974546--1974613	23	3.0	23	84	0	91	17	26	26	29	1.98
1979214--1979275	23	2.7	23	74	0	70	20	27	24	27	1.99
1980112--1980156	22	2.0	22	82	4	54	31	31	24	13	1.93
1981434--1981646	103	2.1	103	94	0	372	25	13	24	36	1.92
1981674--1981730	23	2.5	23	85	5	71	22	24	24	28	2.00
1985266--1985308	21	2.0	21	86	0	59	30	27	25	16	1.97
1985336--1985380	22	2.0	22	86	4	63	31	33	24	11	1.90
1986674--1986886	103	2.1	103	92	0	354	27	13	23	36	1.92
1990672--1990729	21	2.7	22	78	5	57	24	27	24	24	2.00
1993601--1993634	18	1.9	17	88	5	50	23	38	20	17	1.93
2006632--2006698	19	3.5	19	84	8	91	55	8	4	31	1.51
2007542--2007580	18	2.2	18	85	0	51	51	5	2	41	1.38
2012930--2013030	41	2.5	40	86	3	148	25	16	23	33	1.96
2013026--2013112	41	2.1	41	89	4	131	33	20	16	29	1.94
2014542--2014620	38	2.1	38	95	0	140	44	6	8	40	1.61
2014559--2014620	18	3.3	18	76	12	63	43	4	8	43	1.55
2020556--2020588	2	16.5	2	100	0	66	48	0	0	51	1.00
2020584--2020630	24	1.9	25	86	4	69	42	6	6	44	1.55
2020681--2020705	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2020564--2020775	117	1.8	117	95	2	390	44	9	4	41	1.59
2020734--2020813	28	2.9	27	86	1	106	40	16	7	36	1.77
2020854--2021014	35	4.5	35	87	3	205	45	11	3	40	1.55
2020854--2021014	71	2.2	72	85	4	209	45	11	3	40	1.55
2026686--2027233	61	9.1	61	86	3	741	27	20	13	37	1.91
2027232--2027666	53	8.3	53	86	3	574	28	22	11	37	1.90
2027249--2027666	209	2.0	210	88	2	626	28	22	11	37	1.89
2032634--2033290	60	11.0	61	84	6	826	27	20	14	37	1.92
2032635--2033290	119	5.5	121	83	7	806	27	20	14	37	1.92
2033236--2033628	52	7.7	51	83	6	467	26	24	11	36	1.90

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