genome.fa.s9579.2.7.7.80.10.50.1000.10.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: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6215474

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   

This is table  10  of  29  ( 3390 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)
1800508--1800575	26	2.7	26	86	2	93	39	7	1	51	1.39
1800797--1800851	29	1.9	28	85	10	76	47	0	5	47	1.25
1801897--1801937	21	2.0	21	95	0	73	36	29	17	17	1.92
1804749--1804801	23	2.3	23	83	0	70	20	28	24	26	1.99
1807755--1807818	30	2.1	30	85	0	83	34	28	18	18	1.95
1811436--1811503	23	3.0	23	80	8	84	19	25	26	29	1.98
1812560--1812597	18	2.1	18	100	0	76	55	34	5	5	1.45
1826979--1827019	11	3.5	12	80	12	50	63	2	0	34	1.08
1832092--1832144	23	2.3	23	87	6	72	58	0	3	37	1.16
1835439--1835473	18	1.9	18	94	0	61	25	34	20	20	1.96
1835582--1835629	22	2.1	23	84	3	62	37	25	6	31	1.81
1836126--1836169	19	2.4	19	88	11	65	25	25	20	29	1.99
1836177--1836220	21	2.0	22	82	4	54	34	15	20	29	1.94
1839558--1839612	21	2.6	21	100	0	110	29	9	9	52	1.63
1842191--1842225	18	1.9	18	100	0	70	25	34	22	17	1.96
1842334--1842381	22	2.1	23	84	3	62	37	25	6	31	1.81
1844756--1844826	24	3.0	24	83	2	90	19	23	25	30	1.98
1851093--1851155	24	2.6	24	97	0	117	20	22	26	30	1.98
1851868--1851926	21	2.8	21	100	0	118	27	23	23	25	2.00
1852214--1852248	5	7.2	5	87	6	54	45	20	0	34	1.51
1852480--1852513	2	17.0	2	100	0	68	50	0	0	50	1.00
1852612--1852680	23	3.0	23	82	0	93	30	24	26	18	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1853464--1853517	2	27.0	2	100	0	108	50	0	0	50	1.00
1853891--1853928	20	2.0	20	89	5	60	31	10	7	50	1.66
1853892--1853937	20	2.2	20	84	7	56	36	13	6	43	1.69
1854302--1854339	20	1.9	20	88	0	58	23	23	21	31	1.98
1859926--1860022	44	2.2	44	83	10	119	29	19	21	28	1.98
1859922--1860010	23	3.9	22	72	19	67	29	20	22	28	1.98
1865464--1865626	64	2.5	63	80	11	161	28	16	23	31	1.96
1865930--1865971	22	2.0	22	85	4	59	26	28	19	26	1.98
1867532--1867728	18	10.7	18	69	18	72	73	3	7	16	1.19
1867640--1867727	4	21.0	4	74	19	65	73	1	5	19	1.09
1867645--1867727	31	2.8	30	83	10	91	74	1	6	18	1.08
1868180--1868219	20	2.0	20	100	0	80	35	40	10	15	1.80
1868857--1868900	22	2.0	22	95	0	79	61	0	6	31	1.22
1868969--1869065	33	2.9	32	83	11	133	44	5	4	46	1.44
1868914--1869073	33	4.6	33	75	18	121	44	5	3	46	1.42
1869056--1869117	31	2.0	31	90	0	97	45	1	3	50	1.27
1869036--1869309	37	7.5	36	78	14	226	45	4	4	45	1.43
1869120--1869309	73	2.6	74	85	9	253	45	5	4	44	1.47
1870111--1870205	49	1.9	49	89	0	145	16	36	31	14	1.90
1871404--1871443	21	1.9	21	94	0	71	40	2	0	57	1.12
1872192--1872217	2	13.0	2	100	0	52	50	0	0	50	1.00
1873817--1873868	21	2.5	20	84	12	68	55	7	0	36	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1878142--1878192	26	2.0	25	88	3	75	45	15	5	33	1.71
1879785--1879836	21	2.5	20	84	12	68	55	7	0	36	1.29
1884866--1884950	28	3.0	28	87	0	125	31	18	17	31	1.95
1889630--1889669	18	2.2	18	100	0	80	35	0	22	42	1.54
1889704--1889752	2	24.5	2	100	0	98	48	0	0	51	1.00
1891726--1891760	12	2.8	13	87	12	56	57	0	0	42	0.99
1891800--1891848	19	2.7	18	87	9	73	73	6	4	16	1.19
1892641--1892691	24	2.1	24	85	0	66	3	21	5	68	1.27
1893134--1893230	3	32.7	3	95	2	178	64	0	1	34	1.00
1893544--1894322	113	6.9	113	94	1	1341	30	19	12	37	1.89
1895032--1895714	84	8.2	84	97	1	1277	36	21	14	27	1.92
1895032--1895714	167	4.1	167	97	1	1289	36	21	14	27	1.92
1901474--1901504	15	2.1	15	100	0	62	25	19	35	19	1.95
1908010--1908044	12	2.8	13	87	12	56	57	0	0	42	0.99
1908083--1908131	19	2.7	18	87	9	73	73	6	4	16	1.19
1909410--1909489	3	26.7	3	94	0	142	63	1	1	33	1.10
1913372--1913500	20	6.3	20	82	6	152	39	25	16	18	1.91
1913308--1913538	40	5.8	40	83	8	233	37	25	14	22	1.92
1913386--1913519	61	2.2	60	86	4	180	38	24	14	21	1.92
1913426--1913577	19	7.7	19	80	8	144	36	23	13	26	1.91
1913308--1913577	40	6.8	38	81	10	167	37	24	14	23	1.93
1914499--1914552	24	2.2	24	90	0	81	20	20	20	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1916798--1916833	19	1.9	18	88	5	54	55	22	2	19	1.56
1917132--1917174	14	3.1	14	78	18	54	41	25	18	13	1.88
1917169--1917221	20	2.7	20	96	0	97	16	15	26	41	1.88
1917320--1917369	14	3.8	13	72	17	50	26	8	22	44	1.80
1917319--1917368	25	2.0	25	92	0	82	28	8	20	44	1.79
1917753--1917789	18	2.1	18	89	0	56	32	5	10	51	1.60
1917745--1917797	24	2.2	24	86	0	70	35	5	11	47	1.63
1918003--1918308	153	2.0	153	98	1	596	33	18	16	30	1.93
1918898--1918938	12	3.4	12	86	0	55	56	24	2	17	1.53
1918897--1918931	6	5.8	6	86	0	52	60	20	2	17	1.49
1919275--1919312	20	1.9	20	94	0	67	23	21	21	34	1.97
1919391--1919565	66	2.6	64	88	8	244	52	17	2	28	1.56
1920911--1921013	42	2.5	42	84	6	145	22	16	35	25	1.94
1920911--1921009	21	4.7	21	76	8	103	22	17	35	25	1.95
1923135--1923167	14	2.4	14	94	0	57	51	18	18	12	1.76
1923148--1923195	20	2.5	20	89	3	71	47	20	18	12	1.81
1923567--1923618	22	2.4	22	90	0	77	23	15	40	21	1.91
1923734--1923821	20	4.3	20	78	8	97	19	10	26	44	1.82
1945886--1945979	45	2.1	45	98	2	181	20	8	22	48	1.76
1950598--1950629	14	2.3	14	94	0	55	9	15	25	50	1.74
1950599--1950649	24	2.1	24	85	7	68	13	11	19	54	1.69
1951823--1951853	16	1.9	16	100	0	62	6	12	22	58	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1952155--1952231	35	2.2	35	85	0	109	35	0	22	42	1.54
1959463--1959601	35	3.9	35	88	1	206	38	20	22	19	1.94
1959458--1959601	71	2.0	71	94	0	252	39	19	22	18	1.92
1961500--1962104	216	2.8	216	90	2	938	51	7	11	28	1.67
1962129--1962219	2	44.0	2	75	14	78	48	2	3	46	1.31
1962134--1962216	42	1.9	42	95	4	148	48	2	3	45	1.33
1962130--1962195	9	7.0	9	72	14	53	48	1	3	46	1.26
1962136--1962218	22	3.9	21	82	9	105	48	2	3	45	1.33
1962129--1962219	20	4.4	21	75	15	91	48	2	3	46	1.31
1962313--1962350	11	3.5	11	82	13	51	52	2	2	42	1.29
1962314--1962430	22	5.3	22	73	10	87	47	1	3	47	1.29
1962497--1962691	33	5.6	32	73	20	103	42	8	7	42	1.62
1962564--1962716	18	8.4	18	66	23	72	39	9	7	43	1.64
1962557--1962639	42	2.0	42	95	0	148	39	9	8	42	1.68
1962670--1962764	2	44.0	2	71	21	59	42	5	4	48	1.45
1962672--1962748	20	3.8	20	87	3	102	41	5	3	49	1.43
1962637--1962751	20	6.0	20	75	14	75	41	6	4	46	1.50
1962866--1963000	21	6.6	21	70	6	71	36	25	17	20	1.95
1962971--1963160	40	4.8	40	90	1	112	33	26	19	20	1.96
1963009--1963203	20	9.7	20	88	3	293	32	27	19	20	1.97
1962971--1963199	60	3.8	59	82	7	255	35	26	18	19	1.95
1963572--1963642	33	2.2	33	94	0	124	9	22	18	49	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1963722--1963811	21	4.4	21	80	9	114	45	20	22	12	1.83
1963733--1963827	19	4.8	19	80	10	109	47	21	20	11	1.81
1963823--1963950	19	7.1	19	72	19	87	11	24	17	46	1.82
1963845--1963901	14	3.7	14	75	20	60	8	24	22	43	1.81
1963828--1963909	33	2.5	33	100	0	164	9	23	19	47	1.79
1963886--1963950	21	3.1	21	84	4	96	12	24	13	49	1.77
1963852--1963948	20	5.2	20	72	18	100	12	23	16	47	1.80
1965876--1966004	19	7.3	19	76	17	134	46	28	16	8	1.76
1965930--1965988	14	3.9	14	76	20	64	47	28	16	6	1.72
1965910--1966004	33	2.9	33	93	0	163	47	28	16	7	1.74

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