genome.fa.s1444.2.7.7.80.10.50.1000.8.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: VEPZ01001444.1 Hibiscus syriacus cultivar Beakdansim tig00002793_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2564052

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  8  of  12  ( 1400 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)
1773630--1773662	16	2.1	16	94	0	57	63	0	0	36	0.95
1775862--1775900	20	2.0	20	94	0	69	53	10	12	23	1.69
1779496--1779540	18	2.5	18	96	0	81	35	26	11	26	1.90
1783147--1783194	20	2.4	20	100	0	96	33	16	18	31	1.94
1783233--1783286	23	2.3	23	96	0	99	51	18	14	14	1.76
1786262--1786319	27	2.1	27	96	0	107	25	18	13	41	1.88
1786417--1786456	20	2.0	20	90	0	62	45	0	0	55	0.99
1790738--1791225	266	1.8	265	88	2	746	34	12	18	34	1.89
1792923--1792970	24	2.0	24	100	0	96	45	20	12	20	1.83
1798093--1798146	21	2.5	22	80	14	58	27	18	35	18	1.94
1798110--1798175	23	2.8	23	80	13	64	25	21	31	21	1.98
1799590--1799627	19	2.0	19	89	0	58	34	5	26	34	1.79
1799585--1799641	19	2.7	21	72	25	57	33	5	26	35	1.79
1799640--1799676	19	1.9	19	100	0	74	43	5	24	27	1.76
1800122--1800213	41	2.2	41	86	0	130	26	15	19	39	1.91
1800324--1800374	21	2.4	21	90	0	75	31	25	21	21	1.98
1800388--1800481	46	2.0	46	93	0	161	22	18	23	36	1.95
1800461--1800523	20	3.2	20	75	8	65	28	20	22	28	1.98
1800493--1800563	20	3.5	21	70	16	51	26	18	26	28	1.98
1805307--1805361	21	2.6	21	77	8	58	34	21	20	23	1.97
1805349--1805512	20	8.2	20	86	4	206	34	26	18	20	1.95
1805486--1805540	28	2.0	28	100	0	110	40	21	14	23	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1805509--1805565	20	2.8	20	89	0	87	42	22	14	21	1.88
1808551--1808718	19	9.5	19	73	21	159	45	17	22	14	1.84
1808551--1808718	53	3.2	53	92	3	268	45	17	22	14	1.84
1808551--1808716	33	4.8	34	74	17	135	46	18	21	13	1.83
1808720--1808808	19	5.2	18	72	25	77	7	15	26	49	1.72
1808733--1808759	14	1.9	14	100	0	54	7	14	29	48	1.71
1808720--1808824	33	3.2	32	90	2	147	7	17	25	49	1.73
1808888--1809167	93	3.1	93	96	2	514	45	19	12	22	1.84
1810840--1810935	19	5.2	20	71	20	91	45	17	25	11	1.82
1810838--1810901	21	3.1	21	80	6	87	46	15	26	10	1.79
1810838--1810959	33	3.5	35	88	10	137	45	18	24	10	1.81
1810886--1810942	14	3.7	14	75	20	60	43	22	24	8	1.81
1810878--1810959	33	2.5	33	100	0	164	47	19	23	9	1.79
1810838--1810964	19	7.1	19	68	22	78	44	18	25	11	1.82
1810975--1811031	14	3.7	14	75	20	60	8	24	22	43	1.81
1810970--1811039	33	2.1	33	100	0	140	8	24	20	47	1.78
1811016--1811091	21	3.7	21	83	3	109	11	25	17	46	1.82
1811015--1811092	41	1.9	41	97	0	147	12	25	16	44	1.83
1811171--1811241	33	2.2	33	89	0	106	49	15	22	12	1.78
1811618--1811810	20	9.6	20	83	5	228	19	18	26	35	1.95
1811804--1811853	21	2.4	20	80	9	55	26	18	20	36	1.95
1812820--1813029	65	3.2	64	79	12	232	27	18	23	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1817350--1817389	21	1.9	21	85	10	55	35	10	2	52	1.48
1819372--1819411	19	2.1	19	85	0	53	22	15	32	30	1.94
1819306--1819471	65	2.6	63	79	11	176	25	18	24	31	1.97
1821100--1821124	2	12.5	2	100	0	50	48	0	0	52	1.00
1825388--1825440	8	6.6	8	91	8	65	43	0	5	50	1.25
1825388--1825459	16	4.8	15	82	17	71	40	0	4	55	1.19
1828607--1828646	21	1.9	21	94	0	71	20	5	5	70	1.26
1829858--1829902	21	2.1	21	87	0	63	31	28	24	15	1.96
1830483--1830517	18	1.9	18	88	11	54	54	5	17	22	1.64
1830574--1830624	22	2.4	22	83	3	68	49	0	19	31	1.49
1831502--1831954	149	3.0	149	97	0	852	28	17	20	34	1.95
1831933--1831977	23	2.0	23	81	0	54	20	22	28	28	1.98
1835110--1835154	21	2.1	21	87	0	63	31	28	24	15	1.96
1835735--1835769	18	1.9	18	88	11	54	54	5	17	22	1.64
1835826--1835876	22	2.4	22	83	3	68	49	0	19	31	1.49
1836758--1837210	149	3.0	149	98	0	852	28	16	20	34	1.94
1837189--1837233	23	2.0	23	81	0	54	20	22	28	28	1.98
1844544--1844592	7	6.9	7	82	13	64	79	2	18	0	0.83
1844544--1844592	15	3.4	14	83	13	64	79	2	18	0	0.83
1844545--1844586	8	5.4	8	80	5	50	80	2	16	0	0.81
1845204--1845230	14	1.9	14	100	0	54	40	22	14	22	1.90
1847901--1847929	2	15.0	2	92	7	51	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1847946--1847995	15	3.3	15	80	5	55	18	4	2	76	1.04
1849099--1849145	18	2.7	18	93	3	78	34	8	29	27	1.87
1853385--1853506	49	2.5	49	93	1	201	37	23	13	25	1.91
1855995--1856077	38	2.2	38	89	2	132	10	13	39	36	1.79
1856651--1856695	18	2.6	17	82	3	54	31	22	6	40	1.80
1856996--1857054	31	1.9	31	100	0	118	37	11	18	32	1.87
1857999--1858083	34	2.5	34	86	0	116	29	21	10	38	1.87
1861431--1861468	3	12.7	3	100	0	76	68	0	0	31	0.90
1861688--1862128	133	3.3	133	85	2	526	24	16	31	26	1.96
1862281--1862412	65	2.0	65	92	1	221	43	16	12	26	1.84
1862824--1862885	32	1.9	33	86	3	90	27	19	14	38	1.90
1863910--1863988	23	3.5	22	76	10	72	5	13	5	75	1.13
1863911--1864060	12	12.6	12	70	18	75	3	14	6	76	1.11
1863961--1864070	26	4.3	26	73	18	106	1	15	5	77	1.04
1863937--1864045	51	2.2	50	83	8	132	2	15	4	77	1.05
1863973--1864051	16	4.9	15	74	17	70	1	15	5	78	0.99
1866822--1866918	36	2.7	36	85	3	106	35	19	22	22	1.96
1866861--1866959	36	2.8	36	89	3	146	34	22	22	21	1.97
1868025--1868091	2	33.0	2	91	8	109	47	2	0	49	1.16
1872132--1872184	23	2.2	24	90	6	81	33	20	20	24	1.97
1872142--1872199	23	2.8	21	85	12	68	31	24	24	20	1.98
1872164--1872212	18	2.7	18	80	0	62	28	24	28	18	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1873877--1873962	36	2.4	36	92	0	136	41	20	16	20	1.90
1877279--1877304	3	8.7	3	100	0	52	69	0	0	30	0.89
1877541--1877567	4	6.8	4	100	0	54	74	0	25	0	0.83
1877969--1878072	52	2.0	52	94	0	181	46	7	8	37	1.64
1878542--1878738	53	4.0	51	73	17	180	49	6	21	23	1.71
1878525--1878787	95	2.7	94	84	5	314	49	5	19	25	1.70
1878703--1878888	44	4.3	44	72	8	141	53	4	15	26	1.62
1879181--1879575	186	2.1	189	82	4	478	40	8	16	34	1.79
1881264--1881314	18	2.5	22	72	27	65	25	41	21	11	1.87
1881268--1881311	18	2.4	18	100	0	88	27	36	22	13	1.92
1883817--1883903	24	3.6	24	79	0	102	25	8	18	48	1.75
1883847--1883908	12	5.2	12	73	7	54	19	8	19	53	1.69
1883819--1883912	48	2.0	48	91	0	152	24	8	17	50	1.73
1884070--1884096	2	13.5	2	100	0	54	48	0	0	51	1.00
1891279--1891321	16	2.7	16	100	0	86	32	18	11	37	1.87
1891341--1891394	19	2.8	19	75	10	56	35	24	3	37	1.73
1892570--1892630	18	3.1	18	68	20	50	29	21	34	14	1.93
1893748--1893776	2	14.5	2	100	0	58	0	48	0	51	1.00
1897763--1897820	23	2.6	22	86	5	80	32	1	1	63	1.14
1902572--1902681	50	2.2	50	83	3	132	14	33	29	22	1.94
1904345--1904431	35	2.5	34	80	12	97	55	10	8	26	1.61
1904646--1904699	6	9.5	6	74	11	51	14	33	18	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1905050--1905084	18	1.9	18	100	0	70	25	11	22	40	1.88
1906488--1906709	111	2.0	111	95	0	399	44	10	8	36	1.69
1906833--1906873	10	4.1	10	84	12	57	39	0	29	31	1.57
1908716--1908758	22	1.9	23	85	4	61	39	4	16	39	1.69
1908722--1909045	35	9.0	35	83	7	389	42	4	8	43	1.56
1908722--1909042	73	4.4	70	84	8	403	42	4	8	43	1.56
1910398--1910654	59	4.4	59	85	2	313	37	12	16	34	1.86
1910398--1910654	117	2.2	117	85	2	338	37	12	16	34	1.86
1910964--1911097	68	2.0	68	86	2	189	31	13	26	29	1.94
1911111--1911431	68	4.7	68	90	0	455	32	14	23	29	1.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12