genome.fa.s8017.2.7.7.80.10.50.1000.9.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: VEPZ01008017.1 Hibiscus syriacus cultivar Beakdansim tig00110483_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3132588

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

This is table  9  of  15  ( 1748 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)
1768651--1768699	5	9.8	5	100	0	98	59	0	20	20	1.38
1768753--1768824	2	36.0	2	100	0	144	50	0	0	50	1.00
1769181--1769208	14	2.0	14	100	0	56	28	7	28	35	1.84
1769309--1770068	149	5.1	149	98	0	1472	26	17	20	34	1.95
1769309--1770068	296	2.6	298	98	0	1472	26	17	20	34	1.95
1770036--1770080	23	2.0	23	90	0	72	22	26	26	24	2.00
1783060--1783106	10	4.7	10	91	0	76	89	0	10	0	0.49
1783063--1783117	8	7.2	8	82	12	55	87	1	10	0	0.63
1783061--1783099	1	39.0	1	89	0	60	94	0	5	0	0.29
1783844--1784986	105	11.0	105	92	2	1866	32	25	18	23	1.97
1790086--1790120	15	2.5	14	86	13	54	37	20	20	22	1.95
1792551--1792592	21	2.0	21	86	4	59	30	4	11	52	1.59
1793187--1793301	21	5.5	20	76	15	99	21	18	25	34	1.96
1793181--1793277	42	2.3	43	79	13	112	20	19	26	32	1.97
1793739--1793780	12	3.5	12	80	0	57	35	9	23	30	1.87
1793735--1793784	24	2.1	24	100	0	100	38	8	24	30	1.84
1794042--1794159	21	5.7	21	85	6	152	25	21	23	29	1.99
1794025--1794159	41	3.3	41	79	13	143	25	20	23	29	1.99
1794526--1794556	16	1.9	16	93	0	53	6	29	0	64	1.18
1795863--1795896	17	2.1	17	88	5	52	58	5	0	35	1.22
1796297--1796424	54	2.3	57	93	5	219	29	21	32	15	1.95
1798109--1798160	12	4.2	13	76	16	56	23	1	3	71	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1798243--1798397	9	17.1	9	78	15	81	23	5	0	70	1.11
1798236--1798395	6	24.8	6	76	21	58	22	5	0	71	1.11
1798337--1798401	3	22.0	3	96	3	123	33	0	0	66	0.92
1801046--1801243	96	2.1	97	86	5	285	35	16	16	31	1.91
1808826--1809821	84	11.9	84	88	0	1323	35	22	19	22	1.96
1811022--1811065	19	2.3	18	81	11	52	22	0	9	68	1.18
1811154--1811195	19	2.1	21	91	8	70	14	4	0	80	0.86
1811130--1811209	26	3.0	26	78	7	81	17	6	1	75	1.08
1813136--1813169	12	3.0	12	87	12	54	32	0	0	67	0.91
1815188--1815216	6	4.8	6	100	0	58	0	31	17	51	1.45
1815648--1815731	3	27.7	3	83	9	100	63	0	1	35	1.03
1815881--1816398	116	4.4	116	89	4	758	28	19	15	35	1.93
1817020--1817124	52	2.1	49	85	13	137	35	23	15	25	1.94
1818279--1818342	14	4.4	14	84	7	74	0	15	0	84	0.63
1818263--1818359	19	4.8	19	82	10	97	2	17	0	80	0.81
1818284--1818359	14	5.3	14	79	14	66	0	19	0	80	0.72
1818263--1818363	35	2.9	34	81	12	114	1	18	0	79	0.83
1818279--1818361	18	4.6	17	78	14	78	0	19	0	80	0.71
1818310--1818359	24	2.1	24	85	7	66	0	18	0	82	0.68
1829653--1829701	22	2.1	22	81	7	53	57	2	2	38	1.22
1830574--1830613	21	1.9	21	84	0	53	0	12	12	75	1.06
1831099--1831154	3	18.7	3	100	0	112	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1836772--1836821	20	2.5	20	90	0	82	24	28	22	26	1.99
1837640--1837693	24	2.2	24	90	0	81	22	16	20	40	1.91
1840034--1840316	140	2.0	140	98	0	548	28	13	15	43	1.84
1840287--1840455	20	8.8	20	83	7	215	34	21	18	24	1.96
1840499--1840573	20	3.8	20	85	0	96	14	18	24	42	1.88
1840648--1840777	36	3.4	36	71	14	118	51	16	3	28	1.60
1840677--1840800	27	4.7	26	67	18	87	50	18	1	29	1.57
1840693--1840729	14	2.6	14	91	0	65	45	21	2	29	1.65
1840675--1840792	36	3.0	42	71	16	133	49	18	1	30	1.58
1840626--1840792	77	2.1	77	91	4	271	49	17	2	29	1.60
1840707--1840879	63	2.6	66	83	10	201	50	17	3	28	1.62
1842203--1842296	21	4.5	21	71	10	75	28	15	35	20	1.94
1842196--1842296	42	2.4	42	74	0	112	26	17	32	22	1.97
1843093--1843145	21	2.5	21	78	0	61	30	32	15	22	1.94
1844672--1844809	73	1.9	74	92	1	233	46	22	13	17	1.83
1844673--1844809	20	7.2	20	73	9	81	45	22	13	17	1.84
1845177--1845241	22	3.0	21	86	4	69	21	13	43	21	1.87
1845184--1845241	22	2.6	22	91	0	98	18	15	43	22	1.88
1845409--1845452	20	2.2	20	95	0	79	27	18	29	25	1.98
1845517--1845553	19	1.9	19	88	0	56	24	16	27	32	1.96
1845884--1845930	25	1.9	25	83	12	62	38	8	0	53	1.32
1845896--1845961	25	2.5	27	83	11	75	40	6	0	53	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1846114--1846184	31	2.3	31	87	0	106	52	9	7	30	1.61
1849479--1849589	48	2.3	48	81	3	116	20	14	15	49	1.79
1849516--1849585	12	5.8	12	72	12	54	17	14	15	52	1.74
1849493--1849591	24	4.0	25	76	7	87	21	13	15	50	1.77
1849747--1849775	2	14.5	2	100	0	58	48	0	0	51	1.00
1851679--1851720	18	2.4	18	88	4	59	16	47	19	16	1.83
1854199--1854309	48	2.3	48	84	3	125	20	14	17	47	1.82
1854199--1854309	24	4.6	24	75	4	100	20	14	17	47	1.82
1854242--1854305	12	5.3	12	75	14	51	14	14	18	53	1.73
1854242--1854293	17	2.8	18	72	21	54	15	15	19	50	1.79
1854467--1854499	2	16.5	2	100	0	66	48	0	0	51	1.00
1863366--1863405	21	1.9	21	94	0	71	30	27	20	22	1.98
1863440--1863493	20	2.6	21	82	2	65	29	27	16	25	1.97
1863455--1863493	21	1.9	20	89	5	60	33	30	12	23	1.92
1865120--1865201	18	4.6	18	93	3	139	29	29	21	19	1.98
1865997--1866052	21	2.7	21	97	0	103	35	21	19	23	1.96
1867339--1867378	20	2.0	20	90	0	62	27	17	30	25	1.97
1868523--1868566	21	2.1	21	95	0	79	31	25	20	22	1.98
1869612--1869656	21	2.1	21	100	0	90	46	17	4	31	1.68
1873891--1874965	230	4.7	230	91	4	1700	21	18	20	39	1.93
1873891--1874966	447	2.4	450	91	3	1700	21	18	20	39	1.93
1878903--1878965	25	2.5	25	70	17	58	33	14	1	50	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1879078--1879136	31	1.9	31	89	0	91	49	16	6	27	1.71
1883068--1883095	14	2.0	14	100	0	56	14	21	14	50	1.78
1884852--1884950	51	1.9	51	95	0	180	30	23	12	34	1.91
1887170--1887200	16	1.9	16	100	0	62	16	25	12	45	1.83
1896851--1896876	12	2.2	12	100	0	52	38	0	15	46	1.46
1898775--1898821	24	2.0	24	91	0	76	27	14	44	12	1.82
1899002--1899032	13	2.4	13	100	0	62	51	9	25	12	1.70
1914338--1914456	39	3.1	39	97	0	220	44	15	8	31	1.76
1917004--1917062	14	4.1	14	76	4	64	42	5	15	37	1.69
1917106--1917168	22	2.8	22	75	2	63	49	0	3	47	1.17
1917214--1917275	30	2.1	29	82	8	72	51	0	1	46	1.10
1917511--1917589	41	1.9	41	81	0	95	56	13	8	20	1.63
1918634--1918675	3	14.0	3	100	0	84	33	0	0	66	0.92
1918923--1918963	15	2.6	16	77	18	50	31	0	0	68	0.90
1919055--1919097	22	2.0	22	85	0	59	55	2	0	41	1.12
1919591--1919647	29	2.0	29	82	6	71	33	5	1	59	1.30
1924131--1924168	2	19.0	2	94	0	67	47	0	2	50	1.15
1927163--1927407	75	3.3	74	79	3	260	30	16	20	32	1.95
1928575--1928651	22	3.5	22	75	16	79	33	12	14	38	1.84
1929026--1929727	124	5.9	122	83	8	751	38	16	19	26	1.92
1929291--1929589	110	2.7	111	90	2	465	36	14	20	28	1.92
1929275--1929589	113	2.8	110	86	4	468	36	15	19	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1931074--1931119	23	2.0	23	82	0	56	47	2	2	47	1.26
1932462--1932498	3	12.0	3	94	5	65	35	32	0	32	1.58
1934368--1934397	16	1.9	15	93	6	51	70	0	3	26	1.03
1935041--1935105	20	3.3	20	79	12	80	41	24	16	16	1.89
1935233--1935283	22	2.3	22	93	0	84	21	41	13	23	1.89
1935558--1935599	20	2.1	20	86	0	57	14	19	21	45	1.85
1937407--1937505	21	4.7	22	75	13	100	23	35	20	21	1.96
1937407--1937505	42	2.4	42	81	10	130	23	35	20	21	1.96
1938920--1938959	14	2.9	14	80	0	53	30	0	17	52	1.45
1938870--1939008	65	2.2	62	86	6	183	31	0	17	50	1.51

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