genome.fa.s8973.2.7.7.80.10.50.1000.10.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: VEPZ01008973.1 Hibiscus syriacus cultivar Beakdansim tig00112319_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2070395

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

This is table  10  of  11  ( 1243 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)
1783691--1784236	37	14.5	36	71	13	323	35	22	17	24	1.95
1783733--1784051	116	2.8	115	88	4	448	33	23	17	24	1.96
1783691--1784221	74	7.0	74	73	9	369	35	22	18	23	1.95
1784607--1785268	54	12.2	54	84	3	819	33	19	25	22	1.97
1791275--1791347	2	36.5	2	97	0	137	49	1	0	49	1.09
1791510--1791566	13	4.4	13	81	0	69	35	15	19	29	1.93
1791697--1791949	55	4.7	54	79	7	262	34	20	22	22	1.96
1792121--1792252	6	22.2	6	86	10	191	48	0	0	51	1.00
1793369--1793415	21	2.2	21	96	0	85	29	34	17	19	1.94
1793430--1793483	20	2.6	21	91	2	83	22	20	25	31	1.98
1793540--1793634	21	4.6	21	72	5	86	22	20	24	33	1.97
1793565--1793659	40	2.3	40	81	3	127	24	17	21	36	1.94
1793752--1793783	6	5.5	6	96	3	57	31	53	15	0	1.43
1794296--1794320	6	4.2	6	100	0	50	0	16	48	36	1.46
1794406--1794757	42	8.4	40	83	8	327	37	21	18	22	1.94
1794413--1794776	63	5.8	61	81	8	303	37	21	18	21	1.94
1794409--1794776	105	3.5	105	91	3	557	37	21	18	22	1.94
1794728--1794781	21	2.6	21	87	0	81	29	27	22	20	1.98
1796973--1797017	22	2.0	22	83	8	56	51	0	2	46	1.13
1797987--1798042	2	28.0	2	100	0	112	50	0	0	50	1.00
1806254--1806315	13	4.8	13	89	0	97	33	16	19	30	1.94
1807701--1808048	173	2.0	174	99	0	689	37	10	5	45	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1809009--1809057	16	3.0	16	84	3	53	42	18	16	22	1.88
1813939--1813988	3	16.7	3	91	0	82	30	2	2	66	1.14
1817165--1817278	57	2.0	57	100	0	228	40	26	10	22	1.86
1823546--1823790	49	5.0	49	91	0	391	25	21	15	37	1.92
1827647--1827920	136	2.0	137	99	0	541	33	17	20	28	1.95
1830318--1831963	55	30.0	55	83	2	1797	30	19	22	26	1.98
1832363--1832389	13	2.1	13	100	0	54	29	48	0	22	1.51
1833349--1833394	2	23.0	2	100	0	92	50	0	0	50	1.00
1834438--1834504	19	3.5	19	85	0	80	31	25	7	35	1.84
1836245--1836283	10	3.8	10	80	6	51	56	0	5	38	1.22
1836242--1836290	21	2.3	21	96	0	89	63	0	4	32	1.13
1836296--1836320	3	8.3	3	100	0	50	68	0	0	32	0.90
1843856--1843896	20	2.0	21	85	4	57	31	19	21	26	1.97
1847942--1847993	24	2.2	24	82	0	59	50	17	11	21	1.77
1847962--1848080	24	5.0	24	86	6	152	40	19	15	24	1.91
1847965--1848098	24	5.6	24	84	5	137	42	18	14	24	1.87
1850600--1850627	10	2.8	10	100	0	56	21	21	28	28	1.99
1852685--1852771	24	3.6	24	81	3	95	47	18	11	22	1.81
1852708--1852823	24	4.8	24	83	6	137	41	18	14	25	1.89
1855345--1855390	18	2.6	18	78	0	56	13	17	50	19	1.78
1863039--1863255	29	7.5	28	84	8	233	37	14	24	23	1.92
1863037--1863259	87	2.6	86	85	9	276	38	14	24	22	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1863098--1863294	29	6.9	28	85	3	207	39	15	21	23	1.91
1865249--1865297	18	2.7	17	79	20	55	67	4	28	0	1.09
1868152--1868259	45	2.4	46	87	4	148	29	21	20	28	1.98
1868200--1868345	65	2.3	63	82	11	172	26	18	23	32	1.97
1870952--1871031	22	3.6	22	79	5	99	23	25	26	25	2.00
1870930--1871050	43	2.8	42	77	11	129	22	22	28	27	1.99
1870956--1871050	21	4.4	21	77	9	86	24	22	26	27	2.00
1873585--1873864	139	2.0	139	99	0	551	32	17	12	38	1.87
1876984--1877189	65	3.2	64	81	7	229	26	17	23	32	1.97
1877614--1877663	20	2.5	20	83	6	66	38	2	14	46	1.56
1877717--1877770	21	2.7	20	91	5	83	31	5	22	40	1.77
1877860--1877912	19	2.7	20	85	2	63	35	18	7	37	1.80
1882343--1882414	29	2.5	29	76	0	72	41	18	19	20	1.90
1882723--1882799	37	2.1	37	92	0	127	46	15	14	23	1.82
1884098--1884134	19	1.9	19	88	0	56	24	24	21	29	1.99
1885868--1886179	157	2.0	157	98	0	597	35	16	18	29	1.93
1887498--1887548	20	2.5	21	90	6	79	31	11	27	29	1.92
1891361--1891403	2	21.5	2	100	0	86	51	0	0	48	1.00
1892470--1892535	25	2.5	26	75	13	64	53	4	0	42	1.21
1893283--1893379	51	1.9	51	89	6	153	47	4	2	46	1.33
1904233--1904311	2	39.0	2	97	2	149	49	0	1	49	1.09
1913934--1914339	59	6.9	59	89	2	577	30	20	15	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1916803--1916877	33	2.3	33	90	0	123	38	5	20	36	1.75
1928443--1928737	59	5.0	58	90	1	412	30	20	15	32	1.94
1929154--1929278	20	6.5	20	70	15	75	28	24	16	32	1.96
1929163--1929212	22	2.3	22	75	3	57	28	30	12	30	1.92
1938422--1938451	15	2.0	15	93	0	51	36	23	13	26	1.92
1951850--1951899	5	9.8	5	81	12	57	6	22	52	20	1.68
1951843--1951909	27	2.5	26	87	7	98	11	23	46	17	1.82
1951898--1951943	19	2.4	20	79	17	53	34	32	19	13	1.90
1964621--1964657	11	3.4	11	88	0	56	0	2	10	86	0.67
1966204--1966252	19	2.5	19	75	24	57	42	6	0	51	1.27
1966215--1966248	9	3.7	9	88	4	50	44	0	0	55	0.99
1966215--1966251	19	2.1	19	90	10	60	45	0	0	54	1.00
1966849--1966893	19	2.3	19	84	3	54	57	2	4	35	1.31
1966891--1966929	2	19.5	2	100	0	78	48	0	0	51	1.00
1973216--1973248	2	16.5	2	100	0	66	48	0	51	0	1.00
1974149--1974339	99	1.9	98	84	3	249	30	16	16	36	1.91
1977968--1978041	15	4.7	17	73	17	63	66	1	1	31	1.09
1977968--1978040	17	4.3	18	74	11	57	67	1	1	30	1.08
1978005--1978038	4	8.8	4	87	6	52	76	0	0	23	0.79
1978005--1978038	11	2.9	12	86	8	52	76	0	0	23	0.79
1978092--1978141	25	2.0	24	84	11	64	76	10	2	12	1.11
1978165--1978207	15	2.9	15	75	3	52	62	2	6	27	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1979266--1979315	15	3.5	14	78	13	57	80	4	2	14	0.95
1979333--1979476	35	3.9	38	79	14	117	45	4	3	46	1.41
1979359--1979613	35	7.4	34	77	14	181	44	4	4	46	1.45
1979485--1979549	27	2.4	27	73	14	62	46	3	6	44	1.44
1979509--1979612	37	2.7	39	88	4	151	46	5	5	42	1.51
1979509--1979653	76	1.9	76	80	12	172	44	6	6	42	1.56
1981927--1981954	14	2.0	14	100	0	56	42	21	7	28	1.79
1982107--1982138	16	1.9	17	93	6	57	50	0	3	46	1.17
1986091--1986191	34	3.1	34	73	21	126	53	18	8	18	1.70
1986091--1986210	62	1.9	62	96	0	222	53	18	10	17	1.72
1986116--1986210	28	3.2	27	70	21	82	54	17	11	15	1.70
1998636--1998748	60	1.9	60	88	3	174	29	15	7	48	1.71
2001960--2002034	35	2.1	35	90	0	114	32	25	29	13	1.93
2002108--2002201	24	4.0	24	85	2	127	41	20	12	25	1.87
2002111--2002201	47	1.9	48	86	2	130	40	19	13	26	1.88
2004624--2004648	7	3.6	7	100	0	50	28	28	32	12	1.92
2012703--2012735	17	1.9	17	100	0	66	18	0	27	54	1.44
2012725--2012759	18	1.9	18	94	0	61	40	0	14	45	1.45
2013433--2013472	21	1.9	21	85	10	55	52	5	0	42	1.23
2013584--2013657	23	3.4	23	65	14	66	48	2	1	47	1.24
2013770--2013817	22	2.2	21	85	10	62	50	0	0	50	1.00
2017405--2017456	21	2.5	21	90	0	86	34	25	0	40	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2023929--2023979	23	2.2	23	85	0	66	37	7	19	35	1.81
2024007--2024063	23	2.5	23	79	0	60	45	8	8	36	1.66
2023902--2024152	87	2.9	87	90	1	405	44	11	11	32	1.77
2024094--2024173	23	3.5	23	89	0	106	42	10	16	31	1.81
2024007--2024261	110	2.3	110	89	1	377	45	11	10	32	1.75
2024126--2024359	87	2.7	87	89	0	351	43	11	12	31	1.79
2024204--2024263	23	2.6	23	83	0	66	45	10	11	33	1.74
2024048--2024262	110	2.0	110	94	1	378	45	11	11	31	1.76
2023920--2024350	197	2.2	197	91	1	684	44	11	12	32	1.78
2024291--2024340	23	2.2	23	88	0	73	38	12	16	34	1.85

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