genome.fa.s1279.2.7.7.80.10.50.1000.8.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: VEPZ01001279.1 Hibiscus syriacus cultivar Beakdansim tig00002511_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6984689

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  8  of  29  ( 3433 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)
1684866--1684921	20	2.8	20	91	0	85	50	23	16	10	1.76
1685307--1685363	22	2.6	22	80	0	69	17	17	42	22	1.89
1685528--1685665	20	6.9	20	83	3	161	26	21	23	28	1.99
1685528--1685665	60	2.3	60	83	2	179	26	21	23	28	1.99
1686345--1686490	39	3.7	39	82	8	181	43	1	9	45	1.45
1686592--1686644	15	3.6	14	89	7	70	16	1	1	79	0.92
1687873--1687929	26	2.2	26	81	6	62	21	7	3	68	1.29
1687881--1687929	25	1.9	26	83	4	64	18	8	4	69	1.30
1693932--1694436	201	2.5	201	89	1	735	32	18	21	26	1.97
1694822--1694911	45	2.0	45	89	10	139	43	4	10	42	1.58
1695004--1695329	5	64.2	5	96	3	607	40	0	0	59	0.97
1695326--1695359	15	2.2	16	89	5	52	14	0	5	79	0.91
1696944--1697270	163	2.0	163	92	0	546	38	13	14	33	1.85
1700325--1700417	25	3.4	24	70	30	71	50	4	2	43	1.34
1700305--1700481	57	3.1	56	84	4	228	48	8	4	38	1.54
1700350--1700405	24	2.2	27	84	9	73	51	3	1	42	1.29
1700983--1701040	30	1.9	30	85	0	80	32	20	36	10	1.87
1709989--1710057	33	2.1	32	83	2	84	14	4	17	63	1.45
1710041--1710097	10	5.3	10	78	15	60	12	10	19	57	1.63
1710154--1710186	16	2.1	16	94	0	57	12	15	18	54	1.71
1710652--1710699	21	2.3	21	85	0	69	47	8	31	12	1.71
1715251--1715380	44	3.0	43	76	8	147	55	20	3	20	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1716740--1716920	75	2.4	74	75	7	186	35	17	22	25	1.95
1717260--1717597	54	6.3	54	90	1	500	28	18	19	33	1.95
1717260--1717597	161	2.1	162	91	1	536	28	18	19	33	1.95
1717279--1717653	108	3.5	106	83	3	387	30	16	19	33	1.94
1717715--1717750	2	18.0	2	100	0	72	50	0	0	50	1.00
1737641--1737670	5	5.8	5	92	7	51	16	0	3	80	0.85
1738294--1738339	24	1.9	24	95	0	83	43	0	6	50	1.28
1740108--1740157	19	2.5	20	81	15	59	32	0	6	62	1.20
1740126--1740178	27	2.0	27	88	7	81	35	0	1	62	1.06
1745527--1745887	185	1.9	186	88	2	539	32	19	17	30	1.95
1745793--1745888	42	2.3	41	80	7	122	34	21	17	26	1.96
1746049--1746145	42	2.3	41	82	3	122	32	22	19	24	1.97
1745701--1746779	257	4.2	256	88	2	1474	34	17	15	33	1.91
1754961--1754985	10	2.5	10	100	0	50	0	0	36	64	0.94
1766281--1766335	18	3.1	18	86	5	85	45	25	12	16	1.83
1769152--1769195	21	2.1	21	83	8	54	20	13	22	43	1.87
1769231--1769270	21	2.0	20	90	5	62	32	20	17	30	1.95
1779064--1779135	22	3.5	20	78	9	74	29	16	26	27	1.97
1779098--1779139	20	2.3	18	81	18	52	30	14	28	26	1.95
1779549--1779960	59	7.0	59	89	2	612	33	11	18	36	1.87
1779549--1779995	119	3.8	118	88	3	627	34	10	18	35	1.86
1779559--1779960	178	2.3	177	91	1	635	33	11	18	37	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1786648--1787051	58	7.0	59	86	7	542	33	11	19	35	1.87
1788219--1788253	2	17.5	2	100	0	70	51	0	0	48	1.00
1798035--1798116	40	2.0	40	97	0	155	32	28	17	21	1.96
1800308--1800373	34	1.9	34	87	0	96	27	24	7	40	1.82
1804853--1805422	182	3.1	188	80	8	634	39	10	17	33	1.83
1806131--1806224	36	2.6	36	93	3	152	47	3	5	43	1.41
1806131--1806257	36	3.5	35	84	10	148	47	3	3	45	1.37
1806203--1806298	37	2.6	37	77	6	97	46	2	4	46	1.33
1806332--1806374	18	2.4	18	80	7	52	18	9	0	72	1.11
1811187--1811232	17	2.7	17	89	0	74	28	30	8	32	1.87
1811477--1811506	13	2.3	13	100	0	60	20	26	20	33	1.97
1813209--1813252	21	2.2	20	87	4	61	34	25	18	22	1.96
1813627--1814553	407	2.3	406	84	5	1197	38	15	10	35	1.82
1815188--1815226	20	2.0	20	89	0	60	38	15	0	46	1.46
1815951--1816002	26	2.0	26	85	7	70	42	1	1	53	1.23
1818474--1818619	78	1.9	75	83	6	186	37	12	17	32	1.87
1826533--1826566	14	2.4	14	90	0	50	32	14	11	41	1.82
1831079--1831124	23	2.0	23	100	0	92	13	17	13	56	1.67
1834538--1834578	22	1.9	21	85	5	55	31	14	31	21	1.94
1834648--1834689	20	2.1	20	90	0	66	30	11	26	30	1.92
1835135--1835466	45	7.4	45	94	0	502	41	9	17	31	1.81
1844798--1844887	2	45.5	2	77	2	74	43	5	1	50	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1847272--1847482	29	7.4	28	80	6	160	32	7	9	50	1.63
1847272--1847511	58	4.2	55	74	9	169	32	8	9	49	1.65
1847408--1847523	29	4.0	28	78	11	110	32	10	6	50	1.61
1847336--1847511	58	3.1	58	77	7	171	31	9	8	50	1.64
1848626--1848652	13	2.1	13	100	0	54	37	0	14	48	1.45
1851095--1851222	43	3.0	43	80	2	123	28	22	10	38	1.87
1857059--1857120	17	3.6	17	76	8	72	32	12	11	43	1.79
1857062--1857137	34	2.2	34	88	0	116	34	15	7	42	1.76
1857110--1857215	17	6.1	17	72	10	74	38	15	9	36	1.79
1872658--1872703	20	2.3	19	85	14	58	26	15	8	50	1.73
1888004--1888536	81	6.6	81	91	0	814	36	11	20	31	1.88
1888546--1888813	46	5.8	46	86	0	347	42	11	21	24	1.86
1888546--1888819	92	3.0	92	89	1	388	42	11	21	25	1.86
1890052--1890251	95	2.1	96	89	2	305	36	16	24	24	1.94
1890978--1891115	68	2.0	68	84	0	177	30	13	24	31	1.94
1891077--1891363	81	3.5	81	87	1	423	37	11	21	28	1.89
1897547--1897585	20	2.0	20	89	0	60	53	10	10	25	1.66
1900410--1900458	21	2.3	21	100	0	98	32	16	14	36	1.89
1901275--1901331	23	2.6	21	73	15	53	29	19	14	36	1.91
1905278--1905405	59	2.2	58	87	2	186	32	11	21	34	1.89
1905757--1906289	81	6.6	81	88	0	753	40	11	20	27	1.87
1905747--1906289	244	2.2	243	87	0	780	40	11	20	27	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1908578--1909055	46	10.4	46	89	0	668	23	20	13	43	1.87
1912730--1913563	419	2.0	418	88	0	1236	30	13	21	34	1.91
1915528--1915565	18	2.1	18	90	0	58	50	18	0	31	1.47
1915375--1915834	229	2.0	229	99	0	902	44	13	9	31	1.77
1915757--1915794	18	2.1	18	90	0	58	50	18	0	31	1.47
1917516--1917573	26	2.2	26	87	6	80	56	0	5	37	1.21
1917579--1917617	16	2.3	18	82	13	55	66	0	0	33	0.92
1917581--1917618	17	2.3	17	90	4	60	65	0	0	34	0.93
1917858--1917964	3	33.7	3	70	12	63	38	2	3	55	1.33
1917860--1917938	16	4.9	16	71	10	54	39	2	3	54	1.32
1917900--1917963	20	3.2	19	77	16	58	37	3	3	56	1.31
1923628--1923668	14	2.9	14	85	0	55	24	21	29	24	1.99
1928853--1928932	30	2.7	29	82	7	97	50	7	12	30	1.68
1928932--1928970	21	1.9	20	84	5	51	53	0	7	38	1.30
1930690--1930728	20	2.0	20	100	0	78	35	30	10	23	1.88
1935078--1935159	22	3.7	22	81	0	101	19	36	15	28	1.93
1935311--1935385	28	2.7	28	81	2	89	38	6	8	46	1.60
1935375--1935419	22	2.0	22	83	8	56	42	4	4	48	1.43
1935397--1935461	29	2.3	28	82	12	80	43	7	3	46	1.48
1938485--1938552	29	2.3	30	84	2	84	32	8	25	33	1.86
1940704--1940794	12	7.7	11	73	18	67	78	4	13	4	1.06
1947094--1947126	4	8.2	4	100	0	66	24	0	0	75	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1953187--1953252	3	22.7	3	93	6	118	34	0	0	65	0.93
1956845--1956906	32	2.0	32	96	3	117	14	14	9	61	1.57
1959625--1959719	44	2.2	45	88	3	140	36	7	25	30	1.83
1968796--1968879	23	3.7	23	86	0	123	32	26	25	16	1.96
1969666--1969723	21	2.8	21	91	0	98	25	24	22	27	2.00
1970475--1970515	22	1.9	21	85	14	57	48	0	0	51	1.00
1977902--1977963	20	3.0	20	76	9	61	24	33	25	16	1.95
1978426--1978464	2	19.5	2	100	0	78	48	0	0	51	1.00
1980236--1980268	16	2.1	16	100	0	66	36	0	18	45	1.49
1992294--1992409	35	3.4	34	80	4	135	24	23	16	36	1.94

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