genome.fa.s1838.2.7.7.80.10.50.1000.9.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: VEPZ01001838.1 Hibiscus syriacus cultivar Beakdansim tig00003721_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3924084

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  9  of  18  ( 2134 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)
1667574--1667630	24	2.4	24	90	0	87	24	12	7	56	1.61
1670268--1670303	18	2.1	17	89	5	54	72	0	2	25	0.98
1672147--1672429	84	3.4	84	81	0	323	25	19	23	32	1.97
1672431--1673203	124	6.2	123	87	2	1046	26	16	23	33	1.96
1672439--1673203	372	2.1	372	88	1	1156	26	16	23	33	1.96
1677615--1677670	20	2.7	21	94	2	96	25	26	25	23	2.00
1683348--1683408	22	2.9	21	79	11	63	31	26	18	24	1.97
1683367--1683445	22	3.7	21	75	9	79	25	24	25	25	2.00
1684990--1685033	21	2.1	21	83	8	54	9	40	13	36	1.76
1685624--1685656	2	16.5	2	100	0	66	48	0	0	51	1.00
1686191--1686299	57	1.9	56	85	5	148	29	22	20	28	1.98
1686280--1686328	19	2.6	19	84	9	57	24	28	20	26	1.99
1688900--1688993	48	2.0	48	97	0	179	22	17	8	52	1.71
1689358--1689555	108	1.8	109	83	5	267	27	24	5	43	1.75
1691364--1691410	24	2.0	24	87	8	69	23	10	14	51	1.74
1694439--1694557	42	2.8	42	87	0	184	21	18	14	45	1.85
1697473--1697556	23	3.7	23	88	0	123	28	25	27	19	1.98
1699332--1699420	18	4.9	18	90	0	124	20	17	31	30	1.96
1706242--1706311	18	3.9	18	90	1	106	20	18	32	28	1.96
1713169--1713208	21	2.0	21	95	5	73	20	27	22	30	1.98
1713487--1713754	133	2.0	133	100	0	536	32	14	8	44	1.75
1713880--1714132	126	2.0	126	100	0	506	39	22	7	31	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1717738--1717790	24	2.2	24	83	6	63	60	9	9	20	1.55
1717726--1717830	54	2.0	52	83	3	129	60	9	11	18	1.56
1719403--1719427	3	8.3	3	100	0	50	64	0	0	36	0.94
1719426--1719455	3	10.0	3	100	0	60	33	0	0	66	0.92
1719854--1719889	18	2.0	18	100	0	72	33	11	27	27	1.91
1719953--1720003	21	2.3	23	83	10	61	58	11	3	25	1.50
1720385--1720623	59	4.1	59	93	1	390	28	19	13	38	1.90
1721583--1721610	12	2.3	12	100	0	56	7	46	0	46	1.30
1730820--1730909	31	2.9	31	80	6	112	33	21	21	24	1.97
1744642--1744710	26	2.8	25	77	16	65	50	5	1	42	1.35
1746095--1746142	8	5.6	9	76	23	50	56	2	0	41	1.11
1746093--1746142	14	3.5	14	84	12	66	56	2	0	42	1.11
1750425--1750463	5	7.4	5	88	11	60	20	35	25	17	1.95
1750425--1750463	16	2.4	16	100	0	78	20	35	25	17	1.95
1750425--1750463	11	3.7	10	90	10	60	20	35	25	17	1.95
1751923--1751976	25	2.1	25	82	6	63	20	3	7	68	1.30
1767809--1768108	152	2.0	152	97	0	564	22	19	11	46	1.82
1769720--1769775	3	19.0	3	78	10	62	28	3	1	66	1.19
1769710--1769767	28	2.1	28	90	6	91	24	5	3	67	1.27
1777448--1777577	37	3.5	36	73	15	115	32	20	10	37	1.85
1777616--1777712	30	3.2	30	88	0	131	41	9	10	39	1.71
1777679--1778068	64	6.0	64	81	4	460	34	12	10	43	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1777657--1778048	131	3.0	131	96	1	716	33	11	10	43	1.76
1778225--1778268	15	2.9	15	93	0	70	31	20	4	43	1.72
1778478--1778595	63	1.9	62	84	8	159	28	18	11	40	1.86
1778676--1779168	46	11.5	45	73	15	327	24	31	18	25	1.97
1778673--1779158	130	3.8	130	91	3	766	24	31	18	24	1.97
1778682--1779143	89	5.4	83	74	12	271	24	32	18	24	1.97
1779347--1779408	3	21.0	3	80	9	74	29	3	1	66	1.17
1782124--1782289	81	2.0	81	87	2	235	34	10	28	25	1.90
1782929--1783027	33	3.0	33	89	1	153	24	13	24	38	1.91
1787666--1787760	33	2.9	33	90	3	147	25	15	23	35	1.94
1787664--1787785	33	3.6	34	85	6	124	24	15	22	37	1.93
1793964--1794021	24	2.4	24	85	0	80	41	12	15	31	1.84
1794354--1794619	120	2.2	120	86	5	387	45	7	16	30	1.75
1802955--1803012	26	2.2	26	93	0	98	36	24	13	25	1.92
1805556--1805583	11	2.5	11	100	0	56	39	14	0	46	1.44
1810165--1810196	2	16.0	2	100	0	64	0	50	0	50	1.00
1813847--1813970	33	3.6	35	79	16	111	66	1	0	30	1.06
1814103--1814368	36	7.3	36	81	5	259	43	8	3	44	1.53
1814103--1814367	74	3.7	71	79	6	275	43	8	3	44	1.53
1826038--1826513	239	2.0	238	94	0	835	32	17	18	32	1.94
1832198--1832236	15	2.5	16	91	4	62	12	30	30	25	1.93
1832198--1832249	15	3.3	15	86	8	50	15	28	30	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1832291--1832343	15	3.4	15	75	10	61	18	28	30	22	1.98
1838306--1838349	22	2.0	22	90	0	70	54	4	18	22	1.61
1843227--1843393	39	4.3	39	83	3	174	32	24	24	18	1.97
1843220--1843393	78	2.2	78	82	2	197	32	25	24	18	1.97
1844187--1844224	15	2.5	15	100	0	76	23	26	36	13	1.91
1847822--1847868	21	2.3	21	88	3	69	12	12	29	44	1.80
1848224--1848468	98	2.5	98	94	1	420	32	11	9	45	1.74
1849655--1849685	14	2.2	14	100	0	62	29	32	22	16	1.95
1854035--1854100	30	2.2	30	100	0	132	18	25	21	34	1.96
1854248--1854302	19	2.9	19	97	0	101	32	25	16	25	1.96
1854326--1854400	20	3.8	20	96	0	132	24	22	20	33	1.97
1854944--1855073	40	3.3	39	76	6	138	15	16	21	46	1.84
1854952--1855066	20	5.9	19	87	3	131	13	18	21	46	1.84
1855106--1855522	205	2.0	205	99	0	825	33	12	13	40	1.83
1857184--1857252	20	3.5	20	95	0	120	36	24	23	15	1.94
1857294--1857330	19	1.9	19	94	0	65	8	13	29	48	1.71
1857295--1857374	33	2.4	33	85	4	99	11	16	23	48	1.78
1857367--1857414	20	2.4	20	92	0	78	18	18	27	35	1.95
1857382--1857444	20	3.2	20	88	0	81	14	15	23	46	1.83
1857950--1858041	42	2.2	42	86	3	123	22	38	17	21	1.93
1857919--1858026	21	5.1	21	74	4	92	19	37	18	25	1.94
1857972--1858041	21	3.3	21	72	4	61	22	37	18	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1858452--1858486	18	1.9	18	94	0	61	17	2	25	54	1.57
1860770--1860821	24	2.2	24	82	0	59	36	21	19	23	1.95
1861576--1861672	20	4.8	20	72	7	88	27	16	25	29	1.97
1861633--1861697	21	3.1	21	72	12	71	21	9	26	43	1.82
1861608--1861716	41	2.7	41	88	2	166	24	12	26	35	1.92
1862344--1862781	218	2.0	218	97	0	831	24	20	19	35	1.95
1870848--1870888	18	2.3	18	91	8	66	19	12	19	48	1.80
1883740--1883781	22	2.0	21	85	4	57	45	9	0	45	1.36
1884259--1884408	55	2.8	52	80	4	156	48	9	14	28	1.74
1889527--1889600	36	2.1	36	82	10	89	62	1	9	27	1.34
1891108--1891149	19	2.2	19	100	0	84	57	4	4	33	1.41
1892433--1892467	15	2.4	14	86	9	52	31	11	0	57	1.34
1898490--1898521	17	1.9	16	93	6	55	56	3	0	40	1.15
1899751--1899956	44	4.7	44	87	1	306	25	24	11	38	1.88
1899815--1899887	25	3.2	24	62	22	57	24	24	12	38	1.90
1904334--1904358	11	2.3	11	100	0	50	44	24	0	32	1.54
1904532--1904752	44	5.0	44	84	2	291	25	23	9	41	1.85
1906555--1906834	140	2.0	140	95	1	499	16	35	12	35	1.87
1907132--1907182	26	2.0	26	96	0	93	39	13	19	27	1.90
1907161--1907195	17	2.1	17	94	0	61	42	14	17	25	1.86
1908525--1908900	144	2.6	144	78	2	342	37	19	14	28	1.91
1910951--1911025	38	2.0	38	84	10	100	42	1	2	53	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1911532--1911582	18	2.8	18	96	0	93	7	15	5	70	1.30
1914532--1914562	15	2.1	15	93	0	53	45	0	0	54	0.99
1914722--1914759	20	1.9	20	88	0	58	21	26	10	42	1.85
1920970--1921015	19	2.4	21	76	23	57	32	2	0	65	1.05
1924788--1924883	21	4.5	22	75	12	76	33	11	27	28	1.91
1924786--1924883	42	2.3	42	77	3	108	33	11	27	27	1.91
1926846--1926870	12	2.1	12	100	0	50	24	32	16	28	1.96
1932516--1932743	113	2.0	112	89	2	350	41	14	16	27	1.87
1934137--1934161	13	1.9	13	100	0	50	12	0	0	88	0.53
1934342--1934433	15	5.9	15	76	9	94	23	30	26	19	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18