genome.fa.s8772.2.7.7.80.10.50.1000.9.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: VEPZ01008772.1 Hibiscus syriacus cultivar Beakdansim tig00111877_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3098974

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

This is table  9  of  16  ( 1817 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)
1651795--1651847	22	2.3	23	78	18	58	28	5	0	66	1.15
1651725--1651881	74	2.1	74	80	13	171	25	8	3	63	1.38
1651865--1651933	4	15.8	4	78	21	68	21	0	4	73	1.00
1651865--1651940	9	8.0	9	78	20	75	21	0	3	75	0.97
1651865--1651940	13	5.8	13	77	18	77	21	0	3	75	0.97
1654310--1654348	8	5.0	8	84	6	53	10	17	12	58	1.61
1655465--1655521	19	2.8	20	78	14	64	75	8	15	0	1.04
1655453--1655505	27	2.0	27	85	7	72	73	7	18	0	1.06
1655494--1655524	13	2.4	13	94	0	53	80	9	9	0	0.90
1656134--1656184	22	2.3	22	86	10	68	33	23	15	27	1.95
1657113--1657495	36	10.9	36	75	13	291	27	20	12	39	1.89
1657113--1657495	174	2.2	174	85	1	507	27	20	12	39	1.89
1657241--1657495	138	1.8	138	87	1	377	27	19	13	40	1.89
1657435--1657598	68	2.4	66	74	12	163	29	21	12	35	1.91
1658205--1658722	106	5.0	104	89	4	704	34	25	17	22	1.96
1659270--1659371	34	2.9	36	89	5	163	44	13	12	29	1.81
1659267--1659380	37	3.2	37	85	7	153	42	14	12	30	1.83
1659541--1659571	11	2.7	12	95	5	55	9	0	0	90	0.46
1659541--1659573	14	2.5	13	95	5	57	9	0	0	90	0.44
1660038--1660090	22	2.3	23	78	18	58	28	5	0	66	1.15
1660108--1660172	4	14.8	4	79	20	60	21	0	4	73	1.00
1660096--1660179	41	2.0	42	81	6	109	20	3	4	71	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1662495--1662902	207	2.0	199	81	5	478	35	10	20	33	1.87
1667328--1667731	41	9.9	41	74	10	193	30	19	19	30	1.96
1667351--1667731	82	4.6	82	73	10	285	29	19	19	31	1.96
1667550--1667731	41	4.4	41	82	3	197	27	20	18	33	1.96
1672401--1672687	42	6.8	42	81	8	332	25	24	19	29	1.98
1672401--1672687	85	3.4	85	83	6	359	25	24	19	29	1.98
1672401--1672727	42	7.6	42	80	7	320	25	25	19	30	1.98
1681987--1682052	28	2.4	28	84	5	89	31	13	1	53	1.49
1682564--1682628	29	2.2	28	78	7	76	38	4	20	36	1.73
1689094--1689150	23	2.5	23	85	5	71	24	24	22	28	2.00
1689632--1689672	13	3.1	13	92	3	64	36	14	7	41	1.74
1691749--1691809	22	2.8	22	87	2	88	19	37	21	21	1.94
1692809--1693056	124	2.0	124	99	0	487	43	8	13	34	1.75
1694149--1694174	2	13.0	2	100	0	52	50	0	0	50	1.00
1694559--1694632	34	2.3	32	84	9	89	36	4	1	58	1.26
1694679--1694751	33	2.2	33	78	4	76	35	2	4	57	1.32
1696433--1696471	19	2.1	19	90	9	62	56	0	2	41	1.13
1696700--1696748	3	16.3	3	100	0	98	67	0	0	32	0.91
1698049--1698101	26	2.0	26	88	0	79	26	11	22	39	1.88
1699556--1699592	17	2.2	17	100	0	74	35	10	16	37	1.83
1702424--1702473	17	2.9	17	75	18	50	44	8	0	48	1.32
1702540--1702622	35	2.3	37	83	10	125	37	3	3	55	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1707167--1707262	45	2.1	45	96	0	174	25	13	9	52	1.70
1709013--1709383	194	1.9	192	89	2	573	19	18	17	44	1.87
1724252--1724709	246	1.9	241	89	7	721	29	12	16	41	1.85
1725042--1725099	17	3.4	17	87	2	71	29	25	6	37	1.82
1735080--1735104	13	1.9	13	100	0	50	32	0	8	60	1.26
1735437--1735548	51	2.2	52	77	19	119	50	1	0	47	1.18
1735469--1735537	23	3.0	22	77	16	68	49	0	1	49	1.09
1735469--1735537	24	2.9	25	77	18	67	49	0	1	49	1.09
1735523--1735577	26	2.2	25	84	9	69	50	1	1	45	1.22
1735640--1735697	27	2.1	27	84	12	75	44	1	3	50	1.29
1737364--1737416	2	27.0	2	96	3	99	50	0	0	49	1.00
1739527--1739559	17	1.9	17	100	0	66	36	18	18	27	1.94
1741045--1741090	12	3.8	12	82	0	56	36	26	0	36	1.57
1741296--1741350	24	2.3	24	83	0	74	40	21	21	16	1.91
1741341--1741439	23	4.5	22	82	6	110	36	26	22	15	1.93
1742538--1742584	20	2.3	20	85	0	58	21	19	17	42	1.89
1746415--1746453	17	2.2	18	86	13	55	30	33	2	33	1.72
1746968--1747012	14	3.3	14	84	3	56	48	15	4	31	1.65
1753976--1754062	32	2.8	32	84	3	115	20	11	9	58	1.60
1756814--1756882	36	1.9	36	93	0	120	31	30	17	20	1.95
1757292--1757330	19	2.1	19	100	0	78	23	5	30	41	1.76
1758185--1758239	27	2.0	29	85	7	78	29	18	9	43	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1762900--1762982	30	2.8	30	96	0	148	59	6	0	34	1.22
1765132--1765161	2	15.0	2	100	0	60	50	0	0	50	1.00
1765449--1765551	36	2.9	36	94	0	170	26	17	14	41	1.88
1766007--1766067	28	2.2	28	96	0	113	40	9	19	29	1.84
1766080--1766128	18	2.7	18	84	6	64	38	4	20	36	1.72
1766958--1767202	124	2.0	124	90	0	391	32	9	24	33	1.87
1772884--1772982	36	2.8	36	95	0	171	26	15	17	41	1.88
1773245--1773310	28	2.4	28	94	0	114	40	9	19	30	1.83
1775411--1775455	23	2.0	23	86	0	63	22	22	24	31	1.99
1780013--1780047	16	2.2	16	94	0	61	48	2	25	22	1.64
1781047--1781100	20	2.8	20	80	2	56	27	16	27	27	1.97
1781703--1781760	23	2.5	23	94	0	98	18	29	25	25	1.98
1783036--1783229	73	2.7	72	87	4	264	41	12	21	24	1.88
1783027--1783229	74	2.8	74	85	5	268	40	14	20	23	1.90
1794601--1794633	16	2.1	16	100	0	66	45	6	18	30	1.73
1795180--1795226	16	2.8	17	87	6	69	40	6	23	29	1.79
1819136--1819165	15	2.0	15	100	0	60	13	46	26	13	1.80
1823134--1823178	22	2.0	22	100	0	90	31	4	31	33	1.78
1827887--1827926	19	2.1	19	90	0	62	52	7	5	35	1.51
1839301--1839339	17	2.4	17	95	4	71	51	5	0	43	1.24
1840163--1840211	17	2.9	17	87	0	71	42	4	16	36	1.67
1841441--1841489	15	3.2	15	82	5	62	65	4	0	30	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1841431--1841490	8	7.6	8	72	10	52	61	5	0	33	1.17
1841456--1841524	24	3.0	24	73	12	56	60	5	2	30	1.34
1843860--1843946	5	17.4	5	77	18	69	80	3	0	16	0.84
1843857--1843941	7	12.6	7	77	20	92	81	2	0	16	0.80
1843860--1843940	33	2.5	31	83	16	112	81	2	0	16	0.80
1843860--1843946	20	4.1	20	79	19	88	80	3	0	16	0.84
1847269--1847326	27	2.1	27	100	0	116	50	10	15	24	1.75
1849364--1849437	37	2.0	37	100	0	148	10	29	10	48	1.72
1853990--1854125	64	2.1	64	97	1	256	17	25	29	27	1.98
1854025--1854126	33	3.2	33	63	19	79	18	24	30	26	1.98
1857800--1857888	22	4.0	22	79	7	99	17	25	24	31	1.97
1862383--1862488	4	27.8	4	75	17	75	0	69	0	29	0.94
1862407--1862555	34	4.5	32	76	19	119	0	67	0	32	0.96
1862461--1862558	2	51.0	2	75	8	51	0	61	1	37	1.03
1862377--1862558	94	2.0	90	81	12	210	0	65	0	33	1.01
1862381--1862557	25	6.8	25	73	21	127	0	66	0	32	1.01
1862613--1862664	2	26.0	2	100	0	104	50	0	0	50	1.00
1864172--1864230	2	29.5	2	100	0	118	50	0	0	49	1.00
1864567--1864653	29	2.9	29	81	13	104	45	0	19	34	1.51
1866976--1867030	21	2.6	21	77	8	58	34	21	20	23	1.97
1867018--1867266	20	12.4	20	82	5	227	38	25	17	19	1.93
1867957--1868003	24	2.0	24	83	8	60	25	12	21	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1868178--1868202	12	2.1	12	100	0	50	72	0	28	0	0.86
1870482--1870731	33	7.2	33	71	17	184	46	18	22	13	1.83
1870495--1870731	53	4.5	53	97	1	440	46	17	22	13	1.83
1870495--1870737	19	13.7	19	77	18	274	45	17	22	13	1.84
1870482--1870660	86	2.1	84	85	12	240	46	18	22	12	1.83
1870495--1870731	105	2.2	106	96	0	440	46	17	22	13	1.83
1870708--1870823	53	2.2	52	84	3	151	19	23	18	38	1.93
1870746--1870833	19	4.8	19	79	14	114	14	22	14	47	1.81
1870924--1870960	14	2.6	14	91	0	65	45	21	0	32	1.52
1872873--1873026	19	8.6	19	73	14	130	45	22	20	11	1.83

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