genome.fa.s9604.2.7.7.80.10.50.1000.10.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: VEPZ01009604.1 Hibiscus syriacus cultivar Beakdansim tig00116984_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3548142

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

This is table  10  of  17  ( 1985 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)
1666986--1667074	44	2.0	45	88	4	135	39	15	10	34	1.81
1667184--1667226	19	2.3	18	96	4	77	51	0	0	48	1.00
1667259--1667519	86	2.9	91	92	5	415	34	21	14	29	1.93
1667538--1667684	76	1.9	76	91	2	242	52	8	6	31	1.59
1680330--1680644	82	3.8	82	90	0	434	34	23	11	30	1.90
1680346--1680669	41	7.9	41	77	4	341	34	22	10	32	1.88
1682017--1682056	21	1.9	21	94	0	71	32	27	22	17	1.96
1682064--1682099	18	2.0	18	100	0	72	27	33	22	16	1.95
1682017--1682143	46	2.7	46	91	3	191	34	29	18	17	1.94
1682958--1683015	20	2.7	20	86	10	71	22	22	22	32	1.98
1690526--1690634	3	35.7	3	82	14	134	66	0	0	33	0.92
1691079--1692208	564	2.0	560	86	5	1555	27	19	15	37	1.92
1691264--1692206	113	8.4	113	90	1	1378	28	19	14	36	1.92
1692608--1692662	22	2.5	22	87	0	83	36	14	14	34	1.87
1694002--1694175	74	2.3	73	82	3	195	29	21	16	32	1.95
1695256--1695477	114	1.9	114	92	0	372	30	21	15	31	1.95
1697597--1697652	12	3.9	14	74	23	53	3	21	0	75	0.96
1697615--1697654	17	2.4	17	82	0	53	5	20	0	75	0.99
1701732--1701934	66	3.2	66	72	19	243	24	39	3	32	1.72
1701753--1701959	58	3.5	58	72	18	208	23	39	2	34	1.70
1701728--1701972	121	2.0	121	100	0	490	22	41	3	32	1.70
1702395--1702445	24	2.2	23	86	13	70	45	5	0	49	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1704481--1704818	163	2.1	163	90	1	534	27	14	13	44	1.82
1704537--1705031	163	3.1	161	82	4	496	28	15	12	43	1.83
1706715--1706786	34	2.1	34	89	5	110	66	0	5	27	1.13
1710028--1710068	19	2.2	19	91	4	66	63	4	0	31	1.15
1711778--1711843	3	21.0	3	78	9	53	68	1	0	30	0.99
1711777--1711840	25	2.7	23	77	13	76	68	1	0	29	0.99
1711778--1711839	15	4.5	13	78	13	63	69	1	0	29	0.98
1712198--1712242	3	14.7	3	86	4	63	68	2	0	28	1.01
1712198--1712245	25	1.9	25	95	0	87	68	2	0	29	1.01
1712197--1712243	19	2.5	19	82	3	69	70	2	0	27	0.99
1712412--1712631	123	1.8	120	83	9	293	25	16	24	32	1.96
1723607--1723672	3	21.3	3	78	17	64	66	1	0	31	1.01
1723607--1723672	10	6.4	10	78	14	64	66	1	0	31	1.01
1725860--1726183	162	2.0	162	96	3	602	20	20	26	31	1.98
1727892--1727932	11	3.4	12	78	21	50	17	17	0	65	1.27
1731727--1731768	22	1.9	22	90	0	66	28	28	0	42	1.56
1731873--1731919	13	3.2	16	80	17	57	17	19	0	63	1.30
1731894--1731922	13	2.3	13	94	5	51	13	17	0	68	1.20
1734836--1734990	31	5.0	31	89	3	233	20	20	22	36	1.95
1734836--1734979	61	2.3	62	92	1	236	20	20	22	36	1.95
1738157--1738312	31	5.0	31	91	1	242	20	20	22	36	1.95
1746091--1746194	51	2.0	51	100	0	208	34	9	11	44	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1747003--1747190	94	2.1	87	89	9	279	26	25	20	28	1.99
1756763--1756852	3	30.0	3	73	4	65	60	2	1	36	1.17
1756799--1756846	9	5.3	9	92	0	78	58	2	0	39	1.10
1757087--1757737	124	5.3	124	88	4	932	26	17	15	40	1.89
1757087--1757737	240	2.7	241	89	3	954	26	17	15	40	1.89
1758455--1758489	18	1.9	18	100	0	70	57	5	5	31	1.46
1758850--1758900	15	3.6	14	74	10	50	15	7	0	76	1.00
1758832--1758900	30	2.3	31	82	7	79	14	13	0	72	1.12
1758852--1758926	26	2.7	26	82	13	80	16	8	1	74	1.11
1758875--1758926	26	1.9	28	88	7	81	19	7	1	71	1.20
1758881--1758931	14	3.5	15	77	20	54	15	11	1	70	1.25
1771816--1771903	3	29.0	3	72	6	61	61	1	1	36	1.11
1774758--1774813	28	2.0	28	100	0	112	46	7	0	46	1.30
1775424--1775631	65	3.2	63	81	12	217	30	25	18	25	1.98
1781419--1781500	23	3.6	22	78	8	94	25	26	24	23	2.00
1784221--1784380	65	2.5	66	86	9	206	30	23	18	27	1.98
1784221--1784400	65	2.8	64	80	16	194	29	23	18	27	1.98
1788396--1788460	13	5.0	13	76	12	62	40	12	1	46	1.51
1790870--1790930	21	3.2	21	65	29	64	31	4	21	42	1.74
1790862--1790981	35	3.3	36	88	6	172	32	5	19	43	1.72
1795417--1795482	21	3.5	21	67	26	65	28	4	19	46	1.69
1795410--1795525	35	3.3	35	88	8	157	31	3	19	44	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1795375--1795525	69	2.2	68	79	11	173	31	5	19	43	1.74
1799745--1799797	23	2.3	23	96	0	97	20	24	26	28	1.99
1806718--1806780	21	3.2	21	76	17	64	20	0	31	47	1.51
1807854--1807950	15	6.3	15	68	24	69	1	42	0	56	1.06
1807893--1807928	19	1.9	19	88	5	56	0	44	0	55	0.99
1807852--1807949	25	4.0	24	71	18	69	1	43	0	55	1.06
1807897--1807980	15	5.8	14	73	8	53	0	36	3	59	1.15
1809324--1809357	15	2.2	15	89	5	50	38	0	2	58	1.13
1809340--1809408	23	3.0	23	76	0	66	42	1	1	55	1.18
1809289--1809403	61	1.9	61	80	7	135	40	2	3	53	1.32
1809509--1809549	20	2.0	21	90	4	66	51	0	0	48	1.00
1810349--1810425	30	2.6	28	80	13	82	46	10	2	40	1.52
1811076--1811208	22	6.1	22	69	17	73	66	0	4	27	1.16
1811090--1811165	24	3.1	24	78	14	66	64	0	3	31	1.12
1811854--1811955	37	2.8	37	87	0	132	31	13	14	40	1.85
1812708--1814190	106	14.0	106	90	1	2217	23	17	24	33	1.96
1815012--1815086	22	3.4	22	100	0	150	24	12	28	36	1.91
1815723--1815765	15	2.8	16	79	17	54	0	18	9	72	1.11
1819162--1819198	19	1.9	19	89	10	58	67	0	24	8	1.17
1820453--1820507	21	2.5	21	85	11	67	72	0	1	25	0.94
1820513--1820567	22	2.4	25	79	14	64	67	1	1	29	1.11
1820743--1820789	23	2.0	23	84	15	62	70	0	2	27	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1821205--1821297	37	2.5	37	85	0	114	31	13	12	41	1.83
1822355--1822431	20	3.8	20	86	6	111	15	27	41	15	1.87
1822809--1822870	24	2.6	24	100	0	124	24	43	0	32	1.54
1823933--1823979	20	2.4	19	82	10	51	31	12	4	51	1.59
1826208--1826265	20	2.9	21	82	12	61	27	22	12	37	1.89
1828077--1830619	632	4.0	639	95	2	4582	23	14	20	41	1.89
1834754--1834783	15	2.0	15	93	0	51	33	10	6	50	1.62
1834981--1835038	29	2.0	30	83	9	77	60	1	6	31	1.33
1840893--1841267	182	2.1	180	95	4	675	38	9	17	35	1.82
1842719--1842763	19	2.3	19	84	3	54	55	6	13	24	1.62
1844120--1844169	20	2.5	20	83	0	73	30	16	20	34	1.94
1846508--1846561	18	3.2	18	77	20	71	50	9	12	27	1.71
1846509--1846563	17	3.4	17	78	19	71	49	9	12	29	1.72
1852554--1852592	20	2.0	20	89	0	60	43	2	0	53	1.14
1852581--1852628	17	2.9	17	82	11	55	50	2	0	47	1.12
1852734--1852806	32	2.4	29	81	16	87	56	1	0	42	1.08
1852738--1852776	20	2.0	20	84	0	51	53	2	0	43	1.14
1852692--1852803	23	4.8	23	68	15	68	51	0	0	46	1.13
1852843--1852911	30	2.2	32	82	12	81	49	4	0	46	1.21
1852904--1852978	23	2.9	26	77	18	68	49	1	2	46	1.24
1857527--1857575	24	2.0	25	96	4	91	20	24	16	38	1.92
1866502--1866536	15	2.3	15	95	0	61	14	45	17	22	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1867979--1868021	15	2.9	15	96	0	77	58	9	25	6	1.54
1875597--1875704	52	2.1	52	96	0	198	35	7	19	37	1.80
1875612--1875717	52	2.0	52	88	1	140	36	8	18	35	1.82
1877135--1877242	56	1.9	57	88	5	166	52	10	7	29	1.62
1881020--1881131	3	36.7	3	85	3	152	36	0	0	61	1.08
1881249--1881311	27	2.4	27	94	2	110	19	44	19	17	1.87
1883336--1883382	17	2.8	18	78	9	55	23	0	0	76	0.78
1883373--1883409	15	2.7	15	88	12	53	24	5	8	62	1.44
1887237--1887298	30	2.1	30	100	0	124	25	20	9	43	1.83
1890534--1890586	23	2.3	23	83	0	61	37	13	11	37	1.80

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