genome.fa.s7952.2.7.7.80.10.50.1000.9.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: VEPZ01007952.1 Hibiscus syriacus cultivar Beakdansim tig00110377_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3169409

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

This is table  9  of  16  ( 1872 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)
1628687--1629051	36	10.4	36	76	12	314	28	20	12	38	1.89
1628725--1628791	22	3.4	22	65	26	67	26	25	11	35	1.91
1628687--1628810	37	3.4	37	94	1	205	25	22	13	37	1.91
1628600--1628918	139	2.3	138	90	0	503	31	21	11	36	1.88
1628847--1629105	138	1.9	138	87	0	383	28	19	11	40	1.87
1628729--1629017	101	2.8	101	82	4	348	30	19	11	38	1.87
1629009--1629166	65	2.4	67	88	3	221	32	22	8	36	1.84
1629009--1629187	65	2.7	66	85	5	209	34	21	8	35	1.84
1629899--1630149	110	2.3	110	84	4	325	33	23	19	23	1.97
1631527--1631566	14	2.7	14	84	7	53	32	2	0	65	1.06
1631615--1631681	18	3.6	18	71	25	66	29	2	1	65	1.16
1631645--1631695	18	2.8	18	76	5	59	21	1	3	72	1.11
1631713--1631748	18	2.0	18	89	10	56	16	5	0	77	0.94
1631729--1631753	13	1.9	13	100	0	50	12	8	0	80	0.92
1631767--1631835	36	2.0	34	82	5	84	28	2	4	63	1.28
1631862--1631898	18	2.1	18	94	0	65	13	18	0	67	1.23
1631942--1631976	17	1.9	17	88	11	52	20	2	0	77	0.90
1631955--1632021	26	2.6	27	75	15	70	13	5	5	74	1.19
1633080--1633106	8	3.4	8	100	0	54	11	0	0	88	0.50
1634597--1634635	17	2.3	18	86	8	55	38	2	0	58	1.12
1635633--1635676	2	22.0	2	100	0	88	50	0	0	50	1.00
1635676--1635712	2	18.5	2	94	0	65	0	2	48	48	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1639178--1639373	96	2.0	96	82	0	230	38	17	22	21	1.93
1643678--1643719	19	2.2	19	100	0	84	28	14	38	19	1.90
1643700--1644056	193	1.8	193	96	0	669	28	19	26	26	1.98
1644090--1644169	16	5.5	15	75	14	69	80	1	12	6	0.96
1644124--1644179	16	3.6	16	83	9	71	85	0	12	1	0.67
1644124--1644179	15	3.6	15	83	7	67	85	0	12	1	0.67
1644125--1644181	20	3.0	20	82	5	64	85	0	12	1	0.66
1644125--1644165	1	41.0	1	85	0	55	92	0	7	0	0.38
1645428--1646407	55	18.0	55	80	5	1010	35	17	22	24	1.95
1645428--1646407	106	9.0	106	81	4	807	35	17	22	24	1.95
1645452--1646370	161	5.6	160	81	7	847	35	17	22	25	1.95
1646745--1646781	2	18.5	2	100	0	74	51	48	0	0	1.00
1651842--1651879	20	2.1	18	85	14	51	28	15	23	31	1.96
1651952--1652234	140	2.0	141	99	0	559	30	17	19	32	1.95
1653639--1653690	9	5.3	10	82	13	72	13	19	30	36	1.90
1653705--1653752	18	2.7	18	96	0	87	18	45	16	18	1.85
1653731--1653772	13	3.3	13	86	6	68	16	45	21	16	1.86
1653787--1653853	29	2.3	29	84	0	80	22	8	26	41	1.83
1653816--1653870	29	1.9	28	82	10	67	29	9	21	40	1.84
1660855--1660900	21	2.2	22	81	14	62	13	17	28	41	1.86
1660858--1660907	9	5.1	10	81	13	68	14	20	28	38	1.91
1660923--1660969	18	2.7	18	93	3	78	19	46	17	17	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1660949--1660989	12	3.3	13	86	13	68	17	46	21	14	1.84
1660949--1661003	24	2.2	26	87	9	78	16	41	23	18	1.89
1661004--1661068	27	2.3	28	84	5	78	21	10	26	41	1.86
1664813--1664865	21	2.5	21	96	0	97	30	22	20	26	1.98
1667497--1667593	6	15.8	6	74	19	76	1	65	0	32	0.99
1667495--1667602	26	4.1	27	80	9	109	0	65	0	33	0.99
1667501--1667557	20	3.1	19	85	9	82	0	71	0	28	0.86
1667495--1667597	18	5.5	18	72	15	84	0	66	0	33	0.99
1667599--1667648	22	2.3	22	82	6	57	6	50	0	44	1.26
1667651--1667697	2	23.5	2	100	0	94	48	0	0	51	1.00
1675238--1675398	62	2.6	61	81	3	178	23	22	21	32	1.98
1689276--1689352	15	4.7	15	72	22	66	76	0	12	10	1.02
1689266--1689359	7	13.1	7	72	24	72	75	1	13	9	1.09
1689265--1689359	31	3.0	31	83	10	97	75	1	13	9	1.09
1689264--1689337	16	4.8	16	80	14	84	77	1	13	8	1.06
1689263--1689356	23	4.2	23	76	14	99	77	1	12	8	1.03
1690582--1690836	105	2.4	105	84	2	332	39	17	18	24	1.92
1691004--1691107	3	34.7	3	94	3	183	34	0	0	65	0.93
1701408--1701455	19	2.5	19	100	0	96	16	33	22	27	1.96
1701281--1701440	62	2.6	61	83	4	185	22	23	21	32	1.98
1703603--1703665	17	3.5	17	72	19	65	38	6	15	39	1.73
1703591--1703666	37	2.1	37	100	0	152	39	5	13	42	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1705432--1705598	20	8.3	20	77	7	135	29	8	22	40	1.83
1705432--1705617	41	4.6	40	73	8	139	28	8	23	40	1.83
1707140--1707195	2	28.0	2	100	0	112	50	0	0	50	1.00
1707401--1707425	2	12.5	2	100	0	50	48	0	0	52	1.00
1711518--1711551	18	1.9	17	88	5	50	47	14	2	35	1.60
1711522--1711560	18	2.2	18	85	0	51	48	15	2	33	1.58
1717991--1718061	34	2.1	34	87	7	101	22	30	15	30	1.95
1718316--1718358	21	2.0	21	95	0	77	27	27	20	23	1.99
1718394--1718436	21	2.0	21	100	0	86	13	27	44	13	1.83
1718497--1718535	19	2.0	20	90	5	62	12	23	41	23	1.88
1721466--1721535	34	2.1	32	89	5	104	21	31	15	31	1.95
1721750--1721789	21	1.9	22	90	10	66	12	10	40	37	1.77
1721817--1721859	21	2.0	21	95	0	77	27	27	20	23	1.99
1721964--1721993	15	2.0	15	100	0	60	13	26	33	26	1.93
1721944--1722014	36	2.0	36	86	2	99	14	26	36	22	1.92
1721979--1722020	21	2.0	21	95	0	75	11	28	38	21	1.89
1726245--1726278	15	2.3	15	100	0	68	44	0	14	41	1.45
1735652--1735692	13	3.3	13	80	10	50	70	0	4	24	1.06
1735653--1735716	17	3.1	21	72	27	66	71	0	4	23	1.04
1743729--1743761	13	2.5	13	95	0	57	75	0	15	9	1.03
1751268--1751300	15	2.2	15	100	0	66	15	39	12	33	1.84
1759613--1759681	18	3.9	18	80	14	74	66	1	30	1	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1759638--1759729	26	3.3	26	79	14	96	68	0	28	3	1.05
1759633--1759729	23	4.3	21	75	18	79	68	0	27	4	1.08
1763076--1763127	20	2.6	20	90	0	86	30	11	23	34	1.90
1768595--1768629	17	2.2	17	90	10	56	37	0	14	48	1.44
1768770--1769233	232	2.0	232	100	0	928	40	15	13	29	1.86
1770874--1770901	2	14.0	2	100	0	56	50	0	0	50	1.00
1771376--1771419	21	2.0	22	91	4	72	40	22	4	31	1.74
1774980--1775017	17	2.2	18	85	4	51	50	2	2	44	1.30
1776201--1776243	20	2.1	21	95	4	79	32	13	2	51	1.54
1781399--1781448	26	1.9	26	95	0	91	36	30	22	12	1.90
1782409--1782461	21	2.4	23	81	12	67	26	24	15	33	1.95
1785003--1785196	96	2.0	98	97	2	374	37	14	11	37	1.82
1785431--1785489	21	2.8	21	84	0	73	11	32	35	20	1.89
1793807--1793880	2	38.0	2	89	10	118	48	1	0	50	1.09
1795643--1795684	15	2.8	15	88	0	66	57	2	0	40	1.12
1795759--1795804	10	4.9	10	80	19	55	69	0	0	30	0.89
1795759--1795800	19	2.2	19	87	8	59	69	0	0	30	0.89
1796369--1796579	104	2.0	104	100	0	422	44	11	11	33	1.76
1800167--1800198	14	2.3	14	94	0	55	53	0	0	46	1.00
1802169--1802303	58	2.3	59	82	3	159	46	19	19	14	1.84
1802400--1802432	2	17.0	2	93	6	59	51	0	0	48	1.00
1821803--1822076	48	5.7	48	86	1	363	32	13	20	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1830326--1830350	2	12.5	2	100	0	50	48	0	0	52	1.00
1839962--1840019	24	2.4	24	94	0	98	29	17	17	36	1.92
1845036--1845097	23	2.7	23	82	5	72	25	14	32	27	1.95
1856854--1856959	46	2.3	46	96	0	194	19	23	10	46	1.81
1856854--1856959	20	4.5	26	65	26	92	19	23	10	46	1.81
1858692--1858723	14	2.3	14	100	0	64	6	15	28	50	1.68
1858693--1858740	24	2.0	24	83	0	60	12	12	20	54	1.70
1859495--1859549	16	3.4	16	94	0	92	9	12	20	58	1.61
1868955--1868979	12	2.1	12	100	0	50	40	24	16	20	1.91
1873571--1873595	12	2.1	12	100	0	50	40	24	16	20	1.91

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