genome.fa.s295.2.7.7.80.10.50.1000.8.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: VEPZ01000295.1 Hibiscus syriacus cultivar Beakdansim tig00000541_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2017499

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 1002 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)
1496372--1496440	24	2.8	25	84	6	97	53	17	13	15	1.73
1496804--1496864	27	2.3	27	94	5	106	37	21	11	29	1.88
1500305--1500362	24	2.4	24	70	0	62	51	17	13	17	1.76
1500684--1500744	27	2.3	27	88	5	88	40	19	9	29	1.84
1507780--1507820	22	1.9	21	85	14	57	75	0	4	19	0.98
1507906--1507935	14	2.1	14	100	0	60	26	13	6	53	1.64
1508463--1508605	76	1.9	75	86	5	207	59	10	0	29	1.36
1510801--1510883	2	41.5	2	100	0	166	50	0	0	49	1.00
1513079--1513220	65	2.2	65	83	8	175	26	16	22	35	1.95
1521768--1521948	65	2.8	64	77	9	170	28	17	21	33	1.96
1525952--1526014	19	3.2	19	75	4	54	55	12	0	31	1.37
1525961--1526102	76	1.9	74	86	4	205	58	11	1	28	1.42
1539972--1539996	13	1.9	13	100	0	50	40	24	28	8	1.83
1544357--1544402	6	7.7	6	100	0	92	32	0	17	50	1.47
1556410--1556449	8	4.8	8	84	9	53	85	0	15	0	0.61
1556394--1556449	17	3.1	18	82	15	71	78	1	16	3	0.97
1568406--1568466	28	2.2	28	96	0	113	49	6	11	32	1.65
1568476--1568534	29	2.0	29	100	0	118	25	0	20	54	1.45
1574656--1574705	14	3.6	14	81	2	57	36	18	24	22	1.95
1579354--1579517	44	3.7	43	81	7	195	32	22	26	18	1.97
1580169--1581284	555	2.0	556	96	0	2045	32	16	12	39	1.85
1586993--1587030	20	1.9	20	94	0	67	28	13	39	18	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1597203--1597246	22	2.0	22	90	0	70	29	22	25	22	1.99
1597206--1597253	22	2.2	22	84	0	60	33	20	20	25	1.97
1602034--1602059	12	2.2	12	100	0	52	34	7	19	38	1.80
1609709--1609776	29	2.3	29	89	0	100	38	20	25	16	1.92
1609840--1609877	17	2.2	18	90	4	60	15	13	50	21	1.78
1622088--1622138	22	2.3	22	86	3	66	17	23	31	27	1.97
1622605--1622635	13	2.4	13	100	0	62	51	6	0	41	1.27
1627657--1627836	45	4.0	45	91	2	281	36	6	22	34	1.79
1637440--1637474	13	2.7	13	90	0	52	37	0	8	54	1.31
1640261--1640381	58	2.1	57	84	6	156	27	19	27	25	1.99
1640464--1640617	45	3.4	45	80	2	166	38	7	21	31	1.82
1641046--1641071	11	2.4	11	100	0	52	26	0	15	57	1.38
1643344--1643417	28	2.6	29	76	18	75	78	0	13	8	0.96
1643379--1643420	17	2.5	17	76	7	50	80	0	14	4	0.86
1646486--1646553	29	2.3	29	82	0	73	42	23	5	27	1.77
1646531--1646645	29	4.0	29	88	4	169	46	20	9	23	1.79
1646649--1646685	13	2.8	13	83	0	56	13	18	48	18	1.80
1653828--1653907	29	2.8	29	92	0	115	46	22	8	22	1.79
1657098--1657209	57	2.0	56	87	1	161	29	18	25	26	1.98
1657475--1657499	13	1.9	13	100	0	50	16	16	28	40	1.89
1674294--1674609	156	2.0	157	98	1	616	39	11	10	38	1.76
1677254--1677397	44	3.3	43	81	2	153	30	23	23	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1681726--1681767	2	21.0	2	95	0	75	50	2	0	47	1.14
1684198--1684383	89	2.1	91	87	2	268	23	26	24	25	2.00
1689791--1689842	27	2.0	27	85	11	72	19	9	21	50	1.76
1690634--1690666	17	1.9	17	93	0	57	27	24	30	18	1.98
1700510--1700568	24	2.5	24	85	0	82	50	18	10	20	1.75
1705027--1705057	2	15.5	2	93	0	53	51	3	0	45	1.17
1705221--1705292	24	3.0	24	80	8	83	52	18	9	19	1.72
1705221--1705329	48	2.3	47	82	6	121	49	16	12	21	1.78
1709933--1710005	24	3.0	24	82	7	94	52	17	6	23	1.69
1714406--1714481	29	2.6	29	80	0	89	44	25	7	22	1.79
1714536--1714590	10	5.6	10	85	10	78	34	29	21	14	1.93
1714536--1714591	19	2.9	19	87	10	78	33	28	21	16	1.95
1721745--1721797	18	2.9	18	94	0	88	11	22	45	20	1.83
1721774--1721805	13	2.5	13	100	0	64	12	25	40	21	1.88
1721756--1721817	31	2.0	31	87	0	88	14	24	41	19	1.88
1721809--1721863	10	5.6	10	85	10	78	34	29	21	14	1.93
1721809--1721864	19	2.9	19	87	10	78	33	28	21	16	1.95
1722670--1722761	12	7.8	12	73	16	66	18	15	18	47	1.82
1722656--1722763	47	2.3	46	82	12	130	19	14	17	48	1.82
1722656--1722765	24	4.6	24	77	8	111	20	14	17	48	1.81
1726214--1726249	18	2.0	18	88	0	54	52	0	16	30	1.44
1727369--1727437	12	5.8	12	75	10	52	17	13	18	50	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1727370--1727441	24	3.0	23	82	6	90	19	11	18	51	1.75
1730486--1730519	18	2.0	18	88	11	54	58	2	5	32	1.37
1737605--1737638	16	2.0	18	88	11	54	52	2	5	38	1.41
1739983--1740016	18	2.0	18	88	11	54	58	2	5	32	1.37
1742254--1742287	18	2.0	18	88	11	54	58	2	5	32	1.37
1744523--1744557	18	2.0	18	88	5	54	54	2	5	37	1.39
1746795--1746830	18	2.0	18	88	0	54	55	2	5	36	1.38
1753816--1753850	18	2.0	18	88	5	54	54	2	5	37	1.39
1758471--1758505	18	2.0	18	88	5	54	54	2	5	37	1.39
1762871--1762962	45	2.0	45	93	0	157	32	20	18	28	1.96
1772380--1772412	15	2.1	16	88	5	50	48	0	9	42	1.35
1774761--1774794	15	2.2	16	89	5	52	58	0	11	29	1.33
1777139--1777173	15	2.2	16	90	5	54	60	0	11	28	1.32
1779507--1779541	15	2.2	16	90	5	54	60	0	11	28	1.32
1781885--1781918	15	2.2	16	89	5	52	58	0	11	29	1.33
1784263--1784296	15	2.2	16	89	5	52	58	0	11	29	1.33
1786646--1786708	24	2.6	24	89	0	90	34	15	20	28	1.94
1786631--1786717	24	3.6	24	80	0	84	40	16	14	28	1.88
1789797--1789829	15	2.1	16	88	5	50	48	0	9	42	1.35
1813438--1813690	80	3.2	80	89	1	380	32	25	21	20	1.97
1816277--1816391	24	4.8	24	84	4	151	42	19	15	22	1.88
1816260--1816396	48	2.8	48	82	5	152	43	19	13	22	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1816253--1816408	72	2.2	72	78	6	174	46	19	12	21	1.83
1817867--1817993	63	2.0	63	93	0	218	29	29	8	32	1.87
1818936--1818994	18	3.3	18	80	4	75	13	22	47	16	1.82
1820187--1820227	19	2.1	20	82	13	50	58	0	4	36	1.20
1821486--1821607	29	4.3	29	77	6	99	45	22	2	30	1.65
1821507--1821660	83	1.9	83	83	2	202	42	23	5	29	1.76
1821506--1821622	29	4.2	28	73	12	80	41	22	3	32	1.70
1821666--1821705	18	2.3	18	91	4	64	12	22	45	20	1.84
1827448--1827514	29	2.3	29	100	0	134	38	23	0	37	1.55
1828537--1828651	24	4.8	24	86	4	151	41	19	13	25	1.88
1828517--1828668	72	2.1	71	77	8	155	44	19	11	24	1.84
1832067--1832392	81	4.0	80	83	5	386	32	24	20	21	1.98
1832067--1832392	161	2.0	163	83	5	419	32	24	20	21	1.98
1835888--1836095	111	1.9	110	85	5	285	37	22	6	34	1.79
1837248--1837318	24	3.0	24	78	0	79	21	12	16	49	1.79
1838774--1838812	20	2.0	20	94	0	69	23	28	20	28	1.99
1839321--1839432	59	1.9	59	83	3	145	31	20	16	32	1.94
1839423--1839598	59	3.0	58	72	11	151	28	21	11	38	1.88
1841721--1841766	23	2.0	23	91	0	74	17	36	19	26	1.94
1848384--1848432	19	2.6	18	81	9	62	18	4	4	73	1.15
1857468--1857541	24	3.1	24	90	0	76	44	18	13	22	1.85
1857478--1857590	24	4.7	25	89	5	144	37	20	18	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1862142--1862217	24	3.2	24	88	0	62	46	19	13	21	1.84
1862158--1862269	24	4.7	24	92	0	161	36	18	19	25	1.94
1866682--1866793	48	2.3	49	87	3	165	35	19	18	25	1.95
1866682--1866802	24	5.0	24	86	7	97	38	18	18	25	1.93
1872650--1872698	22	2.1	25	82	17	61	46	8	12	32	1.71
1873094--1873198	53	2.0	53	100	0	210	26	15	5	52	1.65
1875626--1875664	18	2.1	19	85	4	53	64	5	10	20	1.44
1877384--1877430	20	2.3	20	89	7	69	17	14	2	65	1.36
1883332--1883450	24	5.0	24	82	6	134	40	18	16	24	1.91
1883335--1883468	24	5.6	24	81	5	128	42	17	14	24	1.88

Tables:   1   2   3   4   5   6   7   8   9