genome.fa.s482.2.7.7.80.10.50.1000.9.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: VEPZ01000482.1 Hibiscus syriacus cultivar Beakdansim tig00000916_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2886609

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

This is table  9  of  16  ( 1801 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)
1576292--1576816	105	4.9	105	89	6	749	34	25	17	22	1.96
1576512--1576671	43	3.4	43	68	18	131	35	25	18	20	1.95
1576699--1576732	12	2.8	12	90	0	59	38	26	8	26	1.85
1576594--1576822	118	1.9	118	93	0	395	35	25	17	21	1.95
1578449--1578491	8	5.6	8	81	8	54	37	0	9	53	1.33
1578755--1578842	47	2.0	47	82	8	112	12	11	4	71	1.28
1580293--1580317	3	8.3	3	100	0	50	32	0	0	68	0.90
1579955--1580615	344	1.9	347	86	4	960	28	14	16	40	1.87
1583615--1583666	11	4.5	11	78	9	50	53	1	1	42	1.23
1584429--1584563	60	2.2	60	96	1	243	42	14	16	26	1.87
1584628--1584662	18	1.9	18	88	0	52	42	2	2	51	1.31
1584655--1584715	28	2.2	28	82	8	72	54	0	1	44	1.10
1587468--1587500	17	1.9	17	88	11	50	39	6	0	54	1.25
1592670--1592798	24	5.4	24	81	0	150	23	10	13	53	1.69
1594044--1594221	90	2.0	90	88	4	270	37	11	6	44	1.67
1594183--1594252	22	3.3	20	70	20	61	50	4	4	41	1.42
1600854--1601016	90	1.8	89	89	4	256	39	8	6	44	1.61
1600981--1601050	22	3.3	20	70	20	61	50	4	4	41	1.42
1604226--1604404	40	4.7	37	80	10	191	44	7	3	45	1.48
1607375--1607414	18	2.3	18	91	4	64	47	0	0	52	1.00
1607649--1607700	21	2.3	22	81	15	54	48	7	0	44	1.31
1607649--1607699	23	2.2	22	83	13	59	47	7	0	45	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1608361--1608403	22	2.0	21	82	8	52	48	2	0	48	1.14
1611995--1612033	11	3.5	11	85	3	51	17	10	0	71	1.12
1626278--1626362	14	5.9	14	72	10	64	31	10	20	37	1.86
1626276--1626330	28	2.0	28	92	0	92	34	10	16	38	1.84
1626439--1626501	23	2.7	23	72	0	72	19	26	23	30	1.98
1626743--1626807	34	1.9	34	90	0	103	26	23	15	35	1.94
1627232--1627284	20	2.7	20	81	0	70	30	18	13	37	1.89
1630034--1630103	20	3.6	19	84	1	77	30	20	15	34	1.93
1630052--1630103	20	2.7	20	93	3	88	30	17	17	34	1.93
1630236--1630289	23	2.3	24	75	9	58	20	22	24	33	1.97
1630812--1630840	15	1.9	15	100	0	58	17	0	13	68	1.20
1633083--1633141	31	1.9	32	86	6	86	23	13	11	50	1.74
1633396--1633452	3	19.0	3	100	0	114	33	0	0	66	0.92
1633537--1633675	60	2.3	61	82	8	169	34	23	3	38	1.72
1633920--1634079	60	2.7	60	87	1	223	38	6	21	33	1.78
1633920--1634067	29	5.0	30	67	18	94	38	5	21	34	1.77
1636290--1636353	2	32.0	2	100	0	128	50	0	0	50	1.00
1638998--1639022	13	1.9	13	100	0	50	64	0	12	24	1.27
1640598--1640642	23	2.0	23	86	0	63	53	2	2	42	1.25
1640729--1640827	49	2.0	50	82	5	121	51	0	1	47	1.07
1644072--1644162	3	30.3	3	100	0	182	65	0	34	0	0.93
1649481--1649511	2	15.5	2	100	0	62	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1652768--1652822	22	2.4	23	79	14	60	1	32	5	60	1.30
1653962--1653995	16	2.1	16	94	0	59	44	8	5	41	1.60
1654449--1654478	5	6.0	5	92	0	51	63	0	36	0	0.95
1658993--1659073	41	2.0	41	82	4	101	18	17	45	18	1.86
1667353--1667377	13	1.9	13	100	0	50	40	0	4	56	1.18
1667352--1667412	15	3.9	15	75	14	61	44	0	4	50	1.23
1675204--1675355	65	2.4	64	79	7	155	32	17	19	30	1.95
1675710--1675736	14	1.9	14	100	0	54	40	7	7	44	1.60
1675678--1675740	33	1.9	32	90	3	99	34	17	6	41	1.75
1676013--1676076	8	7.8	8	83	13	85	53	32	0	14	1.41
1686341--1686496	65	2.4	64	80	9	165	31	19	19	30	1.96
1687822--1687899	41	1.9	41	84	5	104	23	21	21	33	1.97
1688812--1688874	21	3.1	21	73	17	69	36	30	19	14	1.91
1690402--1690514	20	5.7	20	96	0	199	40	21	18	19	1.91
1690501--1690567	20	3.3	20	95	0	116	31	26	19	22	1.98
1692021--1692107	20	4.3	21	78	16	87	39	20	19	20	1.93
1692021--1692107	40	2.2	40	87	4	122	39	20	19	20	1.93
1692035--1692108	20	3.7	20	87	0	94	37	21	18	21	1.94
1693306--1693417	42	2.7	42	76	5	111	22	18	37	21	1.94
1693897--1694005	20	5.4	20	91	2	139	34	22	18	23	1.96
1694012--1694130	53	2.2	53	80	5	134	16	17	21	44	1.87
1694049--1694096	20	2.4	20	82	0	60	20	16	25	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1694070--1694163	33	2.8	34	78	3	109	13	17	23	45	1.84
1694018--1694183	87	1.9	87	89	0	260	16	18	21	43	1.87
1694135--1694186	20	2.6	20	93	0	86	19	17	25	38	1.93
1694295--1694335	21	1.9	21	85	5	55	43	14	14	26	1.84
1696440--1696490	22	2.3	22	89	0	75	23	9	39	27	1.86
1696700--1696783	20	4.2	20	98	0	159	20	20	19	40	1.92
1696785--1696827	21	2.0	21	86	0	59	41	13	23	20	1.88
1696842--1696907	20	3.3	20	70	8	62	25	16	27	30	1.97
1696836--1696929	40	2.3	40	90	0	143	23	20	28	27	1.99
1697575--1698540	485	2.0	485	100	0	1932	35	11	12	39	1.80
1701829--1701997	85	2.0	85	96	0	311	28	22	15	33	1.95
1713236--1713281	2	23.0	2	100	0	92	50	0	0	50	1.00
1713994--1714068	11	6.7	11	71	14	55	53	5	1	40	1.32
1714727--1714756	15	2.0	15	93	0	51	40	10	6	43	1.64
1717426--1717456	7	4.4	7	100	0	62	25	0	61	12	1.32
1718855--1718912	16	3.3	18	77	15	52	75	1	10	12	1.11
1718831--1718920	18	4.8	17	69	17	54	74	1	11	13	1.13
1718873--1718929	15	3.8	15	75	15	55	78	0	8	12	0.95
1719121--1719166	3	15.7	3	90	4	76	67	0	2	30	1.03
1719201--1719225	11	2.3	11	100	0	50	72	0	8	20	1.10
1720818--1720844	14	1.9	14	100	0	54	37	11	14	37	1.82
1720978--1722326	80	16.4	80	84	4	1552	24	18	22	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1720978--1722326	164	8.2	164	87	2	1703	24	18	22	34	1.96
1723181--1723377	99	2.0	99	91	2	324	31	15	17	35	1.91
1725225--1725460	118	2.0	118	95	0	427	23	26	13	36	1.93
1727447--1727520	27	2.7	27	75	6	69	72	1	13	12	1.18
1727710--1727776	3	22.0	3	82	11	66	65	2	4	26	1.26
1727848--1727923	36	2.1	38	87	9	113	67	1	6	25	1.23
1729180--1729226	23	2.0	23	91	0	76	25	8	25	40	1.84
1730074--1730102	3	9.7	3	100	0	58	68	0	0	31	0.89
1730063--1730115	12	4.4	11	86	11	52	69	0	3	26	1.05
1731236--1731270	2	18.5	2	88	11	56	48	0	0	51	1.00
1731152--1731269	22	5.7	20	73	18	82	50	4	0	44	1.21
1733393--1733417	12	2.1	12	100	0	50	36	8	0	56	1.29
1733488--1733564	29	2.7	29	76	9	86	25	14	3	55	1.56
1743033--1743072	21	1.9	21	84	0	53	42	17	2	37	1.63
1743388--1743431	17	2.6	18	82	7	56	50	4	2	43	1.35
1748202--1748247	18	2.6	17	86	10	58	71	2	8	17	1.21
1754371--1754427	7	8.1	7	96	0	87	29	8	29	31	1.87
1757659--1757698	2	20.0	2	100	0	80	50	0	0	50	1.00
1760107--1760198	17	5.4	17	100	0	184	52	11	0	35	1.39
1766359--1766398	21	1.9	21	85	10	55	35	10	2	52	1.48
1769048--1769085	19	2.0	20	85	15	53	21	7	7	63	1.47
1777450--1777529	39	2.1	39	95	0	142	20	2	26	51	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1778718--1778817	23	4.2	24	81	10	107	22	22	23	33	1.98
1778731--1778829	48	2.1	46	81	7	110	22	21	24	32	1.98
1788220--1788259	21	1.9	21	89	0	62	10	25	40	25	1.86
1792112--1792151	21	1.9	21	85	10	55	35	10	2	52	1.48
1794395--1794473	24	3.3	24	77	11	65	26	16	26	30	1.97
1796925--1796992	34	2.1	32	83	5	82	26	25	14	33	1.94
1799672--1799769	48	2.0	47	81	14	112	73	5	8	13	1.23
1799734--1799787	16	3.3	16	78	2	54	81	5	5	7	0.98
1802182--1802300	43	2.8	43	86	0	157	22	15	27	34	1.94
1803228--1803271	8	5.6	8	81	5	54	4	6	2	86	0.77

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