genome.fa.s8374.2.7.7.80.10.50.1000.9.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: VEPZ01008374.1 Hibiscus syriacus cultivar Beakdansim tig00111131_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1731758

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  9  of  10  ( 1105 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)
1493969--1494175	20	10.5	20	79	10	203	35	26	18	18	1.95
1493988--1494186	58	3.4	58	80	8	172	35	26	18	19	1.95
1494007--1494175	39	4.3	39	84	11	204	33	26	18	20	1.96
1494883--1494929	24	2.0	24	87	8	69	25	14	21	38	1.92
1496546--1496805	19	14.7	19	77	18	285	45	17	21	15	1.85
1496546--1496748	72	2.9	71	85	7	270	46	17	20	14	1.83
1496532--1496799	52	5.1	52	88	10	397	45	17	22	14	1.84
1496513--1496781	33	7.8	33	74	18	212	45	18	21	14	1.84
1496814--1496862	21	2.4	21	96	3	91	14	22	16	46	1.82
1497000--1497035	14	2.6	14	86	4	56	47	22	0	30	1.52
1497581--1497610	15	2.0	15	100	0	60	33	20	13	33	1.91
1498869--1498971	19	5.4	19	83	3	118	45	26	18	9	1.80
1498885--1498971	37	2.3	38	86	2	113	47	25	19	8	1.77
1498976--1499041	19	3.7	19	68	15	50	45	18	21	15	1.85
1498943--1499036	33	2.8	33	88	1	143	46	20	20	12	1.82
1499040--1499130	33	2.8	33	91	0	146	8	15	27	48	1.74
1499037--1499146	19	6.3	18	71	20	83	10	15	28	46	1.78
1499244--1499550	91	3.4	91	94	4	532	44	19	13	22	1.85
1500658--1501101	222	2.0	221	98	1	863	27	25	22	25	2.00
1501413--1501492	21	4.1	21	74	21	93	52	13	23	10	1.71
1501421--1501517	35	2.8	35	90	3	153	49	17	22	10	1.77
1501442--1501468	14	1.9	14	100	0	54	44	22	25	7	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1501534--1501590	14	3.7	14	75	20	60	8	24	22	43	1.81
1501518--1501597	33	2.4	33	95	0	142	8	21	22	47	1.78
1501545--1501652	21	5.6	20	73	18	95	12	21	18	47	1.82
1501732--1501802	33	2.2	33	94	0	124	47	16	23	11	1.79
1502179--1502371	20	9.6	20	85	5	246	18	19	27	34	1.95
1508326--1508549	84	2.7	84	80	8	244	29	20	16	33	1.94
1513143--1513201	21	2.8	21	84	0	73	18	5	20	55	1.61
1513411--1513638	43	5.3	43	92	1	350	30	24	20	24	1.99
1514134--1514189	20	2.8	20	91	0	94	32	12	23	32	1.92
1533157--1533191	18	1.9	18	94	0	61	20	20	34	25	1.96
1533585--1533625	21	2.0	21	85	9	57	46	0	24	29	1.53
1547664--1547696	15	2.2	15	89	10	50	54	0	42	3	1.15
1555531--1555611	25	3.2	25	78	16	71	24	3	1	70	1.11
1555603--1555635	2	16.5	2	100	0	66	48	0	0	51	1.00
1555692--1555716	2	12.5	2	100	0	50	48	0	0	52	1.00
1555836--1555879	8	5.1	8	81	13	52	27	0	0	72	0.85
1555978--1556024	18	2.5	19	82	6	60	17	8	0	74	1.05
1555956--1556006	23	2.2	23	82	6	59	17	5	0	76	0.98
1555960--1556024	18	3.6	17	75	17	53	18	7	0	73	1.06
1557111--1557154	16	2.8	16	100	0	88	22	6	40	29	1.80
1557202--1557237	18	2.0	18	89	10	56	8	19	0	72	1.10
1560652--1560712	16	3.9	16	75	25	60	80	8	9	1	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1560658--1560700	12	3.4	12	81	18	52	81	6	11	0	0.87
1560663--1560700	11	3.2	12	86	13	53	81	7	10	0	0.87
1562299--1563571	106	12.0	106	92	1	2018	33	25	18	22	1.96
1565126--1565166	12	3.2	13	77	22	50	26	2	0	70	0.99
1565095--1565170	22	3.6	22	72	19	63	30	3	0	65	1.10
1567304--1567722	208	2.0	211	97	1	799	37	13	21	27	1.91
1571260--1571297	17	2.2	17	100	0	76	31	0	13	55	1.38
1571372--1571409	15	2.5	15	88	12	60	50	0	0	50	1.00
1571372--1571409	16	2.5	15	91	8	60	50	0	0	50	1.00
1571805--1571829	2	12.5	2	100	0	50	52	0	0	48	1.00
1577252--1577296	21	2.1	21	83	0	54	60	2	2	35	1.22
1577863--1577904	22	1.9	22	90	9	68	47	0	4	47	1.23
1583214--1583274	28	2.2	28	96	0	113	24	14	13	47	1.80
1585997--1586058	31	2.0	31	81	6	72	40	6	14	38	1.72
1588811--1589051	119	2.0	119	98	0	464	38	11	22	28	1.88
1589744--1589769	12	2.2	12	100	0	52	26	38	0	34	1.57
1590274--1590310	17	2.1	18	85	14	51	37	0	0	62	0.96
1596651--1596737	37	2.4	36	86	3	120	32	19	6	41	1.78
1596651--1597032	102	3.8	102	85	3	493	30	20	9	39	1.85
1596651--1597032	101	3.8	102	86	3	477	30	20	9	39	1.85
1597161--1597337	71	2.6	67	85	7	216	27	17	12	42	1.86
1597345--1597388	14	3.0	15	93	3	72	25	20	13	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1597217--1597620	36	11.3	35	75	13	317	25	19	13	40	1.89
1597245--1597526	151	1.9	150	89	2	440	24	19	14	41	1.89
1597366--1597620	137	1.9	134	88	2	384	27	20	13	38	1.91
1597431--1597620	101	1.9	99	86	4	274	26	20	14	38	1.91
1597467--1597592	65	2.0	63	87	6	182	30	18	13	37	1.89
1597626--1597710	39	2.2	39	84	0	107	31	15	16	36	1.90
1598214--1598410	86	2.3	86	91	0	324	25	24	16	33	1.96
1598448--1598541	48	2.0	48	86	0	134	30	23	10	35	1.89
1603728--1603767	18	2.2	18	86	8	55	57	15	7	20	1.61
1603834--1603894	17	3.5	17	74	14	61	62	1	0	36	1.05
1603989--1604022	2	17.0	2	100	0	68	50	0	0	50	1.00
1604151--1604263	60	1.9	60	87	3	165	42	7	7	41	1.63
1609409--1609443	5	6.8	5	87	6	52	0	20	0	80	0.72
1609513--1609570	24	2.4	24	94	5	100	18	25	10	44	1.82
1610549--1610608	30	2.0	30	90	0	93	55	18	6	20	1.65
1612576--1612639	6	10.7	6	75	0	65	43	0	21	34	1.53
1616798--1616832	18	1.9	18	88	0	52	31	11	2	54	1.51
1617480--1617535	24	2.3	25	78	6	62	37	16	3	42	1.65
1620126--1620194	23	3.0	23	76	0	75	21	26	21	30	1.99
1624032--1624062	16	1.9	16	100	0	62	48	0	12	38	1.42
1627583--1627718	65	2.1	64	87	4	202	33	17	22	27	1.96
1629874--1629917	13	3.3	13	77	3	52	43	6	11	38	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1630390--1630492	44	2.3	44	89	0	152	28	18	21	32	1.97
1632443--1632477	15	2.3	15	95	0	61	5	28	8	57	1.52
1633994--1634039	23	2.1	21	84	11	58	26	28	15	30	1.96
1636684--1636839	65	2.4	65	87	7	212	30	17	24	26	1.97
1639430--1639566	51	2.7	50	85	2	175	31	8	22	37	1.83
1640187--1640229	17	2.6	17	82	7	54	34	6	9	48	1.62
1645991--1646033	16	2.7	16	85	0	68	55	18	13	11	1.68
1647068--1647201	67	2.0	67	98	0	259	51	20	11	16	1.75
1647157--1647189	14	2.4	14	94	0	57	54	27	12	6	1.60
1650369--1650401	16	2.1	16	100	0	66	42	0	15	42	1.46
1659121--1659251	60	2.2	59	82	4	147	45	6	19	29	1.74
1666470--1666626	64	2.4	63	79	10	149	29	17	19	33	1.95
1671493--1671645	60	2.5	60	81	6	164	28	18	20	32	1.96
1678506--1678629	39	3.2	39	82	2	151	37	12	13	35	1.84
1685816--1686013	39	5.1	39	85	1	236	39	13	15	31	1.86
1685816--1686013	77	2.6	78	86	2	256	39	13	15	31	1.86
1685893--1685954	19	3.2	19	68	4	52	37	12	16	33	1.87
1698314--1698352	14	2.7	15	80	8	53	25	20	28	25	1.99
1700381--1700408	9	3.1	9	100	0	56	89	0	0	10	0.49
1703841--1704209	20	18.5	20	84	5	451	34	26	18	20	1.96
1704890--1704936	24	2.0	24	87	8	69	25	14	21	38	1.92
1707412--1707685	19	15.4	19	81	15	354	47	18	20	14	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1707412--1707707	71	4.2	74	82	13	314	46	18	20	14	1.83
1707440--1707707	109	2.5	104	90	6	446	46	17	21	14	1.83
1707412--1707723	161	2.0	157	91	5	502	46	18	20	15	1.84
1707440--1707707	52	5.0	52	90	4	437	46	17	21	14	1.83
1707714--1707815	19	5.6	19	85	12	151	14	23	17	44	1.86
1707922--1707958	14	2.6	14	91	0	65	45	21	0	32	1.52
1709912--1709968	14	3.7	14	77	20	60	45	22	21	10	1.82
1709893--1709985	33	2.8	33	93	0	159	47	20	20	11	1.81
1709856--1709990	19	7.6	19	76	16	119	45	22	19	11	1.83
1709986--1710113	19	7.3	19	73	19	116	8	17	28	45	1.78

Tables:   1   2   3   4   5   6   7   8   9   10