genome.fa.s2352.2.7.7.80.10.50.1000.8.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: VEPZ01002352.1 Hibiscus syriacus cultivar Beakdansim tig00004797_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2012169

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

This is table  8  of  10  ( 1099 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)
1483583--1483638	23	2.5	23	77	8	62	55	10	1	32	1.45
1485581--1486167	298	2.0	298	90	2	919	37	14	10	36	1.82
1488712--1488863	66	2.3	65	93	2	250	21	22	26	29	1.99
1490523--1490572	20	2.5	20	83	0	55	30	16	18	36	1.92
1497486--1497524	17	2.2	19	86	9	55	64	5	5	25	1.35
1498855--1498903	21	2.3	21	93	6	82	18	24	20	36	1.94
1507235--1507411	56	3.1	59	86	5	263	31	24	16	27	1.96
1507231--1507404	59	3.0	57	87	5	242	31	25	16	27	1.97
1510536--1510566	14	2.2	14	100	0	62	19	12	16	51	1.76
1511101--1511181	41	2.0	41	95	0	144	41	16	16	25	1.88
1511291--1511351	18	3.5	17	81	2	59	34	11	9	44	1.74
1511322--1511364	18	2.4	18	92	0	68	44	13	6	34	1.72
1514297--1514346	22	2.3	20	77	12	55	38	2	4	56	1.30
1514308--1514351	23	2.0	22	86	4	61	36	2	0	61	1.09
1515746--1515785	20	2.0	20	85	0	53	55	5	0	40	1.22
1515855--1516019	43	3.8	43	84	0	213	50	23	3	22	1.62
1519968--1520023	23	2.3	25	79	14	64	37	7	14	41	1.73
1520191--1520221	2	15.5	2	100	0	62	48	0	0	51	1.00
1521793--1521870	41	1.9	41	91	0	129	21	20	19	38	1.94
1522433--1522486	26	2.1	26	82	6	65	46	0	9	44	1.35
1522779--1522817	10	3.9	10	86	0	60	58	10	12	17	1.61
1522780--1522817	20	1.9	20	94	0	67	57	10	13	18	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1527070--1527181	51	2.2	51	90	0	170	34	20	20	24	1.96
1529602--1529651	19	2.6	19	93	0	82	24	36	12	28	1.91
1532503--1532556	2	28.0	2	92	7	94	48	0	0	51	1.00
1532810--1532849	21	1.9	21	94	0	71	30	30	27	12	1.93
1532931--1532977	13	3.5	13	82	11	51	29	27	4	38	1.76
1537565--1537601	14	2.4	16	86	8	51	40	0	13	45	1.43
1558874--1558933	30	2.0	30	96	0	111	31	23	15	30	1.95
1559565--1559604	20	2.1	19	90	4	62	0	15	2	82	0.77
1559565--1559603	19	2.1	19	85	9	53	0	15	2	82	0.79
1567464--1567551	28	3.2	28	96	1	160	10	26	6	56	1.57
1567776--1567834	25	2.4	25	100	0	118	45	15	3	35	1.63
1568396--1568441	12	3.9	11	83	13	56	56	19	13	10	1.66
1568393--1568445	24	2.2	25	80	12	67	58	16	13	11	1.63
1573808--1573841	11	3.0	11	86	4	50	82	8	0	8	0.85
1574849--1574922	28	2.5	29	80	8	78	47	8	4	40	1.52
1575025--1575068	10	4.3	10	80	5	52	56	0	0	43	0.99
1580019--1580060	20	2.1	20	90	0	66	19	14	11	54	1.70
1590320--1590365	23	2.0	23	86	4	65	56	8	0	34	1.30
1590693--1590732	21	1.9	21	90	10	64	45	2	2	50	1.28
1591569--1591623	28	2.0	28	85	0	74	52	21	0	25	1.47
1591620--1591673	24	2.2	24	100	0	108	55	24	0	20	1.43
1591632--1591697	21	3.0	21	82	6	60	46	31	1	19	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1596129--1596178	16	3.1	17	80	11	59	38	2	4	56	1.30
1596264--1596322	2	30.5	2	77	13	61	42	1	5	50	1.34
1597790--1597841	26	2.1	23	86	10	68	42	3	3	50	1.39
1597806--1597900	17	5.6	17	69	13	70	41	6	7	45	1.57
1597870--1597917	18	2.7	18	87	3	62	39	6	4	50	1.47
1597873--1597955	24	3.5	24	76	11	73	40	6	3	49	1.45
1597885--1597929	18	2.5	18	89	7	65	37	6	2	53	1.40
1598079--1598129	12	3.9	13	82	10	52	54	3	1	39	1.30
1598088--1598129	12	3.5	12	86	0	57	57	4	0	38	1.20
1598487--1598525	14	2.9	14	96	3	71	53	0	0	46	1.00
1598521--1598564	13	3.3	13	78	6	52	50	0	4	45	1.22
1598747--1598798	16	3.2	16	76	7	52	34	17	13	34	1.89
1598798--1598831	15	2.2	16	89	5	52	23	14	35	26	1.94
1607210--1607283	32	2.3	32	77	13	89	36	21	10	31	1.88
1608957--1609117	60	2.7	59	76	8	162	31	20	6	40	1.79
1609288--1609385	31	3.2	30	67	16	76	39	5	23	31	1.76
1609319--1609414	29	3.2	29	67	16	79	40	4	21	33	1.73
1609333--1609433	31	3.3	31	67	15	84	36	3	27	31	1.75
1609285--1609470	60	3.1	60	91	3	277	39	4	22	33	1.74
1610234--1610290	21	2.5	22	77	11	62	64	7	0	28	1.19
1610610--1610641	14	2.1	16	88	11	50	28	0	6	65	1.16
1610809--1610852	24	1.9	23	86	9	63	29	2	4	63	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1612268--1612316	6	8.2	6	86	0	62	40	40	16	2	1.60
1612271--1612316	12	3.8	12	94	0	83	41	39	17	2	1.62
1612812--1612853	6	7.2	6	97	2	77	0	16	52	30	1.44
1619442--1619773	43	7.8	43	89	3	460	32	18	25	23	1.97
1619435--1619772	127	2.6	127	89	5	504	33	18	24	23	1.97
1619908--1619968	21	2.9	21	97	0	113	52	21	6	19	1.68
1623291--1623330	21	1.9	21	84	0	53	55	0	2	42	1.13
1623799--1623913	42	2.7	43	80	9	139	28	14	22	33	1.94
1623820--1624254	164	2.6	164	85	4	581	30	18	20	31	1.96
1623946--1624255	124	2.5	124	76	10	305	29	20	20	29	1.97
1623796--1624255	41	11.2	40	73	14	303	30	18	19	30	1.96
1624395--1624430	11	3.3	11	96	0	63	8	38	8	44	1.65
1625583--1625668	41	2.1	41	91	0	136	32	25	17	24	1.97
1625797--1625836	17	2.3	18	95	4	73	27	27	25	20	1.99
1626997--1627117	60	2.0	60	96	0	224	30	23	21	24	1.99
1631819--1631863	22	2.0	22	86	0	63	24	22	20	33	1.97
1636308--1636354	17	2.8	17	83	0	58	42	6	12	38	1.69
1636308--1636367	17	3.5	17	81	0	57	41	5	10	43	1.60
1641221--1641269	2	24.5	2	100	0	98	48	0	51	0	1.00
1642242--1642270	2	15.0	2	92	7	51	48	0	0	51	1.00
1644164--1644200	19	2.0	20	89	10	60	29	5	2	62	1.31
1649009--1649049	21	1.9	22	90	5	66	14	31	4	48	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1649543--1649640	31	3.2	30	72	16	94	62	6	11	20	1.49
1649628--1649689	18	3.6	17	81	12	74	61	0	11	27	1.30
1649618--1649680	22	3.0	22	70	25	73	61	0	11	26	1.29
1649538--1649664	60	2.2	59	82	12	154	63	4	9	22	1.42
1652715--1652756	22	1.9	22	100	0	84	35	14	26	23	1.93
1652719--1652767	22	2.2	22	89	7	73	36	12	22	28	1.90
1652726--1652773	22	2.2	22	81	7	53	39	16	20	22	1.92
1653222--1653261	5	7.8	5	83	5	53	77	0	2	20	0.88
1656482--1656527	18	2.5	18	85	3	56	19	26	4	50	1.66
1657373--1657412	5	7.8	5	83	5	53	77	0	2	20	0.88
1660635--1660680	18	2.5	18	89	3	65	17	26	4	52	1.63
1661526--1661565	5	7.8	5	83	5	53	77	0	2	20	0.88
1664757--1664802	18	2.5	18	92	3	74	19	23	4	52	1.64
1665648--1665687	5	7.8	5	83	5	53	77	0	2	20	0.88
1668910--1668960	18	2.8	18	96	0	93	21	21	5	50	1.69
1681637--1681666	15	2.0	15	93	0	51	10	66	16	6	1.41
1702610--1702634	13	1.9	13	100	0	50	56	32	12	0	1.36
1712136--1712467	170	1.9	173	90	1	535	38	15	11	34	1.84
1713611--1713667	22	2.8	20	79	12	62	73	1	10	14	1.17
1713817--1713866	22	2.3	21	77	16	57	64	4	4	28	1.30
1713845--1713898	15	3.6	14	75	9	54	66	1	0	31	1.02
1715039--1715087	8	6.0	8	82	17	57	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)
1717225--1717262	16	2.4	16	90	0	58	0	10	2	86	0.66
1717224--1717264	9	4.8	9	79	8	50	0	9	2	87	0.62
1720595--1720637	21	2.0	21	81	0	50	30	30	25	13	1.94
1721175--1721490	150	2.1	150	95	1	564	26	18	20	34	1.96
1721458--1721502	23	2.0	23	86	0	63	20	26	26	26	1.99
1727045--1727079	17	1.9	17	88	11	52	2	37	0	60	1.12
1728254--1728298	23	2.0	23	86	0	63	20	26	26	26	1.99
1736698--1736797	25	4.2	22	71	19	69	74	2	8	16	1.15
1736743--1736794	20	2.6	21	75	9	54	75	1	9	13	1.14
1736970--1737052	3	28.3	3	77	16	68	66	2	2	28	1.17

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