AutoCloner

Multiple sequence alignment - TraesCS2D01G223700

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)

BLAST Results

Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

	qseqid	sseqid	percentage.identical	alignment.length	no.mismatch	no.gap.openings	qstart	qend	sstart	send	evalue	bitscore
0	TraesCS2D01G223700	chr2D	100.000	2477	0	0	1	2477	190431072	190428596	0.000000e+00	4575.0
1	TraesCS2D01G223700	chr2D	97.023	1377	37	2	1	1377	650974271	650972899	0.000000e+00	2313.0
2	TraesCS2D01G223700	chr2D	95.238	861	40	1	1618	2477	11518069	11518929	0.000000e+00	1362.0
3	TraesCS2D01G223700	chr2D	95.116	860	40	2	1619	2477	516853434	516852576	0.000000e+00	1354.0
4	TraesCS2D01G223700	chr5A	96.669	1501	49	1	1	1501	676898613	676897114	0.000000e+00	2494.0
5	TraesCS2D01G223700	chr5A	96.669	1501	47	3	1	1500	81479735	81481233	0.000000e+00	2492.0
6	TraesCS2D01G223700	chr5A	96.536	1501	51	1	1	1501	583625014	583626513	0.000000e+00	2483.0
7	TraesCS2D01G223700	chr5A	96.136	1501	58	0	1	1501	429970333	429968833	0.000000e+00	2451.0
8	TraesCS2D01G223700	chr5A	92.569	1440	103	4	2	1440	112303134	112304570	0.000000e+00	2063.0
9	TraesCS2D01G223700	chr5A	87.500	64	8	0	1500	1563	834097	834160	9.500000e-10	75.0
10	TraesCS2D01G223700	chr6A	96.136	1501	54	2	1	1501	120118366	120119862	0.000000e+00	2447.0
11	TraesCS2D01G223700	chr6A	86.885	122	14	2	1500	1619	56406247	56406126	4.300000e-28	135.0
12	TraesCS2D01G223700	chr6A	85.246	122	16	2	1500	1619	56312024	56312145	9.300000e-25	124.0
13	TraesCS2D01G223700	chr6A	85.246	122	16	2	1500	1619	56376253	56376374	9.300000e-25	124.0
14	TraesCS2D01G223700	chr2A	95.736	1501	64	0	1	1501	478905145	478906645	0.000000e+00	2418.0
15	TraesCS2D01G223700	chr1B	93.533	1500	93	4	1	1500	527622454	527620959	0.000000e+00	2230.0
16	TraesCS2D01G223700	chr1B	94.816	868	43	2	1612	2477	349978611	349977744	0.000000e+00	1352.0
17	TraesCS2D01G223700	chr6D	97.796	862	17	2	1618	2477	142865972	142865111	0.000000e+00	1485.0
18	TraesCS2D01G223700	chr6D	97.445	861	20	2	1619	2477	7889719	7890579	0.000000e+00	1467.0
19	TraesCS2D01G223700	chr6D	95.116	860	40	2	1619	2477	52692497	52693355	0.000000e+00	1354.0
20	TraesCS2D01G223700	chr3D	97.680	862	17	3	1618	2477	167412019	167411159	0.000000e+00	1478.0
21	TraesCS2D01G223700	chrUn	96.246	879	27	6	1601	2477	94929557	94928683	0.000000e+00	1435.0
22	TraesCS2D01G223700	chr7D	95.354	861	38	2	1618	2477	546757457	546758316	0.000000e+00	1367.0
23	TraesCS2D01G223700	chr3A	91.837	49	4	0	1515	1563	699632549	699632501	4.420000e-08	69.4

These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

	query	scaffold	start	end	length	rev.comp	avg.bitscore	max.bitscore	avg.percent.identical	query.start	query.end	num_hsp	groupid	homo_length
0	TraesCS2D01G223700	chr2D	190428596	190431072	2476	True	4575	4575	100.000	1	2477	1	chr2D.!!$R1	2476
1	TraesCS2D01G223700	chr2D	650972899	650974271	1372	True	2313	2313	97.023	1	1377	1	chr2D.!!$R3	1376
2	TraesCS2D01G223700	chr2D	11518069	11518929	860	False	1362	1362	95.238	1618	2477	1	chr2D.!!$F1	859
3	TraesCS2D01G223700	chr2D	516852576	516853434	858	True	1354	1354	95.116	1619	2477	1	chr2D.!!$R2	858
4	TraesCS2D01G223700	chr5A	676897114	676898613	1499	True	2494	2494	96.669	1	1501	1	chr5A.!!$R2	1500
5	TraesCS2D01G223700	chr5A	81479735	81481233	1498	False	2492	2492	96.669	1	1500	1	chr5A.!!$F2	1499
6	TraesCS2D01G223700	chr5A	583625014	583626513	1499	False	2483	2483	96.536	1	1501	1	chr5A.!!$F4	1500
7	TraesCS2D01G223700	chr5A	429968833	429970333	1500	True	2451	2451	96.136	1	1501	1	chr5A.!!$R1	1500
8	TraesCS2D01G223700	chr5A	112303134	112304570	1436	False	2063	2063	92.569	2	1440	1	chr5A.!!$F3	1438
9	TraesCS2D01G223700	chr6A	120118366	120119862	1496	False	2447	2447	96.136	1	1501	1	chr6A.!!$F3	1500
10	TraesCS2D01G223700	chr2A	478905145	478906645	1500	False	2418	2418	95.736	1	1501	1	chr2A.!!$F1	1500
11	TraesCS2D01G223700	chr1B	527620959	527622454	1495	True	2230	2230	93.533	1	1500	1	chr1B.!!$R2	1499
12	TraesCS2D01G223700	chr1B	349977744	349978611	867	True	1352	1352	94.816	1612	2477	1	chr1B.!!$R1	865
13	TraesCS2D01G223700	chr6D	142865111	142865972	861	True	1485	1485	97.796	1618	2477	1	chr6D.!!$R1	859
14	TraesCS2D01G223700	chr6D	7889719	7890579	860	False	1467	1467	97.445	1619	2477	1	chr6D.!!$F1	858
15	TraesCS2D01G223700	chr6D	52692497	52693355	858	False	1354	1354	95.116	1619	2477	1	chr6D.!!$F2	858
16	TraesCS2D01G223700	chr3D	167411159	167412019	860	True	1478	1478	97.680	1618	2477	1	chr3D.!!$R1	859
17	TraesCS2D01G223700	chrUn	94928683	94929557	874	True	1435	1435	96.246	1601	2477	1	chrUn.!!$R1	876
18	TraesCS2D01G223700	chr7D	546757457	546758316	859	False	1367	1367	95.354	1618	2477	1	chr7D.!!$F1	859

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
344	345	1.285078	GGTACTTGCAATCCCCCTTCT	59.715	52.381	0.0	0.0	0.0	2.85	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1522	1527	0.107993	ATCTGACGGGTCATGTGCAG	60.108	55.0	1.41	0.0	39.13	4.41	R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
242	243	2.484770	GGGGGAAACTTTTGTCAAAGGC	60.485	50.000	7.31	0.00	43.47	4.35
263	264	4.578105	GGCTTCTGATCTTATTGACCCAAG	59.422	45.833	0.00	0.00	0.00	3.61
344	345	1.285078	GGTACTTGCAATCCCCCTTCT	59.715	52.381	0.00	0.00	0.00	2.85
450	452	4.051237	GGAACAAACAGCATGGAAGAAAC	58.949	43.478	0.00	0.00	43.62	2.78
491	493	6.069963	GGTATGGGTAGATCCAATGCTAATCT	60.070	42.308	0.00	0.00	40.62	2.40
554	557	6.357367	AGGTAAAAATCTTCATCTGGCGTAT	58.643	36.000	0.00	0.00	0.00	3.06
1430	1435	1.815003	GTTTGAGGAGCTCATGGTTGG	59.185	52.381	17.19	0.00	40.39	3.77
1516	1521	2.989422	AAAACTTGTGCTACGGATGC	57.011	45.000	0.00	0.00	0.00	3.91
1517	1522	1.890876	AAACTTGTGCTACGGATGCA	58.109	45.000	0.00	0.00	38.19	3.96
1522	1527	2.125147	TGCTACGGATGCACCAGC	60.125	61.111	0.00	0.00	37.94	4.85
1523	1528	2.187946	GCTACGGATGCACCAGCT	59.812	61.111	0.00	0.00	42.74	4.24
1524	1529	2.176273	GCTACGGATGCACCAGCTG	61.176	63.158	6.78	6.78	42.74	4.24
1532	1537	2.564975	GCACCAGCTGCACATGAC	59.435	61.111	8.66	0.00	46.29	3.06
1533	1538	2.986306	GCACCAGCTGCACATGACC	61.986	63.158	8.66	0.00	46.29	4.02
1534	1539	2.034687	ACCAGCTGCACATGACCC	59.965	61.111	8.66	0.00	0.00	4.46
1535	1540	3.129502	CCAGCTGCACATGACCCG	61.130	66.667	8.66	0.00	0.00	5.28
1536	1541	2.359107	CAGCTGCACATGACCCGT	60.359	61.111	0.00	0.00	0.00	5.28
1537	1542	2.046892	AGCTGCACATGACCCGTC	60.047	61.111	0.00	0.00	0.00	4.79
1538	1543	2.358615	GCTGCACATGACCCGTCA	60.359	61.111	0.00	0.00	44.59	4.35
1539	1544	2.393768	GCTGCACATGACCCGTCAG	61.394	63.158	0.00	0.00	43.61	3.51
1540	1545	1.293179	CTGCACATGACCCGTCAGA	59.707	57.895	0.00	0.00	43.61	3.27
1541	1546	0.107993	CTGCACATGACCCGTCAGAT	60.108	55.000	0.00	0.00	43.61	2.90
1542	1547	0.324614	TGCACATGACCCGTCAGATT	59.675	50.000	0.00	0.00	43.61	2.40
1543	1548	0.729116	GCACATGACCCGTCAGATTG	59.271	55.000	0.00	0.03	43.61	2.67
1544	1549	1.372582	CACATGACCCGTCAGATTGG	58.627	55.000	0.00	0.00	43.61	3.16
1545	1550	1.066215	CACATGACCCGTCAGATTGGA	60.066	52.381	0.00	0.00	43.61	3.53
1546	1551	1.628340	ACATGACCCGTCAGATTGGAA	59.372	47.619	0.00	0.00	43.61	3.53
1547	1552	2.239654	ACATGACCCGTCAGATTGGAAT	59.760	45.455	0.00	0.00	43.61	3.01
1548	1553	2.401583	TGACCCGTCAGATTGGAATG	57.598	50.000	0.00	0.00	34.14	2.67
1549	1554	1.905894	TGACCCGTCAGATTGGAATGA	59.094	47.619	0.00	0.00	34.14	2.57
1550	1555	2.093500	TGACCCGTCAGATTGGAATGAG	60.093	50.000	0.00	0.00	34.14	2.90
1551	1556	1.909302	ACCCGTCAGATTGGAATGAGT	59.091	47.619	0.00	0.00	0.00	3.41
1552	1557	2.283298	CCCGTCAGATTGGAATGAGTG	58.717	52.381	0.00	0.00	0.00	3.51
1553	1558	2.283298	CCGTCAGATTGGAATGAGTGG	58.717	52.381	0.00	0.00	0.00	4.00
1554	1559	2.283298	CGTCAGATTGGAATGAGTGGG	58.717	52.381	0.00	0.00	0.00	4.61
1555	1560	2.093500	CGTCAGATTGGAATGAGTGGGA	60.093	50.000	0.00	0.00	0.00	4.37
1556	1561	3.539604	GTCAGATTGGAATGAGTGGGAG	58.460	50.000	0.00	0.00	0.00	4.30
1557	1562	3.198635	GTCAGATTGGAATGAGTGGGAGA	59.801	47.826	0.00	0.00	0.00	3.71
1558	1563	3.453717	TCAGATTGGAATGAGTGGGAGAG	59.546	47.826	0.00	0.00	0.00	3.20
1559	1564	2.776536	AGATTGGAATGAGTGGGAGAGG	59.223	50.000	0.00	0.00	0.00	3.69
1560	1565	2.342406	TTGGAATGAGTGGGAGAGGA	57.658	50.000	0.00	0.00	0.00	3.71
1561	1566	2.575921	TGGAATGAGTGGGAGAGGAT	57.424	50.000	0.00	0.00	0.00	3.24
1562	1567	2.402564	TGGAATGAGTGGGAGAGGATC	58.597	52.381	0.00	0.00	0.00	3.36
1583	1588	2.727544	CCAAAACGTGGGCTGGTG	59.272	61.111	0.00	0.00	44.64	4.17
1584	1589	2.727544	CAAAACGTGGGCTGGTGG	59.272	61.111	0.00	0.00	0.00	4.61
1585	1590	1.826054	CAAAACGTGGGCTGGTGGA	60.826	57.895	0.00	0.00	0.00	4.02
1586	1591	1.076632	AAAACGTGGGCTGGTGGAA	60.077	52.632	0.00	0.00	0.00	3.53
1587	1592	0.469144	AAAACGTGGGCTGGTGGAAT	60.469	50.000	0.00	0.00	0.00	3.01
1588	1593	1.178534	AAACGTGGGCTGGTGGAATG	61.179	55.000	0.00	0.00	0.00	2.67
1589	1594	2.063015	AACGTGGGCTGGTGGAATGA	62.063	55.000	0.00	0.00	0.00	2.57
1590	1595	1.746615	CGTGGGCTGGTGGAATGAG	60.747	63.158	0.00	0.00	0.00	2.90
1591	1596	1.685224	GTGGGCTGGTGGAATGAGA	59.315	57.895	0.00	0.00	0.00	3.27
1592	1597	0.393537	GTGGGCTGGTGGAATGAGAG	60.394	60.000	0.00	0.00	0.00	3.20
1593	1598	1.225704	GGGCTGGTGGAATGAGAGG	59.774	63.158	0.00	0.00	0.00	3.69
1594	1599	1.225704	GGCTGGTGGAATGAGAGGG	59.774	63.158	0.00	0.00	0.00	4.30
1595	1600	1.274703	GGCTGGTGGAATGAGAGGGA	61.275	60.000	0.00	0.00	0.00	4.20
1596	1601	0.179936	GCTGGTGGAATGAGAGGGAG	59.820	60.000	0.00	0.00	0.00	4.30
1597	1602	0.835941	CTGGTGGAATGAGAGGGAGG	59.164	60.000	0.00	0.00	0.00	4.30
1598	1603	0.621571	TGGTGGAATGAGAGGGAGGG	60.622	60.000	0.00	0.00	0.00	4.30
1599	1604	0.326618	GGTGGAATGAGAGGGAGGGA	60.327	60.000	0.00	0.00	0.00	4.20
1600	1605	1.584724	GTGGAATGAGAGGGAGGGAA	58.415	55.000	0.00	0.00	0.00	3.97
1601	1606	1.210722	GTGGAATGAGAGGGAGGGAAC	59.789	57.143	0.00	0.00	0.00	3.62
1689	1694	6.312399	TGTTCGTGTTGAGAAATATTTGCT	57.688	33.333	5.17	2.83	0.00	3.91
1796	1801	3.627395	TGGCTCTATGTTACCCAAGTG	57.373	47.619	0.00	0.00	0.00	3.16
2087	2092	2.465813	CTTCCCCACATAATTGGCCAA	58.534	47.619	23.00	23.00	35.00	4.52
2227	2234	7.869429	ACTAATGAAAACTGCAATCTTGAAAGG	59.131	33.333	0.00	0.00	0.00	3.11
2248	2255	4.657969	AGGGGAAAACAACATTGGAAATCA	59.342	37.500	0.00	0.00	0.00	2.57

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
226	227	5.659440	TCAGAAGCCTTTGACAAAAGTTT	57.341	34.783	1.62	0.14	41.12	2.66
242	243	6.477033	CGTACTTGGGTCAATAAGATCAGAAG	59.523	42.308	0.00	0.00	0.00	2.85
263	264	5.903810	AGTCTTCATCCCAATAACTCGTAC	58.096	41.667	0.00	0.00	0.00	3.67
450	452	9.582431	CTACCCATACCATTCGTATATTGTAAG	57.418	37.037	0.00	0.00	35.35	2.34
491	493	4.697352	GCTTCTAGATCTTGCTCCAAACAA	59.303	41.667	0.00	0.00	0.00	2.83
509	511	1.195115	TGCCGGACAAGATAGCTTCT	58.805	50.000	5.05	0.00	35.70	2.85
554	557	5.928264	CGATATGAGAGTGTTCCATGCAATA	59.072	40.000	0.00	0.00	0.00	1.90
571	574	1.598676	GGCGAGCGTAACACGATATGA	60.599	52.381	2.35	0.00	41.80	2.15
575	578	0.459585	ATTGGCGAGCGTAACACGAT	60.460	50.000	2.35	0.00	45.73	3.73
678	681	3.009143	ACTTATCCCAGACCTTTTTCGCT	59.991	43.478	0.00	0.00	0.00	4.93
782	785	7.066404	GTCCCAAAACAGATATTTCTTCCTCTC	59.934	40.741	0.00	0.00	0.00	3.20
1505	1510	2.125147	GCTGGTGCATCCGTAGCA	60.125	61.111	3.03	0.00	40.19	3.49
1506	1511	2.176273	CAGCTGGTGCATCCGTAGC	61.176	63.158	5.57	0.00	42.74	3.58
1507	1512	4.115279	CAGCTGGTGCATCCGTAG	57.885	61.111	5.57	0.00	42.74	3.51
1516	1521	2.338015	GGGTCATGTGCAGCTGGTG	61.338	63.158	17.12	1.76	0.00	4.17
1517	1522	2.034687	GGGTCATGTGCAGCTGGT	59.965	61.111	17.12	0.00	0.00	4.00
1518	1523	3.129502	CGGGTCATGTGCAGCTGG	61.130	66.667	17.12	0.00	0.00	4.85
1519	1524	2.359107	ACGGGTCATGTGCAGCTG	60.359	61.111	10.11	10.11	0.00	4.24
1520	1525	2.046892	GACGGGTCATGTGCAGCT	60.047	61.111	0.00	0.00	0.00	4.24
1521	1526	2.358615	TGACGGGTCATGTGCAGC	60.359	61.111	0.00	0.00	34.14	5.25
1522	1527	0.107993	ATCTGACGGGTCATGTGCAG	60.108	55.000	1.41	0.00	39.13	4.41
1523	1528	0.324614	AATCTGACGGGTCATGTGCA	59.675	50.000	1.41	0.00	39.13	4.57
1524	1529	0.729116	CAATCTGACGGGTCATGTGC	59.271	55.000	1.41	0.00	39.13	4.57
1525	1530	1.066215	TCCAATCTGACGGGTCATGTG	60.066	52.381	1.41	1.54	39.13	3.21
1526	1531	1.275666	TCCAATCTGACGGGTCATGT	58.724	50.000	1.41	0.00	39.13	3.21
1527	1532	2.401583	TTCCAATCTGACGGGTCATG	57.598	50.000	1.41	0.00	39.13	3.07
1528	1533	2.505407	TCATTCCAATCTGACGGGTCAT	59.495	45.455	1.41	0.00	39.13	3.06
1529	1534	1.905894	TCATTCCAATCTGACGGGTCA	59.094	47.619	1.05	1.05	38.06	4.02
1530	1535	2.093447	ACTCATTCCAATCTGACGGGTC	60.093	50.000	0.00	0.00	0.00	4.46
1531	1536	1.909302	ACTCATTCCAATCTGACGGGT	59.091	47.619	0.00	0.00	0.00	5.28
1532	1537	2.283298	CACTCATTCCAATCTGACGGG	58.717	52.381	0.00	0.00	0.00	5.28
1533	1538	2.283298	CCACTCATTCCAATCTGACGG	58.717	52.381	0.00	0.00	0.00	4.79
1534	1539	2.093500	TCCCACTCATTCCAATCTGACG	60.093	50.000	0.00	0.00	0.00	4.35
1535	1540	3.198635	TCTCCCACTCATTCCAATCTGAC	59.801	47.826	0.00	0.00	0.00	3.51
1536	1541	3.453717	CTCTCCCACTCATTCCAATCTGA	59.546	47.826	0.00	0.00	0.00	3.27
1537	1542	3.433314	CCTCTCCCACTCATTCCAATCTG	60.433	52.174	0.00	0.00	0.00	2.90
1538	1543	2.776536	CCTCTCCCACTCATTCCAATCT	59.223	50.000	0.00	0.00	0.00	2.40
1539	1544	2.774234	TCCTCTCCCACTCATTCCAATC	59.226	50.000	0.00	0.00	0.00	2.67
1540	1545	2.850833	TCCTCTCCCACTCATTCCAAT	58.149	47.619	0.00	0.00	0.00	3.16
1541	1546	2.342406	TCCTCTCCCACTCATTCCAA	57.658	50.000	0.00	0.00	0.00	3.53
1542	1547	2.402564	GATCCTCTCCCACTCATTCCA	58.597	52.381	0.00	0.00	0.00	3.53
1543	1548	1.696884	GGATCCTCTCCCACTCATTCC	59.303	57.143	3.84	0.00	38.19	3.01
1544	1549	2.402564	TGGATCCTCTCCCACTCATTC	58.597	52.381	14.23	0.00	44.23	2.67
1545	1550	2.575921	TGGATCCTCTCCCACTCATT	57.424	50.000	14.23	0.00	44.23	2.57
1546	1551	2.618794	GATGGATCCTCTCCCACTCAT	58.381	52.381	14.23	0.00	44.23	2.90
1547	1552	1.413662	GGATGGATCCTCTCCCACTCA	60.414	57.143	14.23	0.00	44.23	3.41
1548	1553	1.347062	GGATGGATCCTCTCCCACTC	58.653	60.000	14.23	0.00	44.23	3.51
1549	1554	3.567902	GGATGGATCCTCTCCCACT	57.432	57.895	14.23	0.00	44.23	4.00
1566	1571	2.727544	CACCAGCCCACGTTTTGG	59.272	61.111	0.00	0.00	46.47	3.28
1567	1572	1.388065	TTCCACCAGCCCACGTTTTG	61.388	55.000	0.00	0.00	0.00	2.44
1568	1573	0.469144	ATTCCACCAGCCCACGTTTT	60.469	50.000	0.00	0.00	0.00	2.43
1569	1574	1.152830	ATTCCACCAGCCCACGTTT	59.847	52.632	0.00	0.00	0.00	3.60
1570	1575	1.603455	CATTCCACCAGCCCACGTT	60.603	57.895	0.00	0.00	0.00	3.99
1571	1576	2.034066	CATTCCACCAGCCCACGT	59.966	61.111	0.00	0.00	0.00	4.49
1572	1577	1.746615	CTCATTCCACCAGCCCACG	60.747	63.158	0.00	0.00	0.00	4.94
1573	1578	0.393537	CTCTCATTCCACCAGCCCAC	60.394	60.000	0.00	0.00	0.00	4.61
1574	1579	1.565390	CCTCTCATTCCACCAGCCCA	61.565	60.000	0.00	0.00	0.00	5.36
1575	1580	1.225704	CCTCTCATTCCACCAGCCC	59.774	63.158	0.00	0.00	0.00	5.19
1576	1581	1.225704	CCCTCTCATTCCACCAGCC	59.774	63.158	0.00	0.00	0.00	4.85
1577	1582	0.179936	CTCCCTCTCATTCCACCAGC	59.820	60.000	0.00	0.00	0.00	4.85
1578	1583	0.835941	CCTCCCTCTCATTCCACCAG	59.164	60.000	0.00	0.00	0.00	4.00
1579	1584	0.621571	CCCTCCCTCTCATTCCACCA	60.622	60.000	0.00	0.00	0.00	4.17
1580	1585	0.326618	TCCCTCCCTCTCATTCCACC	60.327	60.000	0.00	0.00	0.00	4.61
1581	1586	1.210722	GTTCCCTCCCTCTCATTCCAC	59.789	57.143	0.00	0.00	0.00	4.02
1582	1587	1.584724	GTTCCCTCCCTCTCATTCCA	58.415	55.000	0.00	0.00	0.00	3.53
1583	1588	0.840617	GGTTCCCTCCCTCTCATTCC	59.159	60.000	0.00	0.00	0.00	3.01
1584	1589	1.886422	AGGTTCCCTCCCTCTCATTC	58.114	55.000	0.00	0.00	0.00	2.67
1585	1590	1.918957	CAAGGTTCCCTCCCTCTCATT	59.081	52.381	0.00	0.00	30.89	2.57
1586	1591	1.203492	ACAAGGTTCCCTCCCTCTCAT	60.203	52.381	0.00	0.00	30.89	2.90
1587	1592	0.193574	ACAAGGTTCCCTCCCTCTCA	59.806	55.000	0.00	0.00	30.89	3.27
1588	1593	2.112190	CTACAAGGTTCCCTCCCTCTC	58.888	57.143	0.00	0.00	30.89	3.20
1589	1594	1.437547	ACTACAAGGTTCCCTCCCTCT	59.562	52.381	0.00	0.00	30.89	3.69
1590	1595	1.954035	ACTACAAGGTTCCCTCCCTC	58.046	55.000	0.00	0.00	30.89	4.30
1591	1596	3.797671	ATACTACAAGGTTCCCTCCCT	57.202	47.619	0.00	0.00	30.89	4.20
1592	1597	6.100714	TCAATAATACTACAAGGTTCCCTCCC	59.899	42.308	0.00	0.00	30.89	4.30
1593	1598	7.133133	TCAATAATACTACAAGGTTCCCTCC	57.867	40.000	0.00	0.00	30.89	4.30
1594	1599	8.265764	AGTTCAATAATACTACAAGGTTCCCTC	58.734	37.037	0.00	0.00	30.89	4.30
1595	1600	8.159229	AGTTCAATAATACTACAAGGTTCCCT	57.841	34.615	0.00	0.00	33.87	4.20
1596	1601	9.543783	CTAGTTCAATAATACTACAAGGTTCCC	57.456	37.037	0.00	0.00	0.00	3.97
1604	1609	8.573885	CGGGTCATCTAGTTCAATAATACTACA	58.426	37.037	0.00	0.00	0.00	2.74
1605	1610	8.027771	CCGGGTCATCTAGTTCAATAATACTAC	58.972	40.741	0.00	0.00	0.00	2.73
1606	1611	7.727186	ACCGGGTCATCTAGTTCAATAATACTA	59.273	37.037	6.32	0.00	0.00	1.82
1607	1612	6.553852	ACCGGGTCATCTAGTTCAATAATACT	59.446	38.462	6.32	0.00	0.00	2.12
1608	1613	6.645415	CACCGGGTCATCTAGTTCAATAATAC	59.355	42.308	6.32	0.00	0.00	1.89
1609	1614	6.740401	GCACCGGGTCATCTAGTTCAATAATA	60.740	42.308	6.32	0.00	0.00	0.98
1610	1615	5.611374	CACCGGGTCATCTAGTTCAATAAT	58.389	41.667	6.32	0.00	0.00	1.28
1611	1616	4.682320	GCACCGGGTCATCTAGTTCAATAA	60.682	45.833	6.32	0.00	0.00	1.40
1612	1617	3.181469	GCACCGGGTCATCTAGTTCAATA	60.181	47.826	6.32	0.00	0.00	1.90
1613	1618	2.420129	GCACCGGGTCATCTAGTTCAAT	60.420	50.000	6.32	0.00	0.00	2.57
1614	1619	1.066430	GCACCGGGTCATCTAGTTCAA	60.066	52.381	6.32	0.00	0.00	2.69
1615	1620	0.535335	GCACCGGGTCATCTAGTTCA	59.465	55.000	6.32	0.00	0.00	3.18
1616	1621	0.527817	CGCACCGGGTCATCTAGTTC	60.528	60.000	6.32	0.00	0.00	3.01
1796	1801	2.238521	TGAATTTGGACCTTGCACCTC	58.761	47.619	0.00	0.00	0.00	3.85
1880	1885	1.880027	CCTCGGTGCTTGCTAAAACTT	59.120	47.619	0.00	0.00	0.00	2.66
2227	2234	8.667463	CATTATGATTTCCAATGTTGTTTTCCC	58.333	33.333	0.00	0.00	0.00	3.97
2248	2255	6.158695	ACACTATTCAGGACCAGGAACATTAT	59.841	38.462	0.00	0.00	0.00	1.28

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.