AutoCloner

Multiple sequence alignment - TraesCS5A01G315300

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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	TraesCS5A01G315300	chr5A	100.000	2537	0	0	1	2537	525733597	525731061	0.000000e+00	4686
1	TraesCS5A01G315300	chr5A	96.512	86	3	0	562	647	525922480	525922395	2.630000e-30	143
2	TraesCS5A01G315300	chr5A	94.186	86	5	0	562	647	525833857	525833772	5.690000e-27	132
3	TraesCS5A01G315300	chr4D	97.363	1896	45	1	647	2537	260438852	260436957	0.000000e+00	3219
4	TraesCS5A01G315300	chr3A	97.202	1894	39	10	649	2537	750275866	750273982	0.000000e+00	3192
5	TraesCS5A01G315300	chr3A	97.970	542	11	0	1	542	451664888	451665429	0.000000e+00	941
6	TraesCS5A01G315300	chr3A	97.232	542	15	0	1	542	451658137	451657596	0.000000e+00	918
7	TraesCS5A01G315300	chr3A	96.673	541	18	0	1	541	259838262	259837722	0.000000e+00	900
8	TraesCS5A01G315300	chr4B	96.888	1896	51	3	650	2537	21919015	21917120	0.000000e+00	3168
9	TraesCS5A01G315300	chr4B	85.204	196	26	3	353	546	617432822	617432628	5.540000e-47	198
10	TraesCS5A01G315300	chr6A	96.990	1894	35	6	650	2537	42134268	42132391	0.000000e+00	3162
11	TraesCS5A01G315300	chr1A	97.451	1530	33	2	648	2172	7851024	7852552	0.000000e+00	2604
12	TraesCS5A01G315300	chr1D	98.955	861	8	1	1677	2537	456000574	456001433	0.000000e+00	1539
13	TraesCS5A01G315300	chr1D	98.722	861	10	1	1677	2537	444141769	444140910	0.000000e+00	1528
14	TraesCS5A01G315300	chr1D	96.276	913	28	2	646	1552	455999659	456000571	0.000000e+00	1493
15	TraesCS5A01G315300	chr1D	95.710	909	27	3	650	1552	444142674	444141772	0.000000e+00	1452
16	TraesCS5A01G315300	chr7D	98.722	861	10	1	1677	2537	5462202	5461343	0.000000e+00	1528
17	TraesCS5A01G315300	chr7D	96.590	909	25	2	650	1552	5463113	5462205	0.000000e+00	1502
18	TraesCS5A01G315300	chr6D	98.722	861	10	1	1677	2537	21035527	21034668	0.000000e+00	1528
19	TraesCS5A01G315300	chr6D	95.710	909	27	3	650	1552	21036432	21035530	0.000000e+00	1452
20	TraesCS5A01G315300	chr3B	97.790	543	10	1	1	541	703848085	703847543	0.000000e+00	935
21	TraesCS5A01G315300	chr4A	90.734	518	38	5	34	541	703411380	703410863	0.000000e+00	682
22	TraesCS5A01G315300	chr5D	85.638	188	25	2	356	543	560145530	560145345	1.990000e-46	196
23	TraesCS5A01G315300	chr5D	93.478	92	6	0	556	647	413597428	413597337	1.220000e-28	137
24	TraesCS5A01G315300	chr7A	84.896	192	27	2	353	544	9484033	9483844	2.580000e-45	193
25	TraesCS5A01G315300	chr6B	79.693	261	47	4	282	541	216416412	216416157	1.550000e-42	183
26	TraesCS5A01G315300	chr5B	90.526	95	9	0	556	650	498513785	498513691	2.650000e-25	126

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	TraesCS5A01G315300	chr5A	525731061	525733597	2536	True	4686	4686	100.0000	1	2537	1	chr5A.!!$R1	2536
1	TraesCS5A01G315300	chr4D	260436957	260438852	1895	True	3219	3219	97.3630	647	2537	1	chr4D.!!$R1	1890
2	TraesCS5A01G315300	chr3A	750273982	750275866	1884	True	3192	3192	97.2020	649	2537	1	chr3A.!!$R3	1888
3	TraesCS5A01G315300	chr3A	451664888	451665429	541	False	941	941	97.9700	1	542	1	chr3A.!!$F1	541
4	TraesCS5A01G315300	chr3A	451657596	451658137	541	True	918	918	97.2320	1	542	1	chr3A.!!$R2	541
5	TraesCS5A01G315300	chr3A	259837722	259838262	540	True	900	900	96.6730	1	541	1	chr3A.!!$R1	540
6	TraesCS5A01G315300	chr4B	21917120	21919015	1895	True	3168	3168	96.8880	650	2537	1	chr4B.!!$R1	1887
7	TraesCS5A01G315300	chr6A	42132391	42134268	1877	True	3162	3162	96.9900	650	2537	1	chr6A.!!$R1	1887
8	TraesCS5A01G315300	chr1A	7851024	7852552	1528	False	2604	2604	97.4510	648	2172	1	chr1A.!!$F1	1524
9	TraesCS5A01G315300	chr1D	455999659	456001433	1774	False	1516	1539	97.6155	646	2537	2	chr1D.!!$F1	1891
10	TraesCS5A01G315300	chr1D	444140910	444142674	1764	True	1490	1528	97.2160	650	2537	2	chr1D.!!$R1	1887
11	TraesCS5A01G315300	chr7D	5461343	5463113	1770	True	1515	1528	97.6560	650	2537	2	chr7D.!!$R1	1887
12	TraesCS5A01G315300	chr6D	21034668	21036432	1764	True	1490	1528	97.2160	650	2537	2	chr6D.!!$R1	1887
13	TraesCS5A01G315300	chr3B	703847543	703848085	542	True	935	935	97.7900	1	541	1	chr3B.!!$R1	540
14	TraesCS5A01G315300	chr4A	703410863	703411380	517	True	682	682	90.7340	34	541	1	chr4A.!!$R1	507

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
911	928	0.035439	CCTCTTTTCCCCAGCGCTAA	60.035	55.0	10.99	0.0	0.0	3.09	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2435	2467	4.20191	CCCAAGCCGTGATTGTATAAGTTG	60.202	45.833	2.13	0.0	0.0	3.16	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
296	306	3.322541	GGATTAGAGGTGAGAGGTTAGCC	59.677	52.174	0.00	0.00	0.00	3.93
454	465	8.492673	TCAAATTATGTTATATGATCGGGAGC	57.507	34.615	0.00	0.00	0.00	4.70
558	571	8.576442	AGTAGAGATAAAGAAGCAGAGATAAGC	58.424	37.037	0.00	0.00	0.00	3.09
559	572	7.601705	AGAGATAAAGAAGCAGAGATAAGCT	57.398	36.000	0.00	0.00	44.31	3.74
560	573	8.704849	AGAGATAAAGAAGCAGAGATAAGCTA	57.295	34.615	0.00	0.00	40.90	3.32
561	574	9.312904	AGAGATAAAGAAGCAGAGATAAGCTAT	57.687	33.333	0.00	0.00	40.90	2.97
566	579	7.831691	AAGAAGCAGAGATAAGCTATACTCA	57.168	36.000	13.65	0.00	40.90	3.41
567	580	7.452880	AGAAGCAGAGATAAGCTATACTCAG	57.547	40.000	13.65	8.55	40.90	3.35
568	581	7.230747	AGAAGCAGAGATAAGCTATACTCAGA	58.769	38.462	13.65	0.00	40.90	3.27
569	582	7.723616	AGAAGCAGAGATAAGCTATACTCAGAA	59.276	37.037	13.65	0.00	40.90	3.02
570	583	8.421249	AAGCAGAGATAAGCTATACTCAGAAT	57.579	34.615	13.65	0.51	40.90	2.40
571	584	8.421249	AGCAGAGATAAGCTATACTCAGAATT	57.579	34.615	13.65	0.00	39.78	2.17
572	585	8.522830	AGCAGAGATAAGCTATACTCAGAATTC	58.477	37.037	13.65	0.00	39.78	2.17
573	586	7.759433	GCAGAGATAAGCTATACTCAGAATTCC	59.241	40.741	0.65	0.00	32.59	3.01
574	587	8.801299	CAGAGATAAGCTATACTCAGAATTCCA	58.199	37.037	0.65	0.00	32.59	3.53
575	588	8.802267	AGAGATAAGCTATACTCAGAATTCCAC	58.198	37.037	0.65	0.00	32.59	4.02
576	589	8.719645	AGATAAGCTATACTCAGAATTCCACT	57.280	34.615	0.65	0.00	0.00	4.00
577	590	9.815306	AGATAAGCTATACTCAGAATTCCACTA	57.185	33.333	0.65	0.00	0.00	2.74
580	593	6.696411	AGCTATACTCAGAATTCCACTATGC	58.304	40.000	0.65	0.00	0.00	3.14
581	594	6.268617	AGCTATACTCAGAATTCCACTATGCA	59.731	38.462	0.65	0.00	0.00	3.96
582	595	6.367422	GCTATACTCAGAATTCCACTATGCAC	59.633	42.308	0.65	0.00	0.00	4.57
583	596	4.833478	ACTCAGAATTCCACTATGCACT	57.167	40.909	0.65	0.00	0.00	4.40
584	597	5.939764	ACTCAGAATTCCACTATGCACTA	57.060	39.130	0.65	0.00	0.00	2.74
585	598	5.911752	ACTCAGAATTCCACTATGCACTAG	58.088	41.667	0.65	0.00	0.00	2.57
586	599	5.423610	ACTCAGAATTCCACTATGCACTAGT	59.576	40.000	0.65	0.00	41.53	2.57
587	600	6.607600	ACTCAGAATTCCACTATGCACTAGTA	59.392	38.462	0.65	0.00	38.68	1.82
588	601	7.043961	TCAGAATTCCACTATGCACTAGTAG	57.956	40.000	0.65	0.00	38.68	2.57
589	602	6.833933	TCAGAATTCCACTATGCACTAGTAGA	59.166	38.462	3.59	5.01	38.68	2.59
590	603	7.342026	TCAGAATTCCACTATGCACTAGTAGAA	59.658	37.037	3.59	14.41	40.70	2.10
591	604	8.147058	CAGAATTCCACTATGCACTAGTAGAAT	58.853	37.037	16.44	16.44	45.15	2.40
592	605	8.364142	AGAATTCCACTATGCACTAGTAGAATC	58.636	37.037	19.53	15.45	43.58	2.52
593	606	7.847711	ATTCCACTATGCACTAGTAGAATCT	57.152	36.000	16.44	0.00	41.86	2.40
594	607	6.885952	TCCACTATGCACTAGTAGAATCTC	57.114	41.667	3.59	0.00	38.68	2.75
595	608	6.365520	TCCACTATGCACTAGTAGAATCTCA	58.634	40.000	3.59	0.00	38.68	3.27
596	609	6.488344	TCCACTATGCACTAGTAGAATCTCAG	59.512	42.308	3.59	0.00	38.68	3.35
597	610	6.488344	CCACTATGCACTAGTAGAATCTCAGA	59.512	42.308	3.59	0.00	38.68	3.27
598	611	7.359595	CACTATGCACTAGTAGAATCTCAGAC	58.640	42.308	3.59	0.00	38.68	3.51
599	612	7.228507	CACTATGCACTAGTAGAATCTCAGACT	59.771	40.741	3.59	0.00	38.68	3.24
600	613	7.777910	ACTATGCACTAGTAGAATCTCAGACTT	59.222	37.037	3.59	0.00	38.96	3.01
601	614	6.842437	TGCACTAGTAGAATCTCAGACTTT	57.158	37.500	3.59	0.00	0.00	2.66
602	615	7.233389	TGCACTAGTAGAATCTCAGACTTTT	57.767	36.000	3.59	0.00	0.00	2.27
603	616	7.093354	TGCACTAGTAGAATCTCAGACTTTTG	58.907	38.462	3.59	0.00	0.00	2.44
604	617	6.533367	GCACTAGTAGAATCTCAGACTTTTGG	59.467	42.308	3.59	0.00	0.00	3.28
605	618	7.038659	CACTAGTAGAATCTCAGACTTTTGGG	58.961	42.308	3.59	0.00	0.00	4.12
606	619	4.837972	AGTAGAATCTCAGACTTTTGGGC	58.162	43.478	0.00	0.00	0.00	5.36
607	620	2.704572	AGAATCTCAGACTTTTGGGCG	58.295	47.619	0.00	0.00	0.00	6.13
608	621	1.131315	GAATCTCAGACTTTTGGGCGC	59.869	52.381	0.00	0.00	0.00	6.53
609	622	1.021390	ATCTCAGACTTTTGGGCGCG	61.021	55.000	0.00	0.00	0.00	6.86
610	623	2.668212	TCAGACTTTTGGGCGCGG	60.668	61.111	8.83	0.00	0.00	6.46
611	624	2.668212	CAGACTTTTGGGCGCGGA	60.668	61.111	8.83	0.00	0.00	5.54
612	625	2.112297	AGACTTTTGGGCGCGGAA	59.888	55.556	8.83	0.00	0.00	4.30
613	626	2.254350	GACTTTTGGGCGCGGAAC	59.746	61.111	8.83	0.00	0.00	3.62
614	627	2.517402	ACTTTTGGGCGCGGAACA	60.517	55.556	8.83	0.00	0.00	3.18
615	628	2.065906	GACTTTTGGGCGCGGAACAA	62.066	55.000	8.83	0.89	0.00	2.83
616	629	1.066587	CTTTTGGGCGCGGAACAAA	59.933	52.632	8.83	7.68	32.77	2.83
617	630	0.528684	CTTTTGGGCGCGGAACAAAA	60.529	50.000	21.19	21.19	40.55	2.44
618	631	0.108329	TTTTGGGCGCGGAACAAAAA	60.108	45.000	20.66	9.57	40.07	1.94
640	653	7.891183	AAAATATCGAGGCATATGTACAGTC	57.109	36.000	0.33	0.00	0.00	3.51
641	654	3.944055	ATCGAGGCATATGTACAGTCC	57.056	47.619	0.33	0.00	0.00	3.85
642	655	1.607148	TCGAGGCATATGTACAGTCCG	59.393	52.381	0.33	0.00	0.00	4.79
643	656	1.784525	GAGGCATATGTACAGTCCGC	58.215	55.000	0.33	1.22	0.00	5.54
644	657	1.341531	GAGGCATATGTACAGTCCGCT	59.658	52.381	0.33	0.00	0.00	5.52
645	658	1.341531	AGGCATATGTACAGTCCGCTC	59.658	52.381	0.33	0.00	0.00	5.03
662	675	2.731341	CGCTCGACTAAATCTGGACGTT	60.731	50.000	0.00	0.00	0.00	3.99
829	844	1.005630	GCTCGTCCAACTCTGCAGT	60.006	57.895	14.67	0.00	0.00	4.40
882	897	1.380112	GCTCTACCTCACCCCGAGT	60.380	63.158	0.00	0.00	40.48	4.18
899	914	3.118956	CCGAGTAGCACTCATCCTCTTTT	60.119	47.826	14.09	0.00	45.30	2.27
911	928	0.035439	CCTCTTTTCCCCAGCGCTAA	60.035	55.000	10.99	0.00	0.00	3.09
973	1000	2.733218	CGCCGATGACACACACGT	60.733	61.111	0.00	0.00	0.00	4.49
1134	1161	0.878523	CGTCTGTTCGTTCCAAGGCA	60.879	55.000	0.00	0.00	0.00	4.75
1240	1267	5.566032	CGTCTACCTGACAACAAAGGTATCA	60.566	44.000	2.20	0.00	45.69	2.15
1571	1603	2.127708	ACCAGAGTCCTCCAGTTTTGT	58.872	47.619	0.00	0.00	0.00	2.83
1698	1730	5.335191	GCTTTGTGTAGGAGGAATCAAGTTG	60.335	44.000	0.00	0.00	0.00	3.16
2085	2117	7.600231	ATGATCTTAGAGATGACATGTCAGT	57.400	36.000	30.63	21.40	43.61	3.41
2122	2154	0.836400	TTCAGTCCCCTGGAGGTGAC	60.836	60.000	0.28	0.28	39.31	3.67
2435	2467	0.657368	CAAGAACAAGGTTGCGACGC	60.657	55.000	14.19	14.19	0.00	5.19

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
296	306	5.316987	GACATAATCCCACCCTCAATTAGG	58.683	45.833	0.00	0.00	46.09	2.69
443	454	3.392616	AGAAATTACAGGCTCCCGATCAT	59.607	43.478	0.00	0.00	0.00	2.45
454	465	4.755123	AGAACAACACGGAGAAATTACAGG	59.245	41.667	0.00	0.00	0.00	4.00
492	503	4.141937	ACATATTCATCACTACGTGCACCT	60.142	41.667	12.15	1.77	32.98	4.00
542	555	7.723616	TCTGAGTATAGCTTATCTCTGCTTCTT	59.276	37.037	0.00	0.00	40.35	2.52
543	556	7.230747	TCTGAGTATAGCTTATCTCTGCTTCT	58.769	38.462	0.00	0.00	40.35	2.85
544	557	7.447374	TCTGAGTATAGCTTATCTCTGCTTC	57.553	40.000	0.00	0.00	40.35	3.86
545	558	7.831691	TTCTGAGTATAGCTTATCTCTGCTT	57.168	36.000	0.00	0.00	40.35	3.91
546	559	8.421249	AATTCTGAGTATAGCTTATCTCTGCT	57.579	34.615	0.00	0.00	42.67	4.24
547	560	7.759433	GGAATTCTGAGTATAGCTTATCTCTGC	59.241	40.741	5.23	0.00	0.00	4.26
548	561	8.801299	TGGAATTCTGAGTATAGCTTATCTCTG	58.199	37.037	5.23	2.09	0.00	3.35
549	562	8.802267	GTGGAATTCTGAGTATAGCTTATCTCT	58.198	37.037	5.23	0.00	0.00	3.10
550	563	8.802267	AGTGGAATTCTGAGTATAGCTTATCTC	58.198	37.037	5.23	0.00	0.00	2.75
551	564	8.719645	AGTGGAATTCTGAGTATAGCTTATCT	57.280	34.615	5.23	0.00	0.00	1.98
554	567	8.307483	GCATAGTGGAATTCTGAGTATAGCTTA	58.693	37.037	5.23	0.00	0.00	3.09
555	568	7.158021	GCATAGTGGAATTCTGAGTATAGCTT	58.842	38.462	5.23	0.00	0.00	3.74
556	569	6.268617	TGCATAGTGGAATTCTGAGTATAGCT	59.731	38.462	5.23	0.00	0.00	3.32
557	570	6.367422	GTGCATAGTGGAATTCTGAGTATAGC	59.633	42.308	5.23	10.82	0.00	2.97
558	571	7.665690	AGTGCATAGTGGAATTCTGAGTATAG	58.334	38.462	5.23	3.04	0.00	1.31
559	572	7.603180	AGTGCATAGTGGAATTCTGAGTATA	57.397	36.000	5.23	0.00	0.00	1.47
560	573	6.491714	AGTGCATAGTGGAATTCTGAGTAT	57.508	37.500	5.23	2.99	0.00	2.12
561	574	5.939764	AGTGCATAGTGGAATTCTGAGTA	57.060	39.130	5.23	0.72	0.00	2.59
562	575	4.833478	AGTGCATAGTGGAATTCTGAGT	57.167	40.909	5.23	0.00	0.00	3.41
563	576	5.911752	ACTAGTGCATAGTGGAATTCTGAG	58.088	41.667	5.23	0.00	43.35	3.35
564	577	5.939764	ACTAGTGCATAGTGGAATTCTGA	57.060	39.130	5.23	0.00	43.35	3.27
565	578	7.043961	TCTACTAGTGCATAGTGGAATTCTG	57.956	40.000	5.39	0.00	45.82	3.02
571	584	6.365520	TGAGATTCTACTAGTGCATAGTGGA	58.634	40.000	5.39	14.10	46.77	4.02
572	585	6.488344	TCTGAGATTCTACTAGTGCATAGTGG	59.512	42.308	5.39	13.03	44.69	4.00
573	586	7.228507	AGTCTGAGATTCTACTAGTGCATAGTG	59.771	40.741	5.39	8.25	44.69	2.74
574	587	7.287061	AGTCTGAGATTCTACTAGTGCATAGT	58.713	38.462	5.39	11.76	46.70	2.12
575	588	7.744087	AGTCTGAGATTCTACTAGTGCATAG	57.256	40.000	5.39	0.00	37.53	2.23
576	589	8.526667	AAAGTCTGAGATTCTACTAGTGCATA	57.473	34.615	5.39	0.00	0.00	3.14
577	590	7.416964	AAAGTCTGAGATTCTACTAGTGCAT	57.583	36.000	5.39	0.00	0.00	3.96
578	591	6.842437	AAAGTCTGAGATTCTACTAGTGCA	57.158	37.500	5.39	0.00	0.00	4.57
579	592	6.533367	CCAAAAGTCTGAGATTCTACTAGTGC	59.467	42.308	5.39	0.00	0.00	4.40
580	593	7.038659	CCCAAAAGTCTGAGATTCTACTAGTG	58.961	42.308	5.39	0.00	0.00	2.74
581	594	6.351456	GCCCAAAAGTCTGAGATTCTACTAGT	60.351	42.308	0.00	0.00	0.00	2.57
582	595	6.045955	GCCCAAAAGTCTGAGATTCTACTAG	58.954	44.000	0.00	0.00	0.00	2.57
583	596	5.394224	CGCCCAAAAGTCTGAGATTCTACTA	60.394	44.000	0.00	0.00	0.00	1.82
584	597	4.621747	CGCCCAAAAGTCTGAGATTCTACT	60.622	45.833	0.00	0.00	0.00	2.57
585	598	3.619038	CGCCCAAAAGTCTGAGATTCTAC	59.381	47.826	0.00	0.00	0.00	2.59
586	599	3.861840	CGCCCAAAAGTCTGAGATTCTA	58.138	45.455	0.00	0.00	0.00	2.10
587	600	2.704572	CGCCCAAAAGTCTGAGATTCT	58.295	47.619	0.00	0.00	0.00	2.40
588	601	1.131315	GCGCCCAAAAGTCTGAGATTC	59.869	52.381	0.00	0.00	0.00	2.52
589	602	1.168714	GCGCCCAAAAGTCTGAGATT	58.831	50.000	0.00	0.00	0.00	2.40
590	603	1.021390	CGCGCCCAAAAGTCTGAGAT	61.021	55.000	0.00	0.00	0.00	2.75
591	604	1.667830	CGCGCCCAAAAGTCTGAGA	60.668	57.895	0.00	0.00	0.00	3.27
592	605	2.680913	CCGCGCCCAAAAGTCTGAG	61.681	63.158	0.00	0.00	0.00	3.35
593	606	2.668185	TTCCGCGCCCAAAAGTCTGA	62.668	55.000	0.00	0.00	0.00	3.27
594	607	2.258013	TTCCGCGCCCAAAAGTCTG	61.258	57.895	0.00	0.00	0.00	3.51
595	608	2.112297	TTCCGCGCCCAAAAGTCT	59.888	55.556	0.00	0.00	0.00	3.24
596	609	2.065906	TTGTTCCGCGCCCAAAAGTC	62.066	55.000	0.00	0.00	0.00	3.01
597	610	1.668101	TTTGTTCCGCGCCCAAAAGT	61.668	50.000	0.00	0.00	0.00	2.66
598	611	0.528684	TTTTGTTCCGCGCCCAAAAG	60.529	50.000	18.52	0.00	34.22	2.27
599	612	0.108329	TTTTTGTTCCGCGCCCAAAA	60.108	45.000	18.52	18.52	36.56	2.44
600	613	1.515954	TTTTTGTTCCGCGCCCAAA	59.484	47.368	0.00	6.27	0.00	3.28
601	614	3.207354	TTTTTGTTCCGCGCCCAA	58.793	50.000	0.00	0.00	0.00	4.12
615	628	7.387948	GGACTGTACATATGCCTCGATATTTTT	59.612	37.037	1.58	0.00	0.00	1.94
616	629	6.874134	GGACTGTACATATGCCTCGATATTTT	59.126	38.462	1.58	0.00	0.00	1.82
617	630	6.398918	GGACTGTACATATGCCTCGATATTT	58.601	40.000	1.58	0.00	0.00	1.40
618	631	5.393135	CGGACTGTACATATGCCTCGATATT	60.393	44.000	1.58	0.00	0.00	1.28
619	632	4.096532	CGGACTGTACATATGCCTCGATAT	59.903	45.833	1.58	0.00	0.00	1.63
620	633	3.439129	CGGACTGTACATATGCCTCGATA	59.561	47.826	1.58	0.00	0.00	2.92
621	634	2.229062	CGGACTGTACATATGCCTCGAT	59.771	50.000	1.58	0.00	0.00	3.59
622	635	1.607148	CGGACTGTACATATGCCTCGA	59.393	52.381	1.58	0.00	0.00	4.04
623	636	1.930817	GCGGACTGTACATATGCCTCG	60.931	57.143	1.58	0.00	0.00	4.63
624	637	1.341531	AGCGGACTGTACATATGCCTC	59.658	52.381	1.58	0.00	0.00	4.70
625	638	1.341531	GAGCGGACTGTACATATGCCT	59.658	52.381	1.58	0.00	0.00	4.75
626	639	1.784525	GAGCGGACTGTACATATGCC	58.215	55.000	1.58	0.00	0.00	4.40
627	640	1.001706	TCGAGCGGACTGTACATATGC	60.002	52.381	1.58	0.00	0.00	3.14
628	641	2.651701	GTCGAGCGGACTGTACATATG	58.348	52.381	0.00	0.00	42.62	1.78
638	651	1.404391	TCCAGATTTAGTCGAGCGGAC	59.596	52.381	3.09	3.09	46.45	4.79
639	652	1.404391	GTCCAGATTTAGTCGAGCGGA	59.596	52.381	0.00	0.00	0.00	5.54
640	653	1.841450	GTCCAGATTTAGTCGAGCGG	58.159	55.000	0.00	0.00	0.00	5.52
641	654	1.202154	ACGTCCAGATTTAGTCGAGCG	60.202	52.381	0.00	0.00	0.00	5.03
642	655	2.563471	ACGTCCAGATTTAGTCGAGC	57.437	50.000	0.00	0.00	0.00	5.03
643	656	4.092771	TCAACGTCCAGATTTAGTCGAG	57.907	45.455	0.00	0.00	0.00	4.04
644	657	4.022589	AGTTCAACGTCCAGATTTAGTCGA	60.023	41.667	0.00	0.00	0.00	4.20
645	658	4.235360	AGTTCAACGTCCAGATTTAGTCG	58.765	43.478	0.00	0.00	0.00	4.18
662	675	0.681733	AGCCTGAAAGCTCGAGTTCA	59.318	50.000	15.13	15.26	39.48	3.18
829	844	2.203480	GTGCTGGGCCACTTTGGA	60.203	61.111	0.00	0.00	40.96	3.53
882	897	2.505819	GGGGAAAAGAGGATGAGTGCTA	59.494	50.000	0.00	0.00	0.00	3.49
899	914	1.520666	GCTAACTTAGCGCTGGGGA	59.479	57.895	22.90	0.00	42.62	4.81
911	928	1.522569	CGGCTAAGGCTGGCTAACT	59.477	57.895	3.41	0.00	40.90	2.24
973	1000	2.184322	GGCGATCTGGACAAGCGA	59.816	61.111	0.00	0.00	0.00	4.93
1255	1282	3.058160	GCCGGATGCAACAGCAGT	61.058	61.111	5.05	0.00	42.36	4.40
1331	1358	1.376466	CAGGCCACTGTGCTTACCT	59.624	57.895	5.01	3.36	39.92	3.08
1571	1603	3.619419	TGCTACAAAATATCTGCAGGCA	58.381	40.909	15.13	8.38	0.00	4.75
1698	1730	3.261580	GCCCAATGAACAGCCAAATAAC	58.738	45.455	0.00	0.00	0.00	1.89
2085	2117	6.547141	GGACTGAACAATATCCATTTCATCCA	59.453	38.462	0.00	0.00	0.00	3.41
2435	2467	4.201910	CCCAAGCCGTGATTGTATAAGTTG	60.202	45.833	2.13	0.00	0.00	3.16

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.