AutoCloner

Multiple sequence alignment - TraesCS1A01G123800

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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	TraesCS1A01G123800	chr1A	100.000	2285	0	0	1	2285	144560437	144558153	0.000000e+00	4220.0
1	TraesCS1A01G123800	chr6D	93.373	1690	65	12	619	2285	419598592	419596927	0.000000e+00	2457.0
2	TraesCS1A01G123800	chr6D	91.726	1692	59	24	619	2285	427936466	427934831	0.000000e+00	2274.0
3	TraesCS1A01G123800	chr6D	95.272	994	25	6	1304	2285	427611454	427610471	0.000000e+00	1555.0
4	TraesCS1A01G123800	chr6D	87.296	551	27	7	619	1168	427612040	427611532	7.030000e-165	590.0
5	TraesCS1A01G123800	chr2D	92.566	1547	71	16	765	2285	499027483	499025955	0.000000e+00	2180.0
6	TraesCS1A01G123800	chr2D	94.279	437	12	3	1852	2285	563475143	563474717	0.000000e+00	656.0
7	TraesCS1A01G123800	chr2D	94.264	401	12	2	1557	1946	600611766	600612166	9.030000e-169	603.0
8	TraesCS1A01G123800	chr2D	86.636	217	20	9	619	832	499027580	499027370	4.910000e-57	231.0
9	TraesCS1A01G123800	chr2D	85.714	182	18	6	1255	1431	594550654	594550476	3.880000e-43	185.0
10	TraesCS1A01G123800	chr1D	94.817	1119	30	6	1178	2285	350880614	350881715	0.000000e+00	1720.0
11	TraesCS1A01G123800	chr1D	93.601	547	26	3	619	1165	350871468	350872005	0.000000e+00	808.0
12	TraesCS1A01G123800	chr1D	94.514	401	11	2	1557	1946	16733456	16733856	1.940000e-170	608.0
13	TraesCS1A01G123800	chr1D	100.000	69	0	0	2217	2285	16733855	16733923	6.630000e-26	128.0
14	TraesCS1A01G123800	chr2A	92.549	926	48	8	619	1533	622751216	622752131	0.000000e+00	1308.0
15	TraesCS1A01G123800	chr2A	95.594	522	9	3	1530	2040	622752087	622752605	0.000000e+00	824.0
16	TraesCS1A01G123800	chr2A	92.562	242	18	0	1867	2108	181504209	181503968	4.670000e-92	348.0
17	TraesCS1A01G123800	chr2A	99.020	102	1	0	2184	2285	622752600	622752701	1.390000e-42	183.0
18	TraesCS1A01G123800	chr7A	95.290	552	20	3	792	1340	126705176	126704628	0.000000e+00	870.0
19	TraesCS1A01G123800	chr7A	92.321	560	34	6	1	553	672985050	672985607	0.000000e+00	787.0
20	TraesCS1A01G123800	chr7A	97.554	327	8	0	1959	2285	126704627	126704301	5.510000e-156	560.0
21	TraesCS1A01G123800	chr7A	95.361	194	9	0	1972	2165	563191015	563191208	2.200000e-80	309.0
22	TraesCS1A01G123800	chr7A	86.154	130	18	0	37	166	19454270	19454399	8.510000e-30	141.0
23	TraesCS1A01G123800	chr6A	93.357	557	31	6	1	553	422269130	422269684	0.000000e+00	819.0
24	TraesCS1A01G123800	chr5A	94.344	442	21	4	1	439	598350020	598349580	0.000000e+00	675.0
25	TraesCS1A01G123800	chr5B	87.744	563	47	11	3	559	13770625	13771171	2.480000e-179	638.0
26	TraesCS1A01G123800	chr5B	88.743	382	38	5	619	998	699283161	699283539	1.600000e-126	462.0
27	TraesCS1A01G123800	chr2B	87.302	567	50	11	4	562	560470197	560470749	1.490000e-176	628.0
28	TraesCS1A01G123800	chr2B	87.410	556	50	11	4	553	560466442	560466983	2.490000e-174	621.0
29	TraesCS1A01G123800	chr2B	83.333	180	22	6	1255	1429	722094111	722093935	2.350000e-35	159.0
30	TraesCS1A01G123800	chr2B	97.143	35	1	0	1499	1533	99754351	99754385	2.450000e-05	60.2
31	TraesCS1A01G123800	chr4B	89.792	480	48	1	619	1098	624390082	624389604	4.170000e-172	614.0
32	TraesCS1A01G123800	chr4B	88.329	377	40	4	631	1006	546813992	546813619	1.240000e-122	449.0
33	TraesCS1A01G123800	chr7D	94.724	398	10	2	1560	1946	232372041	232371644	1.940000e-170	608.0
34	TraesCS1A01G123800	chr7D	85.036	274	31	7	619	890	374078059	374078324	1.040000e-68	270.0
35	TraesCS1A01G123800	chr1B	86.549	565	50	14	3	559	180408138	180407592	1.170000e-167	599.0
36	TraesCS1A01G123800	chr5D	94.221	398	12	2	1560	1946	538113295	538112898	4.200000e-167	597.0
37	TraesCS1A01G123800	chr5D	85.496	131	19	0	37	167	382342687	382342557	1.100000e-28	137.0
38	TraesCS1A01G123800	chr4D	88.235	374	37	7	173	542	49822140	49821770	7.490000e-120	440.0
39	TraesCS1A01G123800	chr4D	93.448	290	8	2	1668	1946	348429893	348429604	9.760000e-114	420.0

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	TraesCS1A01G123800	chr1A	144558153	144560437	2284	True	4220.000000	4220	100.000	1	2285	1	chr1A.!!$R1	2284
1	TraesCS1A01G123800	chr6D	419596927	419598592	1665	True	2457.000000	2457	93.373	619	2285	1	chr6D.!!$R1	1666
2	TraesCS1A01G123800	chr6D	427934831	427936466	1635	True	2274.000000	2274	91.726	619	2285	1	chr6D.!!$R2	1666
3	TraesCS1A01G123800	chr6D	427610471	427612040	1569	True	1072.500000	1555	91.284	619	2285	2	chr6D.!!$R3	1666
4	TraesCS1A01G123800	chr2D	499025955	499027580	1625	True	1205.500000	2180	89.601	619	2285	2	chr2D.!!$R3	1666
5	TraesCS1A01G123800	chr1D	350880614	350881715	1101	False	1720.000000	1720	94.817	1178	2285	1	chr1D.!!$F2	1107
6	TraesCS1A01G123800	chr1D	350871468	350872005	537	False	808.000000	808	93.601	619	1165	1	chr1D.!!$F1	546
7	TraesCS1A01G123800	chr2A	622751216	622752701	1485	False	771.666667	1308	95.721	619	2285	3	chr2A.!!$F1	1666
8	TraesCS1A01G123800	chr7A	672985050	672985607	557	False	787.000000	787	92.321	1	553	1	chr7A.!!$F3	552
9	TraesCS1A01G123800	chr7A	126704301	126705176	875	True	715.000000	870	96.422	792	2285	2	chr7A.!!$R1	1493
10	TraesCS1A01G123800	chr6A	422269130	422269684	554	False	819.000000	819	93.357	1	553	1	chr6A.!!$F1	552
11	TraesCS1A01G123800	chr5B	13770625	13771171	546	False	638.000000	638	87.744	3	559	1	chr5B.!!$F1	556
12	TraesCS1A01G123800	chr2B	560466442	560470749	4307	False	624.500000	628	87.356	4	562	2	chr2B.!!$F2	558
13	TraesCS1A01G123800	chr1B	180407592	180408138	546	True	599.000000	599	86.549	3	559	1	chr1B.!!$R1	556

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
587	4352	0.098728	GCATTGCGCGTACATTCCTT	59.901	50.0	8.43	0.0	0.0	3.36	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2202	6078	2.543797	CCTTGGGGCCCAGTGGTTA	61.544	63.158	28.41	14.02	33.81	2.85	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
159	3916	6.838382	GGATACCATTGTCCACCTAACTATT	58.162	40.000	0.00	0.00	33.15	1.73
233	3992	0.878961	GGCGTGTTCGGTTTGACTCT	60.879	55.000	0.00	0.00	37.56	3.24
259	4018	7.972832	TTTGTGGGTAGAACTTGTATTACTG	57.027	36.000	0.00	0.00	0.00	2.74
341	4101	3.744426	CCGACCAAACGACATTTCTACTT	59.256	43.478	0.00	0.00	35.09	2.24
350	4110	5.057149	ACGACATTTCTACTTGCAGTTCTT	58.943	37.500	0.00	0.00	0.00	2.52
390	4154	6.619801	AAACACTAACCACATTCTGAGTTC	57.380	37.500	0.00	0.00	0.00	3.01
474	4238	5.012328	AGACTCATAGGCTCGGTAAAAAG	57.988	43.478	0.00	0.00	0.00	2.27
555	4320	8.978539	CATTGTACGTGCATATTTACTAGTGAT	58.021	33.333	7.30	2.23	0.00	3.06
574	4339	7.823149	AGTGATAAAAGAAAATCTGCATTGC	57.177	32.000	0.46	0.46	0.00	3.56
575	4340	6.529125	AGTGATAAAAGAAAATCTGCATTGCG	59.471	34.615	3.84	0.00	0.00	4.85
576	4341	5.289193	TGATAAAAGAAAATCTGCATTGCGC	59.711	36.000	0.00	0.00	42.89	6.09
577	4342	1.621107	AAGAAAATCTGCATTGCGCG	58.379	45.000	0.00	0.00	46.97	6.86
578	4343	0.523072	AGAAAATCTGCATTGCGCGT	59.477	45.000	8.43	0.00	46.97	6.01
579	4344	1.737236	AGAAAATCTGCATTGCGCGTA	59.263	42.857	8.43	0.00	46.97	4.42
580	4345	1.840141	GAAAATCTGCATTGCGCGTAC	59.160	47.619	8.43	0.00	46.97	3.67
581	4346	0.801872	AAATCTGCATTGCGCGTACA	59.198	45.000	8.43	0.00	46.97	2.90
582	4347	1.016627	AATCTGCATTGCGCGTACAT	58.983	45.000	8.43	0.00	46.97	2.29
583	4348	1.016627	ATCTGCATTGCGCGTACATT	58.983	45.000	8.43	0.00	46.97	2.71
584	4349	0.373370	TCTGCATTGCGCGTACATTC	59.627	50.000	8.43	0.00	46.97	2.67
585	4350	0.589729	CTGCATTGCGCGTACATTCC	60.590	55.000	8.43	0.00	46.97	3.01
586	4351	1.024046	TGCATTGCGCGTACATTCCT	61.024	50.000	8.43	0.00	46.97	3.36
587	4352	0.098728	GCATTGCGCGTACATTCCTT	59.901	50.000	8.43	0.00	0.00	3.36
588	4353	1.329292	GCATTGCGCGTACATTCCTTA	59.671	47.619	8.43	0.00	0.00	2.69
589	4354	2.849502	GCATTGCGCGTACATTCCTTAC	60.850	50.000	8.43	0.00	0.00	2.34
590	4355	2.373540	TTGCGCGTACATTCCTTACT	57.626	45.000	8.43	0.00	0.00	2.24
591	4356	2.373540	TGCGCGTACATTCCTTACTT	57.626	45.000	8.43	0.00	0.00	2.24
592	4357	2.690786	TGCGCGTACATTCCTTACTTT	58.309	42.857	8.43	0.00	0.00	2.66
593	4358	3.068560	TGCGCGTACATTCCTTACTTTT	58.931	40.909	8.43	0.00	0.00	2.27
594	4359	3.123959	TGCGCGTACATTCCTTACTTTTC	59.876	43.478	8.43	0.00	0.00	2.29
595	4360	3.370061	GCGCGTACATTCCTTACTTTTCT	59.630	43.478	8.43	0.00	0.00	2.52
596	4361	4.563976	GCGCGTACATTCCTTACTTTTCTA	59.436	41.667	8.43	0.00	0.00	2.10
597	4362	5.499812	GCGCGTACATTCCTTACTTTTCTAC	60.500	44.000	8.43	0.00	0.00	2.59
598	4363	5.574055	CGCGTACATTCCTTACTTTTCTACA	59.426	40.000	0.00	0.00	0.00	2.74
599	4364	6.255020	CGCGTACATTCCTTACTTTTCTACAT	59.745	38.462	0.00	0.00	0.00	2.29
600	4365	7.433131	CGCGTACATTCCTTACTTTTCTACATA	59.567	37.037	0.00	0.00	0.00	2.29
601	4366	9.090692	GCGTACATTCCTTACTTTTCTACATAA	57.909	33.333	0.00	0.00	0.00	1.90
608	4373	8.882415	TCCTTACTTTTCTACATAATTAGCCG	57.118	34.615	0.00	0.00	0.00	5.52
609	4374	7.929785	TCCTTACTTTTCTACATAATTAGCCGG	59.070	37.037	0.00	0.00	0.00	6.13
610	4375	7.307811	CCTTACTTTTCTACATAATTAGCCGGC	60.308	40.741	21.89	21.89	0.00	6.13
611	4376	5.433526	ACTTTTCTACATAATTAGCCGGCA	58.566	37.500	31.54	9.64	0.00	5.69
612	4377	5.883673	ACTTTTCTACATAATTAGCCGGCAA	59.116	36.000	31.54	20.81	0.00	4.52
613	4378	6.376018	ACTTTTCTACATAATTAGCCGGCAAA	59.624	34.615	31.54	14.16	0.00	3.68
614	4379	5.744666	TTCTACATAATTAGCCGGCAAAC	57.255	39.130	31.54	0.00	0.00	2.93
615	4380	4.131596	TCTACATAATTAGCCGGCAAACC	58.868	43.478	31.54	0.00	0.00	3.27
616	4381	2.729194	ACATAATTAGCCGGCAAACCA	58.271	42.857	31.54	11.15	34.57	3.67
617	4382	3.093057	ACATAATTAGCCGGCAAACCAA	58.907	40.909	31.54	14.22	34.57	3.67
638	4403	0.179225	CCCGAAAAACATGTCGCGAG	60.179	55.000	10.24	0.00	35.93	5.03
640	4405	0.787787	CGAAAAACATGTCGCGAGGA	59.212	50.000	10.24	0.00	0.00	3.71
683	4448	1.128188	AGCTTCTCCCGACCAAACCT	61.128	55.000	0.00	0.00	0.00	3.50
692	4457	1.600916	GACCAAACCTGCGCTCCTT	60.601	57.895	9.73	0.00	0.00	3.36
837	4626	3.714001	CAGCTGCCTCCTGCTCCA	61.714	66.667	0.00	0.00	43.36	3.86
992	4783	0.379316	GGACCACCAACAACAACGTC	59.621	55.000	0.00	0.00	35.97	4.34
1087	4878	1.899437	GATCCTCCAGTCGGCCAACA	61.899	60.000	2.24	0.00	0.00	3.33
1121	4912	2.417933	CCTTCACGGAGCTGATTTTCAG	59.582	50.000	0.00	0.08	40.53	3.02
1299	5126	2.748605	CGCTGAAGTGAGTCAGTTCTT	58.251	47.619	31.19	16.02	45.75	2.52
1433	5260	1.687660	TCAACATGTGCATTGCTGGTT	59.312	42.857	10.49	6.16	0.00	3.67
1500	5360	6.360618	ACTTTCTGAATCTCTGAACCACTTT	58.639	36.000	0.00	0.00	34.72	2.66
1562	5422	8.773645	CACTTCACTGAATGTGTGTAAAATCTA	58.226	33.333	10.73	0.00	46.27	1.98
1680	5540	4.455533	ACAGTTTTGCAAGCATTCGATCTA	59.544	37.500	0.00	0.00	0.00	1.98
1682	5542	6.316140	ACAGTTTTGCAAGCATTCGATCTATA	59.684	34.615	0.00	0.00	0.00	1.31
1749	5609	7.600375	TCAGTCATGAACTATGAACTCTGAAAC	59.400	37.037	0.00	0.00	46.85	2.78
2046	5920	2.764010	ACATCACATCAAGCATGCCATT	59.236	40.909	15.66	0.00	35.65	3.16
2169	6045	6.647334	TTGATTCTGTTTTTGATGGCACTA	57.353	33.333	0.00	0.00	0.00	2.74
2173	6049	8.801299	TGATTCTGTTTTTGATGGCACTAAATA	58.199	29.630	0.00	0.00	0.00	1.40

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
16	17	7.827236	TCCATCGGTGACTTTGTAAAATCTAAT	59.173	33.333	0.00	0.00	0.00	1.73
103	3860	2.829023	AGGTTCAAGTCCCGATCCTTA	58.171	47.619	0.00	0.00	29.94	2.69
107	3864	1.003233	ACCAAGGTTCAAGTCCCGATC	59.997	52.381	0.00	0.00	0.00	3.69
111	3868	1.318576	CACACCAAGGTTCAAGTCCC	58.681	55.000	0.00	0.00	0.00	4.46
143	3900	5.570205	TGGTTGAATAGTTAGGTGGACAA	57.430	39.130	0.00	0.00	0.00	3.18
233	3992	8.842280	CAGTAATACAAGTTCTACCCACAAAAA	58.158	33.333	0.00	0.00	0.00	1.94
259	4018	9.232473	AGGAGGATTGTAATTTTGAACTTCTAC	57.768	33.333	0.00	0.00	0.00	2.59
313	4073	3.235481	TCGTTTGGTCGGCCTCCA	61.235	61.111	7.97	11.71	35.27	3.86
387	4151	9.123709	GACTCATATTACTCATCTCAATCGAAC	57.876	37.037	0.00	0.00	0.00	3.95
390	4154	8.510505	TCTGACTCATATTACTCATCTCAATCG	58.489	37.037	0.00	0.00	0.00	3.34
555	4320	3.607641	CGCGCAATGCAGATTTTCTTTTA	59.392	39.130	8.75	0.00	46.97	1.52
560	4325	1.840141	GTACGCGCAATGCAGATTTTC	59.160	47.619	5.73	0.00	46.97	2.29
562	4327	0.801872	TGTACGCGCAATGCAGATTT	59.198	45.000	5.73	0.00	46.97	2.17
564	4329	1.003545	GAATGTACGCGCAATGCAGAT	60.004	47.619	5.73	0.00	46.97	2.90
565	4330	0.373370	GAATGTACGCGCAATGCAGA	59.627	50.000	5.73	0.00	46.97	4.26
566	4331	0.589729	GGAATGTACGCGCAATGCAG	60.590	55.000	5.73	0.55	46.97	4.41
567	4332	1.024046	AGGAATGTACGCGCAATGCA	61.024	50.000	5.73	4.85	46.97	3.96
568	4333	0.098728	AAGGAATGTACGCGCAATGC	59.901	50.000	5.73	0.00	41.47	3.56
569	4334	2.607635	AGTAAGGAATGTACGCGCAATG	59.392	45.455	5.73	0.00	0.00	2.82
570	4335	2.901249	AGTAAGGAATGTACGCGCAAT	58.099	42.857	5.73	0.00	0.00	3.56
571	4336	2.373540	AGTAAGGAATGTACGCGCAA	57.626	45.000	5.73	0.00	0.00	4.85
572	4337	2.373540	AAGTAAGGAATGTACGCGCA	57.626	45.000	5.73	0.00	0.00	6.09
573	4338	3.370061	AGAAAAGTAAGGAATGTACGCGC	59.630	43.478	5.73	0.00	0.00	6.86
574	4339	5.574055	TGTAGAAAAGTAAGGAATGTACGCG	59.426	40.000	3.53	3.53	0.00	6.01
575	4340	6.956299	TGTAGAAAAGTAAGGAATGTACGC	57.044	37.500	0.00	0.00	0.00	4.42
582	4347	9.321562	CGGCTAATTATGTAGAAAAGTAAGGAA	57.678	33.333	0.00	0.00	0.00	3.36
583	4348	7.929785	CCGGCTAATTATGTAGAAAAGTAAGGA	59.070	37.037	0.00	0.00	0.00	3.36
584	4349	7.307811	GCCGGCTAATTATGTAGAAAAGTAAGG	60.308	40.741	22.15	0.00	0.00	2.69
585	4350	7.225931	TGCCGGCTAATTATGTAGAAAAGTAAG	59.774	37.037	29.70	0.00	0.00	2.34
586	4351	7.049133	TGCCGGCTAATTATGTAGAAAAGTAA	58.951	34.615	29.70	0.00	0.00	2.24
587	4352	6.584488	TGCCGGCTAATTATGTAGAAAAGTA	58.416	36.000	29.70	0.00	0.00	2.24
588	4353	5.433526	TGCCGGCTAATTATGTAGAAAAGT	58.566	37.500	29.70	0.00	0.00	2.66
589	4354	6.371809	TTGCCGGCTAATTATGTAGAAAAG	57.628	37.500	29.70	0.00	0.00	2.27
590	4355	6.404954	GGTTTGCCGGCTAATTATGTAGAAAA	60.405	38.462	29.70	11.80	0.00	2.29
591	4356	5.066764	GGTTTGCCGGCTAATTATGTAGAAA	59.933	40.000	29.70	12.01	0.00	2.52
592	4357	4.577283	GGTTTGCCGGCTAATTATGTAGAA	59.423	41.667	29.70	5.56	0.00	2.10
593	4358	4.131596	GGTTTGCCGGCTAATTATGTAGA	58.868	43.478	29.70	0.00	0.00	2.59
594	4359	3.880490	TGGTTTGCCGGCTAATTATGTAG	59.120	43.478	29.70	0.00	37.67	2.74
595	4360	3.887352	TGGTTTGCCGGCTAATTATGTA	58.113	40.909	29.70	0.00	37.67	2.29
596	4361	2.729194	TGGTTTGCCGGCTAATTATGT	58.271	42.857	29.70	0.00	37.67	2.29
597	4362	3.791973	TTGGTTTGCCGGCTAATTATG	57.208	42.857	29.70	0.00	37.67	1.90
598	4363	3.320826	GGATTGGTTTGCCGGCTAATTAT	59.679	43.478	29.70	19.10	37.67	1.28
599	4364	2.691011	GGATTGGTTTGCCGGCTAATTA	59.309	45.455	29.70	16.04	37.67	1.40
600	4365	1.480545	GGATTGGTTTGCCGGCTAATT	59.519	47.619	29.70	12.48	37.67	1.40
601	4366	1.111277	GGATTGGTTTGCCGGCTAAT	58.889	50.000	29.70	18.61	37.67	1.73
602	4367	0.968393	GGGATTGGTTTGCCGGCTAA	60.968	55.000	29.70	24.54	37.67	3.09
603	4368	1.379309	GGGATTGGTTTGCCGGCTA	60.379	57.895	29.70	19.10	37.67	3.93
604	4369	2.679996	GGGATTGGTTTGCCGGCT	60.680	61.111	29.70	4.49	37.67	5.52
605	4370	4.128388	CGGGATTGGTTTGCCGGC	62.128	66.667	22.73	22.73	45.72	6.13
608	4373	2.139917	GTTTTTCGGGATTGGTTTGCC	58.860	47.619	0.00	0.00	0.00	4.52
609	4374	2.827652	TGTTTTTCGGGATTGGTTTGC	58.172	42.857	0.00	0.00	0.00	3.68
610	4375	4.376146	ACATGTTTTTCGGGATTGGTTTG	58.624	39.130	0.00	0.00	0.00	2.93
611	4376	4.627058	GACATGTTTTTCGGGATTGGTTT	58.373	39.130	0.00	0.00	0.00	3.27
612	4377	3.305064	CGACATGTTTTTCGGGATTGGTT	60.305	43.478	0.00	0.00	0.00	3.67
613	4378	2.227865	CGACATGTTTTTCGGGATTGGT	59.772	45.455	0.00	0.00	0.00	3.67
614	4379	2.862512	CGACATGTTTTTCGGGATTGG	58.137	47.619	0.00	0.00	0.00	3.16
615	4380	2.250188	GCGACATGTTTTTCGGGATTG	58.750	47.619	0.00	0.00	35.73	2.67
616	4381	2.629639	GCGACATGTTTTTCGGGATT	57.370	45.000	0.00	0.00	35.73	3.01
658	4423	0.396001	GGTCGGGAGAAGCTAGAGGT	60.396	60.000	0.00	0.00	42.89	3.85
683	4448	3.282745	GAGGACGACAAGGAGCGCA	62.283	63.158	11.47	0.00	0.00	6.09
877	4668	8.579863	GGAAATTGAAGATCTTTTTGAGGAAGA	58.420	33.333	9.87	0.00	37.52	2.87
1087	4878	2.069273	CGTGAAGGCGAAACTCTTGAT	58.931	47.619	0.00	0.00	0.00	2.57
1229	5053	2.360852	GGTCGAGGTCCACGAGGA	60.361	66.667	11.98	0.00	43.21	3.71
1299	5126	3.745975	CAGTAGACGCCTTCATCAAACAA	59.254	43.478	0.00	0.00	0.00	2.83
1348	5175	7.563020	AGCTGATTATTCATCTTGTTCTCTGA	58.437	34.615	0.00	0.00	32.34	3.27
1433	5260	7.397476	ACAGAGAAGATGGAGATGTAAACACTA	59.603	37.037	0.00	0.00	0.00	2.74
1500	5360	9.725019	ATGAACAGATTTTACTCACATTCAGTA	57.275	29.630	0.00	0.00	0.00	2.74
1562	5422	8.824783	TCCAAATATTCCAACCAGAAAATGAAT	58.175	29.630	0.00	0.00	0.00	2.57
1749	5609	8.958119	TTAAAATGCTATTGGGACAGTACTAG	57.042	34.615	0.00	0.00	42.39	2.57
1980	5854	6.158598	TCTTTGCCATTTTAGAAATGCACTC	58.841	36.000	7.67	0.00	0.00	3.51
2202	6078	2.543797	CCTTGGGGCCCAGTGGTTA	61.544	63.158	28.41	14.02	33.81	2.85

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.