AutoCloner

Multiple sequence alignment - TraesCS3D01G351300

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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	TraesCS3D01G351300	chr3D	100.000	2411	0	0	1	2411	462247628	462245218	0.000000e+00	4453.0
1	TraesCS3D01G351300	chr3D	86.773	877	81	23	716	1579	462455671	462454817	0.000000e+00	944.0
2	TraesCS3D01G351300	chr3A	85.394	2184	193	50	1	2144	605181139	605179042	0.000000e+00	2150.0
3	TraesCS3D01G351300	chr3A	90.782	933	69	11	655	1579	605241587	605240664	0.000000e+00	1230.0
4	TraesCS3D01G351300	chr3A	94.346	566	20	2	1848	2411	605176273	605175718	0.000000e+00	857.0
5	TraesCS3D01G351300	chr3B	86.932	1408	114	39	578	1949	613812291	613810918	0.000000e+00	1517.0
6	TraesCS3D01G351300	chr3B	85.821	938	111	19	655	1580	614266642	614265715	0.000000e+00	976.0
7	TraesCS3D01G351300	chr3B	86.738	837	76	25	752	1579	614252141	614251331	0.000000e+00	898.0
8	TraesCS3D01G351300	chr3B	86.008	486	56	10	1792	2275	613809583	613809108	5.950000e-141	510.0
9	TraesCS3D01G351300	chr3B	84.240	533	73	7	1887	2411	225179389	225178860	2.140000e-140	508.0
10	TraesCS3D01G351300	chr3B	86.452	465	58	3	1	465	613816470	613816011	2.770000e-139	505.0
11	TraesCS3D01G351300	chr3B	80.808	396	45	19	1887	2265	49744826	49744445	5.070000e-72	281.0
12	TraesCS3D01G351300	chr3B	92.000	100	6	2	465	563	613816040	613815942	3.230000e-29	139.0
13	TraesCS3D01G351300	chr7D	90.544	423	30	7	999	1413	588409309	588409729	3.500000e-153	551.0
14	TraesCS3D01G351300	chr7D	77.823	248	50	3	108	353	619009568	619009324	5.370000e-32	148.0
15	TraesCS3D01G351300	chr7B	90.071	423	32	7	999	1413	661716683	661717103	7.580000e-150	540.0
16	TraesCS3D01G351300	chr7A	89.535	430	34	8	999	1419	680244597	680245024	3.530000e-148	534.0
17	TraesCS3D01G351300	chr7A	79.021	143	28	2	194	336	657525876	657525736	1.970000e-16	97.1
18	TraesCS3D01G351300	chrUn	84.848	528	73	5	1887	2411	287846603	287847126	2.120000e-145	525.0
19	TraesCS3D01G351300	chrUn	84.848	528	73	5	1887	2411	295168035	295168558	2.120000e-145	525.0
20	TraesCS3D01G351300	chrUn	85.246	488	65	5	1887	2371	280520243	280519760	1.660000e-136	496.0
21	TraesCS3D01G351300	chrUn	85.246	488	65	5	1887	2371	294730968	294731451	1.660000e-136	496.0
22	TraesCS3D01G351300	chr4D	80.615	650	76	28	1334	1966	6776545	6775929	7.860000e-125	457.0
23	TraesCS3D01G351300	chr6A	86.288	423	53	3	1993	2411	607922770	607923191	2.830000e-124	455.0
24	TraesCS3D01G351300	chr6D	85.915	426	52	6	1992	2411	461326681	461327104	4.730000e-122	448.0
25	TraesCS3D01G351300	chr6D	82.173	359	41	5	1609	1966	27757532	27757868	1.090000e-73	287.0
26	TraesCS3D01G351300	chr2B	79.897	194	37	2	151	344	626306258	626306449	8.990000e-30	141.0
27	TraesCS3D01G351300	chr2B	77.358	212	40	4	149	358	752824728	752824523	4.210000e-23	119.0
28	TraesCS3D01G351300	chr2B	78.453	181	19	3	1739	1919	247942936	247942776	1.530000e-17	100.0
29	TraesCS3D01G351300	chr6B	74.691	324	62	17	35	342	719507659	719507978	2.520000e-25	126.0

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	TraesCS3D01G351300	chr3D	462245218	462247628	2410	True	4453.00	4453	100.000	1	2411	1	chr3D.!!$R1	2410
1	TraesCS3D01G351300	chr3D	462454817	462455671	854	True	944.00	944	86.773	716	1579	1	chr3D.!!$R2	863
2	TraesCS3D01G351300	chr3A	605175718	605181139	5421	True	1503.50	2150	89.870	1	2411	2	chr3A.!!$R2	2410
3	TraesCS3D01G351300	chr3A	605240664	605241587	923	True	1230.00	1230	90.782	655	1579	1	chr3A.!!$R1	924
4	TraesCS3D01G351300	chr3B	614265715	614266642	927	True	976.00	976	85.821	655	1580	1	chr3B.!!$R4	925
5	TraesCS3D01G351300	chr3B	614251331	614252141	810	True	898.00	898	86.738	752	1579	1	chr3B.!!$R3	827
6	TraesCS3D01G351300	chr3B	613809108	613816470	7362	True	667.75	1517	87.848	1	2275	4	chr3B.!!$R5	2274
7	TraesCS3D01G351300	chr3B	225178860	225179389	529	True	508.00	508	84.240	1887	2411	1	chr3B.!!$R2	524
8	TraesCS3D01G351300	chrUn	287846603	287847126	523	False	525.00	525	84.848	1887	2411	1	chrUn.!!$F1	524
9	TraesCS3D01G351300	chrUn	295168035	295168558	523	False	525.00	525	84.848	1887	2411	1	chrUn.!!$F3	524
10	TraesCS3D01G351300	chr4D	6775929	6776545	616	True	457.00	457	80.615	1334	1966	1	chr4D.!!$R1	632

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
143	144	0.035739	TGTAGGTTGCCTTTCGGTCC	59.964	55.0	0.0	0.0	34.61	4.46	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1539	5220	1.971357	AGACAACCACTGGACGATTCT	59.029	47.619	0.71	0.0	0.0	2.4	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
33	34	3.380637	GCTTCTAGTGTTATCGGAGGACA	59.619	47.826	0.00	0.00	0.00	4.02
50	51	0.318441	ACATGTGGAGGTGTGTCTCG	59.682	55.000	0.00	0.00	34.74	4.04
71	72	4.278419	TCGAGCAGATTTCATAGGATTCGA	59.722	41.667	0.00	0.00	0.00	3.71
72	73	4.384247	CGAGCAGATTTCATAGGATTCGAC	59.616	45.833	0.00	0.00	0.00	4.20
77	78	4.831155	AGATTTCATAGGATTCGACCGGTA	59.169	41.667	7.34	0.00	34.73	4.02
86	87	3.937079	GGATTCGACCGGTATTTGTCTTT	59.063	43.478	7.34	0.00	0.00	2.52
109	110	4.246458	GGTATATCCGCTTGAATCCAGTC	58.754	47.826	0.00	0.00	0.00	3.51
123	124	1.271379	TCCAGTCTGCGTTCGTGTATT	59.729	47.619	0.00	0.00	0.00	1.89
125	126	2.159841	CCAGTCTGCGTTCGTGTATTTG	60.160	50.000	0.00	0.00	0.00	2.32
126	127	2.475111	CAGTCTGCGTTCGTGTATTTGT	59.525	45.455	0.00	0.00	0.00	2.83
143	144	0.035739	TGTAGGTTGCCTTTCGGTCC	59.964	55.000	0.00	0.00	34.61	4.46
144	145	1.017701	GTAGGTTGCCTTTCGGTCCG	61.018	60.000	4.39	4.39	34.61	4.79
157	158	1.616865	TCGGTCCGTGTTTCTCTTCAT	59.383	47.619	11.88	0.00	0.00	2.57
177	178	2.756829	TCGGCGACAATTGTTGTTCTA	58.243	42.857	23.70	8.88	45.52	2.10
192	193	0.175760	TTCTAGTGCGCTGATCCCAC	59.824	55.000	10.80	0.00	0.00	4.61
254	255	2.165998	AGATTTGAAAGGCTCCAGTGC	58.834	47.619	0.00	0.00	0.00	4.40
271	272	2.824041	CGGGAAGGGCAATGACGG	60.824	66.667	0.00	0.00	0.00	4.79
294	295	0.937699	CGTGCCTTCGACTCGTTTCA	60.938	55.000	0.00	0.00	0.00	2.69
301	302	3.182572	CCTTCGACTCGTTTCAGTTCTTG	59.817	47.826	0.00	0.00	0.00	3.02
305	306	5.526115	TCGACTCGTTTCAGTTCTTGTATT	58.474	37.500	0.00	0.00	0.00	1.89
318	319	5.995897	AGTTCTTGTATTTTGTCGCTAGGTT	59.004	36.000	0.00	0.00	0.00	3.50
349	350	6.640499	CGAAACTGGATGCAATTTTTCACTTA	59.360	34.615	12.89	0.00	0.00	2.24
403	404	8.794308	AAAATTTTCCCGCAACAAATAAAATG	57.206	26.923	0.00	0.00	29.60	2.32
576	617	2.659610	GCCTAGCCCAGCCTATCG	59.340	66.667	0.00	0.00	0.00	2.92
645	4282	1.879380	CACGAAGCCTCCAAATTGTCA	59.121	47.619	0.00	0.00	0.00	3.58
705	4350	2.097466	CGCATTCCGCTACCAAATTTCT	59.903	45.455	0.00	0.00	39.08	2.52
759	4404	3.632080	ACGCATCCCCACACGGAA	61.632	61.111	0.00	0.00	34.93	4.30
822	4467	3.809013	GACCCCACATCCCGCCAT	61.809	66.667	0.00	0.00	0.00	4.40
827	4472	1.453235	CCACATCCCGCCATCTCAT	59.547	57.895	0.00	0.00	0.00	2.90
1309	4979	1.852157	AAGCCCACCATCACCTCCA	60.852	57.895	0.00	0.00	0.00	3.86
1439	5118	1.465354	CGTCCGTCCGAGTCTGTTTAG	60.465	57.143	0.00	0.00	0.00	1.85
1529	5210	6.241207	ACAGTGTAAAATGAGTCCGATTTG	57.759	37.500	0.00	0.00	0.00	2.32
1539	5220	4.071423	TGAGTCCGATTTGCTGAATCAAA	58.929	39.130	11.96	0.00	43.59	2.69
1545	5226	4.731961	CCGATTTGCTGAATCAAAGAATCG	59.268	41.667	18.86	18.86	43.59	3.34
1558	5239	2.457366	AGAATCGTCCAGTGGTTGTC	57.543	50.000	9.54	1.33	0.00	3.18
1564	5245	1.597663	CGTCCAGTGGTTGTCTCAAAC	59.402	52.381	9.54	0.00	0.00	2.93
1568	5251	3.016736	CCAGTGGTTGTCTCAAACTTGT	58.983	45.455	0.00	0.00	0.00	3.16
1570	5253	4.082245	CCAGTGGTTGTCTCAAACTTGTTT	60.082	41.667	0.00	0.00	0.00	2.83
1580	5263	5.513141	GTCTCAAACTTGTTTTGCTTCAGTC	59.487	40.000	0.00	0.00	43.90	3.51
1583	5266	6.092748	TCAAACTTGTTTTGCTTCAGTCTTC	58.907	36.000	0.00	0.00	43.90	2.87
1598	5281	4.008330	CAGTCTTCTGATGATGGCAGTTT	58.992	43.478	0.00	0.00	43.76	2.66
1599	5282	4.094590	CAGTCTTCTGATGATGGCAGTTTC	59.905	45.833	0.00	0.00	43.76	2.78
1602	5285	4.940046	TCTTCTGATGATGGCAGTTTCTTC	59.060	41.667	0.00	0.00	34.98	2.87
1604	5287	4.654915	TCTGATGATGGCAGTTTCTTCAA	58.345	39.130	0.00	0.00	34.98	2.69
1605	5288	4.456911	TCTGATGATGGCAGTTTCTTCAAC	59.543	41.667	0.00	0.00	34.98	3.18
1607	5290	4.456911	TGATGATGGCAGTTTCTTCAACTC	59.543	41.667	0.00	0.00	44.60	3.01
1610	5307	4.828939	TGATGGCAGTTTCTTCAACTCATT	59.171	37.500	0.00	0.00	44.60	2.57
1613	5310	4.402155	TGGCAGTTTCTTCAACTCATTTGT	59.598	37.500	0.00	0.00	44.60	2.83
1635	5333	2.485426	TCGAGCAATTTTCTTGCCTGAG	59.515	45.455	6.34	0.00	45.98	3.35
1637	5335	2.230750	GAGCAATTTTCTTGCCTGAGCT	59.769	45.455	6.34	0.00	45.98	4.09
1649	5347	1.666054	CCTGAGCTTTCTGCATCTCC	58.334	55.000	0.00	0.00	45.94	3.71
1659	5357	2.973710	TCTGCATCTCCCTGATCATCT	58.026	47.619	0.00	0.00	32.05	2.90
1660	5358	2.898612	TCTGCATCTCCCTGATCATCTC	59.101	50.000	0.00	0.00	32.05	2.75
1665	5363	3.625252	TCTCCCTGATCATCTCCATGA	57.375	47.619	0.00	0.00	43.45	3.07
1670	5368	4.661709	TCCCTGATCATCTCCATGAATGAA	59.338	41.667	0.00	0.00	42.53	2.57
1682	5380	7.784037	TCTCCATGAATGAATAAATTGTTGGG	58.216	34.615	0.00	0.00	0.00	4.12
1692	5390	8.292444	TGAATAAATTGTTGGGATAGGTCTTG	57.708	34.615	0.00	0.00	0.00	3.02
1707	5405	5.184892	AGGTCTTGATTATTTCTGCAGGT	57.815	39.130	15.13	3.08	0.00	4.00
1708	5406	5.189180	AGGTCTTGATTATTTCTGCAGGTC	58.811	41.667	15.13	3.83	0.00	3.85
1722	5420	9.783081	ATTTCTGCAGGTCAAGATTTTTATTTT	57.217	25.926	15.13	0.00	0.00	1.82
1726	5424	9.859427	CTGCAGGTCAAGATTTTTATTTTATCA	57.141	29.630	5.57	0.00	0.00	2.15
1768	5472	3.383620	TGAAACATTGCCGCTGAAAAT	57.616	38.095	0.00	0.00	0.00	1.82
1797	5501	2.030451	AGGAAAACTGTCGACGTAGGTC	60.030	50.000	11.62	5.47	39.89	3.85
1810	5538	4.440250	CGACGTAGGTCTTGATCCAATTCT	60.440	45.833	13.31	0.00	41.16	2.40
1815	5543	7.147724	ACGTAGGTCTTGATCCAATTCTATTGA	60.148	37.037	1.11	0.00	0.00	2.57
1820	5548	7.500227	GGTCTTGATCCAATTCTATTGACATGA	59.500	37.037	0.00	4.35	0.00	3.07
1829	5557	9.999009	CCAATTCTATTGACATGATGTATATGC	57.001	33.333	0.00	0.00	0.00	3.14
1879	5607	5.125900	TGATTAGATGATTGGTTGCCAACTG	59.874	40.000	7.62	0.00	46.95	3.16
1884	5612	3.030291	TGATTGGTTGCCAACTGAAGTT	58.970	40.909	7.62	0.00	46.95	2.66
1889	5617	3.181434	TGGTTGCCAACTGAAGTTAGGAT	60.181	43.478	7.62	0.00	36.32	3.24
1903	5631	7.285566	TGAAGTTAGGATATGTACCGACTACT	58.714	38.462	0.00	0.00	31.97	2.57
1911	5639	6.150641	GGATATGTACCGACTACTGATTGCTA	59.849	42.308	0.00	0.00	0.00	3.49
1913	5643	5.847111	TGTACCGACTACTGATTGCTATT	57.153	39.130	0.00	0.00	0.00	1.73
1921	5651	4.823989	ACTACTGATTGCTATTCCAATGGC	59.176	41.667	0.00	0.86	42.49	4.40
1998	5728	6.128742	GGCAACATTTCATTGTGAGCTTTTAG	60.129	38.462	0.00	0.00	34.03	1.85
2005	5737	5.702865	TCATTGTGAGCTTTTAGCACATTC	58.297	37.500	6.07	0.00	43.30	2.67
2013	5745	7.695618	GTGAGCTTTTAGCACATTCTAAGAATG	59.304	37.037	0.00	0.00	43.30	2.67
2028	5760	4.640771	AAGAATGTTAGAAGTCCAGCCA	57.359	40.909	0.00	0.00	0.00	4.75
2107	9056	5.412594	TGAATTTTAACTCTGCGATCTGCTT	59.587	36.000	10.16	0.83	46.63	3.91
2150	9167	7.697691	TCTGAACTTTGTGCTTCTTCTTTTAG	58.302	34.615	0.00	0.00	0.00	1.85
2176	9234	7.701924	GCGATTTCATTTAATTCTCCATTGACA	59.298	33.333	0.00	0.00	0.00	3.58
2282	9343	5.185668	CTGATGACAGGAGATGTACAGAG	57.814	47.826	0.33	0.00	44.17	3.35
2301	9374	4.986659	CAGAGCAAGGATGGAAAGTTTTTG	59.013	41.667	0.00	0.00	0.00	2.44
2371	9444	2.743636	TCTCAGTGGGAGCTTTAACG	57.256	50.000	0.00	0.00	43.70	3.18
2375	9448	0.321653	AGTGGGAGCTTTAACGCAGG	60.322	55.000	6.72	0.00	0.00	4.85

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
6	7	3.119245	TCCGATAACACTAGAAGCACCAC	60.119	47.826	0.00	0.00	0.00	4.16
33	34	0.891373	CTCGAGACACACCTCCACAT	59.109	55.000	6.58	0.00	0.00	3.21
50	51	4.688413	GGTCGAATCCTATGAAATCTGCTC	59.312	45.833	0.00	0.00	0.00	4.26
71	72	6.293698	GGATATACCAAAGACAAATACCGGT	58.706	40.000	13.98	13.98	38.79	5.28
72	73	5.407387	CGGATATACCAAAGACAAATACCGG	59.593	44.000	0.00	0.00	38.90	5.28
77	78	6.119536	TCAAGCGGATATACCAAAGACAAAT	58.880	36.000	0.00	0.00	38.90	2.32
86	87	3.646162	ACTGGATTCAAGCGGATATACCA	59.354	43.478	0.00	0.00	38.90	3.25
109	110	2.991190	ACCTACAAATACACGAACGCAG	59.009	45.455	0.00	0.00	0.00	5.18
143	144	0.366871	CGCCGATGAAGAGAAACACG	59.633	55.000	0.00	0.00	0.00	4.49
144	145	1.390463	GTCGCCGATGAAGAGAAACAC	59.610	52.381	0.00	0.00	0.00	3.32
157	158	1.588674	AGAACAACAATTGTCGCCGA	58.411	45.000	12.39	0.00	44.59	5.54
192	193	2.202570	CGTCGTGCTAAGGTCCCG	60.203	66.667	0.00	0.00	0.00	5.14
245	246	4.785453	CCCTTCCCGCACTGGAGC	62.785	72.222	0.00	0.00	42.00	4.70
254	255	2.824041	CCGTCATTGCCCTTCCCG	60.824	66.667	0.00	0.00	0.00	5.14
294	295	5.548406	ACCTAGCGACAAAATACAAGAACT	58.452	37.500	0.00	0.00	0.00	3.01
301	302	5.004156	CGTAGACAACCTAGCGACAAAATAC	59.996	44.000	0.00	0.00	0.00	1.89
305	306	2.553602	TCGTAGACAACCTAGCGACAAA	59.446	45.455	0.00	0.00	31.20	2.83
318	319	3.394674	TTGCATCCAGTTTCGTAGACA	57.605	42.857	0.00	0.00	34.32	3.41
349	350	7.943079	TCTATTCATCAATTGTGAACACCAT	57.057	32.000	19.09	10.23	38.31	3.55
385	386	8.877779	CATATTTTCATTTTATTTGTTGCGGGA	58.122	29.630	0.00	0.00	0.00	5.14
469	470	9.502091	AGCTATGTTGTTATAGTTGTCTCAAAA	57.498	29.630	0.00	0.00	33.99	2.44
470	471	8.935844	CAGCTATGTTGTTATAGTTGTCTCAAA	58.064	33.333	0.00	0.00	37.20	2.69
471	472	8.094548	ACAGCTATGTTGTTATAGTTGTCTCAA	58.905	33.333	8.75	0.00	45.80	3.02
472	473	7.545615	CACAGCTATGTTGTTATAGTTGTCTCA	59.454	37.037	10.87	0.00	45.80	3.27
473	474	7.464710	GCACAGCTATGTTGTTATAGTTGTCTC	60.465	40.741	10.87	4.87	45.80	3.36
474	475	6.313905	GCACAGCTATGTTGTTATAGTTGTCT	59.686	38.462	10.87	0.00	45.80	3.41
475	476	6.092122	TGCACAGCTATGTTGTTATAGTTGTC	59.908	38.462	10.87	7.99	45.80	3.18
477	478	6.128309	TGTGCACAGCTATGTTGTTATAGTTG	60.128	38.462	17.42	7.71	43.39	3.16
478	479	5.937540	TGTGCACAGCTATGTTGTTATAGTT	59.062	36.000	17.42	0.00	37.65	2.24
479	480	5.351465	GTGTGCACAGCTATGTTGTTATAGT	59.649	40.000	22.40	0.00	37.65	2.12
576	617	0.451783	CTGGATTTGCCCGTGCTTAC	59.548	55.000	0.00	0.00	38.71	2.34
705	4350	4.397832	GGGTTTAGGCGGCGACCA	62.398	66.667	25.17	0.00	33.81	4.02
822	4467	0.261696	TGGGGTCTGGATCGATGAGA	59.738	55.000	0.54	0.49	0.00	3.27
827	4472	1.993391	GGGTTGGGGTCTGGATCGA	60.993	63.158	0.00	0.00	0.00	3.59
958	4618	2.412323	CGACGAGGGATCGGGTTGA	61.412	63.158	2.46	0.00	35.92	3.18
1309	4979	2.444895	GGCGGTCTGGATCTCCCT	60.445	66.667	0.00	0.00	35.38	4.20
1439	5118	5.123979	GGAACAAATTCAGACCAGACCATAC	59.876	44.000	0.00	0.00	36.46	2.39
1529	5210	3.686726	ACTGGACGATTCTTTGATTCAGC	59.313	43.478	0.00	0.00	0.00	4.26
1539	5220	1.971357	AGACAACCACTGGACGATTCT	59.029	47.619	0.71	0.00	0.00	2.40
1545	5226	2.919228	AGTTTGAGACAACCACTGGAC	58.081	47.619	0.71	0.00	0.00	4.02
1580	5263	4.698780	TGAAGAAACTGCCATCATCAGAAG	59.301	41.667	0.00	0.00	35.61	2.85
1583	5266	4.730657	GTTGAAGAAACTGCCATCATCAG	58.269	43.478	0.00	0.00	35.75	2.90
1598	5281	4.126437	TGCTCGAACAAATGAGTTGAAGA	58.874	39.130	0.00	0.00	39.87	2.87
1599	5282	4.472691	TGCTCGAACAAATGAGTTGAAG	57.527	40.909	0.00	0.00	39.87	3.02
1602	5285	6.418819	AGAAAATTGCTCGAACAAATGAGTTG	59.581	34.615	5.19	0.00	43.43	3.16
1604	5287	6.076981	AGAAAATTGCTCGAACAAATGAGT	57.923	33.333	5.19	0.00	34.67	3.41
1605	5288	6.614999	GCAAGAAAATTGCTCGAACAAATGAG	60.615	38.462	5.19	0.00	41.87	2.90
1606	5289	5.175491	GCAAGAAAATTGCTCGAACAAATGA	59.825	36.000	5.19	0.00	41.87	2.57
1607	5290	5.368374	GCAAGAAAATTGCTCGAACAAATG	58.632	37.500	5.19	0.59	41.87	2.32
1610	5307	3.068024	AGGCAAGAAAATTGCTCGAACAA	59.932	39.130	3.33	3.33	44.36	2.83
1613	5310	2.884012	TCAGGCAAGAAAATTGCTCGAA	59.116	40.909	11.90	0.00	44.36	3.71
1635	5333	2.220313	GATCAGGGAGATGCAGAAAGC	58.780	52.381	0.00	0.00	45.96	3.51
1637	5335	3.715315	AGATGATCAGGGAGATGCAGAAA	59.285	43.478	0.09	0.00	37.00	2.52
1649	5347	8.631480	TTTATTCATTCATGGAGATGATCAGG	57.369	34.615	0.09	0.00	38.43	3.86
1659	5357	7.730672	TCCCAACAATTTATTCATTCATGGA	57.269	32.000	0.00	0.00	0.00	3.41
1660	5358	9.701098	CTATCCCAACAATTTATTCATTCATGG	57.299	33.333	0.00	0.00	0.00	3.66
1665	5363	9.492730	AAGACCTATCCCAACAATTTATTCATT	57.507	29.630	0.00	0.00	0.00	2.57
1682	5380	6.995091	ACCTGCAGAAATAATCAAGACCTATC	59.005	38.462	17.39	0.00	0.00	2.08
1692	5390	8.992835	AAAAATCTTGACCTGCAGAAATAATC	57.007	30.769	17.39	3.36	0.00	1.75
1722	5420	5.185442	TGCAAGCCAATCAACAAATCTGATA	59.815	36.000	0.00	0.00	33.13	2.15
1726	5424	4.339872	TTGCAAGCCAATCAACAAATCT	57.660	36.364	0.00	0.00	0.00	2.40
1768	5472	5.524646	ACGTCGACAGTTTTCCTGAATTTTA	59.475	36.000	17.16	0.00	44.49	1.52
1778	5482	3.279853	AGACCTACGTCGACAGTTTTC	57.720	47.619	17.16	5.90	44.28	2.29
1779	5483	3.067180	TCAAGACCTACGTCGACAGTTTT	59.933	43.478	17.16	5.77	44.28	2.43
1797	5501	8.847196	ACATCATGTCAATAGAATTGGATCAAG	58.153	33.333	0.00	0.00	0.00	3.02
1870	5598	5.815581	ACATATCCTAACTTCAGTTGGCAA	58.184	37.500	0.00	0.00	38.90	4.52
1879	5607	7.443575	TCAGTAGTCGGTACATATCCTAACTTC	59.556	40.741	0.00	0.00	33.55	3.01
1884	5612	6.150641	GCAATCAGTAGTCGGTACATATCCTA	59.849	42.308	0.00	0.00	33.55	2.94
1889	5617	7.309012	GGAATAGCAATCAGTAGTCGGTACATA	60.309	40.741	0.00	0.00	33.55	2.29
1903	5631	4.025360	ACTTGCCATTGGAATAGCAATCA	58.975	39.130	6.95	0.00	41.03	2.57
1913	5643	9.434420	CTGATAAAATTAAAACTTGCCATTGGA	57.566	29.630	6.95	0.00	0.00	3.53
1960	5690	3.922171	ATGTTGCCCTGGAAACAAAAA	57.078	38.095	13.65	0.00	45.65	1.94
1998	5728	7.334421	TGGACTTCTAACATTCTTAGAATGTGC	59.666	37.037	32.81	18.35	40.43	4.57
2005	5737	5.734720	TGGCTGGACTTCTAACATTCTTAG	58.265	41.667	0.00	0.00	0.00	2.18
2013	5745	7.056844	ACTAGAATATGGCTGGACTTCTAAC	57.943	40.000	0.00	0.00	30.41	2.34
2132	9149	5.689383	ATCGCTAAAAGAAGAAGCACAAA	57.311	34.783	0.00	0.00	35.98	2.83
2150	9167	7.701924	TGTCAATGGAGAATTAAATGAAATCGC	59.298	33.333	0.00	0.00	0.00	4.58
2176	9234	3.760684	GCTGGATTTCAACCAAGACATCT	59.239	43.478	0.00	0.00	36.95	2.90
2179	9237	1.879380	CGCTGGATTTCAACCAAGACA	59.121	47.619	0.00	0.00	36.95	3.41
2282	9343	5.584251	TCAAACAAAAACTTTCCATCCTTGC	59.416	36.000	0.00	0.00	0.00	4.01
2301	9374	5.784578	AAAGTTACCCAATCTGGTCAAAC	57.215	39.130	0.00	0.00	39.91	2.93
2371	9444	9.691362	TTCTGAATTTTAAAATGAGTAACCTGC	57.309	29.630	14.04	0.00	0.00	4.85

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.