AutoCloner

Multiple sequence alignment - TraesCS4A01G150300

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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	TraesCS4A01G150300	chr4A	100.000	3291	0	0	1	3291	295169725	295166435	0.000000e+00	6078.0
1	TraesCS4A01G150300	chr4A	94.261	575	28	1	2717	3291	350268115	350268684	0.000000e+00	874.0
2	TraesCS4A01G150300	chr4A	89.981	519	39	4	2205	2721	79634684	79635191	0.000000e+00	658.0
3	TraesCS4A01G150300	chr4A	89.981	519	39	4	2205	2721	79644159	79643652	0.000000e+00	658.0
4	TraesCS4A01G150300	chr5A	95.306	2514	107	6	1	2513	667732680	667730177	0.000000e+00	3978.0
5	TraesCS4A01G150300	chr5A	93.391	575	33	1	2717	3291	162132256	162131687	0.000000e+00	846.0
6	TraesCS4A01G150300	chr1A	95.147	2514	113	5	1	2513	94598960	94596455	0.000000e+00	3958.0
7	TraesCS4A01G150300	chr1A	94.948	2514	117	6	1	2513	94708072	94710576	0.000000e+00	3930.0
8	TraesCS4A01G150300	chr1A	95.304	575	21	2	2717	3291	94745152	94745720	0.000000e+00	907.0
9	TraesCS4A01G150300	chr3A	95.926	2283	89	3	1	2283	51887216	51884938	0.000000e+00	3698.0
10	TraesCS4A01G150300	chrUn	96.758	2190	68	2	1	2188	223715547	223717735	0.000000e+00	3648.0
11	TraesCS4A01G150300	chrUn	98.113	53	1	0	2937	2989	221544081	221544029	3.500000e-15	93.5
12	TraesCS4A01G150300	chr7D	96.711	2189	69	3	1	2188	381882009	381879823	0.000000e+00	3640.0
13	TraesCS4A01G150300	chr2A	96.626	2193	71	3	1	2191	755521016	755518825	0.000000e+00	3637.0
14	TraesCS4A01G150300	chr4D	96.481	2188	75	2	1	2188	123731197	123729012	0.000000e+00	3613.0
15	TraesCS4A01G150300	chr5B	96.349	2191	77	2	1	2190	127798272	127796084	0.000000e+00	3600.0
16	TraesCS4A01G150300	chr5B	94.957	575	21	2	2717	3291	455617784	455617218	0.000000e+00	894.0
17	TraesCS4A01G150300	chr3B	95.263	570	22	1	2722	3291	797564082	797563518	0.000000e+00	898.0
18	TraesCS4A01G150300	chr3B	93.074	231	16	0	3061	3291	669904459	669904229	4.070000e-89	339.0
19	TraesCS4A01G150300	chr6B	93.913	575	30	1	2717	3291	311352776	311352207	0.000000e+00	863.0
20	TraesCS4A01G150300	chr6B	89.788	519	40	4	2205	2721	596601242	596600735	0.000000e+00	652.0
21	TraesCS4A01G150300	chr6B	89.595	519	41	5	2205	2721	715990455	715989948	0.000000e+00	647.0
22	TraesCS4A01G150300	chr7A	89.595	519	41	4	2205	2721	638507049	638506542	0.000000e+00	647.0
23	TraesCS4A01G150300	chr7A	96.629	89	3	0	3203	3291	382503617	382503529	7.360000e-32	148.0
24	TraesCS4A01G150300	chr1B	89.210	519	43	5	2205	2721	672541838	672542345	1.290000e-178	636.0
25	TraesCS4A01G150300	chr1B	94.475	181	10	0	2717	2897	53319136	53319316	2.500000e-71	279.0
26	TraesCS4A01G150300	chr4B	91.216	148	8	1	3003	3150	180979453	180979595	2.590000e-46	196.0
27	TraesCS4A01G150300	chr7B	96.939	98	3	0	2731	2828	13320256	13320353	7.310000e-37	165.0
28	TraesCS4A01G150300	chr7B	92.857	84	6	0	3208	3291	384688432	384688349	4.460000e-24	122.0
29	TraesCS4A01G150300	chr2D	97.015	67	2	0	3225	3291	275451357	275451291	2.680000e-21	113.0
30	TraesCS4A01G150300	chr2B	97.727	44	1	0	2177	2220	659856705	659856748	3.520000e-10	76.8

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	TraesCS4A01G150300	chr4A	295166435	295169725	3290	True	6078	6078	100.000	1	3291	1	chr4A.!!$R2	3290
1	TraesCS4A01G150300	chr4A	350268115	350268684	569	False	874	874	94.261	2717	3291	1	chr4A.!!$F2	574
2	TraesCS4A01G150300	chr4A	79634684	79635191	507	False	658	658	89.981	2205	2721	1	chr4A.!!$F1	516
3	TraesCS4A01G150300	chr4A	79643652	79644159	507	True	658	658	89.981	2205	2721	1	chr4A.!!$R1	516
4	TraesCS4A01G150300	chr5A	667730177	667732680	2503	True	3978	3978	95.306	1	2513	1	chr5A.!!$R2	2512
5	TraesCS4A01G150300	chr5A	162131687	162132256	569	True	846	846	93.391	2717	3291	1	chr5A.!!$R1	574
6	TraesCS4A01G150300	chr1A	94596455	94598960	2505	True	3958	3958	95.147	1	2513	1	chr1A.!!$R1	2512
7	TraesCS4A01G150300	chr1A	94708072	94710576	2504	False	3930	3930	94.948	1	2513	1	chr1A.!!$F1	2512
8	TraesCS4A01G150300	chr1A	94745152	94745720	568	False	907	907	95.304	2717	3291	1	chr1A.!!$F2	574
9	TraesCS4A01G150300	chr3A	51884938	51887216	2278	True	3698	3698	95.926	1	2283	1	chr3A.!!$R1	2282
10	TraesCS4A01G150300	chrUn	223715547	223717735	2188	False	3648	3648	96.758	1	2188	1	chrUn.!!$F1	2187
11	TraesCS4A01G150300	chr7D	381879823	381882009	2186	True	3640	3640	96.711	1	2188	1	chr7D.!!$R1	2187
12	TraesCS4A01G150300	chr2A	755518825	755521016	2191	True	3637	3637	96.626	1	2191	1	chr2A.!!$R1	2190
13	TraesCS4A01G150300	chr4D	123729012	123731197	2185	True	3613	3613	96.481	1	2188	1	chr4D.!!$R1	2187
14	TraesCS4A01G150300	chr5B	127796084	127798272	2188	True	3600	3600	96.349	1	2190	1	chr5B.!!$R1	2189
15	TraesCS4A01G150300	chr5B	455617218	455617784	566	True	894	894	94.957	2717	3291	1	chr5B.!!$R2	574
16	TraesCS4A01G150300	chr3B	797563518	797564082	564	True	898	898	95.263	2722	3291	1	chr3B.!!$R2	569
17	TraesCS4A01G150300	chr6B	311352207	311352776	569	True	863	863	93.913	2717	3291	1	chr6B.!!$R1	574
18	TraesCS4A01G150300	chr6B	596600735	596601242	507	True	652	652	89.788	2205	2721	1	chr6B.!!$R2	516
19	TraesCS4A01G150300	chr6B	715989948	715990455	507	True	647	647	89.595	2205	2721	1	chr6B.!!$R3	516
20	TraesCS4A01G150300	chr7A	638506542	638507049	507	True	647	647	89.595	2205	2721	1	chr7A.!!$R2	516
21	TraesCS4A01G150300	chr1B	672541838	672542345	507	False	636	636	89.210	2205	2721	1	chr1B.!!$F2	516

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
795	796	0.949105	GAAACCGGCAGAGAAAGCGA	60.949	55.0	0.0	0.0	0.0	4.93	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2618	2627	0.337428	AAGGTAAGTAGGGGCCTCGA	59.663	55.0	0.84	0.0	0.0	4.04	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
52	53	9.350951	TCACTCTCGTATTCTTAATAGGAATCA	57.649	33.333	0.71	0.00	37.68	2.57
168	169	1.817099	CGATCTTCCTGCTGGTGGC	60.817	63.158	9.73	0.00	42.22	5.01
236	237	4.929819	TTTGTATGAGGCGATACAGCTA	57.070	40.909	10.87	0.00	39.43	3.32
243	244	3.829026	TGAGGCGATACAGCTAAGATCAT	59.171	43.478	0.00	0.00	37.29	2.45
286	287	2.091541	CAATGTGCCACTTAACCGGAT	58.908	47.619	9.46	0.00	0.00	4.18
336	337	9.619316	CCTTATGACATTTATGAAAAACGAACA	57.381	29.630	0.00	0.00	0.00	3.18
355	356	6.150474	ACGAACATTGTATTAAGGGGTTTCTG	59.850	38.462	0.00	0.00	0.00	3.02
373	374	6.037830	GGTTTCTGTCAGTTAGTAACAAAGCA	59.962	38.462	15.28	7.41	30.06	3.91
447	448	4.027295	GTGTCGAAGAAGCGTCTATCATTG	60.027	45.833	1.54	0.00	39.69	2.82
451	452	5.034797	CGAAGAAGCGTCTATCATTGTACA	58.965	41.667	1.54	0.00	32.16	2.90
460	461	8.410912	AGCGTCTATCATTGTACACTGTTTATA	58.589	33.333	12.40	3.72	0.00	0.98
522	523	7.095910	CGCCAATATCATATTGACTCTCTCTT	58.904	38.462	17.68	0.00	0.00	2.85
672	673	7.692908	TGGAAATCGATGTTCTTTTGAAAAC	57.307	32.000	0.00	0.00	40.53	2.43
687	688	3.404899	TGAAAACGGCTAGGTAGTTTGG	58.595	45.455	0.00	0.00	38.02	3.28
708	709	1.758783	CGCAGGCAAAACTTCTTCAC	58.241	50.000	0.00	0.00	0.00	3.18
719	720	5.485662	AAACTTCTTCACGAAAGGTCAAG	57.514	39.130	0.00	0.00	35.54	3.02
729	730	6.522054	TCACGAAAGGTCAAGAATAGACTTT	58.478	36.000	0.00	0.00	36.95	2.66
795	796	0.949105	GAAACCGGCAGAGAAAGCGA	60.949	55.000	0.00	0.00	0.00	4.93
1023	1026	9.321562	GAAATGACTATAAGGAACCAACGATTA	57.678	33.333	0.00	0.00	0.00	1.75
1040	1043	8.717821	CCAACGATTATCTCTTCTTAAACAACA	58.282	33.333	0.00	0.00	0.00	3.33
1062	1065	9.778741	CAACATATATACTCCACACTTAACCAT	57.221	33.333	0.00	0.00	0.00	3.55
1144	1147	9.727859	TGTTAGCAGGTATTTGTTTAGTCATTA	57.272	29.630	0.00	0.00	0.00	1.90
1208	1211	5.559770	TCATGTGGATCTAGCTTTCAACAA	58.440	37.500	0.00	0.00	29.91	2.83
1228	1231	7.817478	TCAACAACGTAGAACACATTATGAGAT	59.183	33.333	0.00	0.00	0.00	2.75
1372	1375	0.748450	TGTTCGGTGTCTCGGAGTTT	59.252	50.000	4.69	0.00	0.00	2.66
1428	1431	0.179065	GATACGTACCACCTTGGGGC	60.179	60.000	0.00	0.00	43.37	5.80
1448	1451	1.283029	CCAGATGAGCTTTTGGGGAGA	59.717	52.381	0.00	0.00	0.00	3.71
1555	1559	6.334102	ACAATGCCACCTTAAATCGTTTTA	57.666	33.333	0.00	0.00	0.00	1.52
1561	1565	7.531716	TGCCACCTTAAATCGTTTTATTAGTG	58.468	34.615	12.25	12.25	0.00	2.74
1574	1578	9.438228	TCGTTTTATTAGTGTCCATCATTTACA	57.562	29.630	0.00	0.00	0.00	2.41
1720	1724	7.107542	TGTAAATGATCTTGTAGGTTGGGTAC	58.892	38.462	0.00	0.00	0.00	3.34
1837	1843	1.267806	CCTCATATTGTGCCGGAATGC	59.732	52.381	5.05	0.00	0.00	3.56
1856	1862	4.974645	TGCTATTTCCTACCGATCCATT	57.025	40.909	0.00	0.00	0.00	3.16
2048	2055	3.536956	GTTGGATCGGATGTCAACCTA	57.463	47.619	16.62	0.00	34.97	3.08
2170	2177	6.645306	TCCAAAATATTACACGGATGAGACA	58.355	36.000	0.00	0.00	0.00	3.41
2298	2305	1.029947	GGGGCCACCTGACAATTACG	61.030	60.000	4.39	0.00	36.80	3.18
2306	2313	4.513692	CCACCTGACAATTACGAAGAAACA	59.486	41.667	0.00	0.00	0.00	2.83
2310	2317	7.647715	CACCTGACAATTACGAAGAAACATTTT	59.352	33.333	0.00	0.00	0.00	1.82
2314	2321	9.176181	TGACAATTACGAAGAAACATTTTAAGC	57.824	29.630	0.00	0.00	0.00	3.09
2327	2334	5.837437	ACATTTTAAGCGTGGATTTTGTGA	58.163	33.333	0.00	0.00	0.00	3.58
2333	2340	1.670811	GCGTGGATTTTGTGATCGGAT	59.329	47.619	0.00	0.00	0.00	4.18
2349	2356	8.876181	TGTGATCGGATTATAAAGATTTCCCTA	58.124	33.333	0.00	0.00	0.00	3.53
2432	2439	4.388499	CACACGTTCCCCCGGGAG	62.388	72.222	26.32	9.81	46.06	4.30
2436	2443	2.359478	CGTTCCCCCGGGAGTTTG	60.359	66.667	26.32	3.88	46.06	2.93
2473	2482	2.767394	TGGAACCGAGGATATCCGAAAA	59.233	45.455	16.21	0.00	42.08	2.29
2532	2541	7.898014	CCAAAAAGGGAGGCTAGTAATTAAT	57.102	36.000	0.00	0.00	0.00	1.40
2533	2542	8.306313	CCAAAAAGGGAGGCTAGTAATTAATT	57.694	34.615	5.89	5.89	0.00	1.40
2534	2543	9.416284	CCAAAAAGGGAGGCTAGTAATTAATTA	57.584	33.333	3.71	3.71	0.00	1.40
2575	2584	5.878116	TGTATTGTTTCTCGAATTGGTAGGG	59.122	40.000	0.00	0.00	0.00	3.53
2576	2585	4.627284	TTGTTTCTCGAATTGGTAGGGA	57.373	40.909	0.00	0.00	0.00	4.20
2581	2590	3.910989	TCTCGAATTGGTAGGGATCTCA	58.089	45.455	0.00	0.00	0.00	3.27
2590	2599	5.934402	TGGTAGGGATCTCAAAGTAGTTC	57.066	43.478	0.00	0.00	0.00	3.01
2618	2627	6.882768	AGGTTTCTCAGGAAATAGAGATGT	57.117	37.500	0.00	0.00	42.45	3.06
2667	2677	0.103876	AGGGGAAGGAAGAGTGGGTT	60.104	55.000	0.00	0.00	0.00	4.11
2683	2693	1.847088	GGGTTAGAGGGCTTCCTTCAT	59.153	52.381	0.00	0.00	41.93	2.57
2701	2711	6.839134	TCCTTCATAGTGCATACCTCTCTTTA	59.161	38.462	0.00	0.00	0.00	1.85
2736	2746	6.373005	TTTCTGGTGGATTCTACAAGATCA	57.627	37.500	7.97	0.00	28.68	2.92
2837	2847	6.145048	CGTAACAGATATGGACGGGAATAAAC	59.855	42.308	8.65	0.00	0.00	2.01
2856	2866	5.705609	AAACAATGGACGCTGAGTAAATT	57.294	34.783	0.00	0.00	0.00	1.82
2923	2933	4.642429	GTGTCCCGGCATTATAAGAAGAT	58.358	43.478	0.00	0.00	0.00	2.40
3058	3068	3.200165	AGAATTGGTCTAGCTACAACCCC	59.800	47.826	15.01	1.62	33.56	4.95
3059	3069	1.282382	TTGGTCTAGCTACAACCCCC	58.718	55.000	15.01	0.15	31.78	5.40
3080	3090	2.230130	CCCCCAGTGGAATTAAAGCA	57.770	50.000	11.95	0.00	35.39	3.91
3091	3101	3.190535	GGAATTAAAGCAACTCGCCAAGA	59.809	43.478	0.00	0.00	44.04	3.02
3093	3103	2.543777	TAAAGCAACTCGCCAAGACT	57.456	45.000	0.00	0.00	44.04	3.24
3126	3136	2.044793	TGGAACCCTTGTGGAGAGAT	57.955	50.000	0.00	0.00	38.00	2.75
3142	3152	4.849235	GGAGAGATAGGATCCCCATCTTTT	59.151	45.833	21.64	15.32	33.46	2.27
3150	3160	2.302587	TCCCCATCTTTTGGTGGAAC	57.697	50.000	0.00	0.00	44.83	3.62
3194	3204	6.758886	CCTATGTTCTTGGTAAAGTGAGCTAG	59.241	42.308	0.00	0.00	34.78	3.42
3227	3237	4.901197	TTGCTACCCAATCTACAAGTCA	57.099	40.909	0.00	0.00	0.00	3.41

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
13	14	3.193263	CGAGAGTGACAAATGAGATGGG	58.807	50.000	0.00	0.00	0.00	4.00
52	53	2.867109	AGTGGTTGTATCTGCTTGCT	57.133	45.000	0.00	0.00	0.00	3.91
168	169	2.983512	ATAGGAGCTCTATGGCGGG	58.016	57.895	14.64	0.00	37.30	6.13
191	192	9.575783	AAATTAGTTAAGCGAGAAAACAAACAA	57.424	25.926	0.00	0.00	0.00	2.83
192	193	9.015577	CAAATTAGTTAAGCGAGAAAACAAACA	57.984	29.630	0.00	0.00	0.00	2.83
236	237	2.749621	GCTCAAACCGTTGGATGATCTT	59.250	45.455	0.00	0.00	35.29	2.40
243	244	2.489971	CTAAGTGCTCAAACCGTTGGA	58.510	47.619	0.00	0.00	35.29	3.53
286	287	4.373116	GACCCGGTCTTGCGCTCA	62.373	66.667	9.73	0.00	0.00	4.26
336	337	6.790319	ACTGACAGAAACCCCTTAATACAAT	58.210	36.000	10.08	0.00	0.00	2.71
355	356	3.813166	TGCCTGCTTTGTTACTAACTGAC	59.187	43.478	0.71	0.00	0.00	3.51
460	461	9.072294	CAACTAAACGAAGAAGTTTTTGATTGT	57.928	29.630	0.34	0.00	43.30	2.71
672	673	1.520787	CGCCCAAACTACCTAGCCG	60.521	63.158	0.00	0.00	0.00	5.52
687	688	0.664466	GAAGAAGTTTTGCCTGCGCC	60.664	55.000	4.18	0.00	0.00	6.53
708	709	7.602517	ATCAAAGTCTATTCTTGACCTTTCG	57.397	36.000	0.00	0.00	35.21	3.46
719	720	8.743714	AGAAACCCATGAAATCAAAGTCTATTC	58.256	33.333	0.00	0.00	0.00	1.75
729	730	9.177608	CTAGTCATTAAGAAACCCATGAAATCA	57.822	33.333	0.00	0.00	0.00	2.57
935	938	2.568509	CCCTTGCCTTGATGGAAATTGT	59.431	45.455	0.00	0.00	38.35	2.71
1062	1065	6.043822	TCGGGGTTGGATAATCTATCAAATGA	59.956	38.462	0.00	0.00	36.91	2.57
1111	1114	4.214758	ACAAATACCTGCTAACAAACCGAC	59.785	41.667	0.00	0.00	0.00	4.79
1118	1121	8.630054	AATGACTAAACAAATACCTGCTAACA	57.370	30.769	0.00	0.00	0.00	2.41
1144	1147	2.467566	AAAACGCCGGTCACTATCTT	57.532	45.000	1.90	0.00	0.00	2.40
1208	1211	9.249457	CAACATATCTCATAATGTGTTCTACGT	57.751	33.333	0.00	0.00	38.45	3.57
1228	1231	1.080638	AACCAGCCCCCTTCAACATA	58.919	50.000	0.00	0.00	0.00	2.29
1399	1402	7.418254	CCAAGGTGGTACGTATCCTATAAAAGT	60.418	40.741	14.24	0.00	31.35	2.66
1428	1431	1.283029	TCTCCCCAAAAGCTCATCTGG	59.717	52.381	0.00	0.00	0.00	3.86
1480	1483	7.072708	AGTCACTATGGTATCTCCTACTACTGT	59.927	40.741	0.00	0.00	37.07	3.55
1555	1559	5.445964	GGGGTGTAAATGATGGACACTAAT	58.554	41.667	9.21	0.00	42.50	1.73
1561	1565	3.382083	AAGGGGGTGTAAATGATGGAC	57.618	47.619	0.00	0.00	0.00	4.02
1574	1578	2.158711	GCGCCTACTAAAATAAGGGGGT	60.159	50.000	0.00	0.00	42.12	4.95
1714	1718	5.514500	AAAAAGATAGCAGAAGGTACCCA	57.486	39.130	8.74	0.00	0.00	4.51
1756	1762	1.203112	TGCCCCAAAACATTAGGAGCA	60.203	47.619	0.00	0.00	0.00	4.26
1837	1843	5.483685	TGGAATGGATCGGTAGGAAATAG	57.516	43.478	0.00	0.00	0.00	1.73
1856	1862	4.322080	CAGGTATACTGCGAAGAATGGA	57.678	45.455	0.00	0.00	40.97	3.41
1960	1967	4.025229	TGAATCGGTCGAAAACTTGAACTG	60.025	41.667	0.00	0.00	0.00	3.16
2170	2177	4.566488	GGAGAAAAGGATCTGGTGTGATGT	60.566	45.833	0.00	0.00	0.00	3.06
2175	2182	4.731313	AAAGGAGAAAAGGATCTGGTGT	57.269	40.909	0.00	0.00	0.00	4.16
2180	2187	3.181418	TGGCCAAAAGGAGAAAAGGATCT	60.181	43.478	0.61	0.00	0.00	2.75
2278	2285	0.683179	GTAATTGTCAGGTGGCCCCC	60.683	60.000	0.00	0.00	0.00	5.40
2285	2292	6.877611	AATGTTTCTTCGTAATTGTCAGGT	57.122	33.333	0.00	0.00	0.00	4.00
2298	2305	7.637709	AAATCCACGCTTAAAATGTTTCTTC	57.362	32.000	0.00	0.00	0.00	2.87
2306	2313	5.799936	CGATCACAAAATCCACGCTTAAAAT	59.200	36.000	0.00	0.00	0.00	1.82
2310	2317	2.675844	CCGATCACAAAATCCACGCTTA	59.324	45.455	0.00	0.00	0.00	3.09
2314	2321	5.673337	ATAATCCGATCACAAAATCCACG	57.327	39.130	0.00	0.00	0.00	4.94
2349	2356	6.435904	AGTGAGTCTATCTTGCACTCTAAACT	59.564	38.462	0.00	0.00	37.93	2.66
2432	2439	2.292103	AGATCTCGAGCAGAGCAAAC	57.708	50.000	7.81	0.00	46.44	2.93
2436	2443	0.743688	TCCAAGATCTCGAGCAGAGC	59.256	55.000	7.81	0.00	46.44	4.09
2545	2554	8.023128	ACCAATTCGAGAAACAATACAAATCTG	58.977	33.333	0.00	0.00	0.00	2.90
2548	2557	8.458843	CCTACCAATTCGAGAAACAATACAAAT	58.541	33.333	0.00	0.00	0.00	2.32
2575	2584	9.791820	GAAACCTACTAGAACTACTTTGAGATC	57.208	37.037	0.00	0.00	0.00	2.75
2576	2585	9.536510	AGAAACCTACTAGAACTACTTTGAGAT	57.463	33.333	0.00	0.00	0.00	2.75
2581	2590	7.949006	TCCTGAGAAACCTACTAGAACTACTTT	59.051	37.037	0.00	0.00	0.00	2.66
2590	2599	8.754991	TCTCTATTTCCTGAGAAACCTACTAG	57.245	38.462	0.00	0.00	44.57	2.57
2618	2627	0.337428	AAGGTAAGTAGGGGCCTCGA	59.663	55.000	0.84	0.00	0.00	4.04
2667	2677	2.700897	GCACTATGAAGGAAGCCCTCTA	59.299	50.000	0.00	0.00	43.48	2.43
2683	2693	8.758829	TCAAAAGATAAAGAGAGGTATGCACTA	58.241	33.333	0.00	0.00	0.00	2.74
2701	2711	6.983906	ATCCACCAGAAAAACTCAAAAGAT	57.016	33.333	0.00	0.00	0.00	2.40
2736	2746	0.603569	CCGGGCGCTAAGAGACATAT	59.396	55.000	7.64	0.00	0.00	1.78
2837	2847	5.046910	ACAAATTTACTCAGCGTCCATTG	57.953	39.130	0.00	0.00	0.00	2.82
2856	2866	9.502091	GTGACATGGCTAATAGGAATATTACAA	57.498	33.333	0.00	0.00	0.00	2.41
2923	2933	3.236896	AGTCTCCTTCCTTTGTTACCGA	58.763	45.455	0.00	0.00	0.00	4.69
3061	3071	2.230130	TGCTTTAATTCCACTGGGGG	57.770	50.000	0.00	0.00	37.22	5.40
3062	3072	3.165071	AGTTGCTTTAATTCCACTGGGG	58.835	45.455	0.00	0.00	38.37	4.96
3063	3073	3.119849	CGAGTTGCTTTAATTCCACTGGG	60.120	47.826	0.00	0.00	0.00	4.45
3080	3090	1.884579	TCGAACTAGTCTTGGCGAGTT	59.115	47.619	0.00	0.64	37.10	3.01
3091	3101	5.661759	AGGGTTCCATTTCTATCGAACTAGT	59.338	40.000	0.00	0.00	33.82	2.57
3093	3103	6.070424	ACAAGGGTTCCATTTCTATCGAACTA	60.070	38.462	0.00	0.00	33.82	2.24
3107	3117	2.044793	ATCTCTCCACAAGGGTTCCA	57.955	50.000	0.00	0.00	38.11	3.53
3142	3152	2.711009	AGATCAAGAGGTTGTTCCACCA	59.289	45.455	0.00	0.00	39.62	4.17
3150	3160	2.093447	AGGGCGTAAGATCAAGAGGTTG	60.093	50.000	0.00	0.00	43.02	3.77
3215	3225	6.350612	GCCAGAAGTAGACTGACTTGTAGATT	60.351	42.308	0.00	0.00	39.79	2.40

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.