AutoCloner

Multiple sequence alignment - TraesCS6A01G385400

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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	TraesCS6A01G385400	chr6A	100.000	2842	0	0	1	2842	603181578	603184419	0.000000e+00	5249
1	TraesCS6A01G385400	chr6A	93.133	830	52	5	1	827	605140281	605141108	0.000000e+00	1212
2	TraesCS6A01G385400	chr6A	92.105	836	59	5	1	830	10036140	10035306	0.000000e+00	1171
3	TraesCS6A01G385400	chr6B	87.531	2029	143	43	887	2842	694115678	694117669	0.000000e+00	2244
4	TraesCS6A01G385400	chr3A	92.874	828	56	3	3	827	615943532	615944359	0.000000e+00	1199
5	TraesCS6A01G385400	chr3A	86.957	92	12	0	739	830	631339452	631339543	1.390000e-18	104
6	TraesCS6A01G385400	chr1D	92.077	833	61	4	1	830	398934291	398933461	0.000000e+00	1168
7	TraesCS6A01G385400	chr7A	91.966	834	62	5	1	830	100556963	100556131	0.000000e+00	1164
8	TraesCS6A01G385400	chr1A	91.957	833	64	3	1	830	34157643	34158475	0.000000e+00	1164
9	TraesCS6A01G385400	chr2A	91.766	838	63	6	1	835	69320164	69319330	0.000000e+00	1160
10	TraesCS6A01G385400	chr4D	91.507	836	62	8	1	830	461786613	461785781	0.000000e+00	1142
11	TraesCS6A01G385400	chr4D	91.367	834	67	5	1	829	498909899	498909066	0.000000e+00	1136
12	TraesCS6A01G385400	chr6D	91.327	761	54	7	1976	2731	456455185	456455938	0.000000e+00	1029
13	TraesCS6A01G385400	chr6D	87.595	661	59	12	828	1476	456453953	456454602	0.000000e+00	745
14	TraesCS6A01G385400	chr6D	79.634	383	22	28	1534	1891	456454740	456455091	1.020000e-54	224
15	TraesCS6A01G385400	chr7B	86.420	648	38	15	1089	1714	27212066	27212685	0.000000e+00	664
16	TraesCS6A01G385400	chr4B	85.676	370	17	11	1367	1714	24963422	24963777	9.680000e-95	357
17	TraesCS6A01G385400	chr4B	87.719	285	19	6	1088	1372	24954734	24955002	4.570000e-83	318
18	TraesCS6A01G385400	chr3B	82.637	311	18	11	1426	1714	754021045	754020749	2.830000e-60	243
19	TraesCS6A01G385400	chr5B	82.428	313	19	15	1424	1714	45136326	45136028	1.020000e-59	241

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	TraesCS6A01G385400	chr6A	603181578	603184419	2841	False	5249	5249	100.000000	1	2842	1	chr6A.!!$F1	2841
1	TraesCS6A01G385400	chr6A	605140281	605141108	827	False	1212	1212	93.133000	1	827	1	chr6A.!!$F2	826
2	TraesCS6A01G385400	chr6A	10035306	10036140	834	True	1171	1171	92.105000	1	830	1	chr6A.!!$R1	829
3	TraesCS6A01G385400	chr6B	694115678	694117669	1991	False	2244	2244	87.531000	887	2842	1	chr6B.!!$F1	1955
4	TraesCS6A01G385400	chr3A	615943532	615944359	827	False	1199	1199	92.874000	3	827	1	chr3A.!!$F1	824
5	TraesCS6A01G385400	chr1D	398933461	398934291	830	True	1168	1168	92.077000	1	830	1	chr1D.!!$R1	829
6	TraesCS6A01G385400	chr7A	100556131	100556963	832	True	1164	1164	91.966000	1	830	1	chr7A.!!$R1	829
7	TraesCS6A01G385400	chr1A	34157643	34158475	832	False	1164	1164	91.957000	1	830	1	chr1A.!!$F1	829
8	TraesCS6A01G385400	chr2A	69319330	69320164	834	True	1160	1160	91.766000	1	835	1	chr2A.!!$R1	834
9	TraesCS6A01G385400	chr4D	461785781	461786613	832	True	1142	1142	91.507000	1	830	1	chr4D.!!$R1	829
10	TraesCS6A01G385400	chr4D	498909066	498909899	833	True	1136	1136	91.367000	1	829	1	chr4D.!!$R2	828
11	TraesCS6A01G385400	chr6D	456453953	456455938	1985	False	666	1029	86.185333	828	2731	3	chr6D.!!$F1	1903
12	TraesCS6A01G385400	chr7B	27212066	27212685	619	False	664	664	86.420000	1089	1714	1	chr7B.!!$F1	625

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
71	72	0.245539	GTTGTCGAACTCCCGGATGA	59.754	55.0	0.73	0.0	0.0	2.92	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2066	2262	0.673333	ATGTTTCGTCGATGGCAGCA	60.673	50.0	2.73	0.96	0.0	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
26	27	3.711814	TGAATCCAAGGGCGCCGA	61.712	61.111	22.54	12.79	0.00	5.54
71	72	0.245539	GTTGTCGAACTCCCGGATGA	59.754	55.000	0.73	0.00	0.00	2.92
88	89	4.877823	CGGATGAAATTCACAATCCTGAGA	59.122	41.667	11.10	0.00	0.00	3.27
176	177	3.562343	AGTAGTCGGAGTAGAGCATGA	57.438	47.619	0.00	0.00	0.00	3.07
259	260	1.503542	CGGCTTTTCATTGCTCGCT	59.496	52.632	0.00	0.00	0.00	4.93
275	276	3.150335	CTAGCAGCTGGGCGAGGA	61.150	66.667	17.12	0.00	39.27	3.71
309	310	3.382278	TGAGATGCTCTTCTTCCTGGAT	58.618	45.455	0.00	0.00	0.00	3.41
432	433	1.983481	TGTCCCCGCCGCTAAACTA	60.983	57.895	0.00	0.00	0.00	2.24
441	442	1.325476	CCGCTAAACTACCCCTCCGT	61.325	60.000	0.00	0.00	0.00	4.69
477	478	4.357279	GCTGTTGGAGGGGCTGCT	62.357	66.667	0.00	0.00	0.00	4.24
593	596	3.407967	GGGGTGGGAGGCGAATCA	61.408	66.667	0.00	0.00	0.00	2.57
622	625	3.903530	AACCTTGACTTTTCCCCTGAT	57.096	42.857	0.00	0.00	0.00	2.90
631	634	0.912487	TTTCCCCTGATAGCGTGGGT	60.912	55.000	7.88	0.00	39.31	4.51
669	674	3.637273	GTCGGAGCCCCCAACTGT	61.637	66.667	0.00	0.00	34.14	3.55
673	678	2.936032	GAGCCCCCAACTGTCCCT	60.936	66.667	0.00	0.00	0.00	4.20
674	679	1.615424	GAGCCCCCAACTGTCCCTA	60.615	63.158	0.00	0.00	0.00	3.53
745	751	0.388907	CGTTTTTCGGCGTCTAGGGA	60.389	55.000	6.85	0.00	35.71	4.20
787	795	2.278271	CCGGCGCAACAAAAACGT	60.278	55.556	10.83	0.00	0.00	3.99
796	804	4.784079	GCGCAACAAAAACGTCTAGAAAGA	60.784	41.667	0.30	0.00	0.00	2.52
797	805	5.260140	CGCAACAAAAACGTCTAGAAAGAA	58.740	37.500	0.00	0.00	32.16	2.52
806	815	3.640029	ACGTCTAGAAAGAACCTGTTGGA	59.360	43.478	0.00	0.00	37.04	3.53
811	820	2.434702	AGAAAGAACCTGTTGGAGACGT	59.565	45.455	0.00	0.00	37.04	4.34
839	848	2.514824	GCTCTAAGCCCGCCTTGG	60.515	66.667	0.00	0.00	34.48	3.61
862	871	1.000896	AGGGAAACGGGCTCCATTG	60.001	57.895	2.62	0.00	34.34	2.82
924	933	1.299648	CCAATCCAGAGCCCAACGA	59.700	57.895	0.00	0.00	0.00	3.85
972	986	1.352622	ACCCACTCACCACACCACAT	61.353	55.000	0.00	0.00	0.00	3.21
992	1014	3.533606	TTTATCTGCAGAGAGTGAGCC	57.466	47.619	22.96	0.00	0.00	4.70
993	1015	1.028130	TATCTGCAGAGAGTGAGCCG	58.972	55.000	22.96	0.00	0.00	5.52
1064	1091	1.094785	GCCACACACAGACACACTTT	58.905	50.000	0.00	0.00	0.00	2.66
1080	1107	3.589654	TTTCGCCGGAGCTCAGGTG	62.590	63.158	32.92	32.92	41.97	4.00
1100	1131	2.676471	GTGTTCCAATGGCGGCCT	60.676	61.111	21.46	2.61	0.00	5.19
1171	1202	2.666190	CGTCACACCAGCCACCAG	60.666	66.667	0.00	0.00	0.00	4.00
1472	1517	1.068472	CCGTCGTCACAAGAGTAAGCT	60.068	52.381	0.00	0.00	0.00	3.74
1486	1531	1.071019	TAAGCTCAAACGCTCGCTCG	61.071	55.000	0.00	0.00	39.86	5.03
1522	1575	1.949525	CTGCAACTGCTAACAAGGTGT	59.050	47.619	2.95	0.00	42.66	4.16
1523	1576	1.675483	TGCAACTGCTAACAAGGTGTG	59.325	47.619	2.95	0.00	42.66	3.82
1543	1609	4.506288	TGTGATCTACAACTGTGTTTCACG	59.494	41.667	12.30	0.00	40.36	4.35
1770	1927	1.911357	TGCCTCATCTCTGTGTCCAAT	59.089	47.619	0.00	0.00	0.00	3.16
1891	2055	1.672030	CATGCGTTCCAGACAGGCA	60.672	57.895	0.00	0.00	37.29	4.75
1892	2056	1.672356	ATGCGTTCCAGACAGGCAC	60.672	57.895	0.00	0.00	36.31	5.01
1893	2057	3.050275	GCGTTCCAGACAGGCACC	61.050	66.667	0.00	0.00	37.29	5.01
1894	2058	2.358737	CGTTCCAGACAGGCACCC	60.359	66.667	0.00	0.00	37.29	4.61
1911	2105	2.202851	CCGTGAGCAGCAGCCTAG	60.203	66.667	0.00	0.00	43.56	3.02
1912	2106	2.714991	CCGTGAGCAGCAGCCTAGA	61.715	63.158	0.00	0.00	43.56	2.43
1913	2107	1.440893	CGTGAGCAGCAGCCTAGAT	59.559	57.895	0.00	0.00	43.56	1.98
1914	2108	0.875040	CGTGAGCAGCAGCCTAGATG	60.875	60.000	0.00	0.00	43.56	2.90
1974	2170	3.412386	GTTTGCAGTACAGGGAGATGTT	58.588	45.455	0.00	0.00	34.56	2.71
1983	2179	2.114616	CAGGGAGATGTTAGGAGCTGT	58.885	52.381	0.00	0.00	0.00	4.40
2006	2202	7.676947	TGTAGAGAGGTAAATACAACAAAGCT	58.323	34.615	0.00	0.00	0.00	3.74
2051	2247	1.760029	TCAAAGGTGAAAAACAGGCCC	59.240	47.619	0.00	0.00	0.00	5.80
2087	2283	1.867233	GCTGCCATCGACGAAACATAT	59.133	47.619	0.00	0.00	0.00	1.78
2088	2284	2.348872	GCTGCCATCGACGAAACATATG	60.349	50.000	0.00	0.00	0.00	1.78
2138	2335	3.753842	TGAAGAAATAAATGTTCGGCGC	58.246	40.909	0.00	0.00	0.00	6.53
2160	2357	5.569059	CGCTCCAAATCAAAAATCTGTGTAC	59.431	40.000	0.00	0.00	0.00	2.90
2204	2401	3.152341	CAGTGCCTGAAAAAGATCACCT	58.848	45.455	0.00	0.00	32.44	4.00
2211	2408	4.694509	CCTGAAAAAGATCACCTGAGACAG	59.305	45.833	0.00	0.00	0.00	3.51
2212	2409	4.067896	TGAAAAAGATCACCTGAGACAGC	58.932	43.478	0.00	0.00	0.00	4.40
2235	2432	7.280428	CAGCAATTAGATTAGGCTATGATCCTG	59.720	40.741	0.00	0.00	35.21	3.86
2270	2471	5.843673	ACTCTTTCGATCTAATCAGCTCA	57.156	39.130	0.00	0.00	0.00	4.26
2298	2499	4.794248	TTGCGATTCCGAGTAAATGATG	57.206	40.909	0.00	0.00	38.22	3.07
2302	2506	3.555547	CGATTCCGAGTAAATGATGTGCA	59.444	43.478	0.00	0.00	38.22	4.57
2323	2527	3.449746	TTCATTCCTTTTCCGGATGGT	57.550	42.857	4.15	0.00	36.30	3.55
2326	2530	3.010138	TCATTCCTTTTCCGGATGGTTCT	59.990	43.478	4.15	0.00	36.30	3.01
2331	2535	2.781681	TTTCCGGATGGTTCTCTTCC	57.218	50.000	4.15	0.00	36.61	3.46
2394	2598	1.202639	TGATCCACAGACTGCGTGTTT	60.203	47.619	1.25	0.00	32.26	2.83
2516	2720	2.816087	GCATCTTTCTTTGGAGCTGTGA	59.184	45.455	0.00	0.00	0.00	3.58
2523	2727	0.401738	TTTGGAGCTGTGAAGAGGGG	59.598	55.000	0.00	0.00	0.00	4.79
2524	2728	1.492133	TTGGAGCTGTGAAGAGGGGG	61.492	60.000	0.00	0.00	0.00	5.40
2546	2754	6.183361	GGGGGAAAAATAAAAGAGAACCCAAA	60.183	38.462	0.00	0.00	36.85	3.28
2574	2783	7.159372	ACTAAAATAGATGGAAGTTCACACGT	58.841	34.615	5.01	0.00	0.00	4.49
2577	2786	3.032017	AGATGGAAGTTCACACGTCTG	57.968	47.619	5.01	0.00	32.39	3.51
2590	2799	2.159014	ACACGTCTGTTCTTGCCAGTTA	60.159	45.455	0.00	0.00	0.00	2.24
2666	2879	3.259374	TCTGAGTTCTTAGCCCTTCACTG	59.741	47.826	0.00	0.00	0.00	3.66
2725	2938	1.000283	AGAACTCTGGAACTCGCACAG	60.000	52.381	0.00	0.00	0.00	3.66
2745	2975	4.081087	ACAGACACAACTTTACTGTGGACT	60.081	41.667	7.77	4.14	46.89	3.85
2751	2981	1.202770	ACTTTACTGTGGACTGGGCAC	60.203	52.381	0.00	0.00	0.00	5.01
2754	2984	0.471022	TACTGTGGACTGGGCACTGA	60.471	55.000	0.00	0.00	0.00	3.41
2755	2985	1.004080	CTGTGGACTGGGCACTGAG	60.004	63.158	0.00	0.00	0.00	3.35
2783	3013	9.037737	CATTTTATGGATGCCTTTGAAATACTG	57.962	33.333	0.00	0.00	0.00	2.74
2794	3024	6.617953	GCCTTTGAAATACTGTACGTCTGAAC	60.618	42.308	0.00	0.00	0.00	3.18
2820	3050	7.936847	CCTAAAATAGGTTACTGATGGCATACA	59.063	37.037	0.00	0.00	41.18	2.29

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
71	72	6.008960	AGCTCTTTCTCAGGATTGTGAATTT	58.991	36.000	0.00	0.00	36.87	1.82
176	177	1.202313	GCATCGTCTCGAAGGCTACTT	60.202	52.381	10.30	0.00	39.99	2.24
259	260	3.461773	GTCCTCGCCCAGCTGCTA	61.462	66.667	8.66	0.00	0.00	3.49
275	276	0.740868	CATCTCATGGTGTTCGCCGT	60.741	55.000	0.00	0.00	0.00	5.68
477	478	1.305219	AATAGCAAAGCTTCGCCGCA	61.305	50.000	5.58	0.00	40.44	5.69
489	490	2.509569	TCCACGCCAGAAAAATAGCAA	58.490	42.857	0.00	0.00	0.00	3.91
501	502	1.344438	CTAGATAGCCATTCCACGCCA	59.656	52.381	0.00	0.00	0.00	5.69
593	596	4.649674	GGAAAAGTCAAGGTTTTCTTCCCT	59.350	41.667	7.92	0.00	41.63	4.20
631	634	3.842925	AAGGGAAAAGCGCGGCTGA	62.843	57.895	8.83	0.00	39.62	4.26
653	656	3.319198	GACAGTTGGGGGCTCCGA	61.319	66.667	0.00	0.00	38.76	4.55
745	751	4.922026	AAAACGGCCCAGTCGCGT	62.922	61.111	5.77	0.00	32.11	6.01
777	784	6.373495	ACAGGTTCTTTCTAGACGTTTTTGTT	59.627	34.615	0.00	0.00	0.00	2.83
778	785	5.878669	ACAGGTTCTTTCTAGACGTTTTTGT	59.121	36.000	0.00	0.00	0.00	2.83
787	795	4.022242	CGTCTCCAACAGGTTCTTTCTAGA	60.022	45.833	0.00	0.00	0.00	2.43
796	804	1.227853	GCCACGTCTCCAACAGGTT	60.228	57.895	0.00	0.00	0.00	3.50
797	805	2.140792	AGCCACGTCTCCAACAGGT	61.141	57.895	0.00	0.00	0.00	4.00
806	815	1.954362	GAGCATCTCCAGCCACGTCT	61.954	60.000	0.00	0.00	0.00	4.18
839	848	2.034221	AGCCCGTTTCCCTCTTGC	59.966	61.111	0.00	0.00	0.00	4.01
866	875	3.804193	GAAGCCGCCTTTCTGCCG	61.804	66.667	0.00	0.00	0.00	5.69
878	887	0.877743	GGAAGCACACTGAAGAAGCC	59.122	55.000	0.00	0.00	0.00	4.35
879	888	1.265365	GTGGAAGCACACTGAAGAAGC	59.735	52.381	0.00	0.00	38.32	3.86
972	986	2.159184	CGGCTCACTCTCTGCAGATAAA	60.159	50.000	18.63	5.14	0.00	1.40
1008	1030	5.846164	TGGAGGTGGATATGTCTGTGATTAT	59.154	40.000	0.00	0.00	0.00	1.28
1009	1031	5.215845	TGGAGGTGGATATGTCTGTGATTA	58.784	41.667	0.00	0.00	0.00	1.75
1010	1032	4.040047	TGGAGGTGGATATGTCTGTGATT	58.960	43.478	0.00	0.00	0.00	2.57
1011	1033	3.657610	TGGAGGTGGATATGTCTGTGAT	58.342	45.455	0.00	0.00	0.00	3.06
1058	1085	2.048127	GAGCTCCGGCGAAAGTGT	60.048	61.111	9.30	0.00	44.37	3.55
1080	1107	2.700773	GCCGCCATTGGAACACCTC	61.701	63.158	6.95	0.00	39.29	3.85
1156	1187	3.487626	TGCTGGTGGCTGGTGTGA	61.488	61.111	0.00	0.00	42.39	3.58
1171	1202	3.740321	CAGAAGAAGAGTTCAGTGAGTGC	59.260	47.826	0.00	0.00	0.00	4.40
1472	1517	3.105782	CAGCGAGCGAGCGTTTGA	61.106	61.111	0.00	0.00	43.00	2.69
1486	1531	1.716826	GCAGAAGCAGAGATGGCAGC	61.717	60.000	0.00	0.00	41.58	5.25
1522	1575	3.493129	GCGTGAAACACAGTTGTAGATCA	59.507	43.478	0.00	0.00	35.74	2.92
1523	1576	3.741344	AGCGTGAAACACAGTTGTAGATC	59.259	43.478	0.00	0.00	35.74	2.75
1543	1609	5.122869	TCTGCTCAAAGATGAAACATACAGC	59.877	40.000	0.00	0.00	34.49	4.40
1698	1855	4.587056	GGTCCATCCCATCAAGCC	57.413	61.111	0.00	0.00	0.00	4.35
1721	1878	2.284798	ATAGCAGGTCGTGTCGCTGG	62.285	60.000	0.00	0.00	35.93	4.85
1725	1882	1.878522	GGCATAGCAGGTCGTGTCG	60.879	63.158	0.00	0.00	0.00	4.35
1893	2057	3.729965	CTAGGCTGCTGCTCACGGG	62.730	68.421	15.64	0.00	39.59	5.28
1894	2058	2.025767	ATCTAGGCTGCTGCTCACGG	62.026	60.000	15.64	2.54	39.59	4.94
1911	2105	5.755813	CCATTATTGTCACAGCTTAGCATC	58.244	41.667	7.07	0.00	0.00	3.91
1912	2106	4.037208	GCCATTATTGTCACAGCTTAGCAT	59.963	41.667	7.07	0.00	0.00	3.79
1913	2107	3.378112	GCCATTATTGTCACAGCTTAGCA	59.622	43.478	7.07	0.00	0.00	3.49
1914	2108	3.378112	TGCCATTATTGTCACAGCTTAGC	59.622	43.478	0.00	0.00	0.00	3.09
1915	2109	5.565592	TTGCCATTATTGTCACAGCTTAG	57.434	39.130	0.00	0.00	0.00	2.18
1918	2112	5.829391	TGATATTGCCATTATTGTCACAGCT	59.171	36.000	0.00	0.00	0.00	4.24
1974	2170	6.907961	TGTATTTACCTCTCTACAGCTCCTA	58.092	40.000	0.00	0.00	0.00	2.94
1983	2179	7.822822	GGAAGCTTTGTTGTATTTACCTCTCTA	59.177	37.037	0.00	0.00	0.00	2.43
2006	2202	1.429930	TGGTGCTCACTGGTTAGGAA	58.570	50.000	0.00	0.00	0.00	3.36
2066	2262	0.673333	ATGTTTCGTCGATGGCAGCA	60.673	50.000	2.73	0.96	0.00	4.41
2088	2284	9.620660	CCAAACTATGGTCACATTTTAGTTTAC	57.379	33.333	6.17	0.00	44.85	2.01
2125	2322	1.524848	TTTGGAGCGCCGAACATTTA	58.475	45.000	4.83	0.00	36.79	1.40
2138	2335	6.980593	TGGTACACAGATTTTTGATTTGGAG	58.019	36.000	0.00	0.00	0.00	3.86
2160	2357	4.806640	AATTATTGTGGGCTGACTTTGG	57.193	40.909	0.00	0.00	0.00	3.28
2204	2401	5.620738	AGCCTAATCTAATTGCTGTCTCA	57.379	39.130	0.00	0.00	0.00	3.27
2211	2408	7.279758	GTCAGGATCATAGCCTAATCTAATTGC	59.720	40.741	0.00	0.00	33.51	3.56
2212	2409	8.538701	AGTCAGGATCATAGCCTAATCTAATTG	58.461	37.037	0.00	0.00	33.51	2.32
2235	2432	5.049398	TCGAAAGAGTAGCTCAGAAAGTC	57.951	43.478	0.00	0.00	34.84	3.01
2270	2471	3.915437	ACTCGGAATCGCAAACAAAAT	57.085	38.095	0.00	0.00	36.13	1.82
2298	2499	2.491693	TCCGGAAAAGGAATGAATGCAC	59.508	45.455	0.00	0.00	37.36	4.57
2302	2506	3.981212	ACCATCCGGAAAAGGAATGAAT	58.019	40.909	23.12	1.77	44.50	2.57
2342	2546	2.205074	ACAGAGAACAAACAGCAGACG	58.795	47.619	0.00	0.00	0.00	4.18
2394	2598	1.207089	CTACCGAGGTTCCAGCATTCA	59.793	52.381	0.00	0.00	0.00	2.57
2523	2727	8.918202	AATTTGGGTTCTCTTTTATTTTTCCC	57.082	30.769	0.00	0.00	0.00	3.97
2569	2778	0.178068	ACTGGCAAGAACAGACGTGT	59.822	50.000	0.00	0.00	39.24	4.49
2574	2783	3.135712	TCCTTGTAACTGGCAAGAACAGA	59.864	43.478	0.00	0.00	44.29	3.41
2577	2786	3.740115	TCTCCTTGTAACTGGCAAGAAC	58.260	45.455	0.00	0.00	44.29	3.01
2590	2799	5.894298	TGAGGTATGCATATTCTCCTTGT	57.106	39.130	24.63	4.94	0.00	3.16
2666	2879	2.042831	GTGCAGACACATGGAGGCC	61.043	63.158	0.00	0.00	46.61	5.19
2725	2938	3.560068	CCAGTCCACAGTAAAGTTGTGTC	59.440	47.826	4.86	0.00	43.37	3.67
2762	2992	6.481976	CGTACAGTATTTCAAAGGCATCCATA	59.518	38.462	0.00	0.00	0.00	2.74
2770	3000	6.128634	GGTTCAGACGTACAGTATTTCAAAGG	60.129	42.308	0.00	0.00	0.00	3.11
2779	3009	7.765307	CCTATTTTAGGTTCAGACGTACAGTA	58.235	38.462	0.00	0.00	41.18	2.74
2780	3010	6.628185	CCTATTTTAGGTTCAGACGTACAGT	58.372	40.000	0.00	0.00	41.18	3.55
2820	3050	2.308570	TGTGCACCAACCTGGAAGATAT	59.691	45.455	15.69	0.00	40.96	1.63

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.