AutoCloner

Multiple sequence alignment - TraesCS5A01G448700

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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	TraesCS5A01G448700	chr5A	100.000	3952	0	0	1	3952	631085925	631081974	0.000000e+00	7299
1	TraesCS5A01G448700	chr5A	94.582	2455	115	14	1508	3952	631111366	631108920	0.000000e+00	3781
2	TraesCS5A01G448700	chr5A	95.221	858	39	2	4	859	631112220	631111363	0.000000e+00	1356
3	TraesCS5A01G448700	chr5A	89.039	666	68	3	3291	3952	631114520	631113856	0.000000e+00	821
4	TraesCS5A01G448700	chr5A	76.640	1494	263	47	2468	3947	631205693	631204272	0.000000e+00	747
5	TraesCS5A01G448700	chr5A	100.000	394	0	0	4226	4619	631081700	631081307	0.000000e+00	728
6	TraesCS5A01G448700	chr5A	81.184	946	136	25	24	957	631254807	631253892	0.000000e+00	723
7	TraesCS5A01G448700	chr5A	93.112	392	27	0	4226	4617	631108897	631108506	4.010000e-160	575
8	TraesCS5A01G448700	chr5A	80.455	747	130	10	1145	1877	631206504	631205760	1.450000e-154	556
9	TraesCS5A01G448700	chr5A	89.604	404	36	5	2867	3265	631114918	631114516	4.120000e-140	508
10	TraesCS5A01G448700	chr5A	84.000	175	25	2	40	214	631207734	631207563	1.030000e-36	165
11	TraesCS5A01G448700	chr5B	88.616	3997	370	43	4	3952	626085947	626081988	0.000000e+00	4782
12	TraesCS5A01G448700	chr5B	88.524	3869	364	45	134	3952	631355096	631351258	0.000000e+00	4612
13	TraesCS5A01G448700	chr5B	87.198	3312	342	50	5	3265	626141645	626138365	0.000000e+00	3692
14	TraesCS5A01G448700	chr5B	87.313	3137	326	40	185	3269	626107817	626104701	0.000000e+00	3522
15	TraesCS5A01G448700	chr5B	87.663	2067	219	30	42	2088	631379659	631377609	0.000000e+00	2372
16	TraesCS5A01G448700	chr5B	88.229	892	73	14	2088	2951	631368714	631367827	0.000000e+00	1037
17	TraesCS5A01G448700	chr5B	89.805	667	60	5	3291	3952	626104707	626104044	0.000000e+00	848
18	TraesCS5A01G448700	chr5B	88.756	667	64	8	3291	3952	626138369	626137709	0.000000e+00	806
19	TraesCS5A01G448700	chr5B	89.086	394	31	4	4226	4617	626081965	626081582	3.230000e-131	479
20	TraesCS5A01G448700	chr5B	85.417	384	44	4	4237	4617	631351230	631350856	5.600000e-104	388
21	TraesCS5A01G448700	chr5B	81.944	216	30	7	40	246	631360990	631360775	1.710000e-39	174
22	TraesCS5A01G448700	chr5D	88.315	3312	307	46	5	3265	502538114	502534832	0.000000e+00	3899
23	TraesCS5A01G448700	chr5D	88.910	2660	232	29	650	3263	502365265	502362623	0.000000e+00	3219
24	TraesCS5A01G448700	chr5D	89.655	667	58	9	3291	3952	502534836	502534176	0.000000e+00	839
25	TraesCS5A01G448700	chr5D	89.624	665	60	6	3291	3952	502362625	502361967	0.000000e+00	837
26	TraesCS5A01G448700	chr5D	81.149	801	126	16	1096	1877	502377038	502376244	1.830000e-173	619
27	TraesCS5A01G448700	chr5D	82.240	732	101	18	233	957	502377904	502377195	5.110000e-169	604
28	TraesCS5A01G448700	chr5D	77.461	772	140	28	2470	3228	502544378	502543628	9.180000e-117	431
29	TraesCS5A01G448700	chr6B	84.615	143	14	6	4480	4617	332678757	332678618	8.060000e-28	135
30	TraesCS5A01G448700	chr1A	82.993	147	23	2	4472	4616	557338664	557338810	1.040000e-26	132
31	TraesCS5A01G448700	chr6A	80.576	139	24	3	4480	4615	6739098	6739236	2.270000e-18	104

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	TraesCS5A01G448700	chr5A	631081307	631085925	4618	True	4013.500000	7299	100.0000	1	4619	2	chr5A.!!$R2	4618
1	TraesCS5A01G448700	chr5A	631108506	631114918	6412	True	1408.200000	3781	92.3116	4	4617	5	chr5A.!!$R3	4613
2	TraesCS5A01G448700	chr5A	631253892	631254807	915	True	723.000000	723	81.1840	24	957	1	chr5A.!!$R1	933
3	TraesCS5A01G448700	chr5A	631204272	631207734	3462	True	489.333333	747	80.3650	40	3947	3	chr5A.!!$R4	3907
4	TraesCS5A01G448700	chr5B	626081582	626085947	4365	True	2630.500000	4782	88.8510	4	4617	2	chr5B.!!$R4	4613
5	TraesCS5A01G448700	chr5B	631350856	631355096	4240	True	2500.000000	4612	86.9705	134	4617	2	chr5B.!!$R7	4483
6	TraesCS5A01G448700	chr5B	631377609	631379659	2050	True	2372.000000	2372	87.6630	42	2088	1	chr5B.!!$R3	2046
7	TraesCS5A01G448700	chr5B	626137709	626141645	3936	True	2249.000000	3692	87.9770	5	3952	2	chr5B.!!$R6	3947
8	TraesCS5A01G448700	chr5B	626104044	626107817	3773	True	2185.000000	3522	88.5590	185	3952	2	chr5B.!!$R5	3767
9	TraesCS5A01G448700	chr5B	631367827	631368714	887	True	1037.000000	1037	88.2290	2088	2951	1	chr5B.!!$R2	863
10	TraesCS5A01G448700	chr5D	502534176	502538114	3938	True	2369.000000	3899	88.9850	5	3952	2	chr5D.!!$R4	3947
11	TraesCS5A01G448700	chr5D	502361967	502365265	3298	True	2028.000000	3219	89.2670	650	3952	2	chr5D.!!$R2	3302
12	TraesCS5A01G448700	chr5D	502376244	502377904	1660	True	611.500000	619	81.6945	233	1877	2	chr5D.!!$R3	1644
13	TraesCS5A01G448700	chr5D	502543628	502544378	750	True	431.000000	431	77.4610	2470	3228	1	chr5D.!!$R1	758

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
505	3304	0.185416	GATCGGAGGGAGGTACCTGA	59.815	60.000	22.10	9.68	42.10	3.86	F
1377	4256	0.040157	CGTCGTACGACTGGGTTTCA	60.040	55.000	37.11	4.39	46.05	2.69	F
1421	4304	0.253044	CAGGGGGTGACAATGACGAT	59.747	55.000	0.00	0.00	0.00	3.73	F
1423	4306	0.748005	GGGGGTGACAATGACGATGG	60.748	60.000	0.00	0.00	0.00	3.51	F
1519	4402	1.272203	TGTGGGTGGTTTCACAGTTGT	60.272	47.619	0.00	0.00	45.32	3.32	F
1608	4495	1.609501	TAGGCGTCTTCCTGGCAGT	60.610	57.895	14.43	0.00	37.01	4.40	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Hairpin	End Stability	Orientation
1403	4286	0.253044	CATCGTCATTGTCACCCCCT	59.747	55.000	0.00	0.00	4.79	R
2804	5744	1.134788	ACAGTCCCCGAAAATCTAGCG	60.135	52.381	0.00	0.00	4.26	R
3418	6381	2.028112	TCCAAAAGATAGCAGCGACACT	60.028	45.455	0.00	0.00	3.55	R
3505	6468	5.822519	GCCACTGACATATCAACCTGATAAA	59.177	40.000	0.72	42.05	1.40	R
3596	6559	1.135094	CCTGCCACCTACTCCATGAT	58.865	55.000	0.00	0.00	2.45	R
3692	6655	1.003580	CACCACACAAGGGACATAGCT	59.996	52.381	0.00	0.00	3.32	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
93	2789	5.078949	ACCCACAAGAAACATGAATGATGA	58.921	37.500	0.00	0.00	35.80	2.92
180	2882	3.130869	ACAACACAACACATTGCACAGAT	59.869	39.130	0.00	0.00	39.66	2.90
272	3067	0.620030	TCATGGTGATGGTGGTGGAG	59.380	55.000	0.00	0.00	0.00	3.86
381	3176	7.898014	ACAAACTGGAAGGAGAATTTACTTT	57.102	32.000	0.00	0.00	39.30	2.66
443	3238	3.845259	GCGCCGGTGGATGGACTA	61.845	66.667	18.41	0.00	0.00	2.59
488	3287	6.583427	GGTTTTTAACTTTTTATGACGCGGAT	59.417	34.615	12.47	4.35	0.00	4.18
503	3302	1.542679	GGATCGGAGGGAGGTACCT	59.457	63.158	16.26	16.26	45.57	3.08
505	3304	0.185416	GATCGGAGGGAGGTACCTGA	59.815	60.000	22.10	9.68	42.10	3.86
530	3329	1.993370	GTTGACGACGAGGAAAGATGG	59.007	52.381	0.00	0.00	0.00	3.51
538	3337	3.933332	GACGAGGAAAGATGGTCGAATTT	59.067	43.478	0.00	0.00	36.30	1.82
553	3353	2.223456	CGAATTTGTTCTGGTGTGCACA	60.223	45.455	17.42	17.42	0.00	4.57
565	3365	2.163613	GGTGTGCACAGGGTTAATAAGC	59.836	50.000	22.40	3.23	0.00	3.09
567	3367	2.289756	TGTGCACAGGGTTAATAAGCGA	60.290	45.455	17.42	0.00	0.00	4.93
738	3548	7.400052	ACTTTATCCTTGCCTCATTTTACCAAT	59.600	33.333	0.00	0.00	0.00	3.16
763	3573	2.070654	CTTTGCTTTTCCACGGCGGT	62.071	55.000	13.24	0.00	35.57	5.68
809	3619	0.736053	ACGTCACGTTTGGTGCAATT	59.264	45.000	0.00	0.00	46.56	2.32
901	3713	2.995746	TGGGATCTTGATAGGATGGCT	58.004	47.619	0.00	0.00	0.00	4.75
918	3730	7.163001	GGATGGCTCCTAATAAATGATTTCC	57.837	40.000	0.00	0.00	38.65	3.13
943	3759	9.155975	CCCAAGATCTAGACATAATAATTTCCG	57.844	37.037	0.00	0.00	0.00	4.30
978	3808	1.144691	TTGATCCCACACTGAACCCA	58.855	50.000	0.00	0.00	0.00	4.51
1031	3862	3.485216	GCAAGCATTAAATCTACACGCGT	60.485	43.478	5.58	5.58	0.00	6.01
1093	3925	2.443632	ACCTCCATCTCAGATCTCGGTA	59.556	50.000	0.00	0.00	0.00	4.02
1108	3940	1.356398	TCGGTAATGGAAGGGCCTTTT	59.644	47.619	21.92	13.47	35.75	2.27
1110	3942	2.536066	GGTAATGGAAGGGCCTTTTGT	58.464	47.619	21.92	8.94	35.75	2.83
1167	4045	2.964389	GAGGCGAAGATGGCGAGC	60.964	66.667	0.00	0.00	39.82	5.03
1172	4050	2.903357	GAAGATGGCGAGCCTCCA	59.097	61.111	15.75	0.00	38.09	3.86
1193	4071	0.535335	GAGATCTGTGGGCGGTACAA	59.465	55.000	0.00	0.00	0.00	2.41
1217	4095	0.885596	GCAGAGGAGATGCATCAGGC	60.886	60.000	27.81	16.02	43.31	4.85
1270	4149	3.371380	GGAGGAGCAAAGTTGGATCTCAT	60.371	47.826	0.00	0.00	0.00	2.90
1331	4210	0.179084	GCGGAATCCAACGATCCAGA	60.179	55.000	0.00	0.00	0.00	3.86
1377	4256	0.040157	CGTCGTACGACTGGGTTTCA	60.040	55.000	37.11	4.39	46.05	2.69
1403	4286	1.221566	CGGTCTGGGATGATGTGCA	59.778	57.895	0.00	0.00	0.00	4.57
1406	4289	0.465097	GTCTGGGATGATGTGCAGGG	60.465	60.000	0.00	0.00	0.00	4.45
1413	4296	1.499913	ATGATGTGCAGGGGGTGACA	61.500	55.000	0.00	0.00	0.00	3.58
1421	4304	0.253044	CAGGGGGTGACAATGACGAT	59.747	55.000	0.00	0.00	0.00	3.73
1423	4306	0.748005	GGGGGTGACAATGACGATGG	60.748	60.000	0.00	0.00	0.00	3.51
1450	4333	2.488355	CACGCTACCCGACGATGT	59.512	61.111	0.00	0.00	41.02	3.06
1463	4346	1.514228	CGATGTCCGTCGTGACTGG	60.514	63.158	12.88	2.02	36.88	4.00
1499	4382	6.998774	GGTGCTGCCAAGACAAAATGTTGT	62.999	45.833	0.00	0.00	43.26	3.32
1519	4402	1.272203	TGTGGGTGGTTTCACAGTTGT	60.272	47.619	0.00	0.00	45.32	3.32
1608	4495	1.609501	TAGGCGTCTTCCTGGCAGT	60.610	57.895	14.43	0.00	37.01	4.40
1622	4509	3.370846	CCTGGCAGTCAGTCAATTATGGA	60.371	47.826	14.43	0.00	41.83	3.41
1631	4520	2.158769	AGTCAATTATGGATGCTGCCGA	60.159	45.455	0.00	0.00	0.00	5.54
1731	4627	8.087982	ACATTCTCATGTACAAACTAACAGTG	57.912	34.615	0.00	0.00	42.24	3.66
1986	4889	9.875691	AAAAAGGCTATGAGAATTGGTTATTTC	57.124	29.630	0.00	0.00	0.00	2.17
2112	5016	7.014905	GGTGAGTTTTAGGGTTTTGTCCTTTAT	59.985	37.037	0.00	0.00	35.92	1.40
2186	5091	2.858974	AGGTCCAGGTTGGTGGGG	60.859	66.667	0.00	0.00	39.03	4.96
2211	5116	5.635120	AGGAAAGCACTTAAGGAGAATGTT	58.365	37.500	7.53	0.00	0.00	2.71
2311	5216	3.629142	AAGGCTTTATTGCTCTACCGT	57.371	42.857	0.00	0.00	0.00	4.83
2451	5361	3.137360	AGAGGGGGAGATTCAACTTATGC	59.863	47.826	0.00	0.00	0.00	3.14
2578	5514	4.017126	GACCTAAAGATCAAGGGGGTTTG	58.983	47.826	11.99	0.00	37.18	2.93
2586	5522	3.905493	TCAAGGGGGTTTGTGGATTTA	57.095	42.857	0.00	0.00	0.00	1.40
2631	5569	7.865706	AACTTGTCTGCTAAATAGTTATGGG	57.134	36.000	0.00	0.00	0.00	4.00
2661	5599	7.962441	AGAAACTAAAAATGGTATTTGGCACT	58.038	30.769	0.00	0.00	0.00	4.40
2747	5685	2.307098	CTCCCATTTCTGGTCCAGTCTT	59.693	50.000	18.65	1.87	41.37	3.01
2759	5697	8.792830	TCTGGTCCAGTCTTATGAAAATTAAG	57.207	34.615	18.65	0.00	32.61	1.85
2923	5868	3.582647	TGATGCCTTGTAGAGAAGTTGGA	59.417	43.478	0.00	0.00	0.00	3.53
3036	5982	5.266242	GCAACAAGGATTCTATTAAGTGCG	58.734	41.667	0.00	0.00	0.00	5.34
3048	5994	7.135089	TCTATTAAGTGCGTGTTAATTGCAA	57.865	32.000	0.00	0.00	40.83	4.08
3157	6113	5.017294	TCCGCCAAAAATCAAAGTCTTTT	57.983	34.783	0.00	0.00	0.00	2.27
3158	6114	5.423886	TCCGCCAAAAATCAAAGTCTTTTT	58.576	33.333	0.00	0.00	35.51	1.94
3265	6223	7.815840	TGTGGTCAAGATGAGAACAATAAAA	57.184	32.000	0.00	0.00	33.92	1.52
3359	6321	6.947733	TCAATCCTACCAATCTGATTTTGTGT	59.052	34.615	0.00	0.00	0.00	3.72
3542	6505	3.153919	GTCAGTGGCTAACAAATTGGGA	58.846	45.455	0.00	0.00	0.00	4.37
3566	6529	3.366052	TTTGCAGATAAAGGGAGGGAC	57.634	47.619	0.00	0.00	0.00	4.46
3596	6559	2.289547	GTGTTGACGCTAGGAGCAAAAA	59.710	45.455	0.00	0.00	42.58	1.94
3662	6625	1.963464	GCATCGTCCGGGGGTTCTTA	61.963	60.000	0.00	0.00	0.00	2.10
3692	6655	0.101759	CGGCCGAATTTCCTCGACTA	59.898	55.000	24.07	0.00	41.44	2.59
3706	6669	2.952978	CTCGACTAGCTATGTCCCTTGT	59.047	50.000	14.05	0.00	0.00	3.16
3715	6678	0.112995	ATGTCCCTTGTGTGGTGCAT	59.887	50.000	0.00	0.00	0.00	3.96
3777	6743	4.349048	TCCTTTGATGATCCACCTATCAGG	59.651	45.833	0.00	0.00	39.18	3.86
3912	6882	0.572590	GCTTGTGATCGATCGAACCG	59.427	55.000	23.50	11.17	0.00	4.44
3921	6899	4.444388	TGATCGATCGAACCGAATGATTTC	59.556	41.667	23.50	10.71	39.99	2.17
4349	7331	7.233757	GTGGATCCTATGGTATTGTACTCTCTT	59.766	40.741	14.23	0.00	0.00	2.85
4361	7343	5.921962	TGTACTCTCTTATGAGCATGTGT	57.078	39.130	0.72	0.00	40.03	3.72
4365	7347	5.987098	ACTCTCTTATGAGCATGTGTGATT	58.013	37.500	0.72	0.00	40.03	2.57
4537	7520	3.259374	CGCATAGACTCACCCCTATGAAT	59.741	47.826	12.09	0.00	42.84	2.57
4577	7562	2.438021	CCCTTATGAGAACATCCGGGAA	59.562	50.000	0.00	0.00	43.11	3.97
4607	7592	8.531622	AGTCGCATATCATCTTGAGATTTTAG	57.468	34.615	0.00	0.00	31.21	1.85
4617	7602	9.091784	TCATCTTGAGATTTTAGAAAGTCATCG	57.908	33.333	1.07	0.00	31.21	3.84
4618	7603	8.877779	CATCTTGAGATTTTAGAAAGTCATCGT	58.122	33.333	1.07	0.00	31.21	3.73

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
93	2789	2.483538	GCTTTTGGCATTGAGGTGTTGT	60.484	45.455	0.00	0.00	41.35	3.32
180	2882	4.199310	GTCAGGTGCCTTGCTATATTTCA	58.801	43.478	0.00	0.00	0.00	2.69
272	3067	2.611225	CCTGAATGGTGAGTAGGCTC	57.389	55.000	0.00	0.00	41.97	4.70
443	3238	2.292455	CCCATCCCTCCAAACATTTCCT	60.292	50.000	0.00	0.00	0.00	3.36
488	3287	1.305623	GTCAGGTACCTCCCTCCGA	59.694	63.158	12.84	1.83	36.75	4.55
523	3322	4.827284	ACCAGAACAAATTCGACCATCTTT	59.173	37.500	0.00	0.00	40.04	2.52
530	3329	2.032799	TGCACACCAGAACAAATTCGAC	59.967	45.455	0.00	0.00	40.04	4.20
538	3337	1.152984	CCCTGTGCACACCAGAACA	60.153	57.895	17.42	0.00	0.00	3.18
652	3462	3.722295	ACCGCAAACGCACCATCG	61.722	61.111	0.00	0.00	38.22	3.84
738	3548	4.303282	GCCGTGGAAAAGCAAAGAAATTA	58.697	39.130	0.00	0.00	0.00	1.40
805	3615	3.374678	ACAAGCACAAGCCAACAAAATTG	59.625	39.130	0.00	0.00	43.56	2.32
809	3619	2.615869	GAACAAGCACAAGCCAACAAA	58.384	42.857	0.00	0.00	43.56	2.83
918	3730	9.929180	TCGGAAATTATTATGTCTAGATCTTGG	57.071	33.333	0.00	0.00	0.00	3.61
978	3808	4.188937	AGGTATTCATTGCCCACATCAT	57.811	40.909	0.00	0.00	0.00	2.45
1031	3862	2.683859	CGTCGACACCCTCGTGCTA	61.684	63.158	17.16	0.00	44.40	3.49
1093	3925	1.693606	CACACAAAAGGCCCTTCCATT	59.306	47.619	0.00	0.00	37.29	3.16
1172	4050	1.379443	TACCGCCCACAGATCTCGT	60.379	57.895	0.00	0.00	0.00	4.18
1193	4071	2.926539	TGCATCTCCTCTGCATCCT	58.073	52.632	0.00	0.00	44.30	3.24
1270	4149	2.822643	ATCTCGAGTGGGGCCTTCCA	62.823	60.000	13.13	0.00	37.22	3.53
1403	4286	0.253044	CATCGTCATTGTCACCCCCT	59.747	55.000	0.00	0.00	0.00	4.79
1406	4289	0.748005	CCCCATCGTCATTGTCACCC	60.748	60.000	0.00	0.00	0.00	4.61
1480	4363	3.552699	CACACAACATTTTGTCTTGGCAG	59.447	43.478	0.00	0.00	44.57	4.85
1499	4382	1.272203	ACAACTGTGAAACCACCCACA	60.272	47.619	0.00	0.00	40.56	4.17
1608	4495	3.216800	GGCAGCATCCATAATTGACTGA	58.783	45.455	0.00	0.00	0.00	3.41
1622	4509	2.364842	ACTCCTCCTCGGCAGCAT	60.365	61.111	0.00	0.00	0.00	3.79
1866	4768	6.484643	CGGTATCAACATCAGAAAGATCCAAT	59.515	38.462	0.00	0.00	33.72	3.16
1986	4889	6.773976	TGTAAAATTGAAAGGATAGCTGGG	57.226	37.500	0.00	0.00	0.00	4.45
2027	4931	8.408601	CAATGTAATCTAAGAAATTCACCCCAG	58.591	37.037	0.00	0.00	0.00	4.45
2112	5016	4.081087	GGCCAACTACAGAAGGTTCTATGA	60.081	45.833	0.00	0.00	35.34	2.15
2186	5091	6.174049	ACATTCTCCTTAAGTGCTTTCCTAC	58.826	40.000	0.97	0.00	0.00	3.18
2311	5216	3.535629	CTTGCTCACCAGGTGGCGA	62.536	63.158	20.14	18.58	39.32	5.54
2427	5337	5.743422	GCATAAGTTGAATCTCCCCCTCTAC	60.743	48.000	0.00	0.00	0.00	2.59
2451	5361	2.906354	CTCTTGGATGGGGTAGAAACG	58.094	52.381	0.00	0.00	0.00	3.60
2586	5522	7.352079	AGTTTTGTTCATGAGTTCAGGATTT	57.648	32.000	0.00	0.00	36.49	2.17
2661	5599	6.395426	AACATGCTTGTTCAAGAGAATCAA	57.605	33.333	15.52	0.00	42.43	2.57
2689	5627	2.979814	AGTTCCAAAAAGGCAACCAC	57.020	45.000	0.00	0.00	37.29	4.16
2759	5697	6.978343	TTGCAATACTGGTAGAATGTGTAC	57.022	37.500	0.00	0.00	0.00	2.90
2797	5737	4.081531	TCCCCGAAAATCTAGCGTTCTTTA	60.082	41.667	0.00	0.00	0.00	1.85
2804	5744	1.134788	ACAGTCCCCGAAAATCTAGCG	60.135	52.381	0.00	0.00	0.00	4.26
2960	5905	3.126453	AGGCCATCCCAAAGAGTAAGAT	58.874	45.455	5.01	0.00	35.39	2.40
3232	6190	3.064682	TCATCTTGACCACAAAACACACG	59.935	43.478	0.00	0.00	35.49	4.49
3265	6223	6.603201	TCCACTGAACATCTGAAGAAAAAGTT	59.397	34.615	0.00	0.00	0.00	2.66
3273	6232	8.037758	ACTAGTTTATCCACTGAACATCTGAAG	58.962	37.037	0.00	0.00	0.00	3.02
3418	6381	2.028112	TCCAAAAGATAGCAGCGACACT	60.028	45.455	0.00	0.00	0.00	3.55
3504	6467	6.318648	GCCACTGACATATCAACCTGATAAAA	59.681	38.462	0.72	0.00	42.05	1.52
3505	6468	5.822519	GCCACTGACATATCAACCTGATAAA	59.177	40.000	0.72	0.00	42.05	1.40
3542	6505	5.187772	GTCCCTCCCTTTATCTGCAAAATTT	59.812	40.000	0.00	0.00	0.00	1.82
3566	6529	1.238439	AGCGTCAACACCCTTTGATG	58.762	50.000	1.45	1.45	42.94	3.07
3596	6559	1.135094	CCTGCCACCTACTCCATGAT	58.865	55.000	0.00	0.00	0.00	2.45
3662	6625	1.410850	ATTCGGCCGGTGATCCTCAT	61.411	55.000	27.83	0.73	0.00	2.90
3692	6655	1.003580	CACCACACAAGGGACATAGCT	59.996	52.381	0.00	0.00	0.00	3.32
3706	6669	0.179076	CATAGGAGCGATGCACCACA	60.179	55.000	7.96	0.00	41.64	4.17
3715	6678	0.107703	CAAGGCCAACATAGGAGCGA	60.108	55.000	5.01	0.00	0.00	4.93
3777	6743	7.015877	CCAAAGAACGATACTAAAAACTCAGC	58.984	38.462	0.00	0.00	0.00	4.26
3810	6779	1.363443	CACACCAAAGGCGCACAAT	59.637	52.632	10.83	0.00	0.00	2.71
3912	6882	9.474920	TCACATGTTTTACCAAAGAAATCATTC	57.525	29.630	0.00	0.00	35.70	2.67
3921	6899	8.542132	CATGTTCTTTCACATGTTTTACCAAAG	58.458	33.333	0.00	0.00	46.20	2.77
4322	7304	5.477291	AGAGTACAATACCATAGGATCCACG	59.523	44.000	15.82	0.92	0.00	4.94
4349	7331	2.684374	GCACCAATCACACATGCTCATA	59.316	45.455	0.00	0.00	33.44	2.15
4361	7343	3.626996	CTCGGGCCTGCACCAATCA	62.627	63.158	6.73	0.00	0.00	2.57
4438	7420	4.399618	CCGACTATAGCAGTACCATAGCAT	59.600	45.833	0.00	0.00	37.72	3.79
4577	7562	5.068329	TCTCAAGATGATATGCGACTCAGTT	59.932	40.000	0.00	0.00	0.00	3.16

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.