AutoCloner

Multiple sequence alignment - TraesCS1B01G413500

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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	TraesCS1B01G413500	chr1B	100.000	3215	0	0	1	3215	638880954	638884168	0.000000e+00	5938.0
1	TraesCS1B01G413500	chr1B	83.770	1984	175	60	805	2751	638784107	638782234	0.000000e+00	1744.0
2	TraesCS1B01G413500	chr1B	86.038	1411	157	24	1027	2419	638821997	638820609	0.000000e+00	1478.0
3	TraesCS1B01G413500	chr1B	86.585	82	7	2	3132	3212	33034722	33034800	1.590000e-13	87.9
4	TraesCS1B01G413500	chr1A	94.451	1658	68	12	595	2249	555533029	555534665	0.000000e+00	2531.0
5	TraesCS1B01G413500	chr1A	85.133	1991	191	57	805	2751	555485328	555483399	0.000000e+00	1940.0
6	TraesCS1B01G413500	chr1A	85.572	1407	158	24	1029	2419	555523215	555521838	0.000000e+00	1432.0
7	TraesCS1B01G413500	chr1A	85.890	893	65	22	2363	3215	555534719	555535590	0.000000e+00	894.0
8	TraesCS1B01G413500	chr1A	89.831	531	28	14	58	582	555532256	555532766	0.000000e+00	658.0
9	TraesCS1B01G413500	chr1A	79.868	303	21	12	2936	3215	555535805	555536090	5.480000e-43	185.0
10	TraesCS1B01G413500	chr1A	100.000	32	0	0	2278	2309	555534668	555534699	3.460000e-05	60.2
11	TraesCS1B01G413500	chr1D	96.159	1536	55	2	780	2311	463341047	463342582	0.000000e+00	2507.0
12	TraesCS1B01G413500	chr1D	85.314	1927	167	59	799	2695	463283444	463281604	0.000000e+00	1884.0
13	TraesCS1B01G413500	chr1D	85.502	1414	158	26	1029	2419	463326510	463325121	0.000000e+00	1432.0
14	TraesCS1B01G413500	chr1D	86.898	893	61	15	2363	3215	463342600	463343476	0.000000e+00	950.0
15	TraesCS1B01G413500	chr1D	91.297	609	38	10	2	605	463335982	463336580	0.000000e+00	817.0
16	TraesCS1B01G413500	chr1D	86.139	202	12	6	595	796	463336607	463336792	1.510000e-48	204.0
17	TraesCS1B01G413500	chr1D	91.304	46	4	0	2509	2554	463325015	463324970	2.680000e-06	63.9
18	TraesCS1B01G413500	chr1D	100.000	32	0	0	2718	2749	463281603	463281572	3.460000e-05	60.2
19	TraesCS1B01G413500	chr6D	80.657	274	17	14	2973	3215	290903492	290903760	2.550000e-41	180.0
20	TraesCS1B01G413500	chr6B	79.926	269	33	6	2968	3215	451674625	451674893	9.170000e-41	178.0
21	TraesCS1B01G413500	chr6B	79.310	145	17	7	2972	3105	39162708	39162566	4.420000e-14	89.8
22	TraesCS1B01G413500	chr7A	83.735	166	23	3	2972	3136	19953643	19953481	1.540000e-33	154.0
23	TraesCS1B01G413500	chr6A	83.537	164	19	6	2972	3128	18078480	18078318	2.580000e-31	147.0
24	TraesCS1B01G413500	chr6A	90.196	51	4	1	2861	2911	480697771	480697722	7.440000e-07	65.8
25	TraesCS1B01G413500	chr2B	83.750	160	21	4	2971	3128	33544259	33544103	2.580000e-31	147.0
26	TraesCS1B01G413500	chr2B	77.323	269	32	8	2975	3215	793748894	793748627	7.240000e-27	132.0
27	TraesCS1B01G413500	chr5D	91.566	83	7	0	3133	3215	379088102	379088020	7.290000e-22	115.0
28	TraesCS1B01G413500	chr4D	75.986	279	31	11	2972	3215	49940553	49940276	9.430000e-21	111.0
29	TraesCS1B01G413500	chr3D	91.358	81	6	1	3133	3213	64836051	64835972	3.390000e-20	110.0
30	TraesCS1B01G413500	chr3D	86.585	82	9	1	3134	3215	352951769	352951690	4.420000e-14	89.8
31	TraesCS1B01G413500	chr2D	89.412	85	9	0	3131	3215	489048104	489048020	1.220000e-19	108.0
32	TraesCS1B01G413500	chr7D	88.372	86	9	1	3131	3215	618769153	618769068	5.670000e-18	102.0
33	TraesCS1B01G413500	chr7D	86.170	94	11	2	2859	2951	614250341	614250249	2.040000e-17	100.0
34	TraesCS1B01G413500	chr3B	91.489	47	2	2	2993	3038	17146761	17146806	2.680000e-06	63.9

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	TraesCS1B01G413500	chr1B	638880954	638884168	3214	False	5938.00	5938	100.0000	1	3215	1	chr1B.!!$F2	3214
1	TraesCS1B01G413500	chr1B	638782234	638784107	1873	True	1744.00	1744	83.7700	805	2751	1	chr1B.!!$R1	1946
2	TraesCS1B01G413500	chr1B	638820609	638821997	1388	True	1478.00	1478	86.0380	1027	2419	1	chr1B.!!$R2	1392
3	TraesCS1B01G413500	chr1A	555483399	555485328	1929	True	1940.00	1940	85.1330	805	2751	1	chr1A.!!$R1	1946
4	TraesCS1B01G413500	chr1A	555521838	555523215	1377	True	1432.00	1432	85.5720	1029	2419	1	chr1A.!!$R2	1390
5	TraesCS1B01G413500	chr1A	555532256	555536090	3834	False	865.64	2531	90.0080	58	3215	5	chr1A.!!$F1	3157
6	TraesCS1B01G413500	chr1D	463341047	463343476	2429	False	1728.50	2507	91.5285	780	3215	2	chr1D.!!$F2	2435
7	TraesCS1B01G413500	chr1D	463281572	463283444	1872	True	972.10	1884	92.6570	799	2749	2	chr1D.!!$R1	1950
8	TraesCS1B01G413500	chr1D	463324970	463326510	1540	True	747.95	1432	88.4030	1029	2554	2	chr1D.!!$R2	1525
9	TraesCS1B01G413500	chr1D	463335982	463336792	810	False	510.50	817	88.7180	2	796	2	chr1D.!!$F1	794

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
493	504	0.242017	GGAGGAAACACATGTGCAGC	59.758	55.0	25.68	13.95	0.00	5.25	F
719	983	0.731417	CATGCCTCAGCGAAGGAAAG	59.269	55.0	11.20	0.00	44.31	2.62	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1855	2168	0.391597	ACAACCACGACCCAGTACAG	59.608	55.0	0.0	0.0	0.00	2.74	R
2419	2779	1.018752	CGGTCATCATCACCACGCAA	61.019	55.0	0.0	0.0	32.89	4.85	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
100	101	3.189618	TGCAATTTTGTGTGCCAATGA	57.810	38.095	0.00	0.00	40.14	2.57
139	141	3.577415	TGAGCCACTCAGATGAGATATGG	59.423	47.826	16.52	13.76	44.74	2.74
140	142	2.697654	GCCACTCAGATGAGATATGGC	58.302	52.381	20.61	20.61	46.99	4.40
168	171	4.407621	TCTCTATCTCTGAGAGAAGGACGT	59.592	45.833	17.10	1.02	45.07	4.34
171	174	3.697619	TCTCTGAGAGAAGGACGTACA	57.302	47.619	10.22	0.00	35.59	2.90
285	292	2.240500	GCTAGGCGAGCCGTCAATG	61.241	63.158	8.56	0.00	46.41	2.82
324	331	2.036733	GTGCTATGTAGTAATCCGGCCA	59.963	50.000	2.24	0.00	0.00	5.36
325	332	2.299013	TGCTATGTAGTAATCCGGCCAG	59.701	50.000	2.24	0.00	0.00	4.85
405	412	3.187058	GCGATTGCATCCGGTTGT	58.813	55.556	13.90	0.00	42.15	3.32
459	466	1.202976	GCCCCTATGCATCTCAACCAT	60.203	52.381	0.19	0.00	0.00	3.55
460	467	2.754186	GCCCCTATGCATCTCAACCATT	60.754	50.000	0.19	0.00	0.00	3.16
463	470	3.435457	CCCTATGCATCTCAACCATTCCA	60.435	47.826	0.19	0.00	0.00	3.53
464	471	4.209538	CCTATGCATCTCAACCATTCCAA	58.790	43.478	0.19	0.00	0.00	3.53
466	473	3.940209	TGCATCTCAACCATTCCAAAC	57.060	42.857	0.00	0.00	0.00	2.93
467	474	2.562298	TGCATCTCAACCATTCCAAACC	59.438	45.455	0.00	0.00	0.00	3.27
468	475	2.415893	GCATCTCAACCATTCCAAACCG	60.416	50.000	0.00	0.00	0.00	4.44
469	476	2.649531	TCTCAACCATTCCAAACCGT	57.350	45.000	0.00	0.00	0.00	4.83
470	477	2.938838	TCTCAACCATTCCAAACCGTT	58.061	42.857	0.00	0.00	0.00	4.44
471	478	2.621055	TCTCAACCATTCCAAACCGTTG	59.379	45.455	0.00	0.00	36.09	4.10
472	479	1.067821	TCAACCATTCCAAACCGTTGC	59.932	47.619	0.00	0.00	35.03	4.17
493	504	0.242017	GGAGGAAACACATGTGCAGC	59.758	55.000	25.68	13.95	0.00	5.25
521	533	5.051816	CACAAATGTTCAGCAACCAATTCT	58.948	37.500	0.00	0.00	0.00	2.40
552	564	2.816672	TGCGATATGTTCAGCAACCAAA	59.183	40.909	0.00	0.00	36.60	3.28
563	575	5.287674	TCAGCAACCAAAAATCAATCCAA	57.712	34.783	0.00	0.00	0.00	3.53
719	983	0.731417	CATGCCTCAGCGAAGGAAAG	59.269	55.000	11.20	0.00	44.31	2.62
724	988	1.517242	CTCAGCGAAGGAAAGCTTGT	58.483	50.000	0.00	0.00	42.52	3.16
725	989	2.612972	CCTCAGCGAAGGAAAGCTTGTA	60.613	50.000	0.00	0.00	42.52	2.41
726	990	2.670414	CTCAGCGAAGGAAAGCTTGTAG	59.330	50.000	0.00	0.00	42.52	2.74
727	991	2.037251	TCAGCGAAGGAAAGCTTGTAGT	59.963	45.455	0.00	0.00	42.52	2.73
728	992	3.257375	TCAGCGAAGGAAAGCTTGTAGTA	59.743	43.478	0.00	0.00	42.52	1.82
887	1152	1.227853	AAGAAACGGAAGGCGCAGT	60.228	52.632	10.83	0.00	0.00	4.40
947	1212	1.197812	ATTCCTGGATGGCCTTTTGC	58.802	50.000	3.32	0.00	40.16	3.68
977	1245	6.209391	TCTGATCTTCCCCAACAAGAAAATTC	59.791	38.462	0.00	0.00	33.57	2.17
981	1249	1.275010	CCCCAACAAGAAAATTCCCCG	59.725	52.381	0.00	0.00	0.00	5.73
1052	1353	1.097547	CCAGTTCGCCATCCATCCAC	61.098	60.000	0.00	0.00	0.00	4.02
1060	1361	1.004560	CATCCATCCACCGATCCCG	60.005	63.158	0.00	0.00	0.00	5.14
1061	1362	1.459539	ATCCATCCACCGATCCCGT	60.460	57.895	0.00	0.00	0.00	5.28
1305	1612	4.368543	GGGTTCCCGACGCTCGTT	62.369	66.667	0.00	0.00	38.40	3.85
1369	1682	1.223187	GTTTCTTTGGTTCTCGCGGA	58.777	50.000	6.13	0.00	0.00	5.54
1375	1688	1.469335	TTGGTTCTCGCGGAGGTTCT	61.469	55.000	6.13	0.00	0.00	3.01
1515	1828	4.421479	CTCGTCCTCGCCGTTGCT	62.421	66.667	0.00	0.00	36.96	3.91
1527	1840	1.591594	CGTTGCTATCGTCCGCCAT	60.592	57.895	0.00	0.00	0.00	4.40
1874	2187	0.391597	CTGTACTGGGTCGTGGTTGT	59.608	55.000	0.00	0.00	0.00	3.32
1935	2248	1.030457	CCGGCGTGATCTACCTAACT	58.970	55.000	6.01	0.00	0.00	2.24
2106	2419	5.175856	CGAGTACACCAAGAACAAGAAGAAG	59.824	44.000	0.00	0.00	0.00	2.85
2270	2602	5.164051	CGTATGAACCATGTGATCGATAAGC	60.164	44.000	0.00	0.00	0.00	3.09
2350	2702	5.045066	AGTGGCAGGATAGATGATGCATTAT	60.045	40.000	3.18	3.18	40.46	1.28
2367	2727	4.550831	GCATTATGTGTAGACGTGTCATGC	60.551	45.833	0.00	8.93	0.00	4.06
2419	2779	5.140454	ACAGCTTACAAAGGGACAAGAATT	58.860	37.500	0.00	0.00	0.00	2.17
2420	2780	5.598417	ACAGCTTACAAAGGGACAAGAATTT	59.402	36.000	0.00	0.00	0.00	1.82
2582	2980	7.230108	GGGACATGCCATCCATATATATCTTTG	59.770	40.741	8.20	0.00	38.06	2.77
2601	3001	6.997655	TCTTTGCTTGAGATCGATATGGTAT	58.002	36.000	0.00	0.00	0.00	2.73
2602	3002	7.445121	TCTTTGCTTGAGATCGATATGGTATT	58.555	34.615	0.00	0.00	0.00	1.89
2697	3097	2.554142	CTGCTCTGAAACTGTGTGACA	58.446	47.619	0.00	0.00	0.00	3.58
2702	3125	4.766007	CTCTGAAACTGTGTGACATTTCG	58.234	43.478	5.88	2.41	32.95	3.46
2718	3141	1.523154	TTCGCCCCTTGTTGTCATGC	61.523	55.000	0.00	0.00	0.00	4.06
2767	3190	6.127281	TGTGTACATGAGGTATCGGTTATTGT	60.127	38.462	0.00	0.00	33.76	2.71
2778	3201	6.148811	GGTATCGGTTATTGTTATGGACCATG	59.851	42.308	17.73	0.00	0.00	3.66
2785	3208	7.201732	GGTTATTGTTATGGACCATGACTTCTG	60.202	40.741	25.07	0.00	32.63	3.02
2892	3315	6.521821	CGTTCACAAATATAAGACGTTTTGGG	59.478	38.462	11.59	8.21	34.54	4.12
2900	3323	9.777575	AAATATAAGACGTTTTGGGTATTTTCG	57.222	29.630	0.83	0.00	0.00	3.46
2926	3349	7.712204	TGTGGACTACATACAGACTGAAATA	57.288	36.000	10.08	0.00	33.42	1.40
2952	3375	8.044060	AGTGAATGAATACACTAAACATGTGG	57.956	34.615	0.00	0.00	44.06	4.17
2954	3377	8.177663	GTGAATGAATACACTAAACATGTGGAG	58.822	37.037	0.00	2.03	39.52	3.86
3021	3945	7.394016	TCAAATGCTCCTCTATGAACAGTAAA	58.606	34.615	0.00	0.00	0.00	2.01
3063	3987	7.951530	AAAAATCTGAATACTTTTGTGCCTG	57.048	32.000	0.00	0.00	0.00	4.85
3067	3991	4.997395	TCTGAATACTTTTGTGCCTGACTC	59.003	41.667	0.00	0.00	0.00	3.36
3082	4006	5.003804	GCCTGACTCTAAAGAATGTTTGGA	58.996	41.667	0.00	0.00	0.00	3.53
3091	4015	4.778534	AAGAATGTTTGGAGTGCATGAG	57.221	40.909	0.00	0.00	0.00	2.90
3115	4039	7.211573	AGAAAATTCAGCACAAAATCACATCA	58.788	30.769	0.00	0.00	0.00	3.07
3128	4052	1.071299	ACATCAGTGCAAGGCGTGA	59.929	52.632	4.11	0.00	0.00	4.35
3129	4053	0.321919	ACATCAGTGCAAGGCGTGAT	60.322	50.000	4.11	0.00	35.95	3.06
3187	4134	7.151308	TCTGAATTTGTTTTTATTGCCACGAT	58.849	30.769	0.00	0.00	0.00	3.73
3209	4156	1.173043	GCCCCAATGTGATTTCGTGA	58.827	50.000	0.00	0.00	0.00	4.35

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	5.263968	TGAGAATTCACGAAGTCCTATCC	57.736	43.478	8.44	0.00	41.61	2.59
14	15	6.362283	GCTAGCTTTCGTCTAGATGAGAATTC	59.638	42.308	14.20	0.00	36.50	2.17
71	72	3.688673	CACACAAAATTGCAACCAAACCT	59.311	39.130	0.00	0.00	34.05	3.50
100	101	2.422479	GCTCAATCATGTGCATGTCTGT	59.578	45.455	11.38	0.00	43.72	3.41
139	141	4.460263	TCTCTCAGAGATAGAGAACTGGC	58.540	47.826	0.00	0.00	44.98	4.85
168	171	2.067766	GAAAACCGCACACCGTATGTA	58.932	47.619	0.00	0.00	40.64	2.29
171	174	1.293267	CGGAAAACCGCACACCGTAT	61.293	55.000	0.00	0.00	38.97	3.06
324	331	1.133792	CCCGTATCCATTTTGGGAGCT	60.134	52.381	0.00	0.00	42.77	4.09
325	332	1.133915	TCCCGTATCCATTTTGGGAGC	60.134	52.381	0.00	0.00	43.85	4.70
405	412	1.957877	CTGGGGTTGTAAGCGGAAAAA	59.042	47.619	0.00	0.00	0.00	1.94
459	466	1.894756	CTCCCGCAACGGTTTGGAA	60.895	57.895	9.83	0.00	46.80	3.53
460	467	2.281208	CTCCCGCAACGGTTTGGA	60.281	61.111	9.83	6.86	46.80	3.53
463	470	1.152922	TTTCCTCCCGCAACGGTTT	60.153	52.632	5.17	0.00	46.80	3.27
464	471	1.895231	GTTTCCTCCCGCAACGGTT	60.895	57.895	5.17	0.00	46.80	4.44
467	474	1.234615	ATGTGTTTCCTCCCGCAACG	61.235	55.000	0.00	0.00	0.00	4.10
468	475	0.240945	CATGTGTTTCCTCCCGCAAC	59.759	55.000	0.00	0.00	0.00	4.17
469	476	0.179004	ACATGTGTTTCCTCCCGCAA	60.179	50.000	0.00	0.00	0.00	4.85
470	477	0.888736	CACATGTGTTTCCTCCCGCA	60.889	55.000	18.03	0.00	0.00	5.69
471	478	1.875963	CACATGTGTTTCCTCCCGC	59.124	57.895	18.03	0.00	0.00	6.13
472	479	0.888736	TGCACATGTGTTTCCTCCCG	60.889	55.000	26.01	0.00	0.00	5.14
493	504	3.798337	GGTTGCTGAACATTTGTGTGAAG	59.202	43.478	0.00	0.00	33.27	3.02
521	533	3.387699	TGAACATATCGCAGAAGATCCCA	59.612	43.478	0.00	0.00	43.58	4.37
552	564	9.369904	CTCCGAATTAAATTGTTGGATTGATTT	57.630	29.630	0.00	0.00	0.00	2.17
675	939	4.284178	AGGAAGCATTGCATGGAAATACT	58.716	39.130	11.91	0.00	39.77	2.12
755	1019	9.645128	TGTATATTTGGGATCACATCAAAGATT	57.355	29.630	0.00	0.00	35.10	2.40
757	1021	7.226523	CGTGTATATTTGGGATCACATCAAAGA	59.773	37.037	0.00	0.00	34.47	2.52
868	1132	1.228657	ACTGCGCCTTCCGTTTCTTC	61.229	55.000	4.18	0.00	39.71	2.87
912	1177	4.382685	CCAGGAATTGCGTAGAGTAAGGAA	60.383	45.833	0.00	0.00	0.00	3.36
947	1212	2.432146	TGTTGGGGAAGATCAGAGATCG	59.568	50.000	0.00	0.00	0.00	3.69
977	1245	2.519119	TATATCGGGTAGGGGCGGGG	62.519	65.000	0.00	0.00	0.00	5.73
981	1249	3.244112	GCATGTATATATCGGGTAGGGGC	60.244	52.174	0.00	0.00	0.00	5.80
1052	1353	0.890090	GGAGGAGTAGACGGGATCGG	60.890	65.000	0.00	0.00	41.39	4.18
1060	1361	1.473278	CGTGGTCAAGGAGGAGTAGAC	59.527	57.143	0.00	0.00	0.00	2.59
1061	1362	1.616187	CCGTGGTCAAGGAGGAGTAGA	60.616	57.143	0.00	0.00	31.21	2.59
1154	1461	4.436998	GGAGCACCGTCGACCTGG	62.437	72.222	10.58	9.04	0.00	4.45
1369	1682	2.594592	GCACACGGCCAAGAACCT	60.595	61.111	2.24	0.00	36.11	3.50
1467	1780	3.927548	TGCGTGGACAGCAGCAGA	61.928	61.111	0.00	0.00	40.01	4.26
1512	1825	2.734591	GGATGGCGGACGATAGCA	59.265	61.111	0.00	0.00	42.67	3.49
1527	1840	1.006571	GTTGACGAAGGTGAGCGGA	60.007	57.895	0.00	0.00	0.00	5.54
1611	1924	2.683933	TTCCTGTCCGGGCTCTCC	60.684	66.667	7.97	0.00	0.00	3.71
1855	2168	0.391597	ACAACCACGACCCAGTACAG	59.608	55.000	0.00	0.00	0.00	2.74
1874	2187	3.533105	ACGTCACCACCAGCGTCA	61.533	61.111	0.00	0.00	31.54	4.35
2106	2419	1.596477	GTCCTGATCATCAGCGGCC	60.596	63.158	9.41	0.00	42.98	6.13
2350	2702	2.554893	TGTAGCATGACACGTCTACACA	59.445	45.455	8.09	0.00	37.18	3.72
2367	2727	9.809096	ATATAACTCATTGCCTAATCGATGTAG	57.191	33.333	0.00	3.33	0.00	2.74
2419	2779	1.018752	CGGTCATCATCACCACGCAA	61.019	55.000	0.00	0.00	32.89	4.85
2420	2780	1.447663	CGGTCATCATCACCACGCA	60.448	57.895	0.00	0.00	32.89	5.24
2659	3059	1.068250	GGCCAGTTAGCTAGCTCGG	59.932	63.158	23.26	18.02	30.07	4.63
2697	3097	1.545582	CATGACAACAAGGGGCGAAAT	59.454	47.619	0.00	0.00	0.00	2.17
2702	3125	1.259840	ATGGCATGACAACAAGGGGC	61.260	55.000	4.70	0.00	0.00	5.80
2718	3141	5.249393	ACAGTATAAGGATAAGGAGCCATGG	59.751	44.000	7.63	7.63	31.47	3.66
2767	3190	7.103641	GTCTAAACAGAAGTCATGGTCCATAA	58.896	38.462	3.38	0.00	0.00	1.90
2778	3201	3.728845	TGCTGGTGTCTAAACAGAAGTC	58.271	45.455	0.00	0.00	35.64	3.01
2848	3271	2.308275	ACGGAGTGAGTACCTAGGAACT	59.692	50.000	17.98	10.34	42.51	3.01
2892	3315	7.919091	TCTGTATGTAGTCCACATCGAAAATAC	59.081	37.037	0.00	0.00	44.99	1.89
2900	3323	5.836821	TCAGTCTGTATGTAGTCCACATC	57.163	43.478	0.00	0.00	44.99	3.06
2916	3339	9.950496	AGTGTATTCATTCACTTATTTCAGTCT	57.050	29.630	0.00	0.00	41.33	3.24
2926	3349	8.514594	CCACATGTTTAGTGTATTCATTCACTT	58.485	33.333	0.00	0.00	43.39	3.16
2933	3356	8.758829	AGTATCTCCACATGTTTAGTGTATTCA	58.241	33.333	0.00	0.00	35.24	2.57
2934	3357	9.250624	GAGTATCTCCACATGTTTAGTGTATTC	57.749	37.037	0.00	0.00	35.24	1.75
2952	3375	0.671251	CGCACCAGAGGGAGTATCTC	59.329	60.000	0.00	0.00	38.05	2.75
2954	3377	0.755698	TCCGCACCAGAGGGAGTATC	60.756	60.000	0.00	0.00	38.05	2.24
2969	3893	2.488153	AGCTTAAAAACTCCACATCCGC	59.512	45.455	0.00	0.00	0.00	5.54
3043	3967	5.564550	AGTCAGGCACAAAAGTATTCAGAT	58.435	37.500	0.00	0.00	0.00	2.90
3044	3968	4.973168	AGTCAGGCACAAAAGTATTCAGA	58.027	39.130	0.00	0.00	0.00	3.27
3045	3969	4.999950	AGAGTCAGGCACAAAAGTATTCAG	59.000	41.667	0.00	0.00	0.00	3.02
3046	3970	4.973168	AGAGTCAGGCACAAAAGTATTCA	58.027	39.130	0.00	0.00	0.00	2.57
3047	3971	7.387948	TCTTTAGAGTCAGGCACAAAAGTATTC	59.612	37.037	0.00	0.00	0.00	1.75
3049	3973	6.769512	TCTTTAGAGTCAGGCACAAAAGTAT	58.230	36.000	0.00	0.00	0.00	2.12
3051	3975	5.036117	TCTTTAGAGTCAGGCACAAAAGT	57.964	39.130	0.00	0.00	0.00	2.66
3060	3984	6.148480	CACTCCAAACATTCTTTAGAGTCAGG	59.852	42.308	0.00	0.00	30.99	3.86
3062	3986	5.470098	GCACTCCAAACATTCTTTAGAGTCA	59.530	40.000	0.00	0.00	30.99	3.41
3063	3987	5.470098	TGCACTCCAAACATTCTTTAGAGTC	59.530	40.000	0.00	0.00	30.99	3.36
3067	3991	6.149973	TCTCATGCACTCCAAACATTCTTTAG	59.850	38.462	0.00	0.00	0.00	1.85
3082	4006	3.570975	TGTGCTGAATTTTCTCATGCACT	59.429	39.130	19.31	0.00	43.39	4.40
3091	4015	7.170320	ACTGATGTGATTTTGTGCTGAATTTTC	59.830	33.333	0.00	0.00	0.00	2.29
3115	4039	1.317613	TTTCAATCACGCCTTGCACT	58.682	45.000	0.00	0.00	0.00	4.40
3122	4046	5.918011	TGAAAGTAACATTTTCAATCACGCC	59.082	36.000	0.00	0.00	40.50	5.68
3151	4098	7.486802	AAAACAAATTCAGAGCTCCAAAATG	57.513	32.000	10.93	10.76	0.00	2.32
3187	4134	1.967066	ACGAAATCACATTGGGGCAAA	59.033	42.857	0.00	0.00	0.00	3.68

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.