AutoCloner

Multiple sequence alignment - TraesCS3D01G275300

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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	TraesCS3D01G275300	chr3D	100.000	3768	0	0	1	3768	381885592	381881825	0.000000e+00	6959.0
1	TraesCS3D01G275300	chr3B	91.153	2905	187	33	1	2866	497461732	497458859	0.000000e+00	3877.0
2	TraesCS3D01G275300	chr3B	84.299	535	51	17	3247	3768	497458001	497457487	3.380000e-135	492.0
3	TraesCS3D01G275300	chr3B	97.115	208	5	1	2865	3072	497458796	497458590	2.150000e-92	350.0
4	TraesCS3D01G275300	chr3B	91.304	161	9	2	3106	3261	497458591	497458431	8.200000e-52	215.0
5	TraesCS3D01G275300	chr3B	84.431	167	17	7	3430	3591	1354845	1355007	5.040000e-34	156.0
6	TraesCS3D01G275300	chr3B	83.432	169	23	5	3427	3592	459247845	459248011	6.520000e-33	152.0
7	TraesCS3D01G275300	chr3B	86.170	94	11	2	3591	3683	727321066	727320974	2.390000e-17	100.0
8	TraesCS3D01G275300	chr3A	94.580	1513	66	7	1356	2867	505031563	505030066	0.000000e+00	2326.0
9	TraesCS3D01G275300	chr3A	89.348	751	61	10	1	740	505032848	505032106	0.000000e+00	926.0
10	TraesCS3D01G275300	chr3A	93.827	567	27	3	780	1340	505032107	505031543	0.000000e+00	846.0
11	TraesCS3D01G275300	chr3A	96.970	363	8	3	2867	3227	505030002	505029641	1.160000e-169	606.0
12	TraesCS3D01G275300	chr3A	85.125	558	71	9	3218	3767	505029147	505028594	9.140000e-156	560.0
13	TraesCS3D01G275300	chr3A	85.455	165	17	7	3430	3590	681178211	681178050	8.370000e-37	165.0
14	TraesCS3D01G275300	chr7D	84.375	256	30	7	2204	2453	101442669	101442418	3.760000e-60	243.0
15	TraesCS3D01G275300	chr7D	82.927	82	14	0	3588	3669	576841955	576842036	1.450000e-09	75.0
16	TraesCS3D01G275300	chr7A	83.984	256	31	7	2204	2453	259561558	259561307	1.750000e-58	237.0
17	TraesCS3D01G275300	chr7A	82.243	107	17	2	3592	3697	361907206	361907101	1.440000e-14	91.6
18	TraesCS3D01G275300	chr7A	82.243	107	17	2	3592	3697	362113158	362113053	1.440000e-14	91.6
19	TraesCS3D01G275300	chr7A	82.407	108	15	4	3592	3697	362150197	362150092	1.440000e-14	91.6
20	TraesCS3D01G275300	chr5A	83.984	256	31	7	2204	2453	635471615	635471364	1.750000e-58	237.0
21	TraesCS3D01G275300	chr5A	84.337	166	19	6	3430	3591	605231304	605231142	5.040000e-34	156.0
22	TraesCS3D01G275300	chr5A	79.699	133	13	10	2870	2988	426477775	426477907	2.410000e-12	84.2
23	TraesCS3D01G275300	chr2A	83.984	256	31	6	2204	2453	754457815	754457564	1.750000e-58	237.0
24	TraesCS3D01G275300	chr5B	83.128	243	31	10	2216	2453	38451495	38451258	2.950000e-51	213.0
25	TraesCS3D01G275300	chr5B	82.083	240	35	7	2204	2438	616270036	616269800	8.260000e-47	198.0
26	TraesCS3D01G275300	chrUn	82.083	240	35	7	2204	2438	436891169	436890933	8.260000e-47	198.0
27	TraesCS3D01G275300	chrUn	83.607	183	25	5	3588	3767	62698176	62698356	2.330000e-37	167.0
28	TraesCS3D01G275300	chr7B	85.455	165	20	4	3430	3591	426342740	426342577	6.470000e-38	169.0
29	TraesCS3D01G275300	chr7B	84.848	165	21	4	3430	3591	426351152	426350989	3.010000e-36	163.0
30	TraesCS3D01G275300	chr2D	83.523	176	24	5	3419	3592	81004748	81004920	3.900000e-35	159.0
31	TraesCS3D01G275300	chr4B	83.529	170	23	5	3430	3596	115096572	115096739	1.810000e-33	154.0
32	TraesCS3D01G275300	chr4B	81.915	94	16	1	3591	3683	645091862	645091769	1.120000e-10	78.7
33	TraesCS3D01G275300	chr1A	81.203	133	11	7	2870	2988	137871856	137871724	1.110000e-15	95.3
34	TraesCS3D01G275300	chr1A	94.444	54	2	1	2870	2922	115567643	115567696	8.670000e-12	82.4
35	TraesCS3D01G275300	chr6A	80.597	134	11	7	2870	2988	327718286	327718153	5.180000e-14	89.8

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	TraesCS3D01G275300	chr3D	381881825	381885592	3767	True	6959.0	6959	100.00000	1	3768	1	chr3D.!!$R1	3767
1	TraesCS3D01G275300	chr3B	497457487	497461732	4245	True	1233.5	3877	90.96775	1	3768	4	chr3B.!!$R2	3767
2	TraesCS3D01G275300	chr3A	505028594	505032848	4254	True	1052.8	2326	91.97000	1	3767	5	chr3A.!!$R2	3766

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	Hairpin	End Stability	Orientation
977	998	1.002366	GTGGATAGCTTCTGCACACG	58.998	55.000	13.43	42.74	4.49	F
994	1015	1.269174	CACGGTGGCAATCAAATCACA	59.731	47.619	0.00	32.29	3.58	F
2452	2510	0.537143	AACTCCATGCCGCTTTGTCA	60.537	50.000	0.00	0.00	3.58	F

Position	MSA Position	Penalty	Sequence	TM	GC	Hairpin	End Stability	Orientation
1903	1949	0.039527	AAAATGCTTCGGGTGCGTTC	60.040	50.0	38.53	3.95	R
2473	2532	0.249615	GCTATGCAGCGGACTCATGA	60.250	55.0	38.22	3.07	R
3420	4499	0.714180	TGGAGGGAGTACCAAGGCTA	59.286	55.0	43.89	3.93	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
215	219	6.362248	ACAGGTATTAGTTGAACACCAGTTT	58.638	36.000	5.51	0.00	38.30	2.66
223	227	6.377327	AGTTGAACACCAGTTTGATGTTAG	57.623	37.500	0.00	0.00	33.41	2.34
249	253	4.960938	ACACAGAATGAGAACACTGCTTA	58.039	39.130	0.00	0.00	39.69	3.09
352	357	2.688446	CAGGCTTATCTCAGGTCGTGTA	59.312	50.000	0.00	0.00	0.00	2.90
394	405	4.614946	AGCAAATGAAAGCTCAAAGTGTC	58.385	39.130	0.00	0.00	36.00	3.67
528	539	8.341903	TGATAGTGGAACAAAATATATTGCACG	58.658	33.333	0.00	0.00	45.92	5.34
558	569	3.066621	TCTCCACTTGTTGAAATGTGTGC	59.933	43.478	0.00	0.00	0.00	4.57
667	679	6.747414	ATGTATTTACTGCATGTAGAGGGA	57.253	37.500	18.40	1.00	32.08	4.20
675	687	4.081420	ACTGCATGTAGAGGGACACTAAAG	60.081	45.833	18.40	0.00	32.47	1.85
689	703	8.664079	AGGGACACTAAAGCAATATGATATCTT	58.336	33.333	3.98	0.00	0.00	2.40
771	785	1.333636	TTTGGGTGGTGTTTGCTGGG	61.334	55.000	0.00	0.00	0.00	4.45
797	812	1.549203	CCATGTCCCTTGAAACTGGG	58.451	55.000	0.00	0.00	44.66	4.45
808	823	4.326826	CTTGAAACTGGGTATTGCTCTCA	58.673	43.478	0.00	0.00	0.00	3.27
823	838	2.985139	GCTCTCAATTGCTTTGAACTGC	59.015	45.455	0.00	5.46	43.64	4.40
825	840	2.957680	TCTCAATTGCTTTGAACTGCCA	59.042	40.909	0.00	0.00	43.64	4.92
863	883	2.422803	TGGAGTGGTTCAAACCTCCAAG	60.423	50.000	16.51	0.00	45.28	3.61
977	998	1.002366	GTGGATAGCTTCTGCACACG	58.998	55.000	13.43	0.00	42.74	4.49
994	1015	1.269174	CACGGTGGCAATCAAATCACA	59.731	47.619	0.00	0.00	32.29	3.58
1169	1190	3.190118	GCATTGTGAAGCTTGCTCTAACT	59.810	43.478	2.10	0.00	32.41	2.24
1175	1196	4.750098	GTGAAGCTTGCTCTAACTTGTACA	59.250	41.667	2.10	0.00	0.00	2.90
1309	1337	6.977502	TCAATTCTCTGCTATTTTCTCTCTCG	59.022	38.462	0.00	0.00	0.00	4.04
1337	1365	8.888579	AATATATCTTACGTTTGTTCAGGGAG	57.111	34.615	0.00	0.00	0.00	4.30
1349	1377	2.893489	GTTCAGGGAGCTTTCAACCATT	59.107	45.455	0.00	0.00	0.00	3.16
1350	1378	3.243359	TCAGGGAGCTTTCAACCATTT	57.757	42.857	0.00	0.00	0.00	2.32
1375	1403	4.207165	GGCTTATGTTTATCCAGGAAGCA	58.793	43.478	7.63	0.00	38.24	3.91
1437	1466	9.412390	CTTTTTCATGTTTTCTTTGACAAATCG	57.588	29.630	0.05	0.00	0.00	3.34
1549	1578	7.013369	AGTCCTAATTTTGTGGAAGAAGTTGTC	59.987	37.037	0.00	0.00	0.00	3.18
1614	1643	4.020218	TGAGCAAGCTCTGTAAGTACCAAT	60.020	41.667	21.35	0.00	43.12	3.16
1650	1693	6.903534	AGAGGTCCCTTTAGTGAATGATAGAA	59.096	38.462	0.00	0.00	0.00	2.10
1850	1896	2.825532	GGCCTTTAGCTTCATTGTTCCA	59.174	45.455	0.00	0.00	43.05	3.53
1875	1921	2.371841	ACCACAAGAACCAGCATGACTA	59.628	45.455	0.00	0.00	39.69	2.59
1903	1949	2.334838	AGTTAAGCACGTAAGGAAGCG	58.665	47.619	0.00	0.00	46.39	4.68
1904	1950	2.029649	AGTTAAGCACGTAAGGAAGCGA	60.030	45.455	0.00	0.00	46.39	4.93
1906	1952	1.145803	AAGCACGTAAGGAAGCGAAC	58.854	50.000	0.00	0.00	46.39	3.95
2004	2056	5.690865	TCTTGGTTTGTGTGAAATACCTCT	58.309	37.500	0.00	0.00	0.00	3.69
2035	2087	8.727100	ATGTCTTTGTACTGAGATCCCATATA	57.273	34.615	0.00	0.00	0.00	0.86
2329	2385	2.099098	GGGATAATTGTGGGCAACGAAG	59.901	50.000	0.00	0.00	37.44	3.79
2351	2407	1.550976	GTTGAAGGGTCCGTCTCTCAT	59.449	52.381	4.71	0.00	0.00	2.90
2357	2413	1.433879	GTCCGTCTCTCATCCCACG	59.566	63.158	0.00	0.00	0.00	4.94
2374	2430	1.532437	CACGCCATGTCGATGCATTAT	59.468	47.619	1.83	0.00	0.00	1.28
2383	2439	6.073819	CCATGTCGATGCATTATTTCTTCGTA	60.074	38.462	0.00	0.00	33.43	3.43
2452	2510	0.537143	AACTCCATGCCGCTTTGTCA	60.537	50.000	0.00	0.00	0.00	3.58
2481	2540	9.774742	GTTATAAACCAAAATGAGTCATGAGTC	57.225	33.333	21.57	21.57	0.00	3.36
2503	2562	1.002033	GCTGCATAGCTGTTGTATGGC	60.002	52.381	0.00	0.00	46.57	4.40
2663	2722	2.224281	TGTCAGTCTTGGTGTCATGACC	60.224	50.000	22.85	13.66	44.40	4.02
2692	2751	6.703165	GGATCATTTCCATCAATTTGCTTACC	59.297	38.462	0.00	0.00	44.74	2.85
2705	2764	7.497579	TCAATTTGCTTACCGATGTATGTATGT	59.502	33.333	0.00	0.00	0.00	2.29
2822	2881	5.683509	GCACTAATCATGGAGCAAGTACTCT	60.684	44.000	0.00	0.00	36.87	3.24
3038	3162	4.787551	TCCTGGTTATTTGTTGCGGATAT	58.212	39.130	0.00	0.00	0.00	1.63
3113	3237	2.946341	GCAGAGGTAGTAGTGCCTGAGA	60.946	54.545	12.49	0.00	39.27	3.27
3221	3345	0.944386	GGCGGTGAATGATGCGTATT	59.056	50.000	0.00	0.00	0.00	1.89
3229	3353	0.603707	ATGATGCGTATTGGGCCTCG	60.604	55.000	4.53	5.87	0.00	4.63
3244	3872	1.493772	CCTCGCACAGTACGTTTCAA	58.506	50.000	0.00	0.00	0.00	2.69
3270	4343	1.798813	CAACCTGGTTTCTGAGTACGC	59.201	52.381	9.90	0.00	0.00	4.42
3340	4419	5.178809	ACAGTACGTTTCAGCCAAGATAAAC	59.821	40.000	0.00	0.00	0.00	2.01
3346	4425	6.823689	ACGTTTCAGCCAAGATAAACATCTAT	59.176	34.615	0.00	0.00	32.61	1.98
3377	4456	8.411991	TGAATGTAGTGTATCCGGACATATAA	57.588	34.615	6.12	0.00	30.69	0.98
3420	4499	2.558378	TGCGCATAGACGAGTACTAGT	58.442	47.619	5.66	8.51	34.06	2.57
3424	4503	3.123284	CGCATAGACGAGTACTAGTAGCC	59.877	52.174	8.75	0.00	34.06	3.93
3437	4519	2.162264	AGTAGCCTTGGTACTCCCTC	57.838	55.000	0.36	0.00	42.16	4.30
3438	4520	1.121378	GTAGCCTTGGTACTCCCTCC	58.879	60.000	0.00	0.00	34.22	4.30
3500	4582	6.535508	GGACTAGATACGAAGCAAAATGAGTT	59.464	38.462	0.00	0.00	0.00	3.01
3511	4593	9.180678	CGAAGCAAAATGAGTTAATTTACACTT	57.819	29.630	0.00	0.00	0.00	3.16
3609	4693	3.175438	AGTTGAAGGGAAAGGGAATGG	57.825	47.619	0.00	0.00	0.00	3.16
3617	4701	3.269643	AGGGAAAGGGAATGGGAGTTTAG	59.730	47.826	0.00	0.00	0.00	1.85
3684	4769	1.689813	TCCTAGTCTTCGTTTGGTGCA	59.310	47.619	0.00	0.00	0.00	4.57
3691	4776	1.336440	CTTCGTTTGGTGCATGTTGGA	59.664	47.619	0.00	0.00	0.00	3.53
3704	4789	6.072175	GGTGCATGTTGGAAATTACTTGTAGA	60.072	38.462	0.00	0.00	0.00	2.59
3707	4792	7.865385	TGCATGTTGGAAATTACTTGTAGAAAC	59.135	33.333	0.00	0.00	0.00	2.78

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
168	172	2.364002	GGGCAAGCAACCTAACTCAAAA	59.636	45.455	0.00	0.00	0.00	2.44
215	219	7.703058	TCTCATTCTGTGTCTACTAACATCA	57.297	36.000	0.00	0.00	0.00	3.07
223	227	4.387256	GCAGTGTTCTCATTCTGTGTCTAC	59.613	45.833	0.00	0.00	0.00	2.59
249	253	7.001099	TCGAAGACTAAATCAAGGGTAAACT	57.999	36.000	0.00	0.00	0.00	2.66
307	312	5.248380	AGATGGCAACTTTTCCTAACTCT	57.752	39.130	0.00	0.00	37.61	3.24
352	357	3.952967	GCTAACACCTGTAGTAGCCTACT	59.047	47.826	9.74	9.74	43.38	2.57
364	375	4.022935	TGAGCTTTCATTTGCTAACACCTG	60.023	41.667	0.00	0.00	39.91	4.00
394	405	4.142773	ACCACACAAGTTACAACAGAAACG	60.143	41.667	0.00	0.00	0.00	3.60
430	441	7.158099	ACAATTCAGTTAAGCTATTGTTCCC	57.842	36.000	3.46	0.00	36.35	3.97
437	448	9.553064	CCTCAGATTACAATTCAGTTAAGCTAT	57.447	33.333	0.00	0.00	0.00	2.97
460	471	8.090831	AGTTCAAAAGGAAATTAATCAAGCCTC	58.909	33.333	0.00	0.00	37.23	4.70
507	518	5.514914	CCACGTGCAATATATTTTGTTCCAC	59.485	40.000	10.91	6.47	0.00	4.02
518	529	3.181469	GGAGAAGTCCCACGTGCAATATA	60.181	47.826	10.91	0.00	36.76	0.86
558	569	5.181009	TGCCAAGAAGTCAGAGAATACATG	58.819	41.667	0.00	0.00	0.00	3.21
689	703	1.750193	GCATAGCCACACCTAAAGCA	58.250	50.000	0.00	0.00	0.00	3.91
716	730	4.646945	TGGAAGCACCATTTGTTTGTAGAA	59.353	37.500	0.00	0.00	44.64	2.10
771	785	1.140312	TCAAGGGACATGGGCTATCC	58.860	55.000	0.00	0.00	0.00	2.59
808	823	4.523943	TCACTATGGCAGTTCAAAGCAATT	59.476	37.500	0.00	0.00	34.26	2.32
823	838	6.484643	CACTCCAGATTGGTTAATCACTATGG	59.515	42.308	12.31	12.31	44.14	2.74
825	840	6.158695	ACCACTCCAGATTGGTTAATCACTAT	59.841	38.462	3.97	0.00	40.91	2.12
863	883	4.643334	AGTAAAACAAGTGTGAGGAAACCC	59.357	41.667	0.00	0.00	0.00	4.11
969	990	1.794151	TTGATTGCCACCGTGTGCAG	61.794	55.000	12.51	0.00	31.34	4.41
977	998	3.694734	CGTATGTGATTTGATTGCCACC	58.305	45.455	0.00	0.00	0.00	4.61
1169	1190	4.461081	AGTGGCAAAGTGAAGTTTGTACAA	59.539	37.500	3.59	3.59	39.27	2.41
1175	1196	6.096846	AGTGAATAAGTGGCAAAGTGAAGTTT	59.903	34.615	0.00	0.00	0.00	2.66
1329	1357	2.978156	ATGGTTGAAAGCTCCCTGAA	57.022	45.000	0.00	0.00	0.00	3.02
1349	1377	6.490040	GCTTCCTGGATAAACATAAGCCATAA	59.510	38.462	0.00	0.00	35.17	1.90
1350	1378	6.003950	GCTTCCTGGATAAACATAAGCCATA	58.996	40.000	0.00	0.00	35.17	2.74
1366	1394	1.079073	AAATGGGGGTGCTTCCTGG	59.921	57.895	0.00	0.00	36.25	4.45
1375	1403	3.383223	CAATGGGATAACAAATGGGGGT	58.617	45.455	0.00	0.00	0.00	4.95
1437	1466	3.808726	TGTTTGTTTCCAAATCAGCATGC	59.191	39.130	10.51	10.51	42.26	4.06
1549	1578	5.689819	CCAGAATCTTTAAAGAACACCACG	58.310	41.667	21.26	7.06	38.77	4.94
1629	1658	7.254932	GCATGTTCTATCATTCACTAAAGGGAC	60.255	40.741	0.00	0.00	0.00	4.46
1650	1693	5.312895	TGTCTAACATTACCACTTGCATGT	58.687	37.500	0.00	0.00	0.00	3.21
1811	1857	2.105477	GGCCTATGAGCTGAATCTTCCA	59.895	50.000	0.00	0.00	0.00	3.53
1850	1896	2.949177	TGCTGGTTCTTGTGGTATGT	57.051	45.000	0.00	0.00	0.00	2.29
1875	1921	9.148104	CTTCCTTACGTGCTTAACTAAACTAAT	57.852	33.333	0.00	0.00	0.00	1.73
1903	1949	0.039527	AAAATGCTTCGGGTGCGTTC	60.040	50.000	0.00	0.00	38.53	3.95
1904	1950	0.387565	AAAAATGCTTCGGGTGCGTT	59.612	45.000	0.00	0.00	40.85	4.84
1906	1952	4.963815	AAAAATGCTTCGGGTGCG	57.036	50.000	0.00	0.00	0.00	5.34
2004	2056	5.447624	TCTCAGTACAAAGACATTCGACA	57.552	39.130	0.00	0.00	0.00	4.35
2329	2385	0.680061	AGAGACGGACCCTTCAACAC	59.320	55.000	0.00	0.00	0.00	3.32
2351	2407	2.186644	CATCGACATGGCGTGGGA	59.813	61.111	22.59	0.53	0.00	4.37
2357	2413	4.494350	AGAAATAATGCATCGACATGGC	57.506	40.909	0.00	0.00	0.00	4.40
2374	2430	8.475639	ACAATAGAGATAAAGCCTACGAAGAAA	58.524	33.333	0.00	0.00	0.00	2.52
2471	2530	1.068281	CTATGCAGCGGACTCATGACT	59.932	52.381	0.00	0.00	0.00	3.41
2473	2532	0.249615	GCTATGCAGCGGACTCATGA	60.250	55.000	0.00	0.00	38.22	3.07
2496	2555	3.644624	AAACGGCTGTTTTCGCCATACA	61.645	45.455	18.05	0.00	45.89	2.29
2497	2556	1.068816	AAACGGCTGTTTTCGCCATAC	60.069	47.619	18.05	0.00	45.89	2.39
2517	2576	7.283625	ACCAAAATAAAGCACATGTGTAAGA	57.716	32.000	26.01	10.85	0.00	2.10
2692	2751	6.538189	TGCATGGTAAACATACATACATCG	57.462	37.500	0.00	0.00	37.84	3.84
2730	2789	4.020617	CCGCTCCAGCAGGACCAA	62.021	66.667	0.00	0.00	39.61	3.67
2794	2853	1.510480	GCTCCATGATTAGTGCGCCC	61.510	60.000	4.18	0.00	0.00	6.13
2806	2865	3.616956	TTCCAGAGTACTTGCTCCATG	57.383	47.619	0.00	0.00	36.20	3.66
2822	2881	4.242811	AGGCTGGGATCATAGTATTTCCA	58.757	43.478	9.92	0.00	0.00	3.53
3038	3162	8.731605	TCTGATAATAACAAATAAACACGGCAA	58.268	29.630	0.00	0.00	0.00	4.52
3113	3237	1.813192	CTGTGCGGTTTGTTGGGTT	59.187	52.632	0.00	0.00	0.00	4.11
3221	3345	4.063967	CGTACTGTGCGAGGCCCA	62.064	66.667	13.07	0.00	0.00	5.36
3229	3353	1.937899	ACAGGTTGAAACGTACTGTGC	59.062	47.619	0.00	0.00	40.56	4.57
3244	3872	1.843851	TCAGAAACCAGGTTGACAGGT	59.156	47.619	5.30	0.00	37.20	4.00
3346	4425	6.537301	GTCCGGATACACTACATTCAATTTCA	59.463	38.462	7.81	0.00	0.00	2.69
3377	4456	2.676265	GGTATCCAACGGTGGCCCT	61.676	63.158	16.88	4.27	45.54	5.19
3420	4499	0.714180	TGGAGGGAGTACCAAGGCTA	59.286	55.000	0.00	0.00	43.89	3.93
3424	4503	5.693769	TTAGAAATGGAGGGAGTACCAAG	57.306	43.478	0.00	0.00	43.89	3.61
3469	4551	4.948847	TGCTTCGTATCTAGTCCGTACTA	58.051	43.478	0.00	0.00	37.15	1.82
3471	4553	4.542662	TTGCTTCGTATCTAGTCCGTAC	57.457	45.455	0.00	0.00	0.00	3.67
3576	4660	4.094476	CCCTTCAACTACTCCCTCTGTTA	58.906	47.826	0.00	0.00	0.00	2.41
3583	4667	2.026169	CCCTTTCCCTTCAACTACTCCC	60.026	54.545	0.00	0.00	0.00	4.30
3593	4677	1.641192	ACTCCCATTCCCTTTCCCTTC	59.359	52.381	0.00	0.00	0.00	3.46
3609	4693	4.726583	ACAAACTTCCCCTTCTAAACTCC	58.273	43.478	0.00	0.00	0.00	3.85
3617	4701	1.338107	CCCCAACAAACTTCCCCTTC	58.662	55.000	0.00	0.00	0.00	3.46
3673	4757	1.393603	TTCCAACATGCACCAAACGA	58.606	45.000	0.00	0.00	0.00	3.85
3730	4816	2.943033	ACTTTGACTCACGAACCAAAGG	59.057	45.455	15.29	0.00	45.68	3.11

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.