AutoCloner

Multiple sequence alignment - TraesCS3A01G146000

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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	TraesCS3A01G146000	chr3A	100.000	2339	0	0	1	2339	128139501	128137163	0.000000e+00	4320.0
1	TraesCS3A01G146000	chr3A	92.832	1409	79	13	948	2339	527582759	527584162	0.000000e+00	2023.0
2	TraesCS3A01G146000	chr2D	92.758	1519	88	11	839	2339	164267633	164269147	0.000000e+00	2176.0
3	TraesCS3A01G146000	chr2D	92.100	1519	99	12	839	2339	632246345	632244830	0.000000e+00	2121.0
4	TraesCS3A01G146000	chr7D	92.232	1519	97	10	839	2339	518101121	518099606	0.000000e+00	2132.0
5	TraesCS3A01G146000	chr7D	92.042	1244	78	10	1114	2339	426459152	426457912	0.000000e+00	1729.0
6	TraesCS3A01G146000	chr3D	92.126	1524	94	11	839	2339	363055487	363057007	0.000000e+00	2126.0
7	TraesCS3A01G146000	chr3D	91.711	1520	93	13	839	2339	605575412	605573907	0.000000e+00	2078.0
8	TraesCS3A01G146000	chr3D	81.604	723	126	6	1619	2337	607835305	607834586	2.000000e-165	592.0
9	TraesCS3A01G146000	chr4B	91.639	1519	107	9	839	2339	180553559	180552043	0.000000e+00	2084.0
10	TraesCS3A01G146000	chr4B	91.502	1518	109	9	840	2339	665272040	665273555	0.000000e+00	2071.0
11	TraesCS3A01G146000	chr1B	90.837	1517	116	13	843	2339	534195955	534194442	0.000000e+00	2010.0
12	TraesCS3A01G146000	chr1B	91.415	1258	89	11	1100	2339	567952830	567954086	0.000000e+00	1707.0
13	TraesCS3A01G146000	chr5D	88.343	1527	141	22	837	2335	124370890	124369373	0.000000e+00	1799.0
14	TraesCS3A01G146000	chr5D	82.051	624	101	9	1721	2337	303829406	303830025	2.660000e-144	521.0
15	TraesCS3A01G146000	chr5A	98.686	761	9	1	1	760	403302326	403303086	0.000000e+00	1349.0
16	TraesCS3A01G146000	chr7B	98.682	759	10	0	1	759	147548624	147549382	0.000000e+00	1347.0
17	TraesCS3A01G146000	chr2B	98.684	760	9	1	1	759	461110436	461111195	0.000000e+00	1347.0
18	TraesCS3A01G146000	chr2B	98.423	761	11	1	1	760	689370286	689369526	0.000000e+00	1338.0
19	TraesCS3A01G146000	chr1A	98.684	760	9	1	1	759	552383321	552384080	0.000000e+00	1347.0
20	TraesCS3A01G146000	chr1A	98.551	759	11	0	1	759	58186744	58187502	0.000000e+00	1341.0
21	TraesCS3A01G146000	chr1A	72.534	659	173	8	1686	2339	449825882	449826537	8.470000e-50	207.0
22	TraesCS3A01G146000	chr2A	98.431	765	10	2	1	764	100135856	100136619	0.000000e+00	1345.0
23	TraesCS3A01G146000	chr7A	98.553	760	10	1	1	759	333076979	333077738	0.000000e+00	1341.0
24	TraesCS3A01G146000	chr4A	98.421	760	11	1	1	759	537225853	537225094	0.000000e+00	1336.0
25	TraesCS3A01G146000	chr1D	82.186	494	78	9	1850	2337	269818190	269817701	1.290000e-112	416.0
26	TraesCS3A01G146000	chr3B	92.857	42	3	0	800	841	173376385	173376344	6.980000e-06	62.1

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	TraesCS3A01G146000	chr3A	128137163	128139501	2338	True	4320	4320	100.000	1	2339	1	chr3A.!!$R1	2338
1	TraesCS3A01G146000	chr3A	527582759	527584162	1403	False	2023	2023	92.832	948	2339	1	chr3A.!!$F1	1391
2	TraesCS3A01G146000	chr2D	164267633	164269147	1514	False	2176	2176	92.758	839	2339	1	chr2D.!!$F1	1500
3	TraesCS3A01G146000	chr2D	632244830	632246345	1515	True	2121	2121	92.100	839	2339	1	chr2D.!!$R1	1500
4	TraesCS3A01G146000	chr7D	518099606	518101121	1515	True	2132	2132	92.232	839	2339	1	chr7D.!!$R2	1500
5	TraesCS3A01G146000	chr7D	426457912	426459152	1240	True	1729	1729	92.042	1114	2339	1	chr7D.!!$R1	1225
6	TraesCS3A01G146000	chr3D	363055487	363057007	1520	False	2126	2126	92.126	839	2339	1	chr3D.!!$F1	1500
7	TraesCS3A01G146000	chr3D	605573907	605575412	1505	True	2078	2078	91.711	839	2339	1	chr3D.!!$R1	1500
8	TraesCS3A01G146000	chr3D	607834586	607835305	719	True	592	592	81.604	1619	2337	1	chr3D.!!$R2	718
9	TraesCS3A01G146000	chr4B	180552043	180553559	1516	True	2084	2084	91.639	839	2339	1	chr4B.!!$R1	1500
10	TraesCS3A01G146000	chr4B	665272040	665273555	1515	False	2071	2071	91.502	840	2339	1	chr4B.!!$F1	1499
11	TraesCS3A01G146000	chr1B	534194442	534195955	1513	True	2010	2010	90.837	843	2339	1	chr1B.!!$R1	1496
12	TraesCS3A01G146000	chr1B	567952830	567954086	1256	False	1707	1707	91.415	1100	2339	1	chr1B.!!$F1	1239
13	TraesCS3A01G146000	chr5D	124369373	124370890	1517	True	1799	1799	88.343	837	2335	1	chr5D.!!$R1	1498
14	TraesCS3A01G146000	chr5D	303829406	303830025	619	False	521	521	82.051	1721	2337	1	chr5D.!!$F1	616
15	TraesCS3A01G146000	chr5A	403302326	403303086	760	False	1349	1349	98.686	1	760	1	chr5A.!!$F1	759
16	TraesCS3A01G146000	chr7B	147548624	147549382	758	False	1347	1347	98.682	1	759	1	chr7B.!!$F1	758
17	TraesCS3A01G146000	chr2B	461110436	461111195	759	False	1347	1347	98.684	1	759	1	chr2B.!!$F1	758
18	TraesCS3A01G146000	chr2B	689369526	689370286	760	True	1338	1338	98.423	1	760	1	chr2B.!!$R1	759
19	TraesCS3A01G146000	chr1A	552383321	552384080	759	False	1347	1347	98.684	1	759	1	chr1A.!!$F3	758
20	TraesCS3A01G146000	chr1A	58186744	58187502	758	False	1341	1341	98.551	1	759	1	chr1A.!!$F1	758
21	TraesCS3A01G146000	chr1A	449825882	449826537	655	False	207	207	72.534	1686	2339	1	chr1A.!!$F2	653
22	TraesCS3A01G146000	chr2A	100135856	100136619	763	False	1345	1345	98.431	1	764	1	chr2A.!!$F1	763
23	TraesCS3A01G146000	chr7A	333076979	333077738	759	False	1341	1341	98.553	1	759	1	chr7A.!!$F1	758
24	TraesCS3A01G146000	chr4A	537225094	537225853	759	True	1336	1336	98.421	1	759	1	chr4A.!!$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
582	584	1.678635	GCATGTGGGGCTGCAACTA	60.679	57.895	0.5	0.0	38.28	2.24	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1932	1966	0.173481	CTCACGCCCGAATCTCTGAA	59.827	55.0	0.0	0.0	0.0	3.02	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
560	562	2.120232	CTAGATCTTAGGCGTTGCACG	58.880	52.381	0.00	4.61	45.88	5.34
582	584	1.678635	GCATGTGGGGCTGCAACTA	60.679	57.895	0.50	0.00	38.28	2.24
760	762	4.514441	GGTCAGATATGTGATTTCTGCCTG	59.486	45.833	5.77	0.00	37.97	4.85
761	763	5.363101	GTCAGATATGTGATTTCTGCCTGA	58.637	41.667	5.77	0.00	37.97	3.86
763	765	6.485984	GTCAGATATGTGATTTCTGCCTGATT	59.514	38.462	5.77	0.00	37.97	2.57
764	766	6.485648	TCAGATATGTGATTTCTGCCTGATTG	59.514	38.462	0.00	0.00	37.97	2.67
765	767	6.262496	CAGATATGTGATTTCTGCCTGATTGT	59.738	38.462	0.00	0.00	32.93	2.71
766	768	4.713824	ATGTGATTTCTGCCTGATTGTG	57.286	40.909	0.00	0.00	0.00	3.33
767	769	3.489355	TGTGATTTCTGCCTGATTGTGT	58.511	40.909	0.00	0.00	0.00	3.72
768	770	4.650734	TGTGATTTCTGCCTGATTGTGTA	58.349	39.130	0.00	0.00	0.00	2.90
769	771	4.455533	TGTGATTTCTGCCTGATTGTGTAC	59.544	41.667	0.00	0.00	0.00	2.90
770	772	4.455533	GTGATTTCTGCCTGATTGTGTACA	59.544	41.667	0.00	0.00	0.00	2.90
771	773	5.048782	GTGATTTCTGCCTGATTGTGTACAA	60.049	40.000	0.00	0.00	40.51	2.41
772	774	5.534278	TGATTTCTGCCTGATTGTGTACAAA	59.466	36.000	0.00	0.00	39.55	2.83
773	775	5.437289	TTTCTGCCTGATTGTGTACAAAG	57.563	39.130	0.00	0.00	39.55	2.77
774	776	2.813754	TCTGCCTGATTGTGTACAAAGC	59.186	45.455	0.00	0.00	39.55	3.51
775	777	2.816087	CTGCCTGATTGTGTACAAAGCT	59.184	45.455	0.00	0.00	39.55	3.74
776	778	2.813754	TGCCTGATTGTGTACAAAGCTC	59.186	45.455	0.00	0.00	39.55	4.09
777	779	3.077359	GCCTGATTGTGTACAAAGCTCT	58.923	45.455	0.00	0.00	39.55	4.09
778	780	3.120060	GCCTGATTGTGTACAAAGCTCTG	60.120	47.826	0.00	0.00	39.55	3.35
779	781	4.318332	CCTGATTGTGTACAAAGCTCTGA	58.682	43.478	0.00	0.00	39.55	3.27
780	782	4.940046	CCTGATTGTGTACAAAGCTCTGAT	59.060	41.667	0.00	0.00	39.55	2.90
781	783	5.413833	CCTGATTGTGTACAAAGCTCTGATT	59.586	40.000	0.00	0.00	39.55	2.57
782	784	6.402983	CCTGATTGTGTACAAAGCTCTGATTC	60.403	42.308	0.00	0.00	39.55	2.52
783	785	4.990543	TTGTGTACAAAGCTCTGATTCG	57.009	40.909	0.00	0.00	32.11	3.34
784	786	3.990092	TGTGTACAAAGCTCTGATTCGT	58.010	40.909	0.00	0.00	0.00	3.85
785	787	3.987868	TGTGTACAAAGCTCTGATTCGTC	59.012	43.478	0.00	0.00	0.00	4.20
786	788	4.238514	GTGTACAAAGCTCTGATTCGTCT	58.761	43.478	0.00	0.00	0.00	4.18
787	789	4.686554	GTGTACAAAGCTCTGATTCGTCTT	59.313	41.667	0.00	0.00	0.00	3.01
788	790	4.923871	TGTACAAAGCTCTGATTCGTCTTC	59.076	41.667	0.00	0.00	0.00	2.87
789	791	3.330267	ACAAAGCTCTGATTCGTCTTCC	58.670	45.455	0.00	0.00	0.00	3.46
790	792	3.244215	ACAAAGCTCTGATTCGTCTTCCA	60.244	43.478	0.00	0.00	0.00	3.53
791	793	2.663826	AGCTCTGATTCGTCTTCCAC	57.336	50.000	0.00	0.00	0.00	4.02
792	794	1.895798	AGCTCTGATTCGTCTTCCACA	59.104	47.619	0.00	0.00	0.00	4.17
793	795	2.499289	AGCTCTGATTCGTCTTCCACAT	59.501	45.455	0.00	0.00	0.00	3.21
794	796	3.055530	AGCTCTGATTCGTCTTCCACATT	60.056	43.478	0.00	0.00	0.00	2.71
795	797	3.063180	GCTCTGATTCGTCTTCCACATTG	59.937	47.826	0.00	0.00	0.00	2.82
796	798	4.248859	CTCTGATTCGTCTTCCACATTGT	58.751	43.478	0.00	0.00	0.00	2.71
797	799	5.400066	TCTGATTCGTCTTCCACATTGTA	57.600	39.130	0.00	0.00	0.00	2.41
798	800	5.977635	TCTGATTCGTCTTCCACATTGTAT	58.022	37.500	0.00	0.00	0.00	2.29
799	801	5.812127	TCTGATTCGTCTTCCACATTGTATG	59.188	40.000	0.00	0.00	0.00	2.39
800	802	5.729510	TGATTCGTCTTCCACATTGTATGA	58.270	37.500	0.00	0.00	0.00	2.15
801	803	6.169800	TGATTCGTCTTCCACATTGTATGAA	58.830	36.000	0.00	0.00	0.00	2.57
802	804	6.823182	TGATTCGTCTTCCACATTGTATGAAT	59.177	34.615	4.41	4.41	0.00	2.57
803	805	7.336679	TGATTCGTCTTCCACATTGTATGAATT	59.663	33.333	5.76	0.00	0.00	2.17
804	806	7.447374	TTCGTCTTCCACATTGTATGAATTT	57.553	32.000	0.00	0.00	0.00	1.82
805	807	8.554835	TTCGTCTTCCACATTGTATGAATTTA	57.445	30.769	0.00	0.00	0.00	1.40
806	808	8.731275	TCGTCTTCCACATTGTATGAATTTAT	57.269	30.769	0.00	0.00	0.00	1.40
807	809	9.173021	TCGTCTTCCACATTGTATGAATTTATT	57.827	29.630	0.00	0.00	0.00	1.40
808	810	9.787532	CGTCTTCCACATTGTATGAATTTATTT	57.212	29.630	0.00	0.00	0.00	1.40
837	839	8.856103	ACTTGTGTTATGCTTTACCATAAAACT	58.144	29.630	13.39	0.00	42.46	2.66
930	938	2.241176	ACCCCTATTTGAAGATCGCCAA	59.759	45.455	0.00	0.00	0.00	4.52
935	943	4.878397	CCTATTTGAAGATCGCCAAGAAGT	59.122	41.667	3.68	0.00	0.00	3.01
973	981	4.335647	CTGCTCCAACGCCACCCT	62.336	66.667	0.00	0.00	0.00	4.34
1199	1207	2.693797	CGCTTCAAAGAGCACATGTT	57.306	45.000	0.00	0.00	42.83	2.71
1203	1211	3.854784	GCTTCAAAGAGCACATGTTGTCC	60.855	47.826	0.00	0.00	42.25	4.02
1298	1306	4.684134	GCATGGTGGGGGTGCTGT	62.684	66.667	0.00	0.00	36.02	4.40
1309	1317	3.360340	GTGCTGTGCTGGACCTGC	61.360	66.667	16.03	16.03	0.00	4.85
1336	1344	1.388065	CGATGAGGAGGCCGAACTCT	61.388	60.000	20.12	9.67	37.63	3.24
1342	1350	1.324005	GGAGGCCGAACTCTAGCAGT	61.324	60.000	0.00	0.00	37.63	4.40
1415	1425	5.767665	TGTTAGTACAACCAAATGCATGTCT	59.232	36.000	0.00	0.00	0.00	3.41
1420	1430	2.299582	CAACCAAATGCATGTCTTGGGA	59.700	45.455	25.35	0.00	43.30	4.37
1683	1708	1.368374	TGTTAGGGGCCTTAACTGCT	58.632	50.000	31.00	10.29	0.00	4.24
1932	1966	0.036010	CCTCTCAGCCATGGTTCGTT	60.036	55.000	14.67	0.00	0.00	3.85

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
566	568	0.035056	GTCTAGTTGCAGCCCCACAT	60.035	55.000	0.00	0.00	0.00	3.21
575	577	1.679311	CAGCCCTGGTCTAGTTGCA	59.321	57.895	0.00	0.00	0.00	4.08
760	762	5.120830	ACGAATCAGAGCTTTGTACACAATC	59.879	40.000	3.90	0.00	35.55	2.67
761	763	4.997395	ACGAATCAGAGCTTTGTACACAAT	59.003	37.500	3.90	0.00	35.55	2.71
763	765	3.987868	GACGAATCAGAGCTTTGTACACA	59.012	43.478	3.90	0.00	0.00	3.72
764	766	4.238514	AGACGAATCAGAGCTTTGTACAC	58.761	43.478	3.90	0.00	0.00	2.90
765	767	4.521130	AGACGAATCAGAGCTTTGTACA	57.479	40.909	3.90	0.00	0.00	2.90
766	768	4.327627	GGAAGACGAATCAGAGCTTTGTAC	59.672	45.833	3.90	0.00	0.00	2.90
767	769	4.021456	TGGAAGACGAATCAGAGCTTTGTA	60.021	41.667	3.90	0.00	0.00	2.41
768	770	3.244215	TGGAAGACGAATCAGAGCTTTGT	60.244	43.478	3.90	0.00	0.00	2.83
769	771	3.124297	GTGGAAGACGAATCAGAGCTTTG	59.876	47.826	0.00	0.00	0.00	2.77
770	772	3.244215	TGTGGAAGACGAATCAGAGCTTT	60.244	43.478	0.00	0.00	0.00	3.51
771	773	2.300152	TGTGGAAGACGAATCAGAGCTT	59.700	45.455	0.00	0.00	0.00	3.74
772	774	1.895798	TGTGGAAGACGAATCAGAGCT	59.104	47.619	0.00	0.00	0.00	4.09
773	775	2.370281	TGTGGAAGACGAATCAGAGC	57.630	50.000	0.00	0.00	0.00	4.09
774	776	4.248859	ACAATGTGGAAGACGAATCAGAG	58.751	43.478	0.00	0.00	0.00	3.35
775	777	4.271696	ACAATGTGGAAGACGAATCAGA	57.728	40.909	0.00	0.00	0.00	3.27
776	778	5.812127	TCATACAATGTGGAAGACGAATCAG	59.188	40.000	0.00	0.00	0.00	2.90
777	779	5.729510	TCATACAATGTGGAAGACGAATCA	58.270	37.500	0.00	0.00	0.00	2.57
778	780	6.662414	TTCATACAATGTGGAAGACGAATC	57.338	37.500	0.00	0.00	0.00	2.52
779	781	7.630242	AATTCATACAATGTGGAAGACGAAT	57.370	32.000	0.00	0.00	0.00	3.34
780	782	7.447374	AAATTCATACAATGTGGAAGACGAA	57.553	32.000	0.00	0.00	0.00	3.85
781	783	8.731275	ATAAATTCATACAATGTGGAAGACGA	57.269	30.769	0.00	0.00	0.00	4.20
782	784	9.787532	AAATAAATTCATACAATGTGGAAGACG	57.212	29.630	0.00	0.00	0.00	4.18
811	813	8.856103	AGTTTTATGGTAAAGCATAACACAAGT	58.144	29.630	22.92	12.86	30.59	3.16
812	814	9.341899	GAGTTTTATGGTAAAGCATAACACAAG	57.658	33.333	22.92	0.00	30.59	3.16
813	815	9.073475	AGAGTTTTATGGTAAAGCATAACACAA	57.927	29.630	22.92	11.26	30.59	3.33
814	816	8.511321	CAGAGTTTTATGGTAAAGCATAACACA	58.489	33.333	22.92	7.11	30.59	3.72
815	817	7.484959	GCAGAGTTTTATGGTAAAGCATAACAC	59.515	37.037	17.33	17.33	0.00	3.32
816	818	7.535139	GCAGAGTTTTATGGTAAAGCATAACA	58.465	34.615	12.78	5.59	0.00	2.41
817	819	6.687105	CGCAGAGTTTTATGGTAAAGCATAAC	59.313	38.462	12.78	6.84	0.00	1.89
818	820	6.676943	GCGCAGAGTTTTATGGTAAAGCATAA	60.677	38.462	0.30	9.86	0.00	1.90
819	821	5.220777	GCGCAGAGTTTTATGGTAAAGCATA	60.221	40.000	0.30	0.00	0.00	3.14
820	822	4.438744	GCGCAGAGTTTTATGGTAAAGCAT	60.439	41.667	0.30	0.00	0.00	3.79
821	823	3.119990	GCGCAGAGTTTTATGGTAAAGCA	60.120	43.478	0.30	0.00	0.00	3.91
822	824	3.426323	GCGCAGAGTTTTATGGTAAAGC	58.574	45.455	0.30	0.00	0.00	3.51
823	825	3.485216	CGGCGCAGAGTTTTATGGTAAAG	60.485	47.826	10.83	0.00	0.00	1.85
824	826	2.417239	CGGCGCAGAGTTTTATGGTAAA	59.583	45.455	10.83	0.00	0.00	2.01
825	827	2.004017	CGGCGCAGAGTTTTATGGTAA	58.996	47.619	10.83	0.00	0.00	2.85
826	828	1.647346	CGGCGCAGAGTTTTATGGTA	58.353	50.000	10.83	0.00	0.00	3.25
827	829	1.644786	GCGGCGCAGAGTTTTATGGT	61.645	55.000	29.21	0.00	0.00	3.55
828	830	1.062525	GCGGCGCAGAGTTTTATGG	59.937	57.895	29.21	0.00	0.00	2.74
829	831	0.521242	GTGCGGCGCAGAGTTTTATG	60.521	55.000	37.27	0.00	40.08	1.90
830	832	0.673644	AGTGCGGCGCAGAGTTTTAT	60.674	50.000	37.27	10.71	40.08	1.40
831	833	1.289109	GAGTGCGGCGCAGAGTTTTA	61.289	55.000	37.27	7.67	40.08	1.52
832	834	2.591715	AGTGCGGCGCAGAGTTTT	60.592	55.556	37.27	13.66	40.08	2.43
833	835	3.044305	GAGTGCGGCGCAGAGTTT	61.044	61.111	37.27	18.15	40.08	2.66
836	838	4.827087	ATGGAGTGCGGCGCAGAG	62.827	66.667	37.27	1.43	40.08	3.35
837	839	4.819761	GATGGAGTGCGGCGCAGA	62.820	66.667	37.27	19.62	40.08	4.26
855	857	4.508128	CTACGATGCCGCACGGGT	62.508	66.667	11.65	2.60	39.95	5.28
935	943	2.531428	TGGGTGTGGGCAGGATGA	60.531	61.111	0.00	0.00	39.69	2.92
985	993	1.657556	CCATTGTTTTCCCGCGTGT	59.342	52.632	4.92	0.00	0.00	4.49
1199	1207	0.320374	GGTTGTGATCACCTCGGACA	59.680	55.000	22.85	0.00	0.00	4.02
1203	1211	2.274437	CTCATGGTTGTGATCACCTCG	58.726	52.381	22.85	6.00	0.00	4.63
1280	1288	4.682334	CAGCACCCCCACCATGCA	62.682	66.667	0.00	0.00	41.97	3.96
1295	1303	1.375652	CTCTGCAGGTCCAGCACAG	60.376	63.158	15.13	0.56	37.02	3.66
1298	1306	3.324930	CCCTCTGCAGGTCCAGCA	61.325	66.667	15.13	8.86	38.30	4.41
1309	1317	2.506061	CCTCCTCATCGGCCCTCTG	61.506	68.421	0.00	0.00	0.00	3.35
1332	1340	1.638529	AGGTTGCAGACTGCTAGAGT	58.361	50.000	26.94	6.54	45.31	3.24
1336	1344	1.623311	TGCTTAGGTTGCAGACTGCTA	59.377	47.619	26.94	17.95	45.31	3.49
1420	1430	9.975218	AACTTTTACTTTAGGGATACATGACAT	57.025	29.630	0.00	0.00	39.74	3.06
1481	1506	2.895404	AGATGCAAAAGCAACTCCACAT	59.105	40.909	0.00	0.00	0.00	3.21
1827	1861	1.375396	CCCTCGTGCCATTTGTCGA	60.375	57.895	0.00	0.00	0.00	4.20
1932	1966	0.173481	CTCACGCCCGAATCTCTGAA	59.827	55.000	0.00	0.00	0.00	3.02
2284	2320	2.151202	GGACGAAGAAAGTGCATGGAA	58.849	47.619	0.00	0.00	0.00	3.53

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.