AutoCloner

Multiple sequence alignment - TraesCS7D01G395600

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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	TraesCS7D01G395600	chr7D	100.000	3536	0	0	1	3536	510434221	510437756	0.000000e+00	6530
1	TraesCS7D01G395600	chr3A	97.144	2591	71	2	948	3536	512326931	512324342	0.000000e+00	4372
2	TraesCS7D01G395600	chr7A	97.106	2592	72	2	948	3536	688877031	688879622	0.000000e+00	4368
3	TraesCS7D01G395600	chr7A	71.711	456	119	9	3087	3536	664290137	664290588	6.200000e-23	119
4	TraesCS7D01G395600	chr7A	95.833	72	2	1	860	930	581152716	581152787	8.020000e-22	115
5	TraesCS7D01G395600	chr1A	97.029	2592	74	2	948	3536	460991457	460994048	0.000000e+00	4357
6	TraesCS7D01G395600	chr1A	89.683	504	45	3	3035	3536	91162920	91163418	1.380000e-178	636
7	TraesCS7D01G395600	chr3D	98.707	851	8	3	13	862	66253615	66252767	0.000000e+00	1507
8	TraesCS7D01G395600	chr3D	95.814	884	10	6	13	871	406152781	406153662	0.000000e+00	1402
9	TraesCS7D01G395600	chr3D	95.652	874	14	3	13	862	114396757	114397630	0.000000e+00	1382
10	TraesCS7D01G395600	chr5D	97.011	870	6	2	13	862	58672029	58672898	0.000000e+00	1445
11	TraesCS7D01G395600	chr5D	97.196	107	3	0	13	119	384157377	384157271	7.800000e-42	182
12	TraesCS7D01G395600	chr4D	96.782	870	8	2	13	862	469102841	469101972	0.000000e+00	1434
13	TraesCS7D01G395600	chr2D	96.556	871	9	3	13	863	114802997	114802128	0.000000e+00	1423
14	TraesCS7D01G395600	chr2D	96.343	875	7	6	13	865	97605013	97604142	0.000000e+00	1415
15	TraesCS7D01G395600	chr6D	96.437	870	7	3	13	862	400785377	400784512	0.000000e+00	1413
16	TraesCS7D01G395600	chr6D	96.101	872	11	4	13	862	469310882	469310012	0.000000e+00	1400
17	TraesCS7D01G395600	chr6D	98.469	784	12	0	79	862	81149759	81150542	0.000000e+00	1382
18	TraesCS7D01G395600	chr6D	95.082	854	36	3	13	862	445312800	445311949	0.000000e+00	1339

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	TraesCS7D01G395600	chr7D	510434221	510437756	3535	False	6530	6530	100.000	1	3536	1	chr7D.!!$F1	3535
1	TraesCS7D01G395600	chr3A	512324342	512326931	2589	True	4372	4372	97.144	948	3536	1	chr3A.!!$R1	2588
2	TraesCS7D01G395600	chr7A	688877031	688879622	2591	False	4368	4368	97.106	948	3536	1	chr7A.!!$F3	2588
3	TraesCS7D01G395600	chr1A	460991457	460994048	2591	False	4357	4357	97.029	948	3536	1	chr1A.!!$F2	2588
4	TraesCS7D01G395600	chr3D	66252767	66253615	848	True	1507	1507	98.707	13	862	1	chr3D.!!$R1	849
5	TraesCS7D01G395600	chr3D	406152781	406153662	881	False	1402	1402	95.814	13	871	1	chr3D.!!$F2	858
6	TraesCS7D01G395600	chr3D	114396757	114397630	873	False	1382	1382	95.652	13	862	1	chr3D.!!$F1	849
7	TraesCS7D01G395600	chr5D	58672029	58672898	869	False	1445	1445	97.011	13	862	1	chr5D.!!$F1	849
8	TraesCS7D01G395600	chr4D	469101972	469102841	869	True	1434	1434	96.782	13	862	1	chr4D.!!$R1	849
9	TraesCS7D01G395600	chr2D	114802128	114802997	869	True	1423	1423	96.556	13	863	1	chr2D.!!$R2	850
10	TraesCS7D01G395600	chr2D	97604142	97605013	871	True	1415	1415	96.343	13	865	1	chr2D.!!$R1	852
11	TraesCS7D01G395600	chr6D	400784512	400785377	865	True	1413	1413	96.437	13	862	1	chr6D.!!$R1	849
12	TraesCS7D01G395600	chr6D	469310012	469310882	870	True	1400	1400	96.101	13	862	1	chr6D.!!$R3	849
13	TraesCS7D01G395600	chr6D	81149759	81150542	783	False	1382	1382	98.469	79	862	1	chr6D.!!$F1	783
14	TraesCS7D01G395600	chr6D	445311949	445312800	851	True	1339	1339	95.082	13	862	1	chr6D.!!$R2	849

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
896	933	0.035725	TCCAGAAGCAGTGCCTCATG	60.036	55.0	15.93	10.41	0.0	3.07	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2713	2751	0.248843	GCCCAGGAGAGAACAGACAG	59.751	60.0	0.0	0.0	0.0	3.51	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
104	125	5.581605	ACAGTGAACATGAACAATGAACAC	58.418	37.500	22.38	0.00	41.39	3.32
201	222	0.039618	GGCAATGAACCTCCTCCCAA	59.960	55.000	0.00	0.00	0.00	4.12
219	240	3.545703	CCAATGCTAATCCCTTCGAAGT	58.454	45.455	23.03	7.77	0.00	3.01
254	275	2.677524	GGCTGGCCATGCTCACAA	60.678	61.111	21.48	0.00	35.81	3.33
817	854	7.636326	CAACAGATTAACGACTTGGTAGTTTT	58.364	34.615	0.00	0.00	33.77	2.43
864	901	2.627699	GGTTTCTTGCAATTGACTCCCA	59.372	45.455	10.34	0.00	0.00	4.37
871	908	5.305128	TCTTGCAATTGACTCCCAAATCTTT	59.695	36.000	10.34	0.00	38.43	2.52
872	909	5.138125	TGCAATTGACTCCCAAATCTTTC	57.862	39.130	10.34	0.00	38.43	2.62
873	910	4.021192	TGCAATTGACTCCCAAATCTTTCC	60.021	41.667	10.34	0.00	38.43	3.13
874	911	4.621510	GCAATTGACTCCCAAATCTTTCCC	60.622	45.833	10.34	0.00	38.43	3.97
875	912	4.682021	ATTGACTCCCAAATCTTTCCCT	57.318	40.909	0.00	0.00	38.43	4.20
876	913	3.721087	TGACTCCCAAATCTTTCCCTC	57.279	47.619	0.00	0.00	0.00	4.30
877	914	3.260205	TGACTCCCAAATCTTTCCCTCT	58.740	45.455	0.00	0.00	0.00	3.69
878	915	3.264450	TGACTCCCAAATCTTTCCCTCTC	59.736	47.826	0.00	0.00	0.00	3.20
879	916	2.578480	ACTCCCAAATCTTTCCCTCTCC	59.422	50.000	0.00	0.00	0.00	3.71
880	917	2.578021	CTCCCAAATCTTTCCCTCTCCA	59.422	50.000	0.00	0.00	0.00	3.86
881	918	2.578021	TCCCAAATCTTTCCCTCTCCAG	59.422	50.000	0.00	0.00	0.00	3.86
882	919	2.578021	CCCAAATCTTTCCCTCTCCAGA	59.422	50.000	0.00	0.00	0.00	3.86
883	920	3.010584	CCCAAATCTTTCCCTCTCCAGAA	59.989	47.826	0.00	0.00	0.00	3.02
884	921	4.268359	CCAAATCTTTCCCTCTCCAGAAG	58.732	47.826	0.00	0.00	0.00	2.85
885	922	3.643199	AATCTTTCCCTCTCCAGAAGC	57.357	47.619	0.00	0.00	0.00	3.86
886	923	2.030027	TCTTTCCCTCTCCAGAAGCA	57.970	50.000	0.00	0.00	0.00	3.91
887	924	1.905215	TCTTTCCCTCTCCAGAAGCAG	59.095	52.381	0.00	0.00	0.00	4.24
888	925	1.627834	CTTTCCCTCTCCAGAAGCAGT	59.372	52.381	0.00	0.00	0.00	4.40
889	926	0.979665	TTCCCTCTCCAGAAGCAGTG	59.020	55.000	0.00	0.00	0.00	3.66
890	927	1.078567	CCCTCTCCAGAAGCAGTGC	60.079	63.158	7.13	7.13	0.00	4.40
891	928	1.078567	CCTCTCCAGAAGCAGTGCC	60.079	63.158	12.58	0.00	0.00	5.01
892	929	1.551908	CCTCTCCAGAAGCAGTGCCT	61.552	60.000	12.58	0.00	0.00	4.75
893	930	0.108233	CTCTCCAGAAGCAGTGCCTC	60.108	60.000	12.58	8.85	0.00	4.70
894	931	0.833409	TCTCCAGAAGCAGTGCCTCA	60.833	55.000	15.93	0.00	0.00	3.86
895	932	0.252479	CTCCAGAAGCAGTGCCTCAT	59.748	55.000	15.93	0.00	0.00	2.90
896	933	0.035725	TCCAGAAGCAGTGCCTCATG	60.036	55.000	15.93	10.41	0.00	3.07
897	934	0.322277	CCAGAAGCAGTGCCTCATGT	60.322	55.000	15.93	0.00	0.00	3.21
898	935	1.065926	CCAGAAGCAGTGCCTCATGTA	60.066	52.381	15.93	0.00	0.00	2.29
899	936	2.421107	CCAGAAGCAGTGCCTCATGTAT	60.421	50.000	15.93	0.00	0.00	2.29
900	937	3.276857	CAGAAGCAGTGCCTCATGTATT	58.723	45.455	15.93	0.00	0.00	1.89
901	938	3.693085	CAGAAGCAGTGCCTCATGTATTT	59.307	43.478	15.93	0.00	0.00	1.40
902	939	4.877823	CAGAAGCAGTGCCTCATGTATTTA	59.122	41.667	15.93	0.00	0.00	1.40
903	940	5.530171	CAGAAGCAGTGCCTCATGTATTTAT	59.470	40.000	15.93	0.00	0.00	1.40
904	941	5.762218	AGAAGCAGTGCCTCATGTATTTATC	59.238	40.000	15.93	0.00	0.00	1.75
905	942	4.392940	AGCAGTGCCTCATGTATTTATCC	58.607	43.478	12.58	0.00	0.00	2.59
906	943	4.136796	GCAGTGCCTCATGTATTTATCCA	58.863	43.478	2.85	0.00	0.00	3.41
907	944	4.214971	GCAGTGCCTCATGTATTTATCCAG	59.785	45.833	2.85	0.00	0.00	3.86
908	945	4.214971	CAGTGCCTCATGTATTTATCCAGC	59.785	45.833	0.00	0.00	0.00	4.85
909	946	4.103785	AGTGCCTCATGTATTTATCCAGCT	59.896	41.667	0.00	0.00	0.00	4.24
910	947	5.307976	AGTGCCTCATGTATTTATCCAGCTA	59.692	40.000	0.00	0.00	0.00	3.32
911	948	5.409826	GTGCCTCATGTATTTATCCAGCTAC	59.590	44.000	0.00	0.00	0.00	3.58
912	949	5.071653	TGCCTCATGTATTTATCCAGCTACA	59.928	40.000	0.00	0.00	0.00	2.74
913	950	5.409826	GCCTCATGTATTTATCCAGCTACAC	59.590	44.000	0.00	0.00	0.00	2.90
914	951	6.524734	CCTCATGTATTTATCCAGCTACACA	58.475	40.000	0.00	0.00	0.00	3.72
915	952	6.992123	CCTCATGTATTTATCCAGCTACACAA	59.008	38.462	0.00	0.00	0.00	3.33
916	953	7.663081	CCTCATGTATTTATCCAGCTACACAAT	59.337	37.037	0.00	0.00	0.00	2.71
917	954	8.978874	TCATGTATTTATCCAGCTACACAATT	57.021	30.769	0.00	0.00	0.00	2.32
924	961	9.646522	ATTTATCCAGCTACACAATTATTCCTT	57.353	29.630	0.00	0.00	0.00	3.36
925	962	9.474313	TTTATCCAGCTACACAATTATTCCTTT	57.526	29.630	0.00	0.00	0.00	3.11
929	966	9.555727	TCCAGCTACACAATTATTCCTTTATAC	57.444	33.333	0.00	0.00	0.00	1.47
930	967	9.561069	CCAGCTACACAATTATTCCTTTATACT	57.439	33.333	0.00	0.00	0.00	2.12
932	969	9.780186	AGCTACACAATTATTCCTTTATACTCC	57.220	33.333	0.00	0.00	0.00	3.85
933	970	8.709646	GCTACACAATTATTCCTTTATACTCCG	58.290	37.037	0.00	0.00	0.00	4.63
934	971	7.492352	ACACAATTATTCCTTTATACTCCGC	57.508	36.000	0.00	0.00	0.00	5.54
935	972	7.051623	ACACAATTATTCCTTTATACTCCGCA	58.948	34.615	0.00	0.00	0.00	5.69
936	973	7.226720	ACACAATTATTCCTTTATACTCCGCAG	59.773	37.037	0.00	0.00	0.00	5.18
1136	1173	1.367840	GCCTGAAGACGGACACAGT	59.632	57.895	0.00	0.00	0.00	3.55
1143	1180	4.664677	ACGGACACAGTGGCGCTC	62.665	66.667	7.64	0.45	0.00	5.03
1263	1300	2.433446	CTGCAGCACAGGGTCCTT	59.567	61.111	0.00	0.00	43.19	3.36
1280	1317	2.191400	CCTTCTTCACCTCTCCATCCA	58.809	52.381	0.00	0.00	0.00	3.41
1719	1757	1.063183	AGCAACTCCTTCTTGGCTCT	58.937	50.000	0.00	0.00	35.26	4.09
1944	1982	1.815421	CGGCTTCATTCCGTCCCAG	60.815	63.158	0.00	0.00	41.85	4.45
2238	2276	2.904866	GGTGGGTTCACGCTGCAA	60.905	61.111	0.00	0.00	44.50	4.08
2540	2578	2.042831	AGGACGCCATTTGAGCAGC	61.043	57.895	0.00	0.00	0.00	5.25
2713	2751	2.012673	CCAGTCTGATTGCTACAAGGC	58.987	52.381	0.00	0.00	0.00	4.35
3008	3046	5.068198	CCTTATTTTGTGGGATGATCACCTG	59.932	44.000	0.00	0.00	34.46	4.00
3235	3273	2.355209	GGGCAAGGGACAAAAACAACAA	60.355	45.455	0.00	0.00	0.00	2.83
3242	3280	7.366513	CAAGGGACAAAAACAACAAAAACATT	58.633	30.769	0.00	0.00	0.00	2.71
3261	3299	9.886132	AAAACATTAATAGAAGTCGTATCACCT	57.114	29.630	0.00	0.00	0.00	4.00
3293	3333	2.079925	GCCCTACAAGCTTGAACTCAG	58.920	52.381	32.50	18.23	0.00	3.35
3296	3336	3.007398	CCCTACAAGCTTGAACTCAGAGT	59.993	47.826	32.50	9.46	0.00	3.24
3315	3355	5.981915	CAGAGTAATTCATCTGCAGAATCGA	59.018	40.000	22.50	14.71	36.80	3.59
3436	3476	2.835027	TGCATGCTCTCTCATCATCAC	58.165	47.619	20.33	0.00	0.00	3.06
3452	3492	0.467474	TCACTGTCCGACCACTGTCT	60.467	55.000	0.00	0.00	39.47	3.41
3501	3542	0.833949	GGAGGCCTAGAACCTTCAGG	59.166	60.000	4.42	0.00	37.77	3.86
3520	3561	3.008485	CAGGTTTGAGAACTTCTAGGCCT	59.992	47.826	11.78	11.78	36.03	5.19

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
10	11	9.778741	AGTGACTGAGTGAAGTAAATGAATTAA	57.221	29.630	0.00	0.00	0.00	1.40
201	222	5.741011	TGTTTACTTCGAAGGGATTAGCAT	58.259	37.500	27.86	7.20	0.00	3.79
254	275	4.783560	TGATGATGAGGTGATGGTGATT	57.216	40.909	0.00	0.00	0.00	2.57
817	854	2.356665	TTTGTGGCTAGGTTTGCAGA	57.643	45.000	0.00	0.00	0.00	4.26
864	901	3.331889	TGCTTCTGGAGAGGGAAAGATTT	59.668	43.478	0.00	0.00	0.00	2.17
871	908	1.548357	GCACTGCTTCTGGAGAGGGA	61.548	60.000	0.00	0.00	35.49	4.20
872	909	1.078567	GCACTGCTTCTGGAGAGGG	60.079	63.158	0.00	0.00	35.49	4.30
873	910	1.078567	GGCACTGCTTCTGGAGAGG	60.079	63.158	0.00	0.00	35.49	3.69
874	911	0.108233	GAGGCACTGCTTCTGGAGAG	60.108	60.000	5.90	0.00	41.55	3.20
875	912	0.833409	TGAGGCACTGCTTCTGGAGA	60.833	55.000	13.76	0.00	41.55	3.71
876	913	0.252479	ATGAGGCACTGCTTCTGGAG	59.748	55.000	13.76	0.00	41.55	3.86
877	914	0.035725	CATGAGGCACTGCTTCTGGA	60.036	55.000	13.76	0.00	41.55	3.86
878	915	0.322277	ACATGAGGCACTGCTTCTGG	60.322	55.000	13.76	8.44	41.55	3.86
879	916	2.391616	TACATGAGGCACTGCTTCTG	57.608	50.000	13.76	11.33	41.55	3.02
880	917	3.641434	AATACATGAGGCACTGCTTCT	57.359	42.857	13.76	0.00	41.55	2.85
881	918	5.049129	GGATAAATACATGAGGCACTGCTTC	60.049	44.000	6.20	6.20	41.55	3.86
882	919	4.823989	GGATAAATACATGAGGCACTGCTT	59.176	41.667	0.00	0.00	41.55	3.91
883	920	4.141413	TGGATAAATACATGAGGCACTGCT	60.141	41.667	0.00	0.00	41.55	4.24
884	921	4.136796	TGGATAAATACATGAGGCACTGC	58.863	43.478	0.00	0.00	41.55	4.40
885	922	4.214971	GCTGGATAAATACATGAGGCACTG	59.785	45.833	0.00	0.00	41.55	3.66
887	924	4.392940	AGCTGGATAAATACATGAGGCAC	58.607	43.478	0.00	0.00	0.00	5.01
888	925	4.712051	AGCTGGATAAATACATGAGGCA	57.288	40.909	0.00	0.00	0.00	4.75
889	926	5.409826	GTGTAGCTGGATAAATACATGAGGC	59.590	44.000	0.00	0.00	31.35	4.70
890	927	6.524734	TGTGTAGCTGGATAAATACATGAGG	58.475	40.000	0.00	0.00	31.35	3.86
891	928	8.613060	ATTGTGTAGCTGGATAAATACATGAG	57.387	34.615	0.00	0.00	31.35	2.90
892	929	8.978874	AATTGTGTAGCTGGATAAATACATGA	57.021	30.769	0.00	0.00	31.35	3.07
898	935	9.646522	AAGGAATAATTGTGTAGCTGGATAAAT	57.353	29.630	0.00	0.00	0.00	1.40
899	936	9.474313	AAAGGAATAATTGTGTAGCTGGATAAA	57.526	29.630	0.00	0.00	0.00	1.40
903	940	9.555727	GTATAAAGGAATAATTGTGTAGCTGGA	57.444	33.333	0.00	0.00	0.00	3.86
904	941	9.561069	AGTATAAAGGAATAATTGTGTAGCTGG	57.439	33.333	0.00	0.00	0.00	4.85
906	943	9.780186	GGAGTATAAAGGAATAATTGTGTAGCT	57.220	33.333	0.00	0.00	0.00	3.32
907	944	8.709646	CGGAGTATAAAGGAATAATTGTGTAGC	58.290	37.037	0.00	0.00	0.00	3.58
908	945	8.709646	GCGGAGTATAAAGGAATAATTGTGTAG	58.290	37.037	0.00	0.00	0.00	2.74
909	946	8.205512	TGCGGAGTATAAAGGAATAATTGTGTA	58.794	33.333	0.00	0.00	0.00	2.90
910	947	7.051623	TGCGGAGTATAAAGGAATAATTGTGT	58.948	34.615	0.00	0.00	0.00	3.72
911	948	7.307989	CCTGCGGAGTATAAAGGAATAATTGTG	60.308	40.741	2.36	0.00	0.00	3.33
912	949	6.710744	CCTGCGGAGTATAAAGGAATAATTGT	59.289	38.462	2.36	0.00	0.00	2.71
913	950	6.934645	TCCTGCGGAGTATAAAGGAATAATTG	59.065	38.462	2.36	0.00	34.11	2.32
914	951	7.074653	TCCTGCGGAGTATAAAGGAATAATT	57.925	36.000	2.36	0.00	34.11	1.40
915	952	6.681729	TCCTGCGGAGTATAAAGGAATAAT	57.318	37.500	2.36	0.00	34.11	1.28
916	953	6.097915	CTCCTGCGGAGTATAAAGGAATAA	57.902	41.667	14.22	0.00	44.25	1.40
917	954	5.723672	CTCCTGCGGAGTATAAAGGAATA	57.276	43.478	14.22	0.00	44.25	1.75
918	955	4.608948	CTCCTGCGGAGTATAAAGGAAT	57.391	45.455	14.22	0.00	44.25	3.01
930	967	2.650116	GGCTCAAGTCTCCTGCGGA	61.650	63.158	0.00	0.00	0.00	5.54
931	968	2.125350	GGCTCAAGTCTCCTGCGG	60.125	66.667	0.00	0.00	0.00	5.69
932	969	2.125350	GGGCTCAAGTCTCCTGCG	60.125	66.667	0.00	0.00	0.00	5.18
933	970	2.125350	CGGGCTCAAGTCTCCTGC	60.125	66.667	0.00	0.00	0.00	4.85
934	971	2.125350	GCGGGCTCAAGTCTCCTG	60.125	66.667	0.00	0.00	0.00	3.86
935	972	1.965754	GATGCGGGCTCAAGTCTCCT	61.966	60.000	0.00	0.00	0.00	3.69
936	973	1.522580	GATGCGGGCTCAAGTCTCC	60.523	63.158	0.00	0.00	0.00	3.71
937	974	1.522580	GGATGCGGGCTCAAGTCTC	60.523	63.158	0.00	0.00	0.00	3.36
938	975	2.249413	CTGGATGCGGGCTCAAGTCT	62.249	60.000	0.00	0.00	0.00	3.24
939	976	1.817099	CTGGATGCGGGCTCAAGTC	60.817	63.158	0.00	0.00	0.00	3.01
940	977	2.270205	CTGGATGCGGGCTCAAGT	59.730	61.111	0.00	0.00	0.00	3.16
941	978	3.207669	GCTGGATGCGGGCTCAAG	61.208	66.667	0.00	0.00	0.00	3.02
1263	1300	3.036819	CTCATGGATGGAGAGGTGAAGA	58.963	50.000	0.00	0.00	34.24	2.87
1280	1317	2.270205	CGCCCACCTTCTGCTCAT	59.730	61.111	0.00	0.00	0.00	2.90
1531	1568	2.668550	GTCTTGGTTCCGCGGCTT	60.669	61.111	23.51	0.00	0.00	4.35
1842	1880	1.269831	GGTGATAGAGGCGGTGATGAC	60.270	57.143	0.00	0.00	0.00	3.06
1851	1889	0.527817	CGGACGTTGGTGATAGAGGC	60.528	60.000	0.00	0.00	0.00	4.70
1884	1922	2.332654	ATCCCGCTTTGAACGTGGC	61.333	57.895	0.00	0.00	0.00	5.01
1944	1982	0.892814	AGCAAAGCTCCAGAGTTGCC	60.893	55.000	13.53	0.00	30.62	4.52
2007	2045	2.971452	GAGCTCTCGAAACCCGGT	59.029	61.111	6.43	0.00	39.14	5.28
2238	2276	3.570212	AGCCTGGCGGTTGTCCTT	61.570	61.111	13.96	0.00	0.00	3.36
2308	2346	2.372690	CGAGACCGCGACAAACCAG	61.373	63.158	8.23	0.00	0.00	4.00
2540	2578	1.922821	CCCTACAACCATCCAGGGG	59.077	63.158	0.00	0.00	43.55	4.79
2713	2751	0.248843	GCCCAGGAGAGAACAGACAG	59.751	60.000	0.00	0.00	0.00	3.51
3008	3046	2.866762	GGTGATATTCGTCAGCTCAACC	59.133	50.000	0.00	0.00	41.96	3.77
3235	3273	9.886132	AGGTGATACGACTTCTATTAATGTTTT	57.114	29.630	0.00	0.00	0.00	2.43
3242	3280	7.172190	CGGAAGTAGGTGATACGACTTCTATTA	59.828	40.741	15.29	0.00	44.66	0.98
3261	3299	1.868713	TGTAGGGCATTCCGGAAGTA	58.131	50.000	23.47	0.00	41.52	2.24
3262	3300	0.988832	TTGTAGGGCATTCCGGAAGT	59.011	50.000	23.47	8.13	41.52	3.01
3293	3333	6.699204	TCTTCGATTCTGCAGATGAATTACTC	59.301	38.462	19.04	4.02	34.67	2.59
3296	3336	7.712205	TGAATCTTCGATTCTGCAGATGAATTA	59.288	33.333	19.04	12.66	34.67	1.40
3315	3355	4.914983	TCTCATTGCTCCAAGTGAATCTT	58.085	39.130	0.00	0.00	36.75	2.40
3452	3492	2.693762	GCATCGGCAAGCAAGAGCA	61.694	57.895	0.00	0.00	41.27	4.26
3501	3542	3.008049	TGGAGGCCTAGAAGTTCTCAAAC	59.992	47.826	4.42	0.00	35.50	2.93

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.