AutoCloner

Multiple sequence alignment - TraesCS1A01G062300

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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	TraesCS1A01G062300	chr1A	100.000	2759	0	0	1	2759	42603917	42606675	0.000000e+00	5096.0
1	TraesCS1A01G062300	chr5B	92.109	2015	152	6	744	2758	539260302	539262309	0.000000e+00	2833.0
2	TraesCS1A01G062300	chr4D	94.869	1793	92	0	967	2759	134667540	134669332	0.000000e+00	2802.0
3	TraesCS1A01G062300	chr4D	91.797	256	19	2	717	971	134665714	134665968	3.380000e-94	355.0
4	TraesCS1A01G062300	chr4A	93.152	1358	93	0	1402	2759	699907699	699906342	0.000000e+00	1993.0
5	TraesCS1A01G062300	chr4A	90.131	689	64	3	719	1406	699912366	699911681	0.000000e+00	893.0
6	TraesCS1A01G062300	chr7A	93.991	649	39	0	2111	2759	664539955	664540603	0.000000e+00	983.0
7	TraesCS1A01G062300	chr7A	73.730	571	125	19	2179	2737	139761904	139762461	1.680000e-47	200.0
8	TraesCS1A01G062300	chr7A	100.000	35	0	0	676	710	9052797	9052763	6.380000e-07	65.8
9	TraesCS1A01G062300	chr1B	91.618	680	34	15	1	675	63091494	63092155	0.000000e+00	918.0
10	TraesCS1A01G062300	chr1B	90.857	525	47	1	2235	2759	332810226	332810749	0.000000e+00	702.0
11	TraesCS1A01G062300	chr7B	84.494	890	132	4	972	1860	679833326	679832442	0.000000e+00	874.0
12	TraesCS1A01G062300	chr7B	82.366	896	156	2	1866	2759	679822417	679821522	0.000000e+00	778.0
13	TraesCS1A01G062300	chr1D	75.650	1770	375	41	1031	2759	71646237	71644483	0.000000e+00	830.0
14	TraesCS1A01G062300	chr1D	79.905	846	164	5	1061	1902	326779673	326780516	1.400000e-172	616.0
15	TraesCS1A01G062300	chr7D	78.731	898	181	8	1031	1922	585606659	585607552	2.370000e-165	592.0
16	TraesCS1A01G062300	chr7D	78.579	901	182	9	1012	1905	610454764	610455660	3.960000e-163	584.0
17	TraesCS1A01G062300	chr3D	78.508	898	184	7	1031	1922	570352669	570353563	5.120000e-162	580.0
18	TraesCS1A01G062300	chr3D	75.157	479	111	8	2246	2720	466296530	466296056	4.630000e-53	219.0
19	TraesCS1A01G062300	chr2D	91.797	256	13	4	1	252	4496947	4496696	1.570000e-92	350.0
20	TraesCS1A01G062300	chr2D	84.694	98	15	0	571	668	4496250	4496153	6.290000e-17	99.0
21	TraesCS1A01G062300	chr6A	93.064	173	12	0	2587	2759	514479468	514479640	1.270000e-63	254.0
22	TraesCS1A01G062300	chr6B	76.585	410	84	11	2242	2645	41521045	41520642	5.980000e-52	215.0
23	TraesCS1A01G062300	chrUn	84.694	98	15	0	571	668	270954050	270954147	6.290000e-17	99.0
24	TraesCS1A01G062300	chr5D	80.833	120	19	4	2276	2393	13986372	13986255	1.050000e-14	91.6
25	TraesCS1A01G062300	chr5D	90.698	43	4	0	524	566	348500033	348499991	1.070000e-04	58.4
26	TraesCS1A01G062300	chr6D	92.308	52	4	0	520	571	292029083	292029134	1.060000e-09	75.0
27	TraesCS1A01G062300	chr6D	92.308	52	3	1	520	571	117413099	117413149	3.810000e-09	73.1
28	TraesCS1A01G062300	chr6D	92.000	50	4	0	523	572	34399188	34399139	1.370000e-08	71.3
29	TraesCS1A01G062300	chr2A	93.878	49	2	1	524	571	7731257	7731305	3.810000e-09	73.1

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	TraesCS1A01G062300	chr1A	42603917	42606675	2758	False	5096.0	5096	100.0000	1	2759	1	chr1A.!!$F1	2758
1	TraesCS1A01G062300	chr5B	539260302	539262309	2007	False	2833.0	2833	92.1090	744	2758	1	chr5B.!!$F1	2014
2	TraesCS1A01G062300	chr4D	134665714	134669332	3618	False	1578.5	2802	93.3330	717	2759	2	chr4D.!!$F1	2042
3	TraesCS1A01G062300	chr4A	699906342	699912366	6024	True	1443.0	1993	91.6415	719	2759	2	chr4A.!!$R1	2040
4	TraesCS1A01G062300	chr7A	664539955	664540603	648	False	983.0	983	93.9910	2111	2759	1	chr7A.!!$F2	648
5	TraesCS1A01G062300	chr1B	63091494	63092155	661	False	918.0	918	91.6180	1	675	1	chr1B.!!$F1	674
6	TraesCS1A01G062300	chr1B	332810226	332810749	523	False	702.0	702	90.8570	2235	2759	1	chr1B.!!$F2	524
7	TraesCS1A01G062300	chr7B	679832442	679833326	884	True	874.0	874	84.4940	972	1860	1	chr7B.!!$R2	888
8	TraesCS1A01G062300	chr7B	679821522	679822417	895	True	778.0	778	82.3660	1866	2759	1	chr7B.!!$R1	893
9	TraesCS1A01G062300	chr1D	71644483	71646237	1754	True	830.0	830	75.6500	1031	2759	1	chr1D.!!$R1	1728
10	TraesCS1A01G062300	chr1D	326779673	326780516	843	False	616.0	616	79.9050	1061	1902	1	chr1D.!!$F1	841
11	TraesCS1A01G062300	chr7D	585606659	585607552	893	False	592.0	592	78.7310	1031	1922	1	chr7D.!!$F1	891
12	TraesCS1A01G062300	chr7D	610454764	610455660	896	False	584.0	584	78.5790	1012	1905	1	chr7D.!!$F2	893
13	TraesCS1A01G062300	chr3D	570352669	570353563	894	False	580.0	580	78.5080	1031	1922	1	chr3D.!!$F1	891
14	TraesCS1A01G062300	chr2D	4496153	4496947	794	True	224.5	350	88.2455	1	668	2	chr2D.!!$R1	667

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
714	1022	0.105039	CATAGCGAGTTGGGGAGGAC	59.895	60.0	0.0	0.0	0.0	3.85	F
715	1023	0.325296	ATAGCGAGTTGGGGAGGACA	60.325	55.0	0.0	0.0	0.0	4.02	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1757	7629	0.035317	TTCATTCGACCAGTGCAGCT	59.965	50.000	0.0	0.0	0.0	4.24	R
2109	8005	1.072965	CCTCCTCCACTTTCAAGCAGT	59.927	52.381	0.0	0.0	0.0	4.40	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
84	85	3.441222	TGCGGTGTATATATAGGGTGTCG	59.559	47.826	0.00	0.00	0.00	4.35
85	86	3.691118	GCGGTGTATATATAGGGTGTCGA	59.309	47.826	0.00	0.00	0.00	4.20
86	87	4.337555	GCGGTGTATATATAGGGTGTCGAT	59.662	45.833	0.00	0.00	0.00	3.59
87	88	5.505324	GCGGTGTATATATAGGGTGTCGATC	60.505	48.000	0.00	0.00	0.00	3.69
88	89	5.277202	CGGTGTATATATAGGGTGTCGATCG	60.277	48.000	9.36	9.36	0.00	3.69
96	97	2.125673	GTGTCGATCGGTGTGGGG	60.126	66.667	16.41	0.00	0.00	4.96
175	176	2.231235	CTGCACGGAGCCCTTTATTTTT	59.769	45.455	0.00	0.00	44.83	1.94
274	576	4.102681	AGAAGCTAGGTGTAGTTGTGGTTT	59.897	41.667	0.00	0.00	0.00	3.27
293	595	7.170277	GTGGTTTTTAGGAGGGTCTGTATTAA	58.830	38.462	0.00	0.00	0.00	1.40
344	646	5.601662	TCTCGGTGGATTAGATTGAACATC	58.398	41.667	0.00	0.00	0.00	3.06
380	683	9.866655	TGCACATCTCTAAATAAATATTCCCTT	57.133	29.630	0.00	0.00	0.00	3.95
414	722	4.837093	AATACCATTTTGAGACGGAGGA	57.163	40.909	0.00	0.00	0.00	3.71
430	738	8.943594	AGACGGAGGAAGTAGATAATTCTAAT	57.056	34.615	0.69	0.00	36.23	1.73
511	819	3.066203	AGTTGGTAGTGTTTCTTTTGCGG	59.934	43.478	0.00	0.00	0.00	5.69
531	839	4.915667	GCGGAAAGGAGTAACAAAATTCAC	59.084	41.667	0.00	0.00	0.00	3.18
556	864	5.524646	CGGAAGTACAAAGTACCTCAAACAA	59.475	40.000	7.87	0.00	0.00	2.83
578	886	8.364129	ACAAACTAAAAATTACATTGCACCAG	57.636	30.769	0.00	0.00	0.00	4.00
585	893	8.674263	AAAAATTACATTGCACCAGATTTGAA	57.326	26.923	0.00	0.00	0.00	2.69
588	896	8.851541	AATTACATTGCACCAGATTTGAAAAT	57.148	26.923	0.00	0.00	0.00	1.82
609	917	9.818796	GAAAATTTTGACAACTTTGCACTTTAA	57.181	25.926	8.47	0.00	0.00	1.52
675	983	7.048512	ACCACATAGCAAGTAAGAAATCCTAC	58.951	38.462	0.00	0.00	0.00	3.18
676	984	6.483640	CCACATAGCAAGTAAGAAATCCTACC	59.516	42.308	0.00	0.00	0.00	3.18
677	985	7.047891	CACATAGCAAGTAAGAAATCCTACCA	58.952	38.462	0.00	0.00	0.00	3.25
678	986	7.716998	CACATAGCAAGTAAGAAATCCTACCAT	59.283	37.037	0.00	0.00	0.00	3.55
679	987	8.934697	ACATAGCAAGTAAGAAATCCTACCATA	58.065	33.333	0.00	0.00	0.00	2.74
680	988	9.209175	CATAGCAAGTAAGAAATCCTACCATAC	57.791	37.037	0.00	0.00	0.00	2.39
681	989	6.592870	AGCAAGTAAGAAATCCTACCATACC	58.407	40.000	0.00	0.00	0.00	2.73
682	990	6.157994	AGCAAGTAAGAAATCCTACCATACCA	59.842	38.462	0.00	0.00	0.00	3.25
683	991	6.483640	GCAAGTAAGAAATCCTACCATACCAG	59.516	42.308	0.00	0.00	0.00	4.00
684	992	6.176014	AGTAAGAAATCCTACCATACCAGC	57.824	41.667	0.00	0.00	0.00	4.85
685	993	5.665812	AGTAAGAAATCCTACCATACCAGCA	59.334	40.000	0.00	0.00	0.00	4.41
686	994	4.696479	AGAAATCCTACCATACCAGCAG	57.304	45.455	0.00	0.00	0.00	4.24
687	995	4.040755	AGAAATCCTACCATACCAGCAGT	58.959	43.478	0.00	0.00	0.00	4.40
688	996	5.216622	AGAAATCCTACCATACCAGCAGTA	58.783	41.667	0.00	0.00	34.76	2.74
689	997	5.665812	AGAAATCCTACCATACCAGCAGTAA	59.334	40.000	0.00	0.00	33.70	2.24
690	998	4.957684	ATCCTACCATACCAGCAGTAAC	57.042	45.455	0.00	0.00	33.70	2.50
691	999	3.036091	TCCTACCATACCAGCAGTAACC	58.964	50.000	0.00	0.00	33.70	2.85
692	1000	2.104281	CCTACCATACCAGCAGTAACCC	59.896	54.545	0.00	0.00	33.70	4.11
693	1001	1.663911	ACCATACCAGCAGTAACCCA	58.336	50.000	0.00	0.00	33.70	4.51
694	1002	1.989586	ACCATACCAGCAGTAACCCAA	59.010	47.619	0.00	0.00	33.70	4.12
695	1003	2.290705	ACCATACCAGCAGTAACCCAAC	60.291	50.000	0.00	0.00	33.70	3.77
696	1004	2.290641	CCATACCAGCAGTAACCCAACA	60.291	50.000	0.00	0.00	33.70	3.33
697	1005	3.620488	CATACCAGCAGTAACCCAACAT	58.380	45.455	0.00	0.00	33.70	2.71
698	1006	4.384757	CCATACCAGCAGTAACCCAACATA	60.385	45.833	0.00	0.00	33.70	2.29
699	1007	3.350219	ACCAGCAGTAACCCAACATAG	57.650	47.619	0.00	0.00	0.00	2.23
700	1008	2.017049	CCAGCAGTAACCCAACATAGC	58.983	52.381	0.00	0.00	0.00	2.97
701	1009	1.665679	CAGCAGTAACCCAACATAGCG	59.334	52.381	0.00	0.00	0.00	4.26
702	1010	1.553248	AGCAGTAACCCAACATAGCGA	59.447	47.619	0.00	0.00	0.00	4.93
703	1011	1.933853	GCAGTAACCCAACATAGCGAG	59.066	52.381	0.00	0.00	0.00	5.03
704	1012	2.677037	GCAGTAACCCAACATAGCGAGT	60.677	50.000	0.00	0.00	0.00	4.18
705	1013	3.596214	CAGTAACCCAACATAGCGAGTT	58.404	45.455	0.00	0.00	0.00	3.01
706	1014	3.370978	CAGTAACCCAACATAGCGAGTTG	59.629	47.826	10.67	10.67	44.47	3.16
710	1018	3.853104	CAACATAGCGAGTTGGGGA	57.147	52.632	10.01	0.00	41.92	4.81
711	1019	1.656652	CAACATAGCGAGTTGGGGAG	58.343	55.000	10.01	0.00	41.92	4.30
712	1020	0.541863	AACATAGCGAGTTGGGGAGG	59.458	55.000	0.00	0.00	0.00	4.30
713	1021	0.325296	ACATAGCGAGTTGGGGAGGA	60.325	55.000	0.00	0.00	0.00	3.71
714	1022	0.105039	CATAGCGAGTTGGGGAGGAC	59.895	60.000	0.00	0.00	0.00	3.85
715	1023	0.325296	ATAGCGAGTTGGGGAGGACA	60.325	55.000	0.00	0.00	0.00	4.02
761	1070	1.300971	TACCCTGTTCTCCGACGACG	61.301	60.000	0.00	0.00	39.43	5.12
781	1090	2.202756	GCCGGAGTCCACATCGAC	60.203	66.667	5.05	0.00	0.00	4.20
794	1103	3.894547	ATCGACCGGCCGCTGTTTT	62.895	57.895	22.85	0.00	0.00	2.43
810	1119	0.901580	TTTTCCTACCCGAGCCTCGT	60.902	55.000	13.83	0.00	38.40	4.18
829	1138	2.889617	CGCGTGGGGTGATCTACA	59.110	61.111	0.00	0.00	0.00	2.74
854	1164	2.353573	GCTCGGGGCCAGGTTTTA	59.646	61.111	4.39	0.00	34.27	1.52
883	1193	0.988145	TCCAGCTGTAATGGAGGGGG	60.988	60.000	13.81	0.00	41.96	5.40
928	1238	0.470268	ATCGGGAGAAGTAGGGAGGC	60.470	60.000	0.00	0.00	45.37	4.70
933	1243	2.188817	GGAGAAGTAGGGAGGCAAGAA	58.811	52.381	0.00	0.00	0.00	2.52
960	1270	2.203195	GGCAGTGATATGGGCGCA	60.203	61.111	10.83	5.70	0.00	6.09
964	1274	0.381801	CAGTGATATGGGCGCAAACC	59.618	55.000	10.83	0.93	0.00	3.27
988	2874	2.366435	GTGGGGGATCGGAGGGAA	60.366	66.667	0.00	0.00	0.00	3.97
990	2876	1.005556	TGGGGGATCGGAGGGAATT	59.994	57.895	0.00	0.00	0.00	2.17
996	2882	0.469917	GATCGGAGGGAATTCAGGCA	59.530	55.000	7.93	0.00	0.00	4.75
1077	2963	0.541863	ACCCAACCCTAGAAGATGCG	59.458	55.000	0.00	0.00	0.00	4.73
1099	2985	4.201910	CGTTCGAGGGCATGAATTTACATT	60.202	41.667	0.00	0.00	0.00	2.71
1191	3077	4.113354	CGCTGTTTAGGGTTCATACTCTC	58.887	47.826	0.00	0.00	36.25	3.20
1330	3216	1.596934	GACTGGAAGCGGGTGATGA	59.403	57.895	0.00	0.00	37.60	2.92
1341	3227	1.076705	GGTGATGAAAGGAGGCCCC	60.077	63.158	0.00	0.00	0.00	5.80
1400	3286	9.561069	GGAGTATGATGGATTTACAAATGTAGT	57.439	33.333	0.00	0.00	0.00	2.73
1416	7288	8.671921	ACAAATGTAGTTGAATATGCTCTTGAG	58.328	33.333	0.00	0.00	32.59	3.02
1479	7351	5.531287	TGGTTTAACAAGGAAGAAAGAGCTC	59.469	40.000	5.27	5.27	0.00	4.09
1539	7411	7.227873	TGTTTACTGTAATTGTGAATGAGGGA	58.772	34.615	0.37	0.00	0.00	4.20
1730	7602	1.396996	GTGTGGTGACGGTATTCATGC	59.603	52.381	0.00	0.00	0.00	4.06
1739	7611	2.691526	ACGGTATTCATGCTCCGACTAA	59.308	45.455	18.76	0.00	44.86	2.24
1757	7629	5.820423	CGACTAATTGTGAATGGGGTGATTA	59.180	40.000	0.00	0.00	0.00	1.75
1764	7636	1.678101	GAATGGGGTGATTAGCTGCAC	59.322	52.381	1.02	1.74	0.00	4.57
1788	7660	3.006728	AATGAACCGGCGGGAGGA	61.007	61.111	31.78	11.38	36.97	3.71
1812	7684	2.032151	GCAAGAGGAGGTAGAGGAGGG	61.032	61.905	0.00	0.00	0.00	4.30
1839	7714	2.206900	TCAGGTGCAGGAAGGGGA	59.793	61.111	0.00	0.00	0.00	4.81
1884	7759	1.618888	CGGGGAGGTAGAAGTGGAGAA	60.619	57.143	0.00	0.00	0.00	2.87
2015	7911	2.003548	GGGGAGGAGATGCAAGGGT	61.004	63.158	0.00	0.00	0.00	4.34
2025	7921	2.156098	GATGCAAGGGTTGTCCGTAAA	58.844	47.619	0.00	0.00	41.52	2.01
2109	8005	5.010314	CGGTAAGGTATCCAATACAGTGCTA	59.990	44.000	0.00	0.00	37.48	3.49
2147	8046	1.208165	GGGGATGGTTCTCAGGGTGT	61.208	60.000	0.00	0.00	0.00	4.16
2610	8512	3.165071	TGCATATATGGAGAGCCGAGAA	58.835	45.455	14.51	0.00	36.79	2.87
2613	8515	5.181748	GCATATATGGAGAGCCGAGAATTT	58.818	41.667	14.51	0.00	36.79	1.82
2681	8583	1.077501	TGACTTGCCATGGCTAGCC	60.078	57.895	37.74	31.05	45.28	3.93
2737	8639	1.093972	CATATGTCTGCCACGCCAAA	58.906	50.000	0.00	0.00	0.00	3.28
2738	8640	1.064505	CATATGTCTGCCACGCCAAAG	59.935	52.381	0.00	0.00	0.00	2.77
2745	8647	3.222855	CCACGCCAAAGCCACCAA	61.223	61.111	0.00	0.00	34.57	3.67

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
44	45	0.165944	CACCAACGGCGACAGAATTC	59.834	55.000	16.62	0.00	0.00	2.17
84	85	0.105039	CTAGCTTCCCCACACCGATC	59.895	60.000	0.00	0.00	0.00	3.69
85	86	1.338136	CCTAGCTTCCCCACACCGAT	61.338	60.000	0.00	0.00	0.00	4.18
86	87	1.987855	CCTAGCTTCCCCACACCGA	60.988	63.158	0.00	0.00	0.00	4.69
87	88	1.961180	CTCCTAGCTTCCCCACACCG	61.961	65.000	0.00	0.00	0.00	4.94
88	89	0.910088	ACTCCTAGCTTCCCCACACC	60.910	60.000	0.00	0.00	0.00	4.16
96	97	4.277423	CACCTAGCTTCTACTCCTAGCTTC	59.723	50.000	0.00	0.00	42.30	3.86
249	254	5.024118	ACCACAACTACACCTAGCTTCTAT	58.976	41.667	0.00	0.00	0.00	1.98
274	576	7.899709	AGAACTCTTAATACAGACCCTCCTAAA	59.100	37.037	0.00	0.00	0.00	1.85
293	595	7.573968	AGCAAATTACTTTGTCAAGAACTCT	57.426	32.000	7.31	0.00	43.07	3.24
310	612	7.054124	TCTAATCCACCGAGAAATAGCAAATT	58.946	34.615	0.00	0.00	0.00	1.82
324	626	6.316140	TCAAAGATGTTCAATCTAATCCACCG	59.684	38.462	0.00	0.00	0.00	4.94
344	646	5.618056	TTAGAGATGTGCAAAGCTCAAAG	57.382	39.130	23.57	0.00	35.71	2.77
390	698	6.895782	TCCTCCGTCTCAAAATGGTATTATT	58.104	36.000	0.00	0.00	0.00	1.40
392	700	5.943349	TCCTCCGTCTCAAAATGGTATTA	57.057	39.130	0.00	0.00	0.00	0.98
430	738	7.396418	ACTCGTTATTAATAGGTGGTCCAAAA	58.604	34.615	0.00	0.00	35.89	2.44
487	795	4.279659	GCAAAAGAAACACTACCAACTCG	58.720	43.478	0.00	0.00	0.00	4.18
511	819	5.239963	TCCGGTGAATTTTGTTACTCCTTTC	59.760	40.000	0.00	0.00	0.00	2.62
531	839	3.947910	TGAGGTACTTTGTACTTCCGG	57.052	47.619	14.41	0.00	41.55	5.14
556	864	9.777297	AAATCTGGTGCAATGTAATTTTTAGTT	57.223	25.926	0.00	0.00	31.22	2.24
578	886	8.787884	GTGCAAAGTTGTCAAAATTTTCAAATC	58.212	29.630	0.00	0.00	30.50	2.17
588	896	9.604626	CAAAATTAAAGTGCAAAGTTGTCAAAA	57.395	25.926	0.00	0.00	0.00	2.44
675	983	2.290641	TGTTGGGTTACTGCTGGTATGG	60.291	50.000	0.00	0.00	0.00	2.74
676	984	3.066291	TGTTGGGTTACTGCTGGTATG	57.934	47.619	0.00	0.00	0.00	2.39
677	985	4.686122	GCTATGTTGGGTTACTGCTGGTAT	60.686	45.833	0.00	0.00	0.00	2.73
678	986	3.370103	GCTATGTTGGGTTACTGCTGGTA	60.370	47.826	0.00	0.00	0.00	3.25
679	987	2.618045	GCTATGTTGGGTTACTGCTGGT	60.618	50.000	0.00	0.00	0.00	4.00
680	988	2.017049	GCTATGTTGGGTTACTGCTGG	58.983	52.381	0.00	0.00	0.00	4.85
681	989	1.665679	CGCTATGTTGGGTTACTGCTG	59.334	52.381	0.00	0.00	0.00	4.41
682	990	1.553248	TCGCTATGTTGGGTTACTGCT	59.447	47.619	0.00	0.00	0.00	4.24
683	991	1.933853	CTCGCTATGTTGGGTTACTGC	59.066	52.381	0.00	0.00	0.00	4.40
684	992	3.247006	ACTCGCTATGTTGGGTTACTG	57.753	47.619	0.00	0.00	0.00	2.74
685	993	3.596214	CAACTCGCTATGTTGGGTTACT	58.404	45.455	0.00	0.00	40.54	2.24
692	1000	1.656652	CTCCCCAACTCGCTATGTTG	58.343	55.000	0.00	0.00	42.96	3.33
693	1001	0.541863	CCTCCCCAACTCGCTATGTT	59.458	55.000	0.00	0.00	0.00	2.71
694	1002	0.325296	TCCTCCCCAACTCGCTATGT	60.325	55.000	0.00	0.00	0.00	2.29
695	1003	0.105039	GTCCTCCCCAACTCGCTATG	59.895	60.000	0.00	0.00	0.00	2.23
696	1004	0.325296	TGTCCTCCCCAACTCGCTAT	60.325	55.000	0.00	0.00	0.00	2.97
697	1005	1.077805	TGTCCTCCCCAACTCGCTA	59.922	57.895	0.00	0.00	0.00	4.26
698	1006	2.203788	TGTCCTCCCCAACTCGCT	60.204	61.111	0.00	0.00	0.00	4.93
699	1007	2.047179	GTGTCCTCCCCAACTCGC	60.047	66.667	0.00	0.00	0.00	5.03
700	1008	0.396811	AAAGTGTCCTCCCCAACTCG	59.603	55.000	0.00	0.00	0.00	4.18
701	1009	2.505405	GAAAAGTGTCCTCCCCAACTC	58.495	52.381	0.00	0.00	0.00	3.01
702	1010	1.145119	GGAAAAGTGTCCTCCCCAACT	59.855	52.381	0.00	0.00	34.56	3.16
703	1011	1.617322	GGAAAAGTGTCCTCCCCAAC	58.383	55.000	0.00	0.00	34.56	3.77
704	1012	0.481128	GGGAAAAGTGTCCTCCCCAA	59.519	55.000	0.00	0.00	42.77	4.12
705	1013	2.160646	GGGAAAAGTGTCCTCCCCA	58.839	57.895	0.00	0.00	42.77	4.96
708	1016	1.560146	CCTAGGGGAAAAGTGTCCTCC	59.440	57.143	0.00	0.00	39.22	4.30
781	1090	2.046700	TAGGAAAACAGCGGCCGG	60.047	61.111	29.38	14.21	0.00	6.13
789	1098	0.611714	GAGGCTCGGGTAGGAAAACA	59.388	55.000	0.00	0.00	0.00	2.83
794	1103	2.439701	CACGAGGCTCGGGTAGGA	60.440	66.667	36.81	0.00	45.59	2.94
810	1119	3.071837	TAGATCACCCCACGCGCA	61.072	61.111	5.73	0.00	0.00	6.09
821	1130	4.221422	GCGGCGCCCTGTAGATCA	62.221	66.667	23.58	0.00	0.00	2.92
846	1155	3.761897	TGGAACCTCCATGTAAAACCTG	58.238	45.455	0.00	0.00	42.67	4.00
849	1158	8.710980	ATTACAGCTGGAACCTCCATGTAAAAC	61.711	40.741	15.19	0.00	46.49	2.43
850	1159	6.749772	ATTACAGCTGGAACCTCCATGTAAAA	60.750	38.462	15.19	6.56	46.49	1.52
883	1193	2.391389	CCTTCGCCACTTCCTTCGC	61.391	63.158	0.00	0.00	0.00	4.70
921	1231	0.045469	ATCCTCCTTCTTGCCTCCCT	59.955	55.000	0.00	0.00	0.00	4.20
928	1238	0.179062	CTGCCCGATCCTCCTTCTTG	60.179	60.000	0.00	0.00	0.00	3.02
933	1243	0.188587	TATCACTGCCCGATCCTCCT	59.811	55.000	0.00	0.00	0.00	3.69
988	2874	3.196254	GGTTCATCCATGTTTGCCTGAAT	59.804	43.478	0.00	0.00	35.97	2.57
990	2876	2.170166	GGTTCATCCATGTTTGCCTGA	58.830	47.619	0.00	0.00	35.97	3.86
996	2882	3.282021	CAGATCGGGTTCATCCATGTTT	58.718	45.455	0.00	0.00	38.11	2.83
1077	2963	4.900635	ATGTAAATTCATGCCCTCGAAC	57.099	40.909	0.00	0.00	0.00	3.95
1099	2985	2.578021	CCAAATCTTCTTCCTCCTCCCA	59.422	50.000	0.00	0.00	0.00	4.37
1341	3227	2.275318	GGATCTCTTCGAAACTGCCAG	58.725	52.381	0.00	0.00	0.00	4.85
1347	3233	1.067071	ACCACCGGATCTCTTCGAAAC	60.067	52.381	9.46	0.00	0.00	2.78
1400	3286	7.971201	AGGATACATCTCAAGAGCATATTCAA	58.029	34.615	0.00	0.00	41.41	2.69
1410	7282	4.626287	GCCCACAAAGGATACATCTCAAGA	60.626	45.833	0.00	0.00	41.22	3.02
1416	7288	3.620488	TCTTGCCCACAAAGGATACATC	58.380	45.455	0.00	0.00	41.22	3.06
1479	7351	2.370281	TCTTAGCCACTTTCTCAGCG	57.630	50.000	0.00	0.00	0.00	5.18
1514	7386	7.227873	TCCCTCATTCACAATTACAGTAAACA	58.772	34.615	0.00	0.00	0.00	2.83
1539	7411	7.286313	GGAGATGACTTGAGGGATTAATTCTT	58.714	38.462	0.00	0.00	0.00	2.52
1730	7602	3.206150	CCCCATTCACAATTAGTCGGAG	58.794	50.000	0.00	0.00	0.00	4.63
1739	7611	3.956199	CAGCTAATCACCCCATTCACAAT	59.044	43.478	0.00	0.00	0.00	2.71
1757	7629	0.035317	TTCATTCGACCAGTGCAGCT	59.965	50.000	0.00	0.00	0.00	4.24
1764	7636	2.452813	CGCCGGTTCATTCGACCAG	61.453	63.158	1.90	0.00	36.99	4.00
1788	7660	1.621072	CCTCTACCTCCTCTTGCACCT	60.621	57.143	0.00	0.00	0.00	4.00
1812	7684	1.612442	TGCACCTGACCTACCTCCC	60.612	63.158	0.00	0.00	0.00	4.30
1839	7714	1.632589	GGCCATTGAAAGACCCACTT	58.367	50.000	0.00	0.00	40.98	3.16
1884	7759	1.547755	TCTGTCCCCTCTCCCTCCT	60.548	63.158	0.00	0.00	0.00	3.69
2015	7911	4.273969	CACTAACAAGCCTTTTACGGACAA	59.726	41.667	0.00	0.00	0.00	3.18
2025	7921	4.307032	ACCATCATCACTAACAAGCCTT	57.693	40.909	0.00	0.00	0.00	4.35
2109	8005	1.072965	CCTCCTCCACTTTCAAGCAGT	59.927	52.381	0.00	0.00	0.00	4.40
2233	8133	3.423154	GGCCGCCTCGTTTGACAG	61.423	66.667	0.71	0.00	0.00	3.51
2610	8512	5.300752	CCACATGAGCGGTCTATTCTAAAT	58.699	41.667	16.64	0.00	0.00	1.40
2613	8515	2.628178	CCCACATGAGCGGTCTATTCTA	59.372	50.000	16.64	0.00	0.00	2.10
2681	8583	2.936498	AGCCTCGTTAAAATCACCGATG	59.064	45.455	0.00	0.00	0.00	3.84
2737	8639	2.765969	CCATCTGGGTTGGTGGCT	59.234	61.111	0.00	0.00	0.00	4.75

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.