AutoCloner

Multiple sequence alignment - TraesCS5B01G484100

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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	TraesCS5B01G484100	chr5B	100.000	2837	0	0	1	2837	655728222	655725386	0.000000e+00	5240.0
1	TraesCS5B01G484100	chr5B	82.621	351	51	9	980	1325	656090817	656090472	4.590000e-78	302.0
2	TraesCS5B01G484100	chr5B	81.672	311	53	3	1011	1319	656141260	656140952	3.630000e-64	255.0
3	TraesCS5B01G484100	chr5B	79.464	336	63	6	1015	1346	655803523	655803190	1.700000e-57	233.0
4	TraesCS5B01G484100	chr5B	84.375	224	31	3	62	284	526178416	526178196	1.710000e-52	217.0
5	TraesCS5B01G484100	chr5B	79.375	320	57	8	1011	1326	656137687	656137373	1.710000e-52	217.0
6	TraesCS5B01G484100	chr5B	79.205	327	54	6	1001	1326	655717208	655716895	6.160000e-52	215.0
7	TraesCS5B01G484100	chr5B	76.174	298	54	11	1473	1754	655803097	655802801	1.060000e-29	141.0
8	TraesCS5B01G484100	chr5B	95.349	43	2	0	238	280	45019847	45019889	5.070000e-08	69.4
9	TraesCS5B01G484100	chr5D	91.132	1714	100	28	339	2017	520467793	520466097	0.000000e+00	2276.0
10	TraesCS5B01G484100	chr5D	86.301	803	102	8	2037	2834	332507359	332508158	0.000000e+00	867.0
11	TraesCS5B01G484100	chr5D	95.549	337	13	1	1	337	520470568	520470234	3.220000e-149	538.0
12	TraesCS5B01G484100	chr5D	78.686	746	120	17	937	1678	520510349	520509639	7.160000e-126	460.0
13	TraesCS5B01G484100	chr5D	83.891	329	47	5	1001	1326	520438977	520438652	2.740000e-80	309.0
14	TraesCS5B01G484100	chr5D	80.508	354	62	6	1015	1365	520413929	520413580	6.030000e-67	265.0
15	TraesCS5B01G484100	chr5D	80.892	314	57	3	1015	1326	520699931	520699619	7.850000e-61	244.0
16	TraesCS5B01G484100	chr5D	78.409	352	69	7	1015	1361	520715238	520714889	3.680000e-54	222.0
17	TraesCS5B01G484100	chr7D	87.607	815	87	8	2036	2837	391571815	391572628	0.000000e+00	933.0
18	TraesCS5B01G484100	chr7D	87.562	812	87	6	2037	2834	249618354	249619165	0.000000e+00	928.0
19	TraesCS5B01G484100	chr7D	84.799	796	114	7	2037	2826	197295140	197295934	0.000000e+00	793.0
20	TraesCS5B01G484100	chr2D	87.346	814	90	7	2037	2837	44466114	44466927	0.000000e+00	920.0
21	TraesCS5B01G484100	chr2D	85.314	749	104	5	2039	2784	467085067	467085812	0.000000e+00	769.0
22	TraesCS5B01G484100	chr3B	85.075	804	111	9	2037	2837	33332309	33331512	0.000000e+00	811.0
23	TraesCS5B01G484100	chr3B	84.793	217	32	1	55	270	818907851	818907635	1.710000e-52	217.0
24	TraesCS5B01G484100	chr3B	81.356	236	40	4	48	280	12545957	12546191	3.730000e-44	189.0
25	TraesCS5B01G484100	chr3D	88.326	651	71	5	2037	2684	346196160	346196808	0.000000e+00	776.0
26	TraesCS5B01G484100	chr6D	83.519	807	122	8	2037	2837	2480730	2479929	0.000000e+00	743.0
27	TraesCS5B01G484100	chr6D	79.237	236	45	4	47	280	390729949	390729716	8.130000e-36	161.0
28	TraesCS5B01G484100	chr2A	83.929	784	116	6	2038	2811	42491749	42490966	0.000000e+00	741.0
29	TraesCS5B01G484100	chr2A	82.845	239	37	4	47	283	33691807	33691571	7.960000e-51	211.0
30	TraesCS5B01G484100	chr7A	82.878	806	132	6	2034	2834	43189353	43190157	0.000000e+00	719.0
31	TraesCS5B01G484100	chr5A	80.112	357	66	5	1015	1369	648661837	648661484	7.800000e-66	261.0
32	TraesCS5B01G484100	chr3A	85.470	234	33	1	47	279	72700314	72700547	2.820000e-60	243.0
33	TraesCS5B01G484100	chr7B	85.455	220	30	2	47	265	565202115	565202333	7.910000e-56	228.0
34	TraesCS5B01G484100	chr7B	83.929	224	34	2	47	269	141825809	141825587	2.210000e-51	213.0

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	TraesCS5B01G484100	chr5B	655725386	655728222	2836	True	5240	5240	100.0000	1	2837	1	chr5B.!!$R3	2836
1	TraesCS5B01G484100	chr5B	656137373	656141260	3887	True	236	255	80.5235	1011	1326	2	chr5B.!!$R6	315
2	TraesCS5B01G484100	chr5D	520466097	520470568	4471	True	1407	2276	93.3405	1	2017	2	chr5D.!!$R6	2016
3	TraesCS5B01G484100	chr5D	332507359	332508158	799	False	867	867	86.3010	2037	2834	1	chr5D.!!$F1	797
4	TraesCS5B01G484100	chr5D	520509639	520510349	710	True	460	460	78.6860	937	1678	1	chr5D.!!$R3	741
5	TraesCS5B01G484100	chr7D	391571815	391572628	813	False	933	933	87.6070	2036	2837	1	chr7D.!!$F3	801
6	TraesCS5B01G484100	chr7D	249618354	249619165	811	False	928	928	87.5620	2037	2834	1	chr7D.!!$F2	797
7	TraesCS5B01G484100	chr7D	197295140	197295934	794	False	793	793	84.7990	2037	2826	1	chr7D.!!$F1	789
8	TraesCS5B01G484100	chr2D	44466114	44466927	813	False	920	920	87.3460	2037	2837	1	chr2D.!!$F1	800
9	TraesCS5B01G484100	chr2D	467085067	467085812	745	False	769	769	85.3140	2039	2784	1	chr2D.!!$F2	745
10	TraesCS5B01G484100	chr3B	33331512	33332309	797	True	811	811	85.0750	2037	2837	1	chr3B.!!$R1	800
11	TraesCS5B01G484100	chr3D	346196160	346196808	648	False	776	776	88.3260	2037	2684	1	chr3D.!!$F1	647
12	TraesCS5B01G484100	chr6D	2479929	2480730	801	True	743	743	83.5190	2037	2837	1	chr6D.!!$R1	800
13	TraesCS5B01G484100	chr2A	42490966	42491749	783	True	741	741	83.9290	2038	2811	1	chr2A.!!$R2	773
14	TraesCS5B01G484100	chr7A	43189353	43190157	804	False	719	719	82.8780	2034	2834	1	chr7A.!!$F1	800

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
877	3320	1.080772	CTGTAACACGCGAGAGGCA	60.081	57.895	15.93	5.14	43.84	4.75	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2777	7658	0.03438	ATCTCTTCCGTCGGAGGTGA	60.034	55.0	24.64	24.64	36.17	4.02	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
105	106	5.046231	AGGGTTACTAAGCTCTTTTCAGGAG	60.046	44.000	0.00	0.00	0.00	3.69
111	112	6.976636	CTAAGCTCTTTTCAGGAGTTTAGG	57.023	41.667	14.89	2.95	43.90	2.69
133	134	2.355363	CTTGGGTGCGACGTTCGA	60.355	61.111	10.82	0.00	43.74	3.71
140	141	1.657094	GGTGCGACGTTCGACAAATAT	59.343	47.619	10.82	0.00	43.74	1.28
146	147	4.085924	GCGACGTTCGACAAATATATTCGT	60.086	41.667	10.82	2.30	43.74	3.85
157	158	7.169140	CGACAAATATATTCGTTCATGTCCTCA	59.831	37.037	15.27	0.00	34.04	3.86
259	260	7.795047	TCTGAAGGAGCTATGAACATTGAATA	58.205	34.615	0.00	0.00	0.00	1.75
272	273	7.946207	TGAACATTGAATAAAGTGGCAACTTA	58.054	30.769	6.98	0.00	46.15	2.24
280	281	2.808906	AGTGGCAACTTATTCCCCTC	57.191	50.000	0.00	0.00	30.14	4.30
536	2977	7.822334	ACATGATCAATTTCAAAATGTGCAGAT	59.178	29.630	0.00	0.00	0.00	2.90
539	2980	8.525316	TGATCAATTTCAAAATGTGCAGATACT	58.475	29.630	0.00	0.00	0.00	2.12
541	2982	8.746922	TCAATTTCAAAATGTGCAGATACTTC	57.253	30.769	0.00	0.00	0.00	3.01
792	3235	1.196808	GATGGAGAAAAACAGCGCGAA	59.803	47.619	12.10	0.00	0.00	4.70
820	3263	3.884774	TTTGCTGCCTCGGTGGGT	61.885	61.111	0.00	0.00	36.00	4.51
845	3288	2.674357	GCCCAAGTTTGCATGCAATTAG	59.326	45.455	32.27	21.03	35.70	1.73
846	3289	3.264104	CCCAAGTTTGCATGCAATTAGG	58.736	45.455	32.27	27.15	35.70	2.69
847	3290	2.674357	CCAAGTTTGCATGCAATTAGGC	59.326	45.455	32.27	19.10	35.70	3.93
848	3291	2.674357	CAAGTTTGCATGCAATTAGGCC	59.326	45.455	32.27	15.90	35.70	5.19
850	3293	2.093869	AGTTTGCATGCAATTAGGCCTG	60.094	45.455	32.27	0.00	35.70	4.85
851	3294	1.559368	TTGCATGCAATTAGGCCTGT	58.441	45.000	28.80	0.00	32.78	4.00
852	3295	2.433662	TGCATGCAATTAGGCCTGTA	57.566	45.000	20.30	3.17	32.78	2.74
853	3296	2.732763	TGCATGCAATTAGGCCTGTAA	58.267	42.857	20.30	2.04	32.78	2.41
854	3297	3.298619	TGCATGCAATTAGGCCTGTAAT	58.701	40.909	20.30	4.99	32.78	1.89
855	3298	3.705579	TGCATGCAATTAGGCCTGTAATT	59.294	39.130	20.30	11.86	33.67	1.40
856	3299	4.053295	GCATGCAATTAGGCCTGTAATTG	58.947	43.478	26.72	26.72	46.53	2.32
857	3300	4.202141	GCATGCAATTAGGCCTGTAATTGA	60.202	41.667	31.89	21.43	46.65	2.57
877	3320	1.080772	CTGTAACACGCGAGAGGCA	60.081	57.895	15.93	5.14	43.84	4.75
879	3322	2.126071	TAACACGCGAGAGGCAGC	60.126	61.111	15.93	0.00	43.84	5.25
914	3357	7.805071	CCAGTCTTATTCATCAACAGTCAAAAC	59.195	37.037	0.00	0.00	0.00	2.43
1070	3513	2.420722	ACGTTCTCTCCTCGATCTTCAC	59.579	50.000	0.00	0.00	0.00	3.18
1173	3616	1.240256	GGCGAGTAGTGGAGATCGAT	58.760	55.000	0.00	0.00	37.35	3.59
1175	3618	3.011119	GGCGAGTAGTGGAGATCGATAT	58.989	50.000	0.00	0.00	37.35	1.63
1185	3628	2.099921	GGAGATCGATATCCACGGGATG	59.900	54.545	29.70	0.60	43.06	3.51
1200	3643	0.323725	GGATGCTGCTCCCCAAGAAA	60.324	55.000	0.00	0.00	0.00	2.52
1304	3749	4.743057	TCACCGATGATCTCATGAAGTT	57.257	40.909	0.00	0.00	36.57	2.66
1336	3781	4.040445	AGGTGTTTTTCGTTCATGGTTG	57.960	40.909	0.00	0.00	0.00	3.77
1341	3786	2.791383	TTTCGTTCATGGTTGCTTGG	57.209	45.000	0.00	0.00	0.00	3.61
1364	3809	8.189119	TGGTTTCTGCTCCAAATTTTATTACT	57.811	30.769	0.00	0.00	0.00	2.24
1366	3811	7.759886	GGTTTCTGCTCCAAATTTTATTACTCC	59.240	37.037	0.00	0.00	0.00	3.85
1367	3812	8.523658	GTTTCTGCTCCAAATTTTATTACTCCT	58.476	33.333	0.00	0.00	0.00	3.69
1368	3813	9.747898	TTTCTGCTCCAAATTTTATTACTCCTA	57.252	29.630	0.00	0.00	0.00	2.94
1369	3814	8.732746	TCTGCTCCAAATTTTATTACTCCTAC	57.267	34.615	0.00	0.00	0.00	3.18
1433	3906	2.697425	CGCTTCCGCATTCACTCG	59.303	61.111	0.00	0.00	35.30	4.18
1437	3910	0.670546	CTTCCGCATTCACTCGTGGT	60.671	55.000	0.00	0.00	34.31	4.16
1460	3933	3.709653	TCATCCCTACTAAAACATCGCCT	59.290	43.478	0.00	0.00	0.00	5.52
1529	4002	0.601558	TCCTACAGCCACGTCTTCAC	59.398	55.000	0.00	0.00	0.00	3.18
1624	4097	1.458777	ACCGTGGGAGAACTGACCA	60.459	57.895	0.00	0.00	0.00	4.02
1625	4098	1.293498	CCGTGGGAGAACTGACCAG	59.707	63.158	0.00	0.00	34.39	4.00
1636	4109	0.617413	ACTGACCAGCATCCTTGAGG	59.383	55.000	0.00	0.00	0.00	3.86
1684	4157	3.799574	GCTGCACAATTGTTTGGACATCA	60.800	43.478	8.77	0.00	37.15	3.07
1692	4165	3.684103	TGTTTGGACATCAACGACAAC	57.316	42.857	0.00	0.00	34.67	3.32
1773	4252	4.493547	CGTACTGGTCCCGTTTTTATACA	58.506	43.478	0.00	0.00	0.00	2.29
1777	4256	5.183228	ACTGGTCCCGTTTTTATACAGATG	58.817	41.667	0.00	0.00	0.00	2.90
1816	4298	3.773667	TGCTCCTGATTCTGAAGATGAGT	59.226	43.478	0.00	0.00	0.00	3.41
1839	4321	4.019051	TGGACAGATGGTTCAATGTGATCT	60.019	41.667	0.00	0.00	29.84	2.75
1842	4324	5.563592	ACAGATGGTTCAATGTGATCTGAA	58.436	37.500	12.93	0.00	34.87	3.02
1877	4359	4.692625	CCTTATGATCGGCACCTTATTCAG	59.307	45.833	0.00	0.00	0.00	3.02
1909	4443	2.708216	TGTTTGTGACAGAGCTTCCA	57.292	45.000	0.00	0.00	33.40	3.53
1989	4661	2.693591	CTGCGGGAGTGTATCTAAGGAA	59.306	50.000	0.00	0.00	0.00	3.36
2027	5744	3.975246	TTTTTAGCCTGTCCGCCG	58.025	55.556	0.00	0.00	0.00	6.46
2028	5745	2.329614	TTTTTAGCCTGTCCGCCGC	61.330	57.895	0.00	0.00	0.00	6.53
2030	5747	3.950794	TTTAGCCTGTCCGCCGCTG	62.951	63.158	0.00	0.00	34.03	5.18
2094	6383	4.597004	ACATCATCAATTCACCTGAAGCT	58.403	39.130	0.00	0.00	37.48	3.74
2096	6385	6.182627	ACATCATCAATTCACCTGAAGCTAA	58.817	36.000	0.00	0.00	37.48	3.09
2165	6998	1.065358	ATAAAACTGGTGTCGTCGCG	58.935	50.000	0.00	0.00	0.00	5.87
2253	7108	1.530323	ACGTTTTAGAAGCCGCCATT	58.470	45.000	0.00	0.00	0.00	3.16
2272	7127	2.454336	TATCATCGGACCACTGACCT	57.546	50.000	0.00	0.00	33.97	3.85
2275	7130	2.747177	TCATCGGACCACTGACCTATT	58.253	47.619	0.00	0.00	33.97	1.73
2316	7172	2.041485	TCATCCTTGCCATTCCAGACAA	59.959	45.455	0.00	0.00	0.00	3.18
2514	7382	0.535328	TCGACCTCCTGCCTCTATCG	60.535	60.000	0.00	0.00	0.00	2.92
2576	7447	0.590732	CACCGTAGTACCGTCATCGC	60.591	60.000	0.00	0.00	35.54	4.58
2585	7456	1.143838	CCGTCATCGCCCAATCTGA	59.856	57.895	0.00	0.00	35.54	3.27
2651	7522	3.302555	GACAACAGTTACACGACGATGA	58.697	45.455	0.00	0.00	0.00	2.92
2676	7547	1.240256	TCAAGGTAACGGCGCAAAAT	58.760	45.000	10.83	0.00	46.39	1.82
2829	7710	1.891919	GCTGCACCGGTCAGAACAA	60.892	57.895	27.67	2.21	33.54	2.83

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
11	12	3.316573	GACTCTCAAGGGGCGGTGG	62.317	68.421	0.00	0.00	0.00	4.61
105	106	0.317160	GCACCCAAGCAACCCTAAAC	59.683	55.000	0.00	0.00	0.00	2.01
111	112	4.025401	CGTCGCACCCAAGCAACC	62.025	66.667	0.00	0.00	0.00	3.77
133	134	8.908786	ATGAGGACATGAACGAATATATTTGT	57.091	30.769	11.93	11.93	34.27	2.83
157	158	8.140112	AGCGATCTAATACAATCTTCCCTAAT	57.860	34.615	0.00	0.00	0.00	1.73
240	241	7.420800	CCACTTTATTCAATGTTCATAGCTCC	58.579	38.462	0.00	0.00	0.00	4.70
249	250	9.423061	GAATAAGTTGCCACTTTATTCAATGTT	57.577	29.630	8.67	0.00	40.66	2.71
250	251	8.034804	GGAATAAGTTGCCACTTTATTCAATGT	58.965	33.333	20.99	0.00	40.66	2.71
259	260	3.181423	TGAGGGGAATAAGTTGCCACTTT	60.181	43.478	8.67	0.00	46.80	2.66
645	3087	9.315525	TCCATCGACGTATATTTCAAAAACATA	57.684	29.630	0.00	0.00	0.00	2.29
648	3090	7.902032	TCTCCATCGACGTATATTTCAAAAAC	58.098	34.615	0.00	0.00	0.00	2.43
649	3091	8.481974	TTCTCCATCGACGTATATTTCAAAAA	57.518	30.769	0.00	0.00	0.00	1.94
650	3092	7.977293	TCTTCTCCATCGACGTATATTTCAAAA	59.023	33.333	0.00	0.00	0.00	2.44
651	3093	7.485810	TCTTCTCCATCGACGTATATTTCAAA	58.514	34.615	0.00	0.00	0.00	2.69
662	3104	1.590238	GCATGTTCTTCTCCATCGACG	59.410	52.381	0.00	0.00	0.00	5.12
764	3207	6.459573	GCGCTGTTTTTCTCCATCCATATAAA	60.460	38.462	0.00	0.00	0.00	1.40
765	3208	5.008613	GCGCTGTTTTTCTCCATCCATATAA	59.991	40.000	0.00	0.00	0.00	0.98
766	3209	4.515191	GCGCTGTTTTTCTCCATCCATATA	59.485	41.667	0.00	0.00	0.00	0.86
771	3214	0.179189	CGCGCTGTTTTTCTCCATCC	60.179	55.000	5.56	0.00	0.00	3.51
792	3235	3.612479	CGAGGCAGCAAACATAGCTTTTT	60.612	43.478	0.00	0.00	41.14	1.94
801	3244	2.594303	CCACCGAGGCAGCAAACA	60.594	61.111	0.00	0.00	0.00	2.83
820	3263	2.117206	ATGCAAACTTGGGCCGGA	59.883	55.556	5.05	0.00	0.00	5.14
833	3276	2.433662	TACAGGCCTAATTGCATGCA	57.566	45.000	18.46	18.46	46.36	3.96
845	3288	3.439129	GTGTTACAGGTCAATTACAGGCC	59.561	47.826	0.00	0.00	0.00	5.19
846	3289	3.124636	CGTGTTACAGGTCAATTACAGGC	59.875	47.826	0.00	0.00	0.00	4.85
847	3290	3.124636	GCGTGTTACAGGTCAATTACAGG	59.875	47.826	6.91	0.00	0.00	4.00
848	3291	3.181534	CGCGTGTTACAGGTCAATTACAG	60.182	47.826	6.91	0.00	0.00	2.74
850	3293	2.988493	TCGCGTGTTACAGGTCAATTAC	59.012	45.455	5.77	0.00	0.00	1.89
851	3294	3.057386	TCTCGCGTGTTACAGGTCAATTA	60.057	43.478	5.77	0.00	0.00	1.40
852	3295	2.066262	CTCGCGTGTTACAGGTCAATT	58.934	47.619	5.77	0.00	0.00	2.32
853	3296	1.271379	TCTCGCGTGTTACAGGTCAAT	59.729	47.619	5.77	0.00	0.00	2.57
854	3297	0.669619	TCTCGCGTGTTACAGGTCAA	59.330	50.000	5.77	0.00	0.00	3.18
855	3298	0.240145	CTCTCGCGTGTTACAGGTCA	59.760	55.000	5.77	0.00	0.00	4.02
856	3299	0.456312	CCTCTCGCGTGTTACAGGTC	60.456	60.000	5.77	0.00	0.00	3.85
857	3300	1.585006	CCTCTCGCGTGTTACAGGT	59.415	57.895	5.77	0.00	0.00	4.00
877	3320	1.557099	TAAGACTGGACGGTCATGCT	58.443	50.000	10.76	0.00	38.57	3.79
879	3322	4.123497	TGAATAAGACTGGACGGTCATG	57.877	45.455	10.76	4.39	38.57	3.07
914	3357	1.660575	GGATGTGTATCGTCCGCCG	60.661	63.158	0.00	0.00	41.64	6.46
961	3404	2.982130	GATCTGACTGGCACGGGT	59.018	61.111	0.00	0.00	40.47	5.28
1173	3616	1.748403	GAGCAGCATCCCGTGGATA	59.252	57.895	5.27	0.00	40.98	2.59
1175	3618	3.785859	GGAGCAGCATCCCGTGGA	61.786	66.667	0.00	0.00	35.55	4.02
1185	3628	1.003696	ACTAGTTTCTTGGGGAGCAGC	59.996	52.381	0.00	0.00	0.00	5.25
1200	3643	2.358737	GCGTGCAGGGCAACTAGT	60.359	61.111	8.72	0.00	41.47	2.57
1228	3671	4.719369	GGAGCGTTCGACGGCAGT	62.719	66.667	9.31	0.00	42.82	4.40
1273	3716	0.179137	TCATCGGTGATGACGTGCTC	60.179	55.000	5.42	0.00	43.11	4.26
1282	3725	6.464039	ATGAACTTCATGAGATCATCGGTGAT	60.464	38.462	11.89	11.89	42.31	3.06
1293	3736	3.763897	TCTCCACGATGAACTTCATGAGA	59.236	43.478	9.08	11.10	37.20	3.27
1304	3749	3.399330	GAAAAACACCTCTCCACGATGA	58.601	45.455	0.00	0.00	0.00	2.92
1336	3781	3.391506	AATTTGGAGCAGAAACCAAGC	57.608	42.857	0.00	0.00	45.08	4.01
1341	3786	8.523658	AGGAGTAATAAAATTTGGAGCAGAAAC	58.476	33.333	0.00	0.00	0.00	2.78
1364	3809	5.121811	CGGAGCTGTAGTTAGTTAGTAGGA	58.878	45.833	0.00	0.00	0.00	2.94
1418	3891	0.670546	ACCACGAGTGAATGCGGAAG	60.671	55.000	4.59	0.00	0.00	3.46
1433	3906	5.293569	CGATGTTTTAGTAGGGATGAACCAC	59.706	44.000	0.00	0.00	41.20	4.16
1437	3910	4.163458	AGGCGATGTTTTAGTAGGGATGAA	59.837	41.667	0.00	0.00	0.00	2.57
1529	4002	2.908073	GCACTGGCGACTTGTTGGG	61.908	63.158	0.00	0.00	0.00	4.12
1624	4097	1.554353	AGGACAGTCCTCAAGGATGCT	60.554	52.381	17.31	0.00	45.66	3.79
1625	4098	0.908198	AGGACAGTCCTCAAGGATGC	59.092	55.000	17.31	0.00	45.66	3.91
1636	4109	0.902516	ACCTCCAGAGCAGGACAGTC	60.903	60.000	0.00	0.00	34.75	3.51
1684	4157	0.398696	TGCAGGGTATGGTTGTCGTT	59.601	50.000	0.00	0.00	0.00	3.85
1692	4165	0.392998	ACTTCGCTTGCAGGGTATGG	60.393	55.000	0.00	0.00	0.00	2.74
1773	4252	1.407258	GAGTCGCTGTAAGAGCCATCT	59.593	52.381	0.00	0.00	46.01	2.90
1777	4256	0.804156	GCAGAGTCGCTGTAAGAGCC	60.804	60.000	5.44	0.00	46.01	4.70
1816	4298	3.786368	TCACATTGAACCATCTGTCCA	57.214	42.857	0.00	0.00	0.00	4.02
1877	4359	0.523072	ACAAACATCAGGATGCACGC	59.477	50.000	9.12	0.00	42.39	5.34
1958	4630	4.755266	ACACTCCCGCAGTTCTATAATT	57.245	40.909	0.00	0.00	30.26	1.40
1966	4638	2.431057	CCTTAGATACACTCCCGCAGTT	59.569	50.000	0.00	0.00	30.26	3.16
2028	5745	7.851822	ATAATTAATAAAAATGGTCGCGCAG	57.148	32.000	8.75	0.00	0.00	5.18
2030	5747	7.380065	TGGAATAATTAATAAAAATGGTCGCGC	59.620	33.333	0.00	0.00	0.00	6.86
2031	5748	8.789881	TGGAATAATTAATAAAAATGGTCGCG	57.210	30.769	0.00	0.00	0.00	5.87
2067	5928	7.359765	GCTTCAGGTGAATTGATGATGTTTTTG	60.360	37.037	0.00	0.00	33.01	2.44
2073	5934	6.094464	TGTTAGCTTCAGGTGAATTGATGATG	59.906	38.462	0.00	0.00	33.01	3.07
2074	5935	6.094603	GTGTTAGCTTCAGGTGAATTGATGAT	59.905	38.462	0.00	0.00	33.01	2.45
2094	6383	4.338964	TCGAGTTTGTAGGTGTGAGTGTTA	59.661	41.667	0.00	0.00	0.00	2.41
2096	6385	2.691526	TCGAGTTTGTAGGTGTGAGTGT	59.308	45.455	0.00	0.00	0.00	3.55
2146	6978	1.065358	CGCGACGACACCAGTTTTAT	58.935	50.000	0.00	0.00	0.00	1.40
2212	7045	0.039617	GCATGTGGTGTGCGCTTTAA	60.040	50.000	9.73	0.00	32.29	1.52
2253	7108	2.454336	AGGTCAGTGGTCCGATGATA	57.546	50.000	0.00	0.00	0.00	2.15
2272	7127	9.599056	ATGATGTAGATCTCTCTCCTGAAAATA	57.401	33.333	0.00	0.00	32.66	1.40
2275	7130	6.493115	GGATGATGTAGATCTCTCTCCTGAAA	59.507	42.308	0.00	0.00	32.66	2.69
2316	7172	4.735132	CGTGGTGGCGTCGATGGT	62.735	66.667	6.79	0.00	0.00	3.55
2362	7218	1.519455	CTTCGCATCTGGACGGACC	60.519	63.158	0.00	0.00	39.54	4.46
2406	7265	1.303561	TCATGTCTGGTTGGCAGGC	60.304	57.895	0.00	0.00	31.40	4.85
2514	7382	4.687215	TGTGGAGCAGCGCTGGAC	62.687	66.667	36.47	21.99	39.88	4.02
2585	7456	5.180810	GGAAACCCTAGAATCTGGTCTTT	57.819	43.478	0.00	0.00	0.00	2.52
2651	7522	1.722011	CGCCGTTACCTTGATCAAGT	58.278	50.000	29.03	20.39	36.72	3.16
2777	7658	0.034380	ATCTCTTCCGTCGGAGGTGA	60.034	55.000	24.64	24.64	36.17	4.02

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.