AutoCloner

Multiple sequence alignment - TraesCS2D01G018400

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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	TraesCS2D01G018400	chr2D	100.000	2672	0	0	1	2672	8685471	8688142	0.000000e+00	4935.0
1	TraesCS2D01G018400	chr2D	83.258	1553	230	20	985	2521	9371499	9373037	0.000000e+00	1400.0
2	TraesCS2D01G018400	chr2D	80.638	1849	300	43	680	2494	8659470	8661294	0.000000e+00	1378.0
3	TraesCS2D01G018400	chr2D	79.919	1484	278	13	995	2465	19587009	19588485	0.000000e+00	1072.0
4	TraesCS2D01G018400	chr2D	81.553	515	50	17	18	501	8958574	8958074	1.500000e-102	383.0
5	TraesCS2D01G018400	chr2D	77.912	498	52	27	18	501	8669063	8669516	9.490000e-65	257.0
6	TraesCS2D01G018400	chrUn	93.587	1497	87	3	1143	2631	273231384	273229889	0.000000e+00	2224.0
7	TraesCS2D01G018400	chrUn	93.587	1497	87	3	1143	2631	292878468	292879963	0.000000e+00	2224.0
8	TraesCS2D01G018400	chrUn	88.679	689	47	14	481	1147	310043084	310043763	0.000000e+00	811.0
9	TraesCS2D01G018400	chrUn	95.736	469	17	3	1	468	337298396	337297930	0.000000e+00	752.0
10	TraesCS2D01G018400	chr2A	83.522	1590	238	16	944	2521	8627369	8628946	0.000000e+00	1463.0
11	TraesCS2D01G018400	chr2A	79.948	1536	274	23	995	2507	8707389	8708913	0.000000e+00	1099.0
12	TraesCS2D01G018400	chr2A	95.532	470	16	5	1	468	7788589	7789055	0.000000e+00	747.0
13	TraesCS2D01G018400	chr2A	76.582	474	63	24	18	454	7515807	7515345	1.610000e-52	217.0
14	TraesCS2D01G018400	chr2B	80.536	1531	279	10	998	2514	768807004	768805479	0.000000e+00	1158.0
15	TraesCS2D01G018400	chr2B	79.840	1498	275	17	1030	2507	11518288	11516798	0.000000e+00	1068.0
16	TraesCS2D01G018400	chr2B	87.288	472	26	13	175	615	11405041	11405509	2.370000e-140	508.0
17	TraesCS2D01G018400	chr2B	92.910	268	15	2	614	881	11405712	11405975	1.160000e-103	387.0
18	TraesCS2D01G018400	chr2B	78.842	501	79	17	652	1133	11996382	11996874	2.000000e-81	313.0
19	TraesCS2D01G018400	chr2B	93.293	164	6	3	19	182	11402766	11402924	1.240000e-58	237.0
20	TraesCS2D01G018400	chr2B	92.793	111	8	0	2523	2633	11414749	11414859	7.650000e-36	161.0
21	TraesCS2D01G018400	chr4B	82.524	206	34	1	284	489	580355593	580355796	2.110000e-41	180.0
22	TraesCS2D01G018400	chr3D	81.356	118	13	4	502	614	279198901	279198788	1.320000e-13	87.9

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	TraesCS2D01G018400	chr2D	8685471	8688142	2671	False	4935.000000	4935	100.000000	1	2672	1	chr2D.!!$F3	2671
1	TraesCS2D01G018400	chr2D	9371499	9373037	1538	False	1400.000000	1400	83.258000	985	2521	1	chr2D.!!$F4	1536
2	TraesCS2D01G018400	chr2D	8659470	8661294	1824	False	1378.000000	1378	80.638000	680	2494	1	chr2D.!!$F1	1814
3	TraesCS2D01G018400	chr2D	19587009	19588485	1476	False	1072.000000	1072	79.919000	995	2465	1	chr2D.!!$F5	1470
4	TraesCS2D01G018400	chr2D	8958074	8958574	500	True	383.000000	383	81.553000	18	501	1	chr2D.!!$R1	483
5	TraesCS2D01G018400	chrUn	273229889	273231384	1495	True	2224.000000	2224	93.587000	1143	2631	1	chrUn.!!$R1	1488
6	TraesCS2D01G018400	chrUn	292878468	292879963	1495	False	2224.000000	2224	93.587000	1143	2631	1	chrUn.!!$F1	1488
7	TraesCS2D01G018400	chrUn	310043084	310043763	679	False	811.000000	811	88.679000	481	1147	1	chrUn.!!$F2	666
8	TraesCS2D01G018400	chr2A	8627369	8628946	1577	False	1463.000000	1463	83.522000	944	2521	1	chr2A.!!$F2	1577
9	TraesCS2D01G018400	chr2A	8707389	8708913	1524	False	1099.000000	1099	79.948000	995	2507	1	chr2A.!!$F3	1512
10	TraesCS2D01G018400	chr2B	768805479	768807004	1525	True	1158.000000	1158	80.536000	998	2514	1	chr2B.!!$R2	1516
11	TraesCS2D01G018400	chr2B	11516798	11518288	1490	True	1068.000000	1068	79.840000	1030	2507	1	chr2B.!!$R1	1477
12	TraesCS2D01G018400	chr2B	11402766	11405975	3209	False	377.333333	508	91.163667	19	881	3	chr2B.!!$F3	862

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
275	2409	2.744202	ACAAAATAAGCCGCACAGAGAG	59.256	45.455	0.0	0.0	0.00	3.20	F
1155	3543	0.249398	GAGTAGGCACCACCGTTGAT	59.751	55.000	0.0	0.0	46.52	2.57	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1477	3865	0.104855	TCATATGGCCTGCGAGACAC	59.895	55.0	3.32	0.0	0.0	3.67	R
2283	4684	0.586319	AGTTCCGCAAATGTCACACG	59.414	50.0	0.00	0.0	0.0	4.49	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
51	52	7.275920	AGACTATCTCATGCTTCGGTAATTTT	58.724	34.615	0.00	0.00	0.00	1.82
94	95	3.055385	TGGAGCAAATACACAGGAGGTAC	60.055	47.826	0.00	0.00	0.00	3.34
114	115	5.414765	GGTACCAAACAATTTCCTGTAGGAG	59.585	44.000	7.15	0.00	46.36	3.69
214	2348	5.312120	TCAACGTCAGGACTCTAAGAATC	57.688	43.478	0.00	0.00	0.00	2.52
220	2354	4.220821	GTCAGGACTCTAAGAATCCACACA	59.779	45.833	0.46	0.00	34.73	3.72
266	2400	7.016361	AGCTGAATTAGTACAAAATAAGCCG	57.984	36.000	16.63	0.00	31.38	5.52
275	2409	2.744202	ACAAAATAAGCCGCACAGAGAG	59.256	45.455	0.00	0.00	0.00	3.20
399	2559	4.278919	TCATTTCTTTGTCAATGAGCTGCA	59.721	37.500	1.02	0.00	35.02	4.41
532	2692	5.132816	AGAGGGTGAACCAAATATAAGAGGG	59.867	44.000	1.16	0.00	43.89	4.30
739	3113	8.546597	AAATATACATTTTGCAAAGGGACAAC	57.453	30.769	12.41	0.00	29.80	3.32
829	3211	3.414700	CGCTGGTCCTTGTCACGC	61.415	66.667	0.00	0.00	0.00	5.34
918	3301	4.522789	AGGGACACTTTGTTTAAATGCGAT	59.477	37.500	0.00	0.00	0.00	4.58
931	3314	8.511321	TGTTTAAATGCGATTGATACTTCAAGT	58.489	29.630	0.00	0.00	44.75	3.16
941	3325	5.728637	TGATACTTCAAGTCTTGCAGAGA	57.271	39.130	17.67	6.64	0.00	3.10
954	3339	4.283467	TCTTGCAGAGACCAGCTTAGTTAA	59.717	41.667	0.00	0.00	0.00	2.01
976	3361	4.647564	ATTTGTCCAGAGATCAACCAGT	57.352	40.909	0.00	0.00	0.00	4.00
1014	3399	1.686800	GGCCATGGAGGTTGCCATT	60.687	57.895	18.40	0.00	46.29	3.16
1018	3403	2.949963	GCCATGGAGGTTGCCATTTCTA	60.950	50.000	18.40	0.00	46.29	2.10
1058	3443	0.985490	AGCCAGTTCATCTCCCTCCC	60.985	60.000	0.00	0.00	0.00	4.30
1115	3503	1.150135	AGAGGAGAAGGTGGTGGAGAA	59.850	52.381	0.00	0.00	0.00	2.87
1134	3522	2.328819	AGTTGCAGCATCTCCTGATC	57.671	50.000	2.55	0.00	34.77	2.92
1140	3528	2.627221	GCAGCATCTCCTGATCAGAGTA	59.373	50.000	24.62	8.67	34.77	2.59
1148	3536	1.137872	CCTGATCAGAGTAGGCACCAC	59.862	57.143	24.62	0.00	0.00	4.16
1155	3543	0.249398	GAGTAGGCACCACCGTTGAT	59.751	55.000	0.00	0.00	46.52	2.57
1367	3755	0.382636	CGTTCTCGAACAACAACGGC	60.383	55.000	10.10	0.00	41.20	5.68
1403	3791	0.817654	ATTCGCCTCGAGTCACATGA	59.182	50.000	12.31	0.00	37.14	3.07
1441	3829	7.619982	GCTTAGAAATTGTTGTTGCTAACATGC	60.620	37.037	0.00	0.00	41.79	4.06
1474	3862	1.599047	CTTCTGGGCGGATGTGAGT	59.401	57.895	0.00	0.00	0.00	3.41
1477	3865	4.758251	TGGGCGGATGTGAGTGCG	62.758	66.667	0.00	0.00	35.93	5.34
1532	3920	2.288702	CCGACAATTTCATGTTTGGCCA	60.289	45.455	0.00	0.00	32.57	5.36
1586	3974	2.270352	TTGGAGCACAACGATCCTTT	57.730	45.000	0.00	0.00	33.18	3.11
1790	4185	7.284489	TGTTGGTAGTTATTGAGTTTGCTTCTT	59.716	33.333	0.00	0.00	0.00	2.52
1821	4216	8.645110	AGATGATGATGACTGGAAAAAGTTTTT	58.355	29.630	13.35	13.35	0.00	1.94
1832	4227	7.094334	ACTGGAAAAAGTTTTTCTCGTTTCTCT	60.094	33.333	30.37	10.16	33.89	3.10
1845	4240	7.086230	TCTCGTTTCTCTTAAGGATGAGTAC	57.914	40.000	1.85	0.00	0.00	2.73
2024	4419	7.260603	GCTAGTACAAATGGCAGATGAATTTT	58.739	34.615	9.04	0.00	0.00	1.82
2029	4424	6.478129	ACAAATGGCAGATGAATTTTCCAAT	58.522	32.000	9.04	0.00	0.00	3.16
2037	4432	5.287752	CAGATGAATTTTCCAATGAGTTGCG	59.712	40.000	0.00	0.00	33.90	4.85
2112	4507	5.872070	AGAAGGAATCTCGATGTTCAGTTTC	59.128	40.000	10.81	10.35	30.46	2.78
2115	4510	2.363788	TCTCGATGTTCAGTTTCGGG	57.636	50.000	0.00	0.00	34.71	5.14
2122	4517	1.227704	TTCAGTTTCGGGAGCGCAA	60.228	52.632	11.47	0.00	0.00	4.85
2133	4528	0.881118	GGAGCGCAAAATGGACAAGA	59.119	50.000	11.47	0.00	0.00	3.02
2140	4535	3.379372	CGCAAAATGGACAAGAGGATGAT	59.621	43.478	0.00	0.00	0.00	2.45
2180	4575	2.513666	ATGTATGCCGTGCACCCG	60.514	61.111	12.15	2.36	43.04	5.28
2216	4617	2.026822	ACAAGGCCAGGACATAACAGAG	60.027	50.000	5.01	0.00	0.00	3.35
2220	4621	3.010420	GGCCAGGACATAACAGAGTTTC	58.990	50.000	0.00	0.00	0.00	2.78
2279	4680	3.496507	GTGCTTCAGTGAAGAAGGAACTC	59.503	47.826	32.39	14.71	45.54	3.01
2283	4684	2.368875	TCAGTGAAGAAGGAACTCCCAC	59.631	50.000	0.00	0.00	38.49	4.61
2309	4710	3.223157	GACATTTGCGGAACTTGTAACG	58.777	45.455	4.69	0.00	0.00	3.18
2362	4763	4.885907	CACTCTAGTTGCATGGGAATCAAT	59.114	41.667	0.00	0.00	0.00	2.57
2416	4817	4.159693	TGTTACAAGTCGTGCTCAGGATAT	59.840	41.667	0.00	0.00	0.00	1.63
2547	4955	7.367285	GTTGCTGTGAACCATTGAACTAAATA	58.633	34.615	0.00	0.00	0.00	1.40
2584	4992	7.530863	TCAATTAATGTACAGTAAATGCGCAA	58.469	30.769	20.87	6.30	0.00	4.85
2619	5027	8.178313	TCTTATATAATGCTTCAAGTCTCGGA	57.822	34.615	0.00	0.00	0.00	4.55
2631	5039	0.107752	GTCTCGGACTCTCGGGTAGT	60.108	60.000	0.00	0.00	31.63	2.73
2632	5040	0.617413	TCTCGGACTCTCGGGTAGTT	59.383	55.000	0.00	0.00	31.63	2.24
2633	5041	1.004044	TCTCGGACTCTCGGGTAGTTT	59.996	52.381	0.00	0.00	31.63	2.66
2634	5042	1.817447	CTCGGACTCTCGGGTAGTTTT	59.183	52.381	0.00	0.00	0.00	2.43
2635	5043	2.230750	CTCGGACTCTCGGGTAGTTTTT	59.769	50.000	0.00	0.00	0.00	1.94
2663	5071	4.722389	GGAGGTTATCCCCCGACT	57.278	61.111	0.00	0.00	43.01	4.18
2664	5072	2.438730	GGAGGTTATCCCCCGACTC	58.561	63.158	0.00	0.00	43.01	3.36
2665	5073	0.105607	GGAGGTTATCCCCCGACTCT	60.106	60.000	0.00	0.00	43.01	3.24
2666	5074	1.330234	GAGGTTATCCCCCGACTCTC	58.670	60.000	0.00	0.00	0.00	3.20
2667	5075	0.935194	AGGTTATCCCCCGACTCTCT	59.065	55.000	0.00	0.00	0.00	3.10
2668	5076	1.041437	GGTTATCCCCCGACTCTCTG	58.959	60.000	0.00	0.00	0.00	3.35
2669	5077	1.041437	GTTATCCCCCGACTCTCTGG	58.959	60.000	0.00	0.00	0.00	3.86
2670	5078	0.635009	TTATCCCCCGACTCTCTGGT	59.365	55.000	0.00	0.00	0.00	4.00
2671	5079	1.526315	TATCCCCCGACTCTCTGGTA	58.474	55.000	0.00	0.00	0.00	3.25

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
9	10	9.470399	GAGATAGTCTAAAATTTACCCCCAAAA	57.530	33.333	0.00	0.00	0.00	2.44
10	11	8.616598	TGAGATAGTCTAAAATTTACCCCCAAA	58.383	33.333	0.00	0.00	0.00	3.28
11	12	8.165267	TGAGATAGTCTAAAATTTACCCCCAA	57.835	34.615	0.00	0.00	0.00	4.12
12	13	7.758820	TGAGATAGTCTAAAATTTACCCCCA	57.241	36.000	0.00	0.00	0.00	4.96
14	15	7.939588	AGCATGAGATAGTCTAAAATTTACCCC	59.060	37.037	0.00	0.00	0.00	4.95
15	16	8.910351	AGCATGAGATAGTCTAAAATTTACCC	57.090	34.615	0.00	0.00	0.00	3.69
214	2348	1.334960	GGAAATTGTCGCACTGTGTGG	60.335	52.381	20.11	7.93	33.64	4.17
220	2354	5.365403	TTTTAATCGGAAATTGTCGCACT	57.635	34.783	0.00	0.00	0.00	4.40
266	2400	2.697147	TTTGCCCCCACTCTCTGTGC	62.697	60.000	0.00	0.00	44.92	4.57
275	2409	2.243810	TGTTTCTACATTTGCCCCCAC	58.756	47.619	0.00	0.00	0.00	4.61
399	2559	1.181741	TCAGTGGAGAGAAGCAGCGT	61.182	55.000	0.00	0.00	0.00	5.07
437	2597	7.064016	GCAGTGTTTCACCTTGAAAATTGTTTA	59.936	33.333	2.96	0.00	46.53	2.01
454	2614	6.182039	TGCAGTCTATTATTGCAGTGTTTC	57.818	37.500	0.00	0.00	44.97	2.78
532	2692	2.124736	TAGCTGCACAATCGCCCC	60.125	61.111	1.02	0.00	0.00	5.80
649	3023	8.657074	TTTTTATACATACGAGGGAATCACTG	57.343	34.615	0.00	0.00	0.00	3.66
675	3049	4.402155	TGTCTTTTGTTGAACTCCTTGCAT	59.598	37.500	0.00	0.00	0.00	3.96
678	3052	6.237915	GCATTTGTCTTTTGTTGAACTCCTTG	60.238	38.462	0.00	0.00	0.00	3.61
731	3105	3.578282	GGTCCAAATTGATTGTTGTCCCT	59.422	43.478	0.00	0.00	37.32	4.20
778	3152	8.437742	CAAGCAGCATTAAAAAGAATTAACCAG	58.562	33.333	0.00	0.00	0.00	4.00
829	3211	6.801862	CGGATACTTTGTTTAAAGCTCAAAGG	59.198	38.462	23.16	12.23	46.73	3.11
881	3264	2.214216	TCCCTGGACGACTTGGTGG	61.214	63.158	0.00	0.00	0.00	4.61
883	3266	3.468063	GTCCCTGGACGACTTGGT	58.532	61.111	0.00	0.00	35.30	3.67
918	3301	6.101650	TCTCTGCAAGACTTGAAGTATCAA	57.898	37.500	20.60	2.68	38.67	2.57
931	3314	2.251818	ACTAAGCTGGTCTCTGCAAGA	58.748	47.619	0.00	0.00	43.69	3.02
941	3325	6.303839	TCTGGACAAATTTAACTAAGCTGGT	58.696	36.000	0.00	0.00	0.00	4.00
954	3339	4.990526	ACTGGTTGATCTCTGGACAAATT	58.009	39.130	0.00	0.00	0.00	1.82
976	3361	3.071602	GCCAGGATTGATGAGGTAAGCTA	59.928	47.826	0.00	0.00	0.00	3.32
1014	3399	3.475566	AGCTCACTTGCAACTGTAGAA	57.524	42.857	0.00	0.00	34.99	2.10
1043	3428	1.062886	TCATCGGGAGGGAGATGAACT	60.063	52.381	5.76	0.00	46.93	3.01
1058	3443	4.142160	TGGAGGAGTGATACTTGTTCATCG	60.142	45.833	0.00	0.00	0.00	3.84
1092	3480	1.132849	TCCACCACCTTCTCCTCTGAA	60.133	52.381	0.00	0.00	0.00	3.02
1115	3503	1.558294	TGATCAGGAGATGCTGCAACT	59.442	47.619	12.50	12.50	33.72	3.16
1134	3522	0.670546	CAACGGTGGTGCCTACTCTG	60.671	60.000	0.00	0.00	34.25	3.35
1140	3528	0.606401	CTTCATCAACGGTGGTGCCT	60.606	55.000	9.42	0.00	35.67	4.75
1214	3602	2.034799	GCCCTCTGTACATGGCCTCTA	61.035	57.143	16.45	0.00	37.94	2.43
1266	3654	3.059982	CCTGCACCGTCTTGGAGA	58.940	61.111	0.00	0.00	42.00	3.71
1367	3755	1.128692	GAATGGCCTTGTCGTCTTTCG	59.871	52.381	3.32	0.00	41.41	3.46
1477	3865	0.104855	TCATATGGCCTGCGAGACAC	59.895	55.000	3.32	0.00	0.00	3.67
1586	3974	1.829456	CCCCATGCGTGATCACCTA	59.171	57.895	20.03	9.54	0.00	3.08
1790	4185	9.551734	CTTTTTCCAGTCATCATCATCTACATA	57.448	33.333	0.00	0.00	0.00	2.29
1821	4216	6.657966	TGTACTCATCCTTAAGAGAAACGAGA	59.342	38.462	3.36	0.00	35.83	4.04
1832	4227	5.483937	TCTTGCTTCCTGTACTCATCCTTAA	59.516	40.000	0.00	0.00	0.00	1.85
1845	4240	3.464907	ACGATGATGATCTTGCTTCCTG	58.535	45.455	0.00	0.00	0.00	3.86
1901	4296	4.627467	CACACTTAGGAAGATCGGTTTCAG	59.373	45.833	0.00	0.00	0.00	3.02
2024	4419	1.855213	GCACTGCGCAACTCATTGGA	61.855	55.000	13.05	0.00	41.79	3.53
2072	4467	3.129462	TCCTTCTCAAGACATCTGCGTAG	59.871	47.826	0.00	0.00	0.00	3.51
2112	4507	1.861542	TTGTCCATTTTGCGCTCCCG	61.862	55.000	9.73	0.00	37.57	5.14
2115	4510	1.135575	CCTCTTGTCCATTTTGCGCTC	60.136	52.381	9.73	0.00	0.00	5.03
2122	4517	5.192522	ACCACTATCATCCTCTTGTCCATTT	59.807	40.000	0.00	0.00	0.00	2.32
2133	4528	4.271807	TCCTCTTGACCACTATCATCCT	57.728	45.455	0.00	0.00	0.00	3.24
2140	4535	3.544698	AGAGGTTCCTCTTGACCACTA	57.455	47.619	14.85	0.00	40.15	2.74
2161	4556	1.451207	GGGTGCACGGCATACATGA	60.451	57.895	11.45	0.00	41.91	3.07
2180	4575	3.425758	GGCCTTGTTGTATAAGCGTGTTC	60.426	47.826	0.00	0.00	0.00	3.18
2216	4617	3.255642	TGCTAAGTGGATGCAAAGGAAAC	59.744	43.478	0.00	0.00	33.48	2.78
2220	4621	3.018856	TCATGCTAAGTGGATGCAAAGG	58.981	45.455	0.00	0.00	43.11	3.11
2279	4680	1.082169	CGCAAATGTCACACGTGGG	60.082	57.895	21.57	17.59	0.00	4.61
2283	4684	0.586319	AGTTCCGCAAATGTCACACG	59.414	50.000	0.00	0.00	0.00	4.49
2362	4763	5.044179	ACAAATGATTTCTGAGGGGGTATCA	60.044	40.000	0.00	0.00	0.00	2.15
2555	4963	9.586150	CGCATTTACTGTACATTAATTGAGATC	57.414	33.333	22.13	10.21	0.00	2.75
2584	4992	9.618890	TGAAGCATTATATAAGAAGAGCACTTT	57.381	29.630	0.00	0.00	36.39	2.66
2591	4999	9.684448	CGAGACTTGAAGCATTATATAAGAAGA	57.316	33.333	1.02	0.00	0.00	2.87
2599	5007	5.594725	AGAGTCCGAGACTTGAAGCATTATA	59.405	40.000	7.80	0.00	43.53	0.98
2635	5043	4.768448	GGGGATAACCTCCTTTTCGAAAAA	59.232	41.667	22.67	9.49	44.28	1.94
2636	5044	4.338012	GGGGATAACCTCCTTTTCGAAAA	58.662	43.478	21.35	21.35	44.28	2.29
2637	5045	3.959293	GGGGATAACCTCCTTTTCGAAA	58.041	45.455	6.47	6.47	44.28	3.46
2638	5046	3.639672	GGGGATAACCTCCTTTTCGAA	57.360	47.619	0.00	0.00	44.28	3.71
2647	5055	1.133419	AGAGAGTCGGGGGATAACCTC	60.133	57.143	0.00	0.00	40.03	3.85
2648	5056	0.935194	AGAGAGTCGGGGGATAACCT	59.065	55.000	0.00	0.00	40.03	3.50
2649	5057	1.041437	CAGAGAGTCGGGGGATAACC	58.959	60.000	0.00	0.00	39.11	2.85
2650	5058	1.041437	CCAGAGAGTCGGGGGATAAC	58.959	60.000	0.00	0.00	0.00	1.89
2651	5059	0.635009	ACCAGAGAGTCGGGGGATAA	59.365	55.000	4.34	0.00	35.96	1.75
2652	5060	1.526315	TACCAGAGAGTCGGGGGATA	58.474	55.000	4.34	0.00	35.96	2.59
2653	5061	2.329111	TACCAGAGAGTCGGGGGAT	58.671	57.895	4.34	0.00	35.96	3.85
2654	5062	3.845559	TACCAGAGAGTCGGGGGA	58.154	61.111	4.34	0.00	35.96	4.81

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.