AutoCloner

Multiple sequence alignment - TraesCS4A01G431600

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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	TraesCS4A01G431600	chr4A	100.000	3533	0	0	1	3533	702328804	702325272	0.000000e+00	6525
1	TraesCS4A01G431600	chr4A	86.565	2166	243	24	750	2885	702299071	702296924	0.000000e+00	2344
2	TraesCS4A01G431600	chr4A	88.938	678	37	17	155	797	702369365	702368691	0.000000e+00	802
3	TraesCS4A01G431600	chr4A	88.298	94	3	2	1	86	702369458	702369365	4.820000e-19	106
4	TraesCS4A01G431600	chr7A	92.848	2419	135	21	493	2893	29009764	29007366	0.000000e+00	3474
5	TraesCS4A01G431600	chr7A	93.358	2153	125	9	750	2893	28969290	28967147	0.000000e+00	3168
6	TraesCS4A01G431600	chr7A	93.175	2154	128	10	750	2893	28809193	28807049	0.000000e+00	3145
7	TraesCS4A01G431600	chr7A	93.036	2154	131	10	750	2893	28845994	28843850	0.000000e+00	3129
8	TraesCS4A01G431600	chr7A	92.429	2153	125	10	750	2893	28915858	28913735	0.000000e+00	3038
9	TraesCS4A01G431600	chrUn	93.083	2154	126	11	750	2893	313533638	313531498	0.000000e+00	3131
10	TraesCS4A01G431600	chr7D	88.751	2338	211	31	582	2893	28578994	28576683	0.000000e+00	2813
11	TraesCS4A01G431600	chr7D	88.701	177	15	5	1	174	28651273	28651447	9.940000e-51	211
12	TraesCS4A01G431600	chr7D	88.136	177	16	5	1	174	28595250	28595076	4.620000e-49	206
13	TraesCS4A01G431600	chr7D	82.791	215	17	11	1	206	28579627	28579424	1.300000e-39	174
14	TraesCS4A01G431600	chr7B	86.546	2163	219	32	750	2893	525598719	525596610	0.000000e+00	2316
15	TraesCS4A01G431600	chr7B	98.576	632	8	1	2902	3533	53621666	53622296	0.000000e+00	1116
16	TraesCS4A01G431600	chr1D	88.111	1800	201	10	991	2780	33595736	33597532	0.000000e+00	2126
17	TraesCS4A01G431600	chr3B	97.806	638	12	2	2896	3533	751238624	751237989	0.000000e+00	1099
18	TraesCS4A01G431600	chr3B	97.331	637	14	3	2897	3533	17252789	17252156	0.000000e+00	1079
19	TraesCS4A01G431600	chr4B	97.802	637	12	2	2897	3533	178372140	178371506	0.000000e+00	1098
20	TraesCS4A01G431600	chr4B	98.248	628	10	1	2906	3533	361977754	361977128	0.000000e+00	1098
21	TraesCS4A01G431600	chr2B	97.785	632	13	1	2902	3533	758242919	758242289	0.000000e+00	1088
22	TraesCS4A01G431600	chr1B	97.630	633	13	2	2902	3533	324428903	324428272	0.000000e+00	1085
23	TraesCS4A01G431600	chr1B	95.570	632	26	1	2902	3533	423753405	423754034	0.000000e+00	1011
24	TraesCS4A01G431600	chr6B	97.460	630	14	2	2904	3533	712652939	712652312	0.000000e+00	1074

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	TraesCS4A01G431600	chr4A	702325272	702328804	3532	True	6525.0	6525	100.000	1	3533	1	chr4A.!!$R2	3532
1	TraesCS4A01G431600	chr4A	702296924	702299071	2147	True	2344.0	2344	86.565	750	2885	1	chr4A.!!$R1	2135
2	TraesCS4A01G431600	chr4A	702368691	702369458	767	True	454.0	802	88.618	1	797	2	chr4A.!!$R3	796
3	TraesCS4A01G431600	chr7A	29007366	29009764	2398	True	3474.0	3474	92.848	493	2893	1	chr7A.!!$R5	2400
4	TraesCS4A01G431600	chr7A	28967147	28969290	2143	True	3168.0	3168	93.358	750	2893	1	chr7A.!!$R4	2143
5	TraesCS4A01G431600	chr7A	28807049	28809193	2144	True	3145.0	3145	93.175	750	2893	1	chr7A.!!$R1	2143
6	TraesCS4A01G431600	chr7A	28843850	28845994	2144	True	3129.0	3129	93.036	750	2893	1	chr7A.!!$R2	2143
7	TraesCS4A01G431600	chr7A	28913735	28915858	2123	True	3038.0	3038	92.429	750	2893	1	chr7A.!!$R3	2143
8	TraesCS4A01G431600	chrUn	313531498	313533638	2140	True	3131.0	3131	93.083	750	2893	1	chrUn.!!$R1	2143
9	TraesCS4A01G431600	chr7D	28576683	28579627	2944	True	1493.5	2813	85.771	1	2893	2	chr7D.!!$R2	2892
10	TraesCS4A01G431600	chr7B	525596610	525598719	2109	True	2316.0	2316	86.546	750	2893	1	chr7B.!!$R1	2143
11	TraesCS4A01G431600	chr7B	53621666	53622296	630	False	1116.0	1116	98.576	2902	3533	1	chr7B.!!$F1	631
12	TraesCS4A01G431600	chr1D	33595736	33597532	1796	False	2126.0	2126	88.111	991	2780	1	chr1D.!!$F1	1789
13	TraesCS4A01G431600	chr3B	751237989	751238624	635	True	1099.0	1099	97.806	2896	3533	1	chr3B.!!$R2	637
14	TraesCS4A01G431600	chr3B	17252156	17252789	633	True	1079.0	1079	97.331	2897	3533	1	chr3B.!!$R1	636
15	TraesCS4A01G431600	chr4B	178371506	178372140	634	True	1098.0	1098	97.802	2897	3533	1	chr4B.!!$R1	636
16	TraesCS4A01G431600	chr4B	361977128	361977754	626	True	1098.0	1098	98.248	2906	3533	1	chr4B.!!$R2	627
17	TraesCS4A01G431600	chr2B	758242289	758242919	630	True	1088.0	1088	97.785	2902	3533	1	chr2B.!!$R1	631
18	TraesCS4A01G431600	chr1B	324428272	324428903	631	True	1085.0	1085	97.630	2902	3533	1	chr1B.!!$R1	631
19	TraesCS4A01G431600	chr1B	423753405	423754034	629	False	1011.0	1011	95.570	2902	3533	1	chr1B.!!$F1	631
20	TraesCS4A01G431600	chr6B	712652312	712652939	627	True	1074.0	1074	97.460	2904	3533	1	chr6B.!!$R1	629

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
863	1016	0.318445	CACCAACTCAAGCAGCAAGC	60.318	55.0	0.00	0.00	46.19	4.01	F
2419	2601	0.319986	TTATCTTGCGCACACGGTGA	60.320	50.0	11.12	1.99	40.57	4.02	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2448	2630	0.105964	CCTGAAGTGACGACCCAACA	59.894	55.0	0.00	0.0	0.0	3.33	R
3352	3565	1.106285	GAACATGGCTTGATGGGGTC	58.894	55.0	7.45	0.0	0.0	4.46	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
42	43	1.611592	GAAACGCATGCTGCAAGTGC	61.612	55.000	17.13	16.69	45.36	4.40
91	100	7.163032	CGAACGTTGTTTAGTTTAACCTGAAAG	59.837	37.037	5.00	0.00	0.00	2.62
132	141	5.939447	TGCCATCAGATTCATATTGGTACA	58.061	37.500	0.00	0.00	0.00	2.90
134	143	7.688343	TGCCATCAGATTCATATTGGTACATA	58.312	34.615	0.00	0.00	39.30	2.29
135	144	7.607607	TGCCATCAGATTCATATTGGTACATAC	59.392	37.037	0.00	0.00	39.30	2.39
136	145	7.826252	GCCATCAGATTCATATTGGTACATACT	59.174	37.037	0.00	0.00	39.30	2.12
137	146	9.730705	CCATCAGATTCATATTGGTACATACTT	57.269	33.333	0.00	0.00	39.30	2.24
149	162	6.681729	TGGTACATACTTCAAAGAAGGTCT	57.318	37.500	11.08	0.00	0.00	3.85
168	181	4.081365	GGTCTGAAGCCTAGCTACTTTTCT	60.081	45.833	0.00	0.00	38.25	2.52
178	191	1.199327	GCTACTTTTCTGAAACCGGCC	59.801	52.381	0.00	0.00	0.00	6.13
190	203	1.033574	AACCGGCCGTTCAATCAAAA	58.966	45.000	26.12	0.00	0.00	2.44
206	219	9.453572	TTCAATCAAAATAGTGTGAGAGCTTAT	57.546	29.630	0.00	0.00	0.00	1.73
207	220	9.453572	TCAATCAAAATAGTGTGAGAGCTTATT	57.546	29.630	0.00	0.00	0.00	1.40
311	367	3.206150	TCTCACTTTCAGTGCACTTTCC	58.794	45.455	18.94	0.00	45.54	3.13
312	368	2.945008	CTCACTTTCAGTGCACTTTCCA	59.055	45.455	18.94	0.25	45.54	3.53
342	398	8.734218	TTCGGTACATACTAAAATAATTGCCA	57.266	30.769	0.00	0.00	0.00	4.92
462	561	3.077339	CTGAAAGTTTTGCTCGCCG	57.923	52.632	0.00	0.00	0.00	6.46
463	562	0.586319	CTGAAAGTTTTGCTCGCCGA	59.414	50.000	0.00	0.00	0.00	5.54
464	563	1.002900	CTGAAAGTTTTGCTCGCCGAA	60.003	47.619	0.00	0.00	0.00	4.30
465	564	1.402259	TGAAAGTTTTGCTCGCCGAAA	59.598	42.857	0.00	0.00	0.00	3.46
466	565	2.034053	TGAAAGTTTTGCTCGCCGAAAT	59.966	40.909	0.00	0.00	0.00	2.17
476	589	2.270923	CTCGCCGAAATGATCACTGAA	58.729	47.619	0.00	0.00	0.00	3.02
477	590	2.672874	CTCGCCGAAATGATCACTGAAA	59.327	45.455	0.00	0.00	0.00	2.69
850	1003	1.535462	CGACCAACTCCATTCACCAAC	59.465	52.381	0.00	0.00	0.00	3.77
861	1014	1.761449	TTCACCAACTCAAGCAGCAA	58.239	45.000	0.00	0.00	0.00	3.91
862	1015	1.311859	TCACCAACTCAAGCAGCAAG	58.688	50.000	0.00	0.00	0.00	4.01
863	1016	0.318445	CACCAACTCAAGCAGCAAGC	60.318	55.000	0.00	0.00	46.19	4.01
904	1070	1.999024	CTTCTTCTTCTTGCTCTCCGC	59.001	52.381	0.00	0.00	39.77	5.54
919	1095	2.027897	CGCCAGCAAAGCAAAGCA	59.972	55.556	0.00	0.00	0.00	3.91
920	1096	2.019951	CGCCAGCAAAGCAAAGCAG	61.020	57.895	0.00	0.00	0.00	4.24
967	1143	1.239968	GCCTCACACCTCCTTTGCTG	61.240	60.000	0.00	0.00	0.00	4.41
997	1174	4.726825	TCATCAAGGGTTAAGCCTCCTAAT	59.273	41.667	25.85	13.79	37.43	1.73
1035	1212	2.307098	CACCAACCCAATCTCCTTCTCT	59.693	50.000	0.00	0.00	0.00	3.10
1042	1219	2.238144	CCAATCTCCTTCTCTGCCTTCA	59.762	50.000	0.00	0.00	0.00	3.02
1054	1231	1.006571	GCCTTCACCGACGACAAGA	60.007	57.895	0.00	0.00	0.00	3.02
1133	1310	4.025563	CGACTTCATCTCCGACTACTACAG	60.026	50.000	0.00	0.00	0.00	2.74
1155	1332	2.202756	GTCGAGTCCATGCCCGTC	60.203	66.667	0.00	0.00	0.00	4.79
1548	1725	1.797713	GCAATGCTCGTCACGCTAGTA	60.798	52.381	0.00	0.00	0.00	1.82
1599	1776	2.994995	TCAGTCGGCGTGTCCCAT	60.995	61.111	6.85	0.00	0.00	4.00
1677	1854	2.040544	CCGGCTCGCAGGTTTTGAT	61.041	57.895	0.00	0.00	0.00	2.57
1965	2142	2.955402	GTCGAGCACGTGGACTCT	59.045	61.111	18.88	5.28	40.69	3.24
2007	2184	2.089349	GCTTCTCACGTGCCTCGAC	61.089	63.158	11.67	0.00	42.86	4.20
2178	2359	0.322816	AGCTTTGGATGGTCATGCGT	60.323	50.000	0.00	0.00	31.21	5.24
2419	2601	0.319986	TTATCTTGCGCACACGGTGA	60.320	50.000	11.12	1.99	40.57	4.02
2448	2630	3.986006	TTCGTGCTCCGGTTCGCT	61.986	61.111	0.00	0.00	37.11	4.93
2568	2750	3.038280	TGACACAGAAAGTTCCAGGAGA	58.962	45.455	0.00	0.00	0.00	3.71
2587	2769	7.094463	CCAGGAGATGCACAAATCCTTATATTC	60.094	40.741	7.85	0.00	40.23	1.75
2600	2782	6.313519	TCCTTATATTCAGGGCATGGATAC	57.686	41.667	1.57	0.00	31.88	2.24
2688	2895	5.275602	CGTTTTGTTATCTGTATCGACCGAC	60.276	44.000	0.00	0.00	0.00	4.79
2893	3106	7.540299	TCACTTGGTTTTTACGTTTCAAGATT	58.460	30.769	0.00	0.00	36.45	2.40
2894	3107	8.030106	TCACTTGGTTTTTACGTTTCAAGATTT	58.970	29.630	0.00	0.00	36.45	2.17
2895	3108	8.652463	CACTTGGTTTTTACGTTTCAAGATTTT	58.348	29.630	0.00	0.00	36.45	1.82
2896	3109	9.210329	ACTTGGTTTTTACGTTTCAAGATTTTT	57.790	25.926	0.00	0.00	36.45	1.94
3050	3263	1.143305	CGAGCCTAATCATGAAGCCG	58.857	55.000	0.00	3.66	0.00	5.52
3106	3319	4.412843	TGCCTATCCTATTACATGACCGA	58.587	43.478	0.00	0.00	0.00	4.69
3352	3565	3.814842	TGTGTCTTGCTACATCCAAGTTG	59.185	43.478	0.00	0.00	40.35	3.16
3481	3695	4.287067	AGAAAGAGGTGCCTGATAGTTTCA	59.713	41.667	0.00	0.00	0.00	2.69

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
6	7	4.965158	GCGTTTCGTAAACAATTCAAGACA	59.035	37.500	9.90	0.00	41.44	3.41
49	50	1.990160	TTCGGTCAGCCTGTGGGTTT	61.990	55.000	0.00	0.00	34.45	3.27
132	141	5.013599	AGGCTTCAGACCTTCTTTGAAGTAT	59.986	40.000	13.15	2.42	45.93	2.12
134	143	3.137360	AGGCTTCAGACCTTCTTTGAAGT	59.863	43.478	13.15	0.00	45.93	3.01
135	144	3.749226	AGGCTTCAGACCTTCTTTGAAG	58.251	45.455	8.64	8.64	46.57	3.02
136	145	3.864789	AGGCTTCAGACCTTCTTTGAA	57.135	42.857	0.00	0.00	31.87	2.69
137	146	3.307059	GCTAGGCTTCAGACCTTCTTTGA	60.307	47.826	0.00	0.00	38.81	2.69
138	147	3.006247	GCTAGGCTTCAGACCTTCTTTG	58.994	50.000	0.00	0.00	38.81	2.77
141	150	2.246091	AGCTAGGCTTCAGACCTTCT	57.754	50.000	0.00	0.00	38.81	2.85
143	152	3.108847	AGTAGCTAGGCTTCAGACCTT	57.891	47.619	0.00	0.00	40.44	3.50
144	153	2.838637	AGTAGCTAGGCTTCAGACCT	57.161	50.000	0.00	0.00	40.44	3.85
145	154	3.897141	AAAGTAGCTAGGCTTCAGACC	57.103	47.619	0.00	0.00	40.44	3.85
149	162	5.483685	TTCAGAAAAGTAGCTAGGCTTCA	57.516	39.130	0.00	0.00	40.44	3.02
153	166	3.371285	CGGTTTCAGAAAAGTAGCTAGGC	59.629	47.826	0.00	0.00	0.00	3.93
168	181	0.535328	TGATTGAACGGCCGGTTTCA	60.535	50.000	31.76	26.77	39.50	2.69
178	191	6.017933	GCTCTCACACTATTTTGATTGAACG	58.982	40.000	0.00	0.00	0.00	3.95
190	203	7.287927	TGGCTACTTAATAAGCTCTCACACTAT	59.712	37.037	0.00	0.00	38.80	2.12
206	219	4.093261	GCCGTTCGTTAATTGGCTACTTAA	59.907	41.667	0.00	0.00	42.44	1.85
207	220	3.618150	GCCGTTCGTTAATTGGCTACTTA	59.382	43.478	0.00	0.00	42.44	2.24
208	221	2.417586	GCCGTTCGTTAATTGGCTACTT	59.582	45.455	0.00	0.00	42.44	2.24
212	264	0.802494	CTGCCGTTCGTTAATTGGCT	59.198	50.000	2.99	0.00	45.90	4.75
275	327	1.743252	GAGAACCGGCAAGCCTCAG	60.743	63.158	9.73	0.45	0.00	3.35
441	517	1.333619	GGCGAGCAAAACTTTCAGTCA	59.666	47.619	0.00	0.00	0.00	3.41
444	520	0.586319	TCGGCGAGCAAAACTTTCAG	59.414	50.000	4.99	0.00	0.00	3.02
450	526	2.177173	GATCATTTCGGCGAGCAAAAC	58.823	47.619	10.46	0.00	0.00	2.43
459	558	7.008628	CAGTAAAATTTCAGTGATCATTTCGGC	59.991	37.037	0.00	5.55	0.00	5.54
461	560	9.611284	TTCAGTAAAATTTCAGTGATCATTTCG	57.389	29.630	0.00	0.00	0.00	3.46
722	865	1.954382	TGGGTATGCTGCTACTACGAG	59.046	52.381	0.00	0.00	0.00	4.18
850	1003	0.885879	TTGATGGCTTGCTGCTTGAG	59.114	50.000	0.00	0.00	42.39	3.02
862	1015	2.038659	AGAGGAGAGCTAGTTGATGGC	58.961	52.381	0.00	0.00	35.14	4.40
863	1016	2.224018	GCAGAGGAGAGCTAGTTGATGG	60.224	54.545	0.00	0.00	0.00	3.51
865	1018	3.030873	AGCAGAGGAGAGCTAGTTGAT	57.969	47.619	0.00	0.00	39.78	2.57
866	1019	2.523325	AGCAGAGGAGAGCTAGTTGA	57.477	50.000	0.00	0.00	39.78	3.18
867	1020	2.760092	AGAAGCAGAGGAGAGCTAGTTG	59.240	50.000	0.00	0.00	40.90	3.16
904	1070	1.666872	GCCTGCTTTGCTTTGCTGG	60.667	57.895	13.62	13.62	46.54	4.85
919	1095	2.534042	TAGTGAAGTGGAGCTAGCCT	57.466	50.000	12.13	0.00	0.00	4.58
920	1096	2.740256	GCTTAGTGAAGTGGAGCTAGCC	60.740	54.545	12.13	2.59	34.90	3.93
967	1143	3.058639	GCTTAACCCTTGATGATGATCGC	60.059	47.826	0.00	0.00	0.00	4.58
997	1174	1.544724	GTGTCCAAGCTGCCCATTTA	58.455	50.000	0.00	0.00	0.00	1.40
1035	1212	1.300620	CTTGTCGTCGGTGAAGGCA	60.301	57.895	0.00	0.00	0.00	4.75
1042	1219	4.695231	CGCCGTCTTGTCGTCGGT	62.695	66.667	0.00	0.00	44.57	4.69
1068	1245	0.902531	GGACATCTTCGGGGTTGAGA	59.097	55.000	0.00	0.00	0.00	3.27
1133	1310	2.740714	GGCATGGACTCGACGTTGC	61.741	63.158	0.00	0.00	0.00	4.17
1155	1332	2.359975	GGCTTCACGTTGGGGAGG	60.360	66.667	0.00	0.00	0.00	4.30
1290	1467	2.027469	GGGGAAGAAGGCGAAGAAGTTA	60.027	50.000	0.00	0.00	0.00	2.24
1338	1515	2.060980	AGAGGCGATGAGGTCACCC	61.061	63.158	0.00	0.00	28.69	4.61
1341	1518	2.725312	GGCAGAGGCGATGAGGTCA	61.725	63.158	0.00	0.00	42.47	4.02
1407	1584	1.902508	TCAAGAGCGAGAACCTCCATT	59.097	47.619	0.00	0.00	0.00	3.16
1677	1854	4.467084	GAGCGGATGTTGGCGGGA	62.467	66.667	0.00	0.00	0.00	5.14
1965	2142	3.643199	TTGTGTGGGCTCATGCTAATA	57.357	42.857	0.00	0.00	39.59	0.98
2007	2184	1.464608	CGGACATACAAACAGGTGCAG	59.535	52.381	0.00	0.00	0.00	4.41
2178	2359	3.493699	GGAGCTTTGCGGTACCATATGTA	60.494	47.826	13.54	0.00	0.00	2.29
2223	2404	0.527113	CAAACATCTTCGCCATGGCA	59.473	50.000	34.93	19.88	42.06	4.92
2419	2601	1.873591	GAGCACGAACTTGTCACCAAT	59.126	47.619	0.00	0.00	0.00	3.16
2448	2630	0.105964	CCTGAAGTGACGACCCAACA	59.894	55.000	0.00	0.00	0.00	3.33
2568	2750	5.244626	GCCCTGAATATAAGGATTTGTGCAT	59.755	40.000	6.03	0.00	36.91	3.96
2688	2895	2.820197	TCAGCCTGCTACAGATATACCG	59.180	50.000	0.00	0.00	32.44	4.02
2783	2996	6.587273	GCTACCAGAGTCCTCTTGATTTAAT	58.413	40.000	2.68	0.00	37.98	1.40
2784	2997	5.394224	CGCTACCAGAGTCCTCTTGATTTAA	60.394	44.000	2.68	0.00	37.98	1.52
2786	2999	3.118956	CGCTACCAGAGTCCTCTTGATTT	60.119	47.826	2.68	0.00	37.98	2.17
2787	3000	2.428890	CGCTACCAGAGTCCTCTTGATT	59.571	50.000	2.68	0.00	37.98	2.57
2788	3001	2.028130	CGCTACCAGAGTCCTCTTGAT	58.972	52.381	2.68	0.00	37.98	2.57
2789	3002	1.004394	TCGCTACCAGAGTCCTCTTGA	59.996	52.381	2.68	0.00	37.98	3.02
2790	3003	1.403679	CTCGCTACCAGAGTCCTCTTG	59.596	57.143	0.00	0.00	37.98	3.02
2791	3004	1.004979	ACTCGCTACCAGAGTCCTCTT	59.995	52.381	0.00	0.00	44.87	2.85
2792	3005	0.621609	ACTCGCTACCAGAGTCCTCT	59.378	55.000	0.00	0.00	44.87	3.69
2793	3006	0.736053	CACTCGCTACCAGAGTCCTC	59.264	60.000	0.00	0.00	46.16	3.71
2794	3007	0.328592	TCACTCGCTACCAGAGTCCT	59.671	55.000	0.00	0.00	46.16	3.85
2795	3008	0.736053	CTCACTCGCTACCAGAGTCC	59.264	60.000	0.00	0.00	46.16	3.85
2796	3009	0.736053	CCTCACTCGCTACCAGAGTC	59.264	60.000	0.00	0.00	46.16	3.36
2969	3182	5.652014	TGGAGACTTTGTGACTCATTTTGTT	59.348	36.000	0.00	0.00	38.81	2.83
3050	3263	0.037790	TTTATTTGCCAGCCGGTTGC	60.038	50.000	13.64	8.90	41.71	4.17
3106	3319	5.510009	GGTTATTTTCAACCGGTTTGGATGT	60.510	40.000	19.55	5.12	41.16	3.06
3352	3565	1.106285	GAACATGGCTTGATGGGGTC	58.894	55.000	7.45	0.00	0.00	4.46
3481	3695	8.512138	GCTAGGTGTAGTTTTTGTGATTGTAAT	58.488	33.333	0.00	0.00	0.00	1.89

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.