AutoCloner

Multiple sequence alignment - TraesCS5D01G030000

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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	TraesCS5D01G030000	chr5D	100.000	2976	0	0	1	2976	27691829	27688854	0.000000e+00	5496.0
1	TraesCS5D01G030000	chr5D	87.316	544	52	4	1	540	27682345	27681815	9.120000e-170	606.0
2	TraesCS5D01G030000	chr5D	86.486	370	45	3	2201	2565	356641636	356641267	4.620000e-108	401.0
3	TraesCS5D01G030000	chr5D	93.750	160	6	2	761	916	27681352	27681193	1.380000e-58	237.0
4	TraesCS5D01G030000	chr5A	93.722	2947	107	31	1	2883	18951211	18948279	0.000000e+00	4346.0
5	TraesCS5D01G030000	chr5A	88.049	820	83	11	1378	2195	18915843	18915037	0.000000e+00	957.0
6	TraesCS5D01G030000	chr5A	87.744	563	55	10	1497	2049	18919694	18919136	0.000000e+00	645.0
7	TraesCS5D01G030000	chr5A	90.217	368	31	3	2202	2565	27690925	27690559	2.680000e-130	475.0
8	TraesCS5D01G030000	chr5A	95.556	180	8	0	988	1167	18920507	18920328	3.750000e-74	289.0
9	TraesCS5D01G030000	chr5A	88.235	153	15	1	1210	1362	18920317	18920168	2.360000e-41	180.0
10	TraesCS5D01G030000	chr5A	79.832	119	21	3	1044	1159	475310705	475310587	1.900000e-12	84.2
11	TraesCS5D01G030000	chr5B	90.286	1400	84	20	1278	2675	20014120	20015469	0.000000e+00	1784.0
12	TraesCS5D01G030000	chr5B	90.625	736	40	15	1	712	20673000	20672270	0.000000e+00	950.0
13	TraesCS5D01G030000	chr5B	90.625	736	40	15	1	712	20689210	20688480	0.000000e+00	950.0
14	TraesCS5D01G030000	chr5B	88.000	775	63	15	1278	2048	20671522	20670774	0.000000e+00	889.0
15	TraesCS5D01G030000	chr5B	88.000	775	63	15	1278	2048	20687732	20686984	0.000000e+00	889.0
16	TraesCS5D01G030000	chr5B	95.176	539	24	2	1	539	20012845	20013381	0.000000e+00	850.0
17	TraesCS5D01G030000	chr5B	90.875	526	33	6	709	1223	20672052	20671531	0.000000e+00	691.0
18	TraesCS5D01G030000	chr5B	90.875	526	33	6	709	1223	20688262	20687741	0.000000e+00	691.0
19	TraesCS5D01G030000	chr5B	88.504	548	58	2	1	544	20065613	20066159	0.000000e+00	658.0
20	TraesCS5D01G030000	chr5B	88.043	552	62	3	1497	2048	20073325	20073872	0.000000e+00	651.0
21	TraesCS5D01G030000	chr5B	85.263	570	64	5	1	566	20035611	20036164	1.200000e-158	569.0
22	TraesCS5D01G030000	chr5B	85.204	588	40	20	794	1363	20036640	20037198	7.200000e-156	560.0
23	TraesCS5D01G030000	chr5B	88.652	423	48	0	1538	1960	20048148	20048570	1.580000e-142	516.0
24	TraesCS5D01G030000	chr5B	88.443	424	49	0	1538	1961	20049010	20049433	2.050000e-141	512.0
25	TraesCS5D01G030000	chr5B	92.763	304	18	2	924	1223	20013808	20014111	1.270000e-118	436.0
26	TraesCS5D01G030000	chr5B	95.324	278	8	2	2704	2976	20027455	20027732	1.270000e-118	436.0
27	TraesCS5D01G030000	chr5B	83.817	482	43	21	923	1388	20072242	20072704	2.740000e-115	425.0
28	TraesCS5D01G030000	chr5B	93.392	227	15	0	2664	2890	20049433	20049659	1.320000e-88	337.0
29	TraesCS5D01G030000	chr5B	92.920	226	16	0	2665	2890	20048572	20048797	2.210000e-86	329.0
30	TraesCS5D01G030000	chr5B	92.511	227	17	0	2664	2890	20050295	20050521	2.860000e-85	326.0
31	TraesCS5D01G030000	chr5B	89.340	197	19	2	994	1190	684383955	684384149	2.290000e-61	246.0
32	TraesCS5D01G030000	chr5B	82.796	279	18	9	577	830	20013519	20013792	3.860000e-54	222.0
33	TraesCS5D01G030000	chr2B	89.362	376	36	2	2197	2568	785250664	785250289	1.250000e-128	470.0
34	TraesCS5D01G030000	chr3D	86.992	369	44	3	2201	2565	55223092	55223460	2.130000e-111	412.0
35	TraesCS5D01G030000	chr7A	86.340	388	38	9	2193	2573	636917185	636916806	2.760000e-110	409.0
36	TraesCS5D01G030000	chr4D	86.612	366	44	3	2202	2563	11147230	11147594	1.660000e-107	399.0
37	TraesCS5D01G030000	chr2D	85.942	377	48	3	2201	2572	58928295	58928671	5.980000e-107	398.0
38	TraesCS5D01G030000	chr1A	80.220	91	16	2	1001	1090	61713673	61713762	1.910000e-07	67.6

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	TraesCS5D01G030000	chr5D	27688854	27691829	2975	True	5496.000000	5496	100.000000	1	2976	1	chr5D.!!$R1	2975
1	TraesCS5D01G030000	chr5D	27681193	27682345	1152	True	421.500000	606	90.533000	1	916	2	chr5D.!!$R3	915
2	TraesCS5D01G030000	chr5A	18948279	18951211	2932	True	4346.000000	4346	93.722000	1	2883	1	chr5A.!!$R1	2882
3	TraesCS5D01G030000	chr5A	18915037	18920507	5470	True	517.750000	957	89.896000	988	2195	4	chr5A.!!$R4	1207
4	TraesCS5D01G030000	chr5B	20670774	20673000	2226	True	843.333333	950	89.833333	1	2048	3	chr5B.!!$R1	2047
5	TraesCS5D01G030000	chr5B	20686984	20689210	2226	True	843.333333	950	89.833333	1	2048	3	chr5B.!!$R2	2047
6	TraesCS5D01G030000	chr5B	20012845	20015469	2624	False	823.000000	1784	90.255250	1	2675	4	chr5B.!!$F4	2674
7	TraesCS5D01G030000	chr5B	20065613	20066159	546	False	658.000000	658	88.504000	1	544	1	chr5B.!!$F2	543
8	TraesCS5D01G030000	chr5B	20035611	20037198	1587	False	564.500000	569	85.233500	1	1363	2	chr5B.!!$F5	1362
9	TraesCS5D01G030000	chr5B	20072242	20073872	1630	False	538.000000	651	85.930000	923	2048	2	chr5B.!!$F7	1125
10	TraesCS5D01G030000	chr5B	20048148	20050521	2373	False	404.000000	516	91.183600	1538	2890	5	chr5B.!!$F6	1352

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
128	129	0.660005	CGTTGTTGACGCCCATGTTG	60.66	55.0	0.0	0.0	45.86	3.33	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2013	8240	0.5312	CTCGTGGGTTGGGTAGAGAC	59.469	60.0	0.0	0.0	0.0	3.36	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
128	129	0.660005	CGTTGTTGACGCCCATGTTG	60.660	55.000	0.00	0.00	45.86	3.33
388	389	1.001520	GGGGTAATTTTGTTTGCGCCT	59.998	47.619	4.18	0.00	39.92	5.52
402	409	5.644206	TGTTTGCGCCTCACAATACTATTTA	59.356	36.000	4.18	0.00	0.00	1.40
919	1591	1.727857	CGGCGTGCTAAATGAACAACC	60.728	52.381	0.00	0.00	0.00	3.77
920	1592	1.402325	GGCGTGCTAAATGAACAACCC	60.402	52.381	0.00	0.00	0.00	4.11
921	1593	1.402325	GCGTGCTAAATGAACAACCCC	60.402	52.381	0.00	0.00	0.00	4.95
973	1649	2.371306	TGGACGCATAGTAGTGCACTA	58.629	47.619	22.67	22.67	45.30	2.74
1226	1930	3.403038	TGTAGGAAGCAAGAAACAGAGC	58.597	45.455	0.00	0.00	0.00	4.09
1269	1973	2.429971	GGCCAAGGTCACCTACTACTAC	59.570	54.545	0.00	0.00	31.13	2.73
1289	1993	3.225104	ACTACTAACACTGTTCCCGTCA	58.775	45.455	0.00	0.00	0.00	4.35
1366	2070	1.760613	TCTACCGTAAGCCTTCATGGG	59.239	52.381	0.00	0.00	36.00	4.00
1493	6794	7.868922	TGAGTGTTACTAATTTCTCTACGCAAA	59.131	33.333	0.00	0.00	0.00	3.68
1849	8076	4.471908	ATGGCGACGGAGCATGCA	62.472	61.111	21.98	0.00	39.27	3.96
1942	8169	1.347243	TGATAGCTGGCATGCCTCCA	61.347	55.000	35.53	20.22	36.94	3.86
2000	8227	2.094597	GGCATATGCTTTGTGTGCTTGA	60.095	45.455	26.12	0.00	41.70	3.02
2013	8240	3.244814	GTGTGCTTGAGATGCTCTAATCG	59.755	47.826	0.00	0.00	0.00	3.34
2050	8277	5.795441	CCACGAGAAATAAAGTAAGCAAAGC	59.205	40.000	0.00	0.00	0.00	3.51
2161	8389	2.972625	TGCCCTCTATTTCTGTCAACG	58.027	47.619	0.00	0.00	0.00	4.10
2202	8431	5.536161	ACCAATGTTGTTGCAAAGTCTCTAT	59.464	36.000	0.00	0.00	0.00	1.98
2203	8432	6.088824	CCAATGTTGTTGCAAAGTCTCTATC	58.911	40.000	0.00	0.00	0.00	2.08
2208	8437	6.868864	TGTTGTTGCAAAGTCTCTATCTCTAC	59.131	38.462	0.00	0.00	0.00	2.59
2239	8468	6.894339	AAAGAATGTAAGGTTCCGTTTCAT	57.106	33.333	0.00	0.00	0.00	2.57
2244	8473	6.894339	ATGTAAGGTTCCGTTTCATCTTTT	57.106	33.333	0.00	0.00	0.00	2.27
2275	8504	0.187361	CCTTTGTCCAACCTTCCCCA	59.813	55.000	0.00	0.00	0.00	4.96
2344	8573	8.871686	ACTTTAATTTACTTGCCAAACTTCTG	57.128	30.769	0.00	0.00	0.00	3.02
2680	8911	8.041323	ACTATCTACCAAACTCATTGTAAGTGG	58.959	37.037	0.00	0.00	37.32	4.00
2687	8918	6.938030	CCAAACTCATTGTAAGTGGGTACTTA	59.062	38.462	0.00	0.00	40.12	2.24
2711	8942	4.684703	CGAGAAAACTCACGAACCTACATT	59.315	41.667	0.00	0.00	0.00	2.71
2712	8943	5.176958	CGAGAAAACTCACGAACCTACATTT	59.823	40.000	0.00	0.00	0.00	2.32
2718	8949	2.546368	TCACGAACCTACATTTGCACAC	59.454	45.455	0.00	0.00	0.00	3.82
2745	8976	2.997986	GGTGAAGCAGCCATGAATTTTG	59.002	45.455	0.00	0.00	0.00	2.44
2841	9072	3.565764	TCATCTGGCCCTTGTTCATAG	57.434	47.619	0.00	0.00	0.00	2.23
2857	9088	5.531659	TGTTCATAGATCGGTCTTAGAGGAC	59.468	44.000	2.08	0.00	35.87	3.85
2890	9121	4.104738	AGAAGACAATGTCTCCCTTTTGGA	59.895	41.667	17.02	0.00	42.59	3.53
2891	9122	4.453480	AGACAATGTCTCCCTTTTGGAA	57.547	40.909	10.56	0.00	44.57	3.53
2892	9123	4.401925	AGACAATGTCTCCCTTTTGGAAG	58.598	43.478	10.56	0.00	44.57	3.46
2893	9124	4.104738	AGACAATGTCTCCCTTTTGGAAGA	59.895	41.667	10.56	0.00	44.57	2.87
2894	9125	5.003096	ACAATGTCTCCCTTTTGGAAGAT	57.997	39.130	0.00	0.00	44.57	2.40
2895	9126	4.768968	ACAATGTCTCCCTTTTGGAAGATG	59.231	41.667	0.00	0.00	44.57	2.90
2896	9127	4.934797	ATGTCTCCCTTTTGGAAGATGA	57.065	40.909	0.00	0.00	44.57	2.92
2897	9128	4.021102	TGTCTCCCTTTTGGAAGATGAC	57.979	45.455	0.00	0.00	44.57	3.06
2898	9129	3.244911	TGTCTCCCTTTTGGAAGATGACC	60.245	47.826	0.00	0.00	44.57	4.02
2899	9130	2.308866	TCTCCCTTTTGGAAGATGACCC	59.691	50.000	0.00	0.00	44.57	4.46
2900	9131	1.357761	TCCCTTTTGGAAGATGACCCC	59.642	52.381	0.00	0.00	41.40	4.95
2901	9132	1.619704	CCCTTTTGGAAGATGACCCCC	60.620	57.143	0.00	0.00	44.07	5.40
2922	9153	5.452255	CCCCCTCCCTAAATAAAAGTTACC	58.548	45.833	0.00	0.00	0.00	2.85
2923	9154	5.195146	CCCCCTCCCTAAATAAAAGTTACCT	59.805	44.000	0.00	0.00	0.00	3.08
2924	9155	6.298007	CCCCCTCCCTAAATAAAAGTTACCTT	60.298	42.308	0.00	0.00	0.00	3.50
2925	9156	7.186972	CCCCTCCCTAAATAAAAGTTACCTTT	58.813	38.462	0.00	0.00	42.73	3.11
2937	9168	7.924103	AAAAGTTACCTTTTAACATCTTGCG	57.076	32.000	0.00	0.00	46.49	4.85
2938	9169	5.043189	AGTTACCTTTTAACATCTTGCGC	57.957	39.130	0.00	0.00	0.00	6.09
2939	9170	2.611974	ACCTTTTAACATCTTGCGCG	57.388	45.000	0.00	0.00	0.00	6.86
2940	9171	1.877443	ACCTTTTAACATCTTGCGCGT	59.123	42.857	8.43	0.00	0.00	6.01
2941	9172	3.068560	ACCTTTTAACATCTTGCGCGTA	58.931	40.909	8.43	0.00	0.00	4.42
2942	9173	3.687698	ACCTTTTAACATCTTGCGCGTAT	59.312	39.130	8.43	0.00	0.00	3.06
2943	9174	4.155280	ACCTTTTAACATCTTGCGCGTATT	59.845	37.500	8.43	0.00	0.00	1.89
2944	9175	4.495472	CCTTTTAACATCTTGCGCGTATTG	59.505	41.667	8.43	4.33	0.00	1.90
2945	9176	2.730183	TAACATCTTGCGCGTATTGC	57.270	45.000	8.43	0.00	41.47	3.56
2946	9177	0.801872	AACATCTTGCGCGTATTGCA	59.198	45.000	8.43	0.00	46.97	4.08
2947	9178	0.096976	ACATCTTGCGCGTATTGCAC	59.903	50.000	8.43	0.00	46.97	4.57
2948	9179	0.589729	CATCTTGCGCGTATTGCACC	60.590	55.000	8.43	0.00	46.97	5.01
2949	9180	0.744414	ATCTTGCGCGTATTGCACCT	60.744	50.000	8.43	0.00	46.97	4.00
2950	9181	0.108567	TCTTGCGCGTATTGCACCTA	60.109	50.000	8.43	0.00	46.97	3.08
2951	9182	0.301687	CTTGCGCGTATTGCACCTAG	59.698	55.000	8.43	0.00	46.97	3.02
2952	9183	1.701545	TTGCGCGTATTGCACCTAGC	61.702	55.000	8.43	0.00	46.97	3.42
2953	9184	2.882366	GCGCGTATTGCACCTAGCC	61.882	63.158	8.43	0.00	46.97	3.93
2954	9185	1.520564	CGCGTATTGCACCTAGCCA	60.521	57.895	0.00	0.00	46.97	4.75
2955	9186	1.087202	CGCGTATTGCACCTAGCCAA	61.087	55.000	0.00	0.00	46.97	4.52
2956	9187	1.308998	GCGTATTGCACCTAGCCAAT	58.691	50.000	0.00	6.70	45.45	3.16
2957	9188	2.489971	GCGTATTGCACCTAGCCAATA	58.510	47.619	0.00	5.24	45.45	1.90
2958	9189	2.875933	GCGTATTGCACCTAGCCAATAA	59.124	45.455	9.08	0.00	45.45	1.40
2959	9190	3.058914	GCGTATTGCACCTAGCCAATAAG	60.059	47.826	12.83	12.83	45.45	1.73
2960	9191	4.127171	CGTATTGCACCTAGCCAATAAGT	58.873	43.478	9.08	0.00	44.83	2.24
2961	9192	4.024893	CGTATTGCACCTAGCCAATAAGTG	60.025	45.833	9.08	1.05	44.83	3.16
2962	9193	3.433306	TTGCACCTAGCCAATAAGTGT	57.567	42.857	0.00	0.00	44.83	3.55
2963	9194	3.433306	TGCACCTAGCCAATAAGTGTT	57.567	42.857	0.00	0.00	44.83	3.32
2964	9195	3.343617	TGCACCTAGCCAATAAGTGTTC	58.656	45.455	0.00	0.00	44.83	3.18
2965	9196	3.009033	TGCACCTAGCCAATAAGTGTTCT	59.991	43.478	0.00	0.00	44.83	3.01
2966	9197	3.623510	GCACCTAGCCAATAAGTGTTCTC	59.376	47.826	0.00	0.00	37.23	2.87
2967	9198	4.192317	CACCTAGCCAATAAGTGTTCTCC	58.808	47.826	0.00	0.00	0.00	3.71
2968	9199	3.844211	ACCTAGCCAATAAGTGTTCTCCA	59.156	43.478	0.00	0.00	0.00	3.86
2969	9200	4.475016	ACCTAGCCAATAAGTGTTCTCCAT	59.525	41.667	0.00	0.00	0.00	3.41
2970	9201	5.665812	ACCTAGCCAATAAGTGTTCTCCATA	59.334	40.000	0.00	0.00	0.00	2.74
2971	9202	6.157994	ACCTAGCCAATAAGTGTTCTCCATAA	59.842	38.462	0.00	0.00	0.00	1.90
2972	9203	7.147302	ACCTAGCCAATAAGTGTTCTCCATAAT	60.147	37.037	0.00	0.00	0.00	1.28
2973	9204	8.375506	CCTAGCCAATAAGTGTTCTCCATAATA	58.624	37.037	0.00	0.00	0.00	0.98
2974	9205	9.778741	CTAGCCAATAAGTGTTCTCCATAATAA	57.221	33.333	0.00	0.00	0.00	1.40

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
128	129	1.527844	CCTGGCCAAGATAGCAGCC	60.528	63.158	7.01	0.20	45.96	4.85
402	409	3.718723	AGACATCCTGTAGGCTTTCTCT	58.281	45.455	0.00	0.00	34.44	3.10
573	698	8.594550	AGTAACTCATAGCCTTTTCTACAAGAA	58.405	33.333	0.00	0.00	31.28	2.52
575	700	8.035394	TGAGTAACTCATAGCCTTTTCTACAAG	58.965	37.037	0.00	0.00	35.39	3.16
581	730	9.914131	AAAAATTGAGTAACTCATAGCCTTTTC	57.086	29.630	0.00	0.00	40.39	2.29
628	777	0.702316	AGGCGTAGGATTTTTGGGGT	59.298	50.000	0.00	0.00	0.00	4.95
629	778	1.102978	CAGGCGTAGGATTTTTGGGG	58.897	55.000	0.00	0.00	0.00	4.96
837	1502	3.930848	GGTTCCCTGTATACAGTCAAACG	59.069	47.826	27.07	13.25	42.27	3.60
919	1591	2.298610	TCATCGAGCACTAGTAGTGGG	58.701	52.381	27.48	7.74	46.01	4.61
920	1592	3.565902	TCATCATCGAGCACTAGTAGTGG	59.434	47.826	27.48	13.94	46.01	4.00
973	1649	1.722034	TCTTCTCCCTCTGTGCTTGT	58.278	50.000	0.00	0.00	0.00	3.16
1269	1973	3.928727	TGACGGGAACAGTGTTAGTAG	57.071	47.619	8.88	3.78	0.00	2.57
1289	1993	1.270550	CGAAGGGCTGCAGAATTGTTT	59.729	47.619	20.43	1.88	0.00	2.83
1849	8076	1.560923	GATACGCATCGAGCACAACT	58.439	50.000	7.47	0.00	46.13	3.16
1942	8169	1.668419	CGCTCCCGAATCCAAAATCT	58.332	50.000	0.00	0.00	36.29	2.40
2013	8240	0.531200	CTCGTGGGTTGGGTAGAGAC	59.469	60.000	0.00	0.00	0.00	3.36
2050	8277	5.123227	AGTTATTTCATATCCACACCCACG	58.877	41.667	0.00	0.00	0.00	4.94
2161	8389	2.588620	TGGTGTGAAAACCATGGTACC	58.411	47.619	20.12	20.62	45.43	3.34
2208	8437	8.996271	ACGGAACCTTACATTCTTTTTAAGTAG	58.004	33.333	0.00	0.00	0.00	2.57
2244	8473	1.203125	GGACAAAGGGGTGATGGGAAA	60.203	52.381	0.00	0.00	0.00	3.13
2260	8489	6.850263	TTATTATATGGGGAAGGTTGGACA	57.150	37.500	0.00	0.00	0.00	4.02
2344	8573	8.739972	ACCTGTGATTTACCTTATGTTTTGATC	58.260	33.333	0.00	0.00	0.00	2.92
2462	8691	7.492020	TGCCATTGTGTAAATAAATGCTCATTC	59.508	33.333	0.00	0.00	31.34	2.67
2538	8767	2.929903	AATGCCCGTGCGTTGCAAT	61.930	52.632	0.59	0.43	44.90	3.56
2711	8942	1.102154	CTTCACCACCTTGTGTGCAA	58.898	50.000	0.00	0.00	44.01	4.08
2712	8943	1.383456	GCTTCACCACCTTGTGTGCA	61.383	55.000	0.00	0.00	44.01	4.57
2718	8949	0.896940	ATGGCTGCTTCACCACCTTG	60.897	55.000	0.00	0.00	39.19	3.61
2745	8976	7.306866	GCGAATGTTCCTATTCTCACATAGTTC	60.307	40.741	0.00	0.00	35.42	3.01
2841	9072	1.334243	CACCGTCCTCTAAGACCGATC	59.666	57.143	0.00	0.00	32.91	3.69
2857	9088	3.589988	ACATTGTCTTCTAGAAGCACCG	58.410	45.455	25.04	19.16	38.28	4.94
2899	9130	5.452255	GGTAACTTTTATTTAGGGAGGGGG	58.548	45.833	0.00	0.00	0.00	5.40
2917	9148	3.844099	CGCGCAAGATGTTAAAAGGTAAC	59.156	43.478	8.75	0.00	43.02	2.50
2918	9149	3.499157	ACGCGCAAGATGTTAAAAGGTAA	59.501	39.130	5.73	0.00	43.02	2.85
2919	9150	3.068560	ACGCGCAAGATGTTAAAAGGTA	58.931	40.909	5.73	0.00	43.02	3.08
2920	9151	1.877443	ACGCGCAAGATGTTAAAAGGT	59.123	42.857	5.73	0.00	43.02	3.50
2921	9152	2.611974	ACGCGCAAGATGTTAAAAGG	57.388	45.000	5.73	0.00	43.02	3.11
2922	9153	4.028509	GCAATACGCGCAAGATGTTAAAAG	60.029	41.667	5.73	0.00	43.02	2.27
2923	9154	3.849145	GCAATACGCGCAAGATGTTAAAA	59.151	39.130	5.73	0.00	43.02	1.52
2924	9155	3.120165	TGCAATACGCGCAAGATGTTAAA	60.120	39.130	5.73	0.00	46.97	1.52
2925	9156	2.416893	TGCAATACGCGCAAGATGTTAA	59.583	40.909	5.73	0.00	46.97	2.01
2926	9157	2.003301	TGCAATACGCGCAAGATGTTA	58.997	42.857	5.73	0.00	46.97	2.41
2927	9158	0.801872	TGCAATACGCGCAAGATGTT	59.198	45.000	5.73	0.00	46.97	2.71
2928	9159	2.465774	TGCAATACGCGCAAGATGT	58.534	47.368	5.73	0.00	46.97	3.06
2936	9167	1.087202	TTGGCTAGGTGCAATACGCG	61.087	55.000	3.53	3.53	46.97	6.01
2937	9168	1.308998	ATTGGCTAGGTGCAATACGC	58.691	50.000	0.00	0.00	45.15	4.42
2938	9169	4.024893	CACTTATTGGCTAGGTGCAATACG	60.025	45.833	0.00	0.00	45.15	3.06
2939	9170	4.881850	ACACTTATTGGCTAGGTGCAATAC	59.118	41.667	0.00	0.00	40.22	1.89
2940	9171	5.110814	ACACTTATTGGCTAGGTGCAATA	57.889	39.130	0.00	0.00	40.22	1.90
2941	9172	3.968265	ACACTTATTGGCTAGGTGCAAT	58.032	40.909	0.00	0.00	40.22	3.56
2942	9173	3.433306	ACACTTATTGGCTAGGTGCAA	57.567	42.857	0.00	0.00	40.22	4.08
2943	9174	3.009033	AGAACACTTATTGGCTAGGTGCA	59.991	43.478	0.00	0.00	40.22	4.57
2944	9175	3.610911	AGAACACTTATTGGCTAGGTGC	58.389	45.455	0.00	0.00	40.22	5.01
2945	9176	4.192317	GGAGAACACTTATTGGCTAGGTG	58.808	47.826	0.00	0.00	41.81	4.00
2946	9177	3.844211	TGGAGAACACTTATTGGCTAGGT	59.156	43.478	0.00	0.00	0.00	3.08
2947	9178	4.487714	TGGAGAACACTTATTGGCTAGG	57.512	45.455	0.00	0.00	0.00	3.02
2948	9179	9.778741	TTATTATGGAGAACACTTATTGGCTAG	57.221	33.333	0.00	0.00	0.00	3.42

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.