AutoCloner

Multiple sequence alignment - TraesCS3B01G285900

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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	TraesCS3B01G285900	chr3B	100.000	3267	0	0	1	3267	457636743	457633477	0.000000e+00	6034.0
1	TraesCS3B01G285900	chr3B	100.000	120	0	0	3426	3545	457633318	457633199	4.610000e-54	222.0
2	TraesCS3B01G285900	chr3A	93.015	2577	94	25	701	3247	475306657	475304137	0.000000e+00	3683.0
3	TraesCS3B01G285900	chr3A	94.958	119	6	0	3427	3545	475303676	475303558	1.680000e-43	187.0
4	TraesCS3B01G285900	chr3D	94.700	2302	58	28	692	2961	356624906	356622637	0.000000e+00	3517.0
5	TraesCS3B01G285900	chr3D	87.838	222	22	5	3045	3266	356622604	356622388	4.540000e-64	255.0
6	TraesCS3B01G285900	chr1D	91.041	1518	134	2	1019	2535	16504637	16506153	0.000000e+00	2049.0
7	TraesCS3B01G285900	chrUn	90.308	1558	145	5	979	2535	2669499	2667947	0.000000e+00	2036.0
8	TraesCS3B01G285900	chr2B	96.961	691	9	8	1	690	629109613	629108934	0.000000e+00	1149.0
9	TraesCS3B01G285900	chr2B	97.290	369	7	2	325	690	90434451	90434083	1.080000e-174	623.0
10	TraesCS3B01G285900	chr2B	99.123	342	3	0	1	342	90434719	90434378	1.810000e-172	616.0
11	TraesCS3B01G285900	chr1A	92.795	694	22	18	1	692	485328862	485328195	0.000000e+00	979.0
12	TraesCS3B01G285900	chr1A	97.003	367	10	1	325	690	507990244	507989878	1.810000e-172	616.0
13	TraesCS3B01G285900	chr1A	99.123	342	3	0	1	342	507990512	507990171	1.810000e-172	616.0
14	TraesCS3B01G285900	chr5A	89.870	691	31	18	1	690	666316558	666315906	0.000000e+00	852.0
15	TraesCS3B01G285900	chr7A	89.451	692	34	18	1	691	705282207	705281554	0.000000e+00	837.0
16	TraesCS3B01G285900	chr7A	96.486	370	11	2	325	693	556141482	556141850	8.410000e-171	610.0
17	TraesCS3B01G285900	chr7A	94.444	360	2	1	1	342	556141196	556141555	4.030000e-149	538.0
18	TraesCS3B01G285900	chr4A	99.708	342	1	0	1	342	3253562	3253221	8.350000e-176	627.0
19	TraesCS3B01G285900	chr4A	97.035	371	10	1	325	694	3253294	3252924	1.080000e-174	623.0
20	TraesCS3B01G285900	chr1B	99.415	342	2	0	1	342	30530562	30530221	3.890000e-174	621.0
21	TraesCS3B01G285900	chr1B	97.019	369	10	1	325	692	30530294	30529926	1.400000e-173	619.0
22	TraesCS3B01G285900	chr5B	97.003	367	10	1	325	690	448586784	448586418	1.810000e-172	616.0
23	TraesCS3B01G285900	chr7D	90.933	386	35	0	1322	1707	562417543	562417158	1.460000e-143	520.0
24	TraesCS3B01G285900	chr7D	94.805	154	8	0	1212	1365	562417691	562417538	1.270000e-59	241.0
25	TraesCS3B01G285900	chr4D	80.412	97	7	8	3103	3187	439697761	439697857	2.950000e-06	63.9
26	TraesCS3B01G285900	chr5D	100.000	29	0	0	3161	3189	369876175	369876203	2.000000e-03	54.7

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	TraesCS3B01G285900	chr3B	457633199	457636743	3544	True	3128.0	6034	100.0000	1	3545	2	chr3B.!!$R1	3544
1	TraesCS3B01G285900	chr3A	475303558	475306657	3099	True	1935.0	3683	93.9865	701	3545	2	chr3A.!!$R1	2844
2	TraesCS3B01G285900	chr3D	356622388	356624906	2518	True	1886.0	3517	91.2690	692	3266	2	chr3D.!!$R1	2574
3	TraesCS3B01G285900	chr1D	16504637	16506153	1516	False	2049.0	2049	91.0410	1019	2535	1	chr1D.!!$F1	1516
4	TraesCS3B01G285900	chrUn	2667947	2669499	1552	True	2036.0	2036	90.3080	979	2535	1	chrUn.!!$R1	1556
5	TraesCS3B01G285900	chr2B	629108934	629109613	679	True	1149.0	1149	96.9610	1	690	1	chr2B.!!$R1	689
6	TraesCS3B01G285900	chr2B	90434083	90434719	636	True	619.5	623	98.2065	1	690	2	chr2B.!!$R2	689
7	TraesCS3B01G285900	chr1A	485328195	485328862	667	True	979.0	979	92.7950	1	692	1	chr1A.!!$R1	691
8	TraesCS3B01G285900	chr1A	507989878	507990512	634	True	616.0	616	98.0630	1	690	2	chr1A.!!$R2	689
9	TraesCS3B01G285900	chr5A	666315906	666316558	652	True	852.0	852	89.8700	1	690	1	chr5A.!!$R1	689
10	TraesCS3B01G285900	chr7A	705281554	705282207	653	True	837.0	837	89.4510	1	691	1	chr7A.!!$R1	690
11	TraesCS3B01G285900	chr7A	556141196	556141850	654	False	574.0	610	95.4650	1	693	2	chr7A.!!$F1	692
12	TraesCS3B01G285900	chr4A	3252924	3253562	638	True	625.0	627	98.3715	1	694	2	chr4A.!!$R1	693
13	TraesCS3B01G285900	chr1B	30529926	30530562	636	True	620.0	621	98.2170	1	692	2	chr1B.!!$R1	691
14	TraesCS3B01G285900	chr7D	562417158	562417691	533	True	380.5	520	92.8690	1212	1707	2	chr7D.!!$R1	495

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
973	1081	0.0293	CCAAGTTGCCAACACAGTCG	59.971	55.0	10.69	0.0	0.0	4.18	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2969	3165	0.037697	TCCGTTGACGTAGCATTGCT	60.038	50.0	16.63	16.63	38.46	3.91	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
320	397	4.148825	CTGGCGTCGGAGGGGAAG	62.149	72.222	0.00	0.00	0.00	3.46
328	405	3.471806	GGAGGGGAAGGCGGAGAC	61.472	72.222	0.00	0.00	0.00	3.36
348	425	4.148825	CTGGCGTCGGAGGGGAAG	62.149	72.222	0.00	0.00	0.00	3.46
356	433	3.471806	GGAGGGGAAGGCGGAGAC	61.472	72.222	0.00	0.00	0.00	3.36
725	824	0.945265	CTCGCGAACAAAACCCCGTA	60.945	55.000	11.33	0.00	0.00	4.02
923	1025	4.127907	CCGGCTGCTCTATATATACTCGA	58.872	47.826	0.00	0.00	0.00	4.04
969	1077	0.529833	CACACCAAGTTGCCAACACA	59.470	50.000	10.69	0.00	0.00	3.72
970	1078	0.817013	ACACCAAGTTGCCAACACAG	59.183	50.000	10.69	0.00	0.00	3.66
971	1079	0.817013	CACCAAGTTGCCAACACAGT	59.183	50.000	10.69	0.50	0.00	3.55
972	1080	1.102978	ACCAAGTTGCCAACACAGTC	58.897	50.000	10.69	0.00	0.00	3.51
973	1081	0.029300	CCAAGTTGCCAACACAGTCG	59.971	55.000	10.69	0.00	0.00	4.18
974	1082	0.732571	CAAGTTGCCAACACAGTCGT	59.267	50.000	10.69	0.00	0.00	4.34
975	1083	1.937223	CAAGTTGCCAACACAGTCGTA	59.063	47.619	10.69	0.00	0.00	3.43
977	1085	0.234884	GTTGCCAACACAGTCGTAGC	59.765	55.000	1.91	0.00	0.00	3.58
978	1086	0.179070	TTGCCAACACAGTCGTAGCA	60.179	50.000	0.00	0.00	0.00	3.49
979	1087	0.599991	TGCCAACACAGTCGTAGCAG	60.600	55.000	0.00	0.00	0.00	4.24
980	1088	1.901650	GCCAACACAGTCGTAGCAGC	61.902	60.000	0.00	0.00	0.00	5.25
981	1089	0.599991	CCAACACAGTCGTAGCAGCA	60.600	55.000	0.00	0.00	0.00	4.41
982	1090	0.786581	CAACACAGTCGTAGCAGCAG	59.213	55.000	0.00	0.00	0.00	4.24
983	1091	0.946221	AACACAGTCGTAGCAGCAGC	60.946	55.000	0.00	0.00	42.56	5.25
984	1092	1.373371	CACAGTCGTAGCAGCAGCA	60.373	57.895	3.17	0.00	45.49	4.41
985	1093	0.945743	CACAGTCGTAGCAGCAGCAA	60.946	55.000	3.17	0.00	45.49	3.91
988	1113	0.671781	AGTCGTAGCAGCAGCAAAGG	60.672	55.000	3.17	0.00	45.49	3.11
993	1118	0.392998	TAGCAGCAGCAAAGGTAGCC	60.393	55.000	3.17	0.00	45.49	3.93
2550	2713	2.430921	GCCGACGTGTGAGGTCTG	60.431	66.667	0.00	0.00	31.33	3.51
2556	2719	0.315568	ACGTGTGAGGTCTGAAGAGC	59.684	55.000	1.20	1.20	42.47	4.09
2626	2789	4.639171	GCCGCCCGTGTGTTTTGG	62.639	66.667	0.00	0.00	0.00	3.28
2627	2790	3.972276	CCGCCCGTGTGTTTTGGG	61.972	66.667	0.00	0.00	46.22	4.12
2630	2793	3.532501	CCCGTGTGTTTTGGGCTT	58.467	55.556	0.00	0.00	35.82	4.35
2631	2794	1.819905	CCCGTGTGTTTTGGGCTTT	59.180	52.632	0.00	0.00	35.82	3.51
2632	2795	0.176910	CCCGTGTGTTTTGGGCTTTT	59.823	50.000	0.00	0.00	35.82	2.27
2633	2796	1.285578	CCGTGTGTTTTGGGCTTTTG	58.714	50.000	0.00	0.00	0.00	2.44
2674	2860	3.964875	CGCCGGCTTTGTGCTGTT	61.965	61.111	26.68	0.00	46.27	3.16
2675	2861	2.417097	GCCGGCTTTGTGCTGTTT	59.583	55.556	22.15	0.00	46.27	2.83
2676	2862	1.227234	GCCGGCTTTGTGCTGTTTT	60.227	52.632	22.15	0.00	46.27	2.43
2677	2863	0.809636	GCCGGCTTTGTGCTGTTTTT	60.810	50.000	22.15	0.00	46.27	1.94
2707	2893	1.133790	GGGTGCTTTATGCTGCTTCTG	59.866	52.381	0.00	0.00	43.37	3.02
2766	2958	1.472082	TCCGCATGTTGCTGTTTATGG	59.528	47.619	0.00	0.00	42.25	2.74
2825	3020	6.993878	AGAGACGTGAAATATCGATGTTTTG	58.006	36.000	19.41	14.74	0.00	2.44
2826	3021	6.811665	AGAGACGTGAAATATCGATGTTTTGA	59.188	34.615	19.41	8.46	0.00	2.69
2922	3118	0.622665	CAGCAGGGATCCAGGTTCTT	59.377	55.000	15.23	0.00	0.00	2.52
2963	3159	8.499406	ACAGAGAGACCTATCTTACTTGATACT	58.501	37.037	0.00	0.00	34.34	2.12
2964	3160	9.349713	CAGAGAGACCTATCTTACTTGATACTT	57.650	37.037	0.00	0.00	34.34	2.24
2965	3161	9.930158	AGAGAGACCTATCTTACTTGATACTTT	57.070	33.333	0.00	0.00	34.34	2.66
2966	3162	9.959749	GAGAGACCTATCTTACTTGATACTTTG	57.040	37.037	0.00	0.00	34.34	2.77
2967	3163	9.702253	AGAGACCTATCTTACTTGATACTTTGA	57.298	33.333	0.00	0.00	34.34	2.69
2978	3174	9.830975	TTACTTGATACTTTGATAGCAATGCTA	57.169	29.630	17.97	17.97	45.55	3.49
2979	3175	8.147642	ACTTGATACTTTGATAGCAATGCTAC	57.852	34.615	18.02	11.76	44.24	3.58
2980	3176	6.769608	TGATACTTTGATAGCAATGCTACG	57.230	37.500	18.02	6.47	44.24	3.51
2981	3177	6.280643	TGATACTTTGATAGCAATGCTACGT	58.719	36.000	18.02	11.54	44.24	3.57
2982	3178	6.420903	TGATACTTTGATAGCAATGCTACGTC	59.579	38.462	18.02	12.58	44.24	4.34
2983	3179	4.503910	ACTTTGATAGCAATGCTACGTCA	58.496	39.130	18.02	15.08	44.24	4.35
2985	3181	4.857871	TTGATAGCAATGCTACGTCAAC	57.142	40.909	20.90	9.52	44.24	3.18
2987	3183	1.635844	TAGCAATGCTACGTCAACGG	58.364	50.000	11.40	0.00	41.10	4.44
2988	3184	0.037697	AGCAATGCTACGTCAACGGA	60.038	50.000	5.69	0.00	44.95	4.69
2990	3186	1.396996	GCAATGCTACGTCAACGGAAT	59.603	47.619	7.53	0.00	44.95	3.01
2991	3187	2.605818	GCAATGCTACGTCAACGGAATA	59.394	45.455	7.53	0.00	44.95	1.75
2992	3188	3.062909	GCAATGCTACGTCAACGGAATAA	59.937	43.478	7.53	0.00	44.95	1.40
2993	3189	4.436317	GCAATGCTACGTCAACGGAATAAA	60.436	41.667	7.53	0.00	44.95	1.40
3033	3229	6.183360	ACGGACTTAAGCTTATTAGAGCATCA	60.183	38.462	7.08	0.00	45.12	3.07
3062	3258	8.307483	GTCGATTCCTCATAATTCCTCTTATCA	58.693	37.037	0.00	0.00	0.00	2.15
3119	3315	2.393646	GACCCTCTTATCTGGCTGACT	58.606	52.381	0.00	0.00	0.00	3.41
3148	3344	0.179045	GAGGGTGGCATATGCGAACT	60.179	55.000	24.46	19.46	43.26	3.01
3149	3345	0.464373	AGGGTGGCATATGCGAACTG	60.464	55.000	24.46	0.00	43.26	3.16
3151	3347	0.657840	GGTGGCATATGCGAACTGAC	59.342	55.000	19.36	9.53	43.26	3.51
3153	3349	2.009774	GTGGCATATGCGAACTGACTT	58.990	47.619	21.04	0.00	43.26	3.01
3154	3350	2.420022	GTGGCATATGCGAACTGACTTT	59.580	45.455	21.04	0.00	43.26	2.66
3159	3355	1.967319	ATGCGAACTGACTTTGTGGT	58.033	45.000	0.00	0.00	0.00	4.16
3236	3432	3.526931	TGTCATCGTCTGATCTTTCCC	57.473	47.619	0.00	0.00	35.97	3.97
3248	3847	6.434340	GTCTGATCTTTCCCCACAACTAAAAT	59.566	38.462	0.00	0.00	0.00	1.82
3252	3851	7.726291	TGATCTTTCCCCACAACTAAAATTGTA	59.274	33.333	0.00	0.00	40.89	2.41
3453	4052	9.345517	GGTAACATTACCGAAAATTAAACCTTC	57.654	33.333	5.08	0.00	43.30	3.46

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
331	408	4.148825	CTTCCCCTCCGACGCCAG	62.149	72.222	0.00	0.00	0.00	4.85
339	416	3.471806	GTCTCCGCCTTCCCCTCC	61.472	72.222	0.00	0.00	0.00	4.30
340	417	3.839432	CGTCTCCGCCTTCCCCTC	61.839	72.222	0.00	0.00	0.00	4.30
344	421	4.821589	CAGCCGTCTCCGCCTTCC	62.822	72.222	0.00	0.00	0.00	3.46
345	422	4.821589	CCAGCCGTCTCCGCCTTC	62.822	72.222	0.00	0.00	0.00	3.46
359	436	4.148825	CTTCCCCTCCGACGCCAG	62.149	72.222	0.00	0.00	0.00	4.85
367	444	3.471806	GTCTCCGCCTTCCCCTCC	61.472	72.222	0.00	0.00	0.00	4.30
368	445	3.839432	CGTCTCCGCCTTCCCCTC	61.839	72.222	0.00	0.00	0.00	4.30
372	449	4.821589	CAGCCGTCTCCGCCTTCC	62.822	72.222	0.00	0.00	0.00	3.46
373	450	4.821589	CCAGCCGTCTCCGCCTTC	62.822	72.222	0.00	0.00	0.00	3.46
499	597	6.742926	GCCTTAATTTTACAAAAGCCCCTTCA	60.743	38.462	0.00	0.00	0.00	3.02
502	600	4.322424	CGCCTTAATTTTACAAAAGCCCCT	60.322	41.667	0.00	0.00	0.00	4.79
694	793	1.126296	GTTCGCGAGCTGGTAGTTTTC	59.874	52.381	16.26	0.00	0.00	2.29
695	794	1.145803	GTTCGCGAGCTGGTAGTTTT	58.854	50.000	16.26	0.00	0.00	2.43
696	795	0.032952	TGTTCGCGAGCTGGTAGTTT	59.967	50.000	23.51	0.00	0.00	2.66
753	852	4.700365	TGTGGAGTGCTCGCGTCG	62.700	66.667	5.77	0.00	0.00	5.12
754	853	3.106407	GTGTGGAGTGCTCGCGTC	61.106	66.667	5.77	0.00	0.00	5.19
835	937	4.899239	GGACGGCGAGAGGGCATG	62.899	72.222	16.62	0.00	42.43	4.06
969	1077	0.671781	CCTTTGCTGCTGCTACGACT	60.672	55.000	17.00	0.00	40.48	4.18
970	1078	0.951040	ACCTTTGCTGCTGCTACGAC	60.951	55.000	17.00	0.00	40.48	4.34
971	1079	0.606096	TACCTTTGCTGCTGCTACGA	59.394	50.000	17.00	0.00	40.48	3.43
972	1080	1.002366	CTACCTTTGCTGCTGCTACG	58.998	55.000	17.00	6.83	40.48	3.51
973	1081	0.729690	GCTACCTTTGCTGCTGCTAC	59.270	55.000	17.00	0.00	40.48	3.58
974	1082	0.392998	GGCTACCTTTGCTGCTGCTA	60.393	55.000	17.00	6.36	40.48	3.49
975	1083	1.676967	GGCTACCTTTGCTGCTGCT	60.677	57.895	17.00	0.00	40.48	4.24
977	1085	0.607489	ACTGGCTACCTTTGCTGCTG	60.607	55.000	0.00	0.00	0.00	4.41
978	1086	0.607489	CACTGGCTACCTTTGCTGCT	60.607	55.000	0.00	0.00	0.00	4.24
979	1087	0.606401	TCACTGGCTACCTTTGCTGC	60.606	55.000	0.00	0.00	0.00	5.25
980	1088	1.002430	TCTCACTGGCTACCTTTGCTG	59.998	52.381	0.00	0.00	0.00	4.41
981	1089	1.352083	TCTCACTGGCTACCTTTGCT	58.648	50.000	0.00	0.00	0.00	3.91
982	1090	2.012673	CATCTCACTGGCTACCTTTGC	58.987	52.381	0.00	0.00	0.00	3.68
983	1091	2.237143	TCCATCTCACTGGCTACCTTTG	59.763	50.000	0.00	0.00	36.16	2.77
984	1092	2.503356	CTCCATCTCACTGGCTACCTTT	59.497	50.000	0.00	0.00	36.16	3.11
985	1093	2.114616	CTCCATCTCACTGGCTACCTT	58.885	52.381	0.00	0.00	36.16	3.50
988	1113	0.755686	CCCTCCATCTCACTGGCTAC	59.244	60.000	0.00	0.00	36.16	3.58
993	1118	0.326048	ACTCCCCCTCCATCTCACTG	60.326	60.000	0.00	0.00	0.00	3.66
2004	2167	1.293498	GGTCTGCACGATCCACAGT	59.707	57.895	0.00	0.00	33.12	3.55
2550	2713	0.384669	ACGTAGTATGGGCGCTCTTC	59.615	55.000	9.62	0.00	41.94	2.87
2556	2719	1.299926	GGAGCACGTAGTATGGGCG	60.300	63.158	10.93	0.00	41.61	6.13
2627	2790	2.050442	CCGAACACGGCCAAAAGC	60.050	61.111	2.24	0.00	40.29	3.51
2651	2837	4.973055	ACAAAGCCGGCGTGCGTA	62.973	61.111	27.04	0.00	36.02	4.42
2691	2877	2.030946	CGTACCAGAAGCAGCATAAAGC	59.969	50.000	0.00	0.00	46.19	3.51
2692	2878	3.262420	ACGTACCAGAAGCAGCATAAAG	58.738	45.455	0.00	0.00	0.00	1.85
2693	2879	3.328382	ACGTACCAGAAGCAGCATAAA	57.672	42.857	0.00	0.00	0.00	1.40
2694	2880	3.732774	CGTACGTACCAGAAGCAGCATAA	60.733	47.826	19.67	0.00	0.00	1.90
2695	2881	2.223409	CGTACGTACCAGAAGCAGCATA	60.223	50.000	19.67	0.00	0.00	3.14
2696	2882	1.469251	CGTACGTACCAGAAGCAGCAT	60.469	52.381	19.67	0.00	0.00	3.79
2697	2883	0.109458	CGTACGTACCAGAAGCAGCA	60.109	55.000	19.67	0.00	0.00	4.41
2698	2884	0.801067	CCGTACGTACCAGAAGCAGC	60.801	60.000	19.67	0.00	0.00	5.25
2707	2893	1.530720	CAAACCAAACCCGTACGTACC	59.469	52.381	19.67	2.84	0.00	3.34
2790	2983	4.857871	TTCACGTCTCTCACAAAAACTG	57.142	40.909	0.00	0.00	0.00	3.16
2791	2984	7.359264	CGATATTTCACGTCTCTCACAAAAACT	60.359	37.037	0.00	0.00	0.00	2.66
2792	2985	6.732392	CGATATTTCACGTCTCTCACAAAAAC	59.268	38.462	0.00	0.00	0.00	2.43
2825	3020	2.290641	AGTGACATTGCCGTTTGACTTC	59.709	45.455	0.00	0.00	0.00	3.01
2826	3021	2.033299	CAGTGACATTGCCGTTTGACTT	59.967	45.455	0.00	0.00	0.00	3.01
2922	3118	2.946990	TCTCTGTTGTAGACGTGACACA	59.053	45.455	6.37	0.00	0.00	3.72
2963	3159	4.201676	CGTTGACGTAGCATTGCTATCAAA	60.202	41.667	25.34	14.84	43.30	2.69
2964	3160	3.305897	CGTTGACGTAGCATTGCTATCAA	59.694	43.478	22.13	22.13	43.30	2.57
2965	3161	2.857748	CGTTGACGTAGCATTGCTATCA	59.142	45.455	20.63	17.45	43.30	2.15
2966	3162	2.218759	CCGTTGACGTAGCATTGCTATC	59.781	50.000	20.63	15.25	43.30	2.08
2967	3163	2.159156	TCCGTTGACGTAGCATTGCTAT	60.159	45.455	20.63	6.57	43.30	2.97
2968	3164	1.202817	TCCGTTGACGTAGCATTGCTA	59.797	47.619	14.33	14.33	36.97	3.49
2969	3165	0.037697	TCCGTTGACGTAGCATTGCT	60.038	50.000	16.63	16.63	38.46	3.91
2970	3166	0.793861	TTCCGTTGACGTAGCATTGC	59.206	50.000	0.00	0.00	37.74	3.56
2971	3167	4.850859	TTATTCCGTTGACGTAGCATTG	57.149	40.909	2.63	0.00	37.74	2.82
2972	3168	4.201783	GCTTTATTCCGTTGACGTAGCATT	60.202	41.667	2.63	0.00	37.74	3.56
2973	3169	3.308866	GCTTTATTCCGTTGACGTAGCAT	59.691	43.478	2.63	0.00	37.74	3.79
2974	3170	2.669434	GCTTTATTCCGTTGACGTAGCA	59.331	45.455	2.63	0.00	37.74	3.49
2975	3171	2.928116	AGCTTTATTCCGTTGACGTAGC	59.072	45.455	2.63	0.00	37.74	3.58
2978	3174	2.919229	CGTAGCTTTATTCCGTTGACGT	59.081	45.455	0.00	0.00	37.74	4.34
2979	3175	3.548216	CGTAGCTTTATTCCGTTGACG	57.452	47.619	0.00	0.00	39.44	4.35
3033	3229	5.600484	AGAGGAATTATGAGGAATCGACTGT	59.400	40.000	0.00	0.00	0.00	3.55
3119	3315	3.646715	CCACCCTCCCTGGCGAAA	61.647	66.667	0.00	0.00	0.00	3.46
3148	3344	2.486548	GCCACTTCCTACCACAAAGTCA	60.487	50.000	0.00	0.00	31.04	3.41
3149	3345	2.152016	GCCACTTCCTACCACAAAGTC	58.848	52.381	0.00	0.00	31.04	3.01
3151	3347	1.156736	CGCCACTTCCTACCACAAAG	58.843	55.000	0.00	0.00	0.00	2.77
3153	3349	0.320374	CTCGCCACTTCCTACCACAA	59.680	55.000	0.00	0.00	0.00	3.33
3154	3350	1.541310	CCTCGCCACTTCCTACCACA	61.541	60.000	0.00	0.00	0.00	4.17
3159	3355	1.987855	CACCCCTCGCCACTTCCTA	60.988	63.158	0.00	0.00	0.00	2.94
3225	3421	6.840780	ATTTTAGTTGTGGGGAAAGATCAG	57.159	37.500	0.00	0.00	0.00	2.90
3437	4036	7.903431	CGTCAGATAAGAAGGTTTAATTTTCGG	59.097	37.037	0.00	0.00	0.00	4.30
3453	4052	8.888579	ATAAGTTTTGGGTATCGTCAGATAAG	57.111	34.615	0.00	0.00	40.68	1.73
3460	4059	5.648960	TGGGAAATAAGTTTTGGGTATCGTC	59.351	40.000	0.00	0.00	0.00	4.20
3507	4106	9.950858	AAACGATTTTTGTATGCAAATATTTCG	57.049	25.926	9.89	15.87	43.26	3.46

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.