AutoCloner

Multiple sequence alignment - TraesCS1A01G080900

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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	TraesCS1A01G080900	chr1A	100.000	3469	0	0	1	3469	63757773	63761241	0.000000e+00	6370
1	TraesCS1A01G080900	chr1A	98.595	3346	34	3	1	3333	320474471	320477816	0.000000e+00	5906
2	TraesCS1A01G080900	chr4A	99.190	3334	26	1	1	3333	683246761	683250094	0.000000e+00	6006
3	TraesCS1A01G080900	chr1B	98.871	3365	23	5	1	3350	167924831	167928195	0.000000e+00	5989
4	TraesCS1A01G080900	chr2B	98.595	3346	34	3	1	3333	652844556	652847901	0.000000e+00	5906
5	TraesCS1A01G080900	chr5B	98.416	3346	30	4	1	3333	514846424	514843089	0.000000e+00	5864
6	TraesCS1A01G080900	chr5B	97.497	2517	36	8	1	2490	383531900	383534416	0.000000e+00	4274
7	TraesCS1A01G080900	chr5B	98.236	2211	32	4	1130	3333	56910451	56908241	0.000000e+00	3860
8	TraesCS1A01G080900	chr7B	98.464	2670	27	3	1	2668	504197403	504200060	0.000000e+00	4691
9	TraesCS1A01G080900	chr7B	99.519	624	3	0	2727	3350	554163038	554162415	0.000000e+00	1136
10	TraesCS1A01G080900	chr7B	100.000	109	0	0	3361	3469	554163051	554162943	5.870000e-48	202
11	TraesCS1A01G080900	chr7B	99.065	107	1	0	3363	3469	439309843	439309737	3.530000e-45	193
12	TraesCS1A01G080900	chr4B	98.250	2343	29	7	1	2336	139748040	139745703	0.000000e+00	4089
13	TraesCS1A01G080900	chr4B	97.626	674	14	2	2248	2920	139745755	139745083	0.000000e+00	1155
14	TraesCS1A01G080900	chr4B	100.000	109	0	0	3361	3469	2602428	2602320	5.870000e-48	202
15	TraesCS1A01G080900	chr4B	99.083	109	1	0	3361	3469	139745191	139745083	2.730000e-46	196
16	TraesCS1A01G080900	chr4B	99.065	107	1	0	3363	3469	2601265	2601159	3.530000e-45	193
17	TraesCS1A01G080900	chr2A	98.243	2333	29	9	1	2329	672541997	672539673	0.000000e+00	4071
18	TraesCS1A01G080900	chr3B	98.037	2343	35	6	1	2336	546816620	546818958	0.000000e+00	4061
19	TraesCS1A01G080900	chr3B	100.000	109	0	0	3361	3469	731129620	731129512	5.870000e-48	202
20	TraesCS1A01G080900	chr3B	99.083	109	1	0	3361	3469	681200343	681200451	2.730000e-46	196
21	TraesCS1A01G080900	chr5A	96.866	702	17	4	2223	2920	346309456	346308756	0.000000e+00	1170
22	TraesCS1A01G080900	chr5A	100.000	109	0	0	3361	3469	346308864	346308756	5.870000e-48	202
23	TraesCS1A01G080900	chr3A	97.329	674	16	2	2248	2920	199415189	199414517	0.000000e+00	1144
24	TraesCS1A01G080900	chr3A	100.000	109	0	0	3361	3469	199414625	199414517	5.870000e-48	202
25	TraesCS1A01G080900	chrUn	99.359	624	4	0	2727	3350	352841867	352841244	0.000000e+00	1131
26	TraesCS1A01G080900	chrUn	99.359	624	4	0	2727	3350	406746494	406745871	0.000000e+00	1131
27	TraesCS1A01G080900	chrUn	100.000	109	0	0	3361	3469	352841880	352841772	5.870000e-48	202

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	TraesCS1A01G080900	chr1A	63757773	63761241	3468	False	6370.000000	6370	100.000000	1	3469	1	chr1A.!!$F1	3468
1	TraesCS1A01G080900	chr1A	320474471	320477816	3345	False	5906.000000	5906	98.595000	1	3333	1	chr1A.!!$F2	3332
2	TraesCS1A01G080900	chr4A	683246761	683250094	3333	False	6006.000000	6006	99.190000	1	3333	1	chr4A.!!$F1	3332
3	TraesCS1A01G080900	chr1B	167924831	167928195	3364	False	5989.000000	5989	98.871000	1	3350	1	chr1B.!!$F1	3349
4	TraesCS1A01G080900	chr2B	652844556	652847901	3345	False	5906.000000	5906	98.595000	1	3333	1	chr2B.!!$F1	3332
5	TraesCS1A01G080900	chr5B	514843089	514846424	3335	True	5864.000000	5864	98.416000	1	3333	1	chr5B.!!$R2	3332
6	TraesCS1A01G080900	chr5B	383531900	383534416	2516	False	4274.000000	4274	97.497000	1	2490	1	chr5B.!!$F1	2489
7	TraesCS1A01G080900	chr5B	56908241	56910451	2210	True	3860.000000	3860	98.236000	1130	3333	1	chr5B.!!$R1	2203
8	TraesCS1A01G080900	chr7B	504197403	504200060	2657	False	4691.000000	4691	98.464000	1	2668	1	chr7B.!!$F1	2667
9	TraesCS1A01G080900	chr7B	554162415	554163051	636	True	669.000000	1136	99.759500	2727	3469	2	chr7B.!!$R2	742
10	TraesCS1A01G080900	chr4B	139745083	139748040	2957	True	1813.333333	4089	98.319667	1	3469	3	chr4B.!!$R2	3468
11	TraesCS1A01G080900	chr2A	672539673	672541997	2324	True	4071.000000	4071	98.243000	1	2329	1	chr2A.!!$R1	2328
12	TraesCS1A01G080900	chr3B	546816620	546818958	2338	False	4061.000000	4061	98.037000	1	2336	1	chr3B.!!$F1	2335
13	TraesCS1A01G080900	chr5A	346308756	346309456	700	True	686.000000	1170	98.433000	2223	3469	2	chr5A.!!$R1	1246
14	TraesCS1A01G080900	chr3A	199414517	199415189	672	True	673.000000	1144	98.664500	2248	3469	2	chr3A.!!$R1	1221
15	TraesCS1A01G080900	chrUn	406745871	406746494	623	True	1131.000000	1131	99.359000	2727	3350	1	chrUn.!!$R1	623
16	TraesCS1A01G080900	chrUn	352841244	352841880	636	True	666.500000	1131	99.679500	2727	3469	2	chrUn.!!$R2	742

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
711	712	1.616725	GGGGTGCAGACCATTCATTGA	60.617	52.381	9.41	0.0	45.25	2.57	F
1199	1200	3.534357	TCCAAAATGCTGGGTTTAGGA	57.466	42.857	0.00	0.0	37.06	2.94	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1965	1967	1.274167	CTTGCAGTCCACAATTGCCAT	59.726	47.619	5.05	0.0	39.74	4.40	R
2769	2858	1.064166	CCGAGACACCCTAGACCCTAA	60.064	57.143	0.00	0.0	0.00	2.69	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
521	522	2.300437	GTGCTAGGAGACCACAAGAAGT	59.700	50.000	0.00	0.00	0.00	3.01
550	551	5.338381	CCCTAGGTTGAAAGACTATGCTCAA	60.338	44.000	8.29	0.00	0.00	3.02
711	712	1.616725	GGGGTGCAGACCATTCATTGA	60.617	52.381	9.41	0.00	45.25	2.57
1199	1200	3.534357	TCCAAAATGCTGGGTTTAGGA	57.466	42.857	0.00	0.00	37.06	2.94
1965	1967	8.156820	CACATCAAGAATGGGGACTATAACATA	58.843	37.037	0.00	0.00	39.90	2.29
2173	2176	0.332632	AATGGTGGTGGTGCTGCTAT	59.667	50.000	0.00	0.00	0.00	2.97
2252	2294	2.364842	GCTGGGAGAGGAGCTGGA	60.365	66.667	0.00	0.00	32.12	3.86
2709	2798	5.316167	TGTTGTCTATGCTCAAAATGGTCT	58.684	37.500	0.00	0.00	0.00	3.85
2713	2802	6.913170	TGTCTATGCTCAAAATGGTCTTTTC	58.087	36.000	0.00	0.00	0.00	2.29
2769	2858	3.365472	GGAACCACCTAAAGCCATCAAT	58.635	45.455	0.00	0.00	35.41	2.57
2885	2974	2.285707	ACTAGGGTCTAGGGTGTCTCA	58.714	52.381	6.86	0.00	0.00	3.27
3380	3469	3.138884	GCCATCATTTTGGGTTTTGGT	57.861	42.857	0.00	0.00	37.24	3.67
3381	3470	2.813172	GCCATCATTTTGGGTTTTGGTG	59.187	45.455	0.00	0.00	37.24	4.17
3382	3471	3.410508	CCATCATTTTGGGTTTTGGTGG	58.589	45.455	0.00	0.00	34.27	4.61
3383	3472	2.629336	TCATTTTGGGTTTTGGTGGC	57.371	45.000	0.00	0.00	0.00	5.01
3384	3473	2.122768	TCATTTTGGGTTTTGGTGGCT	58.877	42.857	0.00	0.00	0.00	4.75
3385	3474	2.103941	TCATTTTGGGTTTTGGTGGCTC	59.896	45.455	0.00	0.00	0.00	4.70
3386	3475	0.461961	TTTTGGGTTTTGGTGGCTCG	59.538	50.000	0.00	0.00	0.00	5.03
3387	3476	1.395826	TTTGGGTTTTGGTGGCTCGG	61.396	55.000	0.00	0.00	0.00	4.63
3388	3477	2.989253	GGGTTTTGGTGGCTCGGG	60.989	66.667	0.00	0.00	0.00	5.14
3389	3478	2.989253	GGTTTTGGTGGCTCGGGG	60.989	66.667	0.00	0.00	0.00	5.73
3390	3479	2.203437	GTTTTGGTGGCTCGGGGT	60.203	61.111	0.00	0.00	0.00	4.95
3391	3480	2.114411	TTTTGGTGGCTCGGGGTC	59.886	61.111	0.00	0.00	0.00	4.46
3392	3481	3.835790	TTTTGGTGGCTCGGGGTCG	62.836	63.158	0.00	0.00	37.82	4.79
3399	3488	4.790861	GCTCGGGGTCGACGGAAC	62.791	72.222	9.92	0.00	40.88	3.62
3405	3494	3.685435	GGTCGACGGAACCACCTA	58.315	61.111	9.92	0.00	36.31	3.08
3406	3495	1.966762	GGTCGACGGAACCACCTAA	59.033	57.895	9.92	0.00	36.31	2.69
3407	3496	0.318120	GGTCGACGGAACCACCTAAA	59.682	55.000	9.92	0.00	36.31	1.85
3408	3497	1.670967	GGTCGACGGAACCACCTAAAG	60.671	57.143	9.92	0.00	36.31	1.85
3409	3498	0.037975	TCGACGGAACCACCTAAAGC	60.038	55.000	0.00	0.00	36.31	3.51
3410	3499	1.017701	CGACGGAACCACCTAAAGCC	61.018	60.000	0.00	0.00	36.31	4.35
3411	3500	0.035739	GACGGAACCACCTAAAGCCA	59.964	55.000	0.00	0.00	36.31	4.75
3412	3501	0.696501	ACGGAACCACCTAAAGCCAT	59.303	50.000	0.00	0.00	36.31	4.40
3413	3502	1.339727	ACGGAACCACCTAAAGCCATC	60.340	52.381	0.00	0.00	36.31	3.51
3414	3503	1.339631	CGGAACCACCTAAAGCCATCA	60.340	52.381	0.00	0.00	36.31	3.07
3415	3504	2.802719	GGAACCACCTAAAGCCATCAA	58.197	47.619	0.00	0.00	35.41	2.57
3416	3505	2.492088	GGAACCACCTAAAGCCATCAAC	59.508	50.000	0.00	0.00	35.41	3.18
3417	3506	3.421844	GAACCACCTAAAGCCATCAACT	58.578	45.455	0.00	0.00	0.00	3.16
3418	3507	4.566907	GGAACCACCTAAAGCCATCAACTA	60.567	45.833	0.00	0.00	35.41	2.24
3419	3508	4.222124	ACCACCTAAAGCCATCAACTAG	57.778	45.455	0.00	0.00	0.00	2.57
3420	3509	3.054361	ACCACCTAAAGCCATCAACTAGG	60.054	47.826	0.00	0.00	36.09	3.02
3421	3510	3.545703	CACCTAAAGCCATCAACTAGGG	58.454	50.000	0.00	0.00	34.58	3.53
3422	3511	3.054361	CACCTAAAGCCATCAACTAGGGT	60.054	47.826	0.00	0.00	34.58	4.34
3423	3512	3.200165	ACCTAAAGCCATCAACTAGGGTC	59.800	47.826	0.00	0.00	34.58	4.46
3424	3513	3.456277	CCTAAAGCCATCAACTAGGGTCT	59.544	47.826	0.00	0.00	33.84	3.85
3425	3514	4.654262	CCTAAAGCCATCAACTAGGGTCTA	59.346	45.833	0.00	0.00	33.84	2.59
3426	3515	4.762289	AAAGCCATCAACTAGGGTCTAG	57.238	45.455	0.00	0.83	33.84	2.43
3427	3516	2.683768	AGCCATCAACTAGGGTCTAGG	58.316	52.381	6.86	0.00	0.00	3.02
3428	3517	1.694696	GCCATCAACTAGGGTCTAGGG	59.305	57.143	6.86	0.00	0.00	3.53
3429	3518	2.960104	GCCATCAACTAGGGTCTAGGGT	60.960	54.545	6.86	0.00	0.00	4.34
3430	3519	2.700897	CCATCAACTAGGGTCTAGGGTG	59.299	54.545	6.86	4.80	0.00	4.61
3431	3520	3.375699	CATCAACTAGGGTCTAGGGTGT	58.624	50.000	6.86	0.00	0.00	4.16
3432	3521	3.097342	TCAACTAGGGTCTAGGGTGTC	57.903	52.381	6.86	0.00	0.00	3.67
3433	3522	2.653366	TCAACTAGGGTCTAGGGTGTCT	59.347	50.000	6.86	0.00	0.00	3.41
3434	3523	3.025262	CAACTAGGGTCTAGGGTGTCTC	58.975	54.545	6.86	0.00	0.00	3.36
3435	3524	1.212441	ACTAGGGTCTAGGGTGTCTCG	59.788	57.143	6.86	0.00	0.00	4.04
3436	3525	0.549950	TAGGGTCTAGGGTGTCTCGG	59.450	60.000	0.00	0.00	0.00	4.63
3437	3526	1.757340	GGGTCTAGGGTGTCTCGGG	60.757	68.421	0.00	0.00	0.00	5.14
3438	3527	1.757340	GGTCTAGGGTGTCTCGGGG	60.757	68.421	0.00	0.00	0.00	5.73
3439	3528	1.000107	GTCTAGGGTGTCTCGGGGT	60.000	63.158	0.00	0.00	0.00	4.95
3440	3529	1.036481	GTCTAGGGTGTCTCGGGGTC	61.036	65.000	0.00	0.00	0.00	4.46
3441	3530	2.044650	TAGGGTGTCTCGGGGTCG	60.045	66.667	0.00	0.00	37.82	4.79
3442	3531	2.547640	CTAGGGTGTCTCGGGGTCGA	62.548	65.000	0.00	0.00	43.86	4.20
3443	3532	2.826777	TAGGGTGTCTCGGGGTCGAC	62.827	65.000	7.13	7.13	40.88	4.20
3444	3533	4.112341	GGTGTCTCGGGGTCGACG	62.112	72.222	9.92	0.00	40.88	5.12
3445	3534	4.112341	GTGTCTCGGGGTCGACGG	62.112	72.222	9.92	1.31	40.88	4.79
3446	3535	4.334118	TGTCTCGGGGTCGACGGA	62.334	66.667	9.92	5.97	40.88	4.69
3447	3536	3.058160	GTCTCGGGGTCGACGGAA	61.058	66.667	9.92	0.00	40.88	4.30
3448	3537	3.058160	TCTCGGGGTCGACGGAAC	61.058	66.667	9.92	0.00	40.88	3.62
3454	3543	3.685435	GGTCGACGGAACCACCTA	58.315	61.111	9.92	0.00	36.31	3.08
3455	3544	1.966762	GGTCGACGGAACCACCTAA	59.033	57.895	9.92	0.00	36.31	2.69
3456	3545	0.318120	GGTCGACGGAACCACCTAAA	59.682	55.000	9.92	0.00	36.31	1.85
3457	3546	1.670967	GGTCGACGGAACCACCTAAAG	60.671	57.143	9.92	0.00	36.31	1.85
3458	3547	0.037975	TCGACGGAACCACCTAAAGC	60.038	55.000	0.00	0.00	36.31	3.51
3459	3548	1.017701	CGACGGAACCACCTAAAGCC	61.018	60.000	0.00	0.00	36.31	4.35
3460	3549	0.035739	GACGGAACCACCTAAAGCCA	59.964	55.000	0.00	0.00	36.31	4.75
3461	3550	0.696501	ACGGAACCACCTAAAGCCAT	59.303	50.000	0.00	0.00	36.31	4.40
3462	3551	1.339727	ACGGAACCACCTAAAGCCATC	60.340	52.381	0.00	0.00	36.31	3.51
3463	3552	1.339631	CGGAACCACCTAAAGCCATCA	60.340	52.381	0.00	0.00	36.31	3.07
3464	3553	2.683742	CGGAACCACCTAAAGCCATCAT	60.684	50.000	0.00	0.00	36.31	2.45
3465	3554	3.365472	GGAACCACCTAAAGCCATCATT	58.635	45.455	0.00	0.00	35.41	2.57
3466	3555	3.769300	GGAACCACCTAAAGCCATCATTT	59.231	43.478	0.00	0.00	35.41	2.32
3467	3556	4.222810	GGAACCACCTAAAGCCATCATTTT	59.777	41.667	0.00	0.00	35.41	1.82
3468	3557	4.806640	ACCACCTAAAGCCATCATTTTG	57.193	40.909	0.00	0.00	0.00	2.44

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
521	522	7.567622	AGCATAGTCTTTCAACCTAGGGTATTA	59.432	37.037	14.81	0.00	33.12	0.98
550	551	4.335416	CAGGGTTTGTATCCATCACTGTT	58.665	43.478	0.00	0.00	0.00	3.16
711	712	5.789643	ATGCACAAGGTGAACAAACTAAT	57.210	34.783	0.00	0.00	35.23	1.73
1199	1200	5.130145	CCATACACTTCTTCAGATCTTCCCT	59.870	44.000	0.00	0.00	0.00	4.20
1936	1938	2.915604	AGTCCCCATTCTTGATGTGTCT	59.084	45.455	0.00	0.00	33.71	3.41
1965	1967	1.274167	CTTGCAGTCCACAATTGCCAT	59.726	47.619	5.05	0.00	39.74	4.40
2173	2176	2.685897	GAGGTTGTTGTTGCTGGTGTAA	59.314	45.455	0.00	0.00	0.00	2.41
2442	2529	3.629142	ACCACTTGCATAGAAGTACCC	57.371	47.619	0.00	0.00	34.29	3.69
2540	2628	4.370917	AGTTGCATCCACATCAACAAAAC	58.629	39.130	7.03	0.00	41.67	2.43
2709	2798	8.356657	CCACCAAAACATAGACAACATAGAAAA	58.643	33.333	0.00	0.00	0.00	2.29
2713	2802	5.415701	AGCCACCAAAACATAGACAACATAG	59.584	40.000	0.00	0.00	0.00	2.23
2769	2858	1.064166	CCGAGACACCCTAGACCCTAA	60.064	57.143	0.00	0.00	0.00	2.69
2885	2974	2.430704	TAGGTGGTTCCGTCGACCCT	62.431	60.000	10.58	11.01	41.99	4.34
3360	3449	2.813172	CACCAAAACCCAAAATGATGGC	59.187	45.455	0.00	0.00	39.26	4.40
3361	3450	3.410508	CCACCAAAACCCAAAATGATGG	58.589	45.455	0.00	0.00	40.35	3.51
3362	3451	2.813172	GCCACCAAAACCCAAAATGATG	59.187	45.455	0.00	0.00	0.00	3.07
3363	3452	2.710471	AGCCACCAAAACCCAAAATGAT	59.290	40.909	0.00	0.00	0.00	2.45
3364	3453	2.103941	GAGCCACCAAAACCCAAAATGA	59.896	45.455	0.00	0.00	0.00	2.57
3365	3454	2.493035	GAGCCACCAAAACCCAAAATG	58.507	47.619	0.00	0.00	0.00	2.32
3366	3455	1.069978	CGAGCCACCAAAACCCAAAAT	59.930	47.619	0.00	0.00	0.00	1.82
3367	3456	0.461961	CGAGCCACCAAAACCCAAAA	59.538	50.000	0.00	0.00	0.00	2.44
3368	3457	1.395826	CCGAGCCACCAAAACCCAAA	61.396	55.000	0.00	0.00	0.00	3.28
3369	3458	1.830408	CCGAGCCACCAAAACCCAA	60.830	57.895	0.00	0.00	0.00	4.12
3370	3459	2.203422	CCGAGCCACCAAAACCCA	60.203	61.111	0.00	0.00	0.00	4.51
3371	3460	2.989253	CCCGAGCCACCAAAACCC	60.989	66.667	0.00	0.00	0.00	4.11
3372	3461	2.989253	CCCCGAGCCACCAAAACC	60.989	66.667	0.00	0.00	0.00	3.27
3373	3462	2.203437	ACCCCGAGCCACCAAAAC	60.203	61.111	0.00	0.00	0.00	2.43
3374	3463	2.114411	GACCCCGAGCCACCAAAA	59.886	61.111	0.00	0.00	0.00	2.44
3375	3464	4.323477	CGACCCCGAGCCACCAAA	62.323	66.667	0.00	0.00	38.22	3.28
3382	3471	4.790861	GTTCCGTCGACCCCGAGC	62.791	72.222	10.58	1.60	46.52	5.03
3383	3472	4.125695	GGTTCCGTCGACCCCGAG	62.126	72.222	10.58	0.00	46.52	4.63
3384	3473	4.972733	TGGTTCCGTCGACCCCGA	62.973	66.667	10.58	0.00	43.35	5.14
3385	3474	4.729856	GTGGTTCCGTCGACCCCG	62.730	72.222	10.58	0.00	36.30	5.73
3386	3475	4.383861	GGTGGTTCCGTCGACCCC	62.384	72.222	10.58	5.66	36.30	4.95
3387	3476	1.535204	TTAGGTGGTTCCGTCGACCC	61.535	60.000	10.58	5.77	41.99	4.46
3388	3477	0.318120	TTTAGGTGGTTCCGTCGACC	59.682	55.000	10.58	0.00	41.99	4.79
3389	3478	1.706443	CTTTAGGTGGTTCCGTCGAC	58.294	55.000	5.18	5.18	41.99	4.20
3390	3479	0.037975	GCTTTAGGTGGTTCCGTCGA	60.038	55.000	0.00	0.00	41.99	4.20
3391	3480	1.017701	GGCTTTAGGTGGTTCCGTCG	61.018	60.000	0.00	0.00	41.99	5.12
3392	3481	0.035739	TGGCTTTAGGTGGTTCCGTC	59.964	55.000	0.00	0.00	41.99	4.79
3393	3482	0.696501	ATGGCTTTAGGTGGTTCCGT	59.303	50.000	0.00	0.00	41.99	4.69
3394	3483	1.339631	TGATGGCTTTAGGTGGTTCCG	60.340	52.381	0.00	0.00	41.99	4.30
3395	3484	2.492088	GTTGATGGCTTTAGGTGGTTCC	59.508	50.000	0.00	0.00	0.00	3.62
3396	3485	3.421844	AGTTGATGGCTTTAGGTGGTTC	58.578	45.455	0.00	0.00	0.00	3.62
3397	3486	3.525800	AGTTGATGGCTTTAGGTGGTT	57.474	42.857	0.00	0.00	0.00	3.67
3398	3487	3.054361	CCTAGTTGATGGCTTTAGGTGGT	60.054	47.826	0.00	0.00	0.00	4.16
3399	3488	3.545703	CCTAGTTGATGGCTTTAGGTGG	58.454	50.000	0.00	0.00	0.00	4.61
3400	3489	3.054361	ACCCTAGTTGATGGCTTTAGGTG	60.054	47.826	0.00	0.00	31.06	4.00
3401	3490	3.190439	ACCCTAGTTGATGGCTTTAGGT	58.810	45.455	0.00	0.00	31.06	3.08
3402	3491	3.456277	AGACCCTAGTTGATGGCTTTAGG	59.544	47.826	0.00	0.00	0.00	2.69
3403	3492	4.762289	AGACCCTAGTTGATGGCTTTAG	57.238	45.455	0.00	0.00	0.00	1.85
3404	3493	4.654262	CCTAGACCCTAGTTGATGGCTTTA	59.346	45.833	0.00	0.00	0.00	1.85
3405	3494	3.456277	CCTAGACCCTAGTTGATGGCTTT	59.544	47.826	0.00	0.00	0.00	3.51
3406	3495	3.041946	CCTAGACCCTAGTTGATGGCTT	58.958	50.000	0.00	0.00	0.00	4.35
3407	3496	2.683768	CCTAGACCCTAGTTGATGGCT	58.316	52.381	0.00	0.00	0.00	4.75
3408	3497	1.694696	CCCTAGACCCTAGTTGATGGC	59.305	57.143	0.00	0.00	0.00	4.40
3409	3498	2.700897	CACCCTAGACCCTAGTTGATGG	59.299	54.545	0.00	0.00	0.00	3.51
3410	3499	3.375699	ACACCCTAGACCCTAGTTGATG	58.624	50.000	0.00	0.00	0.00	3.07
3411	3500	3.272551	AGACACCCTAGACCCTAGTTGAT	59.727	47.826	0.00	0.00	0.00	2.57
3412	3501	2.653366	AGACACCCTAGACCCTAGTTGA	59.347	50.000	0.00	0.00	0.00	3.18
3413	3502	3.025262	GAGACACCCTAGACCCTAGTTG	58.975	54.545	0.00	0.00	0.00	3.16
3414	3503	2.356947	CGAGACACCCTAGACCCTAGTT	60.357	54.545	0.00	0.00	0.00	2.24
3415	3504	1.212441	CGAGACACCCTAGACCCTAGT	59.788	57.143	0.00	0.00	0.00	2.57
3416	3505	1.477195	CCGAGACACCCTAGACCCTAG	60.477	61.905	0.00	0.00	0.00	3.02
3417	3506	0.549950	CCGAGACACCCTAGACCCTA	59.450	60.000	0.00	0.00	0.00	3.53
3418	3507	1.306970	CCGAGACACCCTAGACCCT	59.693	63.158	0.00	0.00	0.00	4.34
3419	3508	1.757340	CCCGAGACACCCTAGACCC	60.757	68.421	0.00	0.00	0.00	4.46
3420	3509	1.757340	CCCCGAGACACCCTAGACC	60.757	68.421	0.00	0.00	0.00	3.85
3421	3510	1.000107	ACCCCGAGACACCCTAGAC	60.000	63.158	0.00	0.00	0.00	2.59
3422	3511	1.305623	GACCCCGAGACACCCTAGA	59.694	63.158	0.00	0.00	0.00	2.43
3423	3512	2.119655	CGACCCCGAGACACCCTAG	61.120	68.421	0.00	0.00	38.22	3.02
3424	3513	2.044650	CGACCCCGAGACACCCTA	60.045	66.667	0.00	0.00	38.22	3.53
3425	3514	3.975591	TCGACCCCGAGACACCCT	61.976	66.667	0.00	0.00	40.30	4.34
3426	3515	3.756727	GTCGACCCCGAGACACCC	61.757	72.222	3.51	0.00	46.52	4.61
3427	3516	4.112341	CGTCGACCCCGAGACACC	62.112	72.222	10.58	0.00	46.52	4.16
3428	3517	4.112341	CCGTCGACCCCGAGACAC	62.112	72.222	10.58	0.00	46.52	3.67
3429	3518	3.848301	TTCCGTCGACCCCGAGACA	62.848	63.158	10.58	0.00	46.52	3.41
3430	3519	3.058160	TTCCGTCGACCCCGAGAC	61.058	66.667	10.58	0.00	46.52	3.36
3431	3520	3.058160	GTTCCGTCGACCCCGAGA	61.058	66.667	10.58	0.00	46.52	4.04
3432	3521	4.125695	GGTTCCGTCGACCCCGAG	62.126	72.222	10.58	0.00	46.52	4.63
3433	3522	4.972733	TGGTTCCGTCGACCCCGA	62.973	66.667	10.58	0.00	43.35	5.14
3434	3523	4.729856	GTGGTTCCGTCGACCCCG	62.730	72.222	10.58	0.00	36.30	5.73
3435	3524	4.383861	GGTGGTTCCGTCGACCCC	62.384	72.222	10.58	5.66	36.30	4.95
3436	3525	1.535204	TTAGGTGGTTCCGTCGACCC	61.535	60.000	10.58	5.77	41.99	4.46
3437	3526	0.318120	TTTAGGTGGTTCCGTCGACC	59.682	55.000	10.58	0.00	41.99	4.79
3438	3527	1.706443	CTTTAGGTGGTTCCGTCGAC	58.294	55.000	5.18	5.18	41.99	4.20
3439	3528	0.037975	GCTTTAGGTGGTTCCGTCGA	60.038	55.000	0.00	0.00	41.99	4.20
3440	3529	1.017701	GGCTTTAGGTGGTTCCGTCG	61.018	60.000	0.00	0.00	41.99	5.12
3441	3530	0.035739	TGGCTTTAGGTGGTTCCGTC	59.964	55.000	0.00	0.00	41.99	4.79
3442	3531	0.696501	ATGGCTTTAGGTGGTTCCGT	59.303	50.000	0.00	0.00	41.99	4.69
3443	3532	1.339631	TGATGGCTTTAGGTGGTTCCG	60.340	52.381	0.00	0.00	41.99	4.30
3444	3533	2.507407	TGATGGCTTTAGGTGGTTCC	57.493	50.000	0.00	0.00	0.00	3.62
3445	3534	5.170748	CAAAATGATGGCTTTAGGTGGTTC	58.829	41.667	0.00	0.00	0.00	3.62
3446	3535	5.151297	CAAAATGATGGCTTTAGGTGGTT	57.849	39.130	0.00	0.00	0.00	3.67
3447	3536	4.806640	CAAAATGATGGCTTTAGGTGGT	57.193	40.909	0.00	0.00	0.00	4.16

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.