Multiple sequence alignment - TraesCS2B01G273600

Loading Multiple Alignment...

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 TraesCS2B01G273600 chr2B 100.000 4241 0 0 1 4241 375136737 375132497 0.000000e+00 7832.0
1 TraesCS2B01G273600 chr2B 93.750 112 5 2 3706 3815 229857929 229857818 2.620000e-37 167.0
2 TraesCS2B01G273600 chr2A 95.903 3710 105 20 1 3705 218126815 218123148 0.000000e+00 5965.0
3 TraesCS2B01G273600 chr2A 96.560 436 8 4 3811 4241 218123147 218122714 0.000000e+00 715.0
4 TraesCS2B01G273600 chr2A 93.636 110 6 1 3706 3814 402915890 402915781 3.390000e-36 163.0
5 TraesCS2B01G273600 chr2D 96.349 3342 75 12 409 3705 199127747 199124408 0.000000e+00 5452.0
6 TraesCS2B01G273600 chr2D 97.241 435 7 4 3811 4241 199124407 199123974 0.000000e+00 732.0
7 TraesCS2B01G273600 chr2D 89.901 406 35 6 1 404 199128432 199128031 6.290000e-143 518.0
8 TraesCS2B01G273600 chr4D 83.092 414 29 21 3811 4219 216748932 216749309 5.250000e-89 339.0
9 TraesCS2B01G273600 chr4D 93.636 110 5 2 3706 3814 16658752 16658860 3.390000e-36 163.0
10 TraesCS2B01G273600 chr4D 97.222 36 1 0 715 750 499898869 499898904 1.270000e-05 62.1
11 TraesCS2B01G273600 chr6B 97.170 106 2 1 3706 3811 608185153 608185049 1.210000e-40 178.0
12 TraesCS2B01G273600 chr7B 96.226 106 4 0 3706 3811 344311035 344310930 1.570000e-39 174.0
13 TraesCS2B01G273600 chr7B 95.283 106 5 0 3706 3811 465158928 465158823 7.290000e-38 169.0
14 TraesCS2B01G273600 chr7B 93.636 110 5 2 3706 3813 24403625 24403734 3.390000e-36 163.0
15 TraesCS2B01G273600 chr7B 100.000 35 0 0 715 749 115962732 115962766 9.840000e-07 65.8
16 TraesCS2B01G273600 chr4B 95.283 106 5 0 3706 3811 302734598 302734493 7.290000e-38 169.0
17 TraesCS2B01G273600 chr7A 92.857 112 6 2 3706 3816 125701436 125701326 1.220000e-35 161.0
18 TraesCS2B01G273600 chr1B 97.368 38 1 0 712 749 513681703 513681740 9.840000e-07 65.8
19 TraesCS2B01G273600 chr1B 97.222 36 1 0 716 751 59636016 59635981 1.270000e-05 62.1
20 TraesCS2B01G273600 chr3B 97.297 37 1 0 713 749 782646556 782646592 3.540000e-06 63.9
21 TraesCS2B01G273600 chrUn 97.222 36 1 0 715 750 61741646 61741611 1.270000e-05 62.1
22 TraesCS2B01G273600 chr7D 93.023 43 2 1 704 745 501387047 501387089 1.270000e-05 62.1
23 TraesCS2B01G273600 chr3D 92.857 42 3 0 712 753 53484624 53484665 1.270000e-05 62.1


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 TraesCS2B01G273600 chr2B 375132497 375136737 4240 True 7832 7832 100.0000 1 4241 1 chr2B.!!$R2 4240
1 TraesCS2B01G273600 chr2A 218122714 218126815 4101 True 3340 5965 96.2315 1 4241 2 chr2A.!!$R2 4240
2 TraesCS2B01G273600 chr2D 199123974 199128432 4458 True 2234 5452 94.4970 1 4241 3 chr2D.!!$R1 4240

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
61 63 1.340211 TGACCCGTTTCCTTGTTGTGT 60.340 47.619 0.0 0.0 0.0 3.72 F
1323 1636 0.266152 TCCCTCCTCTCCCCTTCATC 59.734 60.000 0.0 0.0 0.0 2.92 F
1326 1639 0.267356 CTCCTCTCCCCTTCATCCCT 59.733 60.000 0.0 0.0 0.0 4.20 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1845 2158 0.324614 TCACAACATCTGGCGGTGAT 59.675 50.000 0.00 0.0 33.88 3.06 R
2406 2719 1.642037 CCTGCTTGCACAGTCCATCG 61.642 60.000 3.87 0.0 35.83 3.84 R
3260 3573 2.228582 CCCAAAATCACGTTCTGATGCA 59.771 45.455 0.00 0.0 38.82 3.96 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
61 63 1.340211 TGACCCGTTTCCTTGTTGTGT 60.340 47.619 0.00 0.00 0.00 3.72
204 207 2.103537 CATGGTCTGCTCATGTGTCA 57.896 50.000 0.00 0.00 37.72 3.58
210 213 3.369261 GGTCTGCTCATGTGTCATCTCTT 60.369 47.826 0.00 0.00 0.00 2.85
252 255 2.167281 CACACATTCACCCACCACAAAA 59.833 45.455 0.00 0.00 0.00 2.44
297 300 4.681781 CGTCTAGCATGGTGGAGATTTCTT 60.682 45.833 11.58 0.00 0.00 2.52
359 362 3.181470 GGTTTTTCTTTACCTGCCTGCAA 60.181 43.478 0.00 0.00 0.00 4.08
366 369 1.938585 TACCTGCCTGCAACTACTCT 58.061 50.000 0.00 0.00 0.00 3.24
367 370 1.938585 ACCTGCCTGCAACTACTCTA 58.061 50.000 0.00 0.00 0.00 2.43
388 391 7.181845 ACTCTAGAATCACCATCTTTCCTTTCT 59.818 37.037 0.00 0.00 0.00 2.52
469 752 5.516696 CCACTTACAGTTACATCATCTGTCG 59.483 44.000 0.00 0.00 41.66 4.35
472 755 4.111375 ACAGTTACATCATCTGTCGTCC 57.889 45.455 0.00 0.00 37.84 4.79
585 868 7.881775 TCTTTGGAATAAGAGAAAATAGCCC 57.118 36.000 0.00 0.00 30.87 5.19
602 885 2.026449 AGCCCAATGACTCTCTCAAAGG 60.026 50.000 0.00 0.00 30.60 3.11
627 914 8.478877 GGAAGAAGGAAAGTTAGTGATCATCTA 58.521 37.037 0.00 0.00 0.00 1.98
634 921 9.660180 GGAAAGTTAGTGATCATCTAGTTTCTT 57.340 33.333 21.07 14.02 30.97 2.52
745 1036 4.766373 TGAATTGCTTACCACATGTGTCAT 59.234 37.500 23.79 11.74 0.00 3.06
800 1092 6.315144 TCATCCATGAAAATGTAGTAACGTGG 59.685 38.462 0.00 0.00 36.23 4.94
821 1129 3.691609 GGTATATACGAGTTCCTACGGGG 59.308 52.174 6.79 0.00 0.00 5.73
941 1249 2.044946 GTGCTTTCCCATCCGCCT 60.045 61.111 0.00 0.00 0.00 5.52
1323 1636 0.266152 TCCCTCCTCTCCCCTTCATC 59.734 60.000 0.00 0.00 0.00 2.92
1326 1639 0.267356 CTCCTCTCCCCTTCATCCCT 59.733 60.000 0.00 0.00 0.00 4.20
1898 2211 0.390860 GTCCATGGCTACTGCGATCT 59.609 55.000 6.96 0.00 40.82 2.75
2406 2719 0.530744 TGACATACACGGCTCTGTCC 59.469 55.000 7.64 0.00 37.74 4.02
2549 2862 2.413142 GCAATCTGGAGCAGGCCAC 61.413 63.158 5.01 0.00 33.52 5.01
2550 2863 1.001764 CAATCTGGAGCAGGCCACA 60.002 57.895 5.01 0.00 33.52 4.17
2762 3075 4.783763 AGGTAGGGTAGAAGGAGGAAAAAG 59.216 45.833 0.00 0.00 0.00 2.27
2819 3132 8.407064 CCGCCCAAATGTTGTAACTTATAATTA 58.593 33.333 0.00 0.00 0.00 1.40
2886 3199 3.881688 CTGAGATTTACAAGGGGATGCAG 59.118 47.826 0.00 0.00 0.00 4.41
2984 3297 2.954318 AGGCACTGTATTTCCATCATGC 59.046 45.455 0.00 0.00 37.18 4.06
3219 3532 2.488153 GGTGGAAGCCAGTCATGTAAAC 59.512 50.000 0.00 0.00 32.34 2.01
3260 3573 6.183347 ACTAAGACTTTGCAAAGGAGCATAT 58.817 36.000 35.65 18.04 45.19 1.78
3290 3603 5.943416 AGAACGTGATTTTGGGATGTGATAA 59.057 36.000 0.00 0.00 0.00 1.75
3294 3607 5.123820 CGTGATTTTGGGATGTGATAACAGT 59.876 40.000 0.00 0.00 0.00 3.55
3360 3673 4.237724 CAGACTCACGAAAAGCACTATCA 58.762 43.478 0.00 0.00 0.00 2.15
3502 3834 2.009774 CTTTCTACGGCCACCTTGATG 58.990 52.381 2.24 0.00 0.00 3.07
3624 3956 4.448395 GCTGCTTCACATTTTTGTATTGCA 59.552 37.500 0.00 0.00 0.00 4.08
3721 4053 8.757982 TTTGTAGTTAGTAGTACTAGGATGGG 57.242 38.462 9.90 0.00 31.47 4.00
3722 4054 7.457380 TGTAGTTAGTAGTACTAGGATGGGT 57.543 40.000 9.90 0.00 31.47 4.51
3723 4055 7.285566 TGTAGTTAGTAGTACTAGGATGGGTG 58.714 42.308 9.90 0.00 31.47 4.61
3724 4056 6.587560 AGTTAGTAGTACTAGGATGGGTGA 57.412 41.667 9.90 0.00 31.47 4.02
3725 4057 6.363882 AGTTAGTAGTACTAGGATGGGTGAC 58.636 44.000 9.90 3.14 31.47 3.67
3726 4058 5.534278 GTTAGTAGTACTAGGATGGGTGACC 59.466 48.000 9.90 0.00 40.88 4.02
3727 4059 5.434376 TTAGTAGTACTAGGATGGGTGACCT 59.566 44.000 9.90 0.00 41.01 3.85
3728 4060 6.410157 TTAGTAGTACTAGGATGGGTGACCTC 60.410 46.154 9.90 0.00 41.01 3.85
3729 4061 9.283912 TTAGTAGTACTAGGATGGGTGACCTCC 62.284 48.148 9.90 0.95 41.01 4.30
3738 4070 3.884226 GGTGACCTCCTGGGAAATC 57.116 57.895 0.00 0.00 38.76 2.17
3739 4071 0.256177 GGTGACCTCCTGGGAAATCC 59.744 60.000 0.00 0.00 38.76 3.01
3740 4072 1.290134 GTGACCTCCTGGGAAATCCT 58.710 55.000 0.00 0.00 38.76 3.24
3741 4073 1.210722 GTGACCTCCTGGGAAATCCTC 59.789 57.143 0.00 0.00 38.76 3.71
3742 4074 0.466124 GACCTCCTGGGAAATCCTCG 59.534 60.000 0.00 0.00 38.76 4.63
3743 4075 0.252742 ACCTCCTGGGAAATCCTCGT 60.253 55.000 0.00 0.00 38.76 4.18
3744 4076 0.179000 CCTCCTGGGAAATCCTCGTG 59.821 60.000 0.00 0.00 37.23 4.35
3745 4077 1.195115 CTCCTGGGAAATCCTCGTGA 58.805 55.000 0.00 0.00 36.20 4.35
3746 4078 1.555075 CTCCTGGGAAATCCTCGTGAA 59.445 52.381 0.00 0.00 36.20 3.18
3747 4079 1.278127 TCCTGGGAAATCCTCGTGAAC 59.722 52.381 0.00 0.00 36.20 3.18
3748 4080 1.359848 CTGGGAAATCCTCGTGAACG 58.640 55.000 0.00 0.00 41.45 3.95
3749 4081 0.036765 TGGGAAATCCTCGTGAACGG 60.037 55.000 2.59 0.00 40.29 4.44
3750 4082 0.743345 GGGAAATCCTCGTGAACGGG 60.743 60.000 2.59 0.00 40.09 5.28
3751 4083 0.036671 GGAAATCCTCGTGAACGGGT 60.037 55.000 1.53 0.00 38.37 5.28
3752 4084 1.356938 GAAATCCTCGTGAACGGGTC 58.643 55.000 1.53 0.00 38.37 4.46
3753 4085 0.974383 AAATCCTCGTGAACGGGTCT 59.026 50.000 1.53 0.00 38.37 3.85
3754 4086 0.531200 AATCCTCGTGAACGGGTCTC 59.469 55.000 1.53 0.00 38.37 3.36
3755 4087 0.611062 ATCCTCGTGAACGGGTCTCA 60.611 55.000 1.53 0.00 38.37 3.27
3756 4088 0.611062 TCCTCGTGAACGGGTCTCAT 60.611 55.000 1.53 0.00 38.37 2.90
3757 4089 1.100510 CCTCGTGAACGGGTCTCATA 58.899 55.000 1.53 0.00 38.37 2.15
3758 4090 1.681793 CCTCGTGAACGGGTCTCATAT 59.318 52.381 1.53 0.00 38.37 1.78
3759 4091 2.287668 CCTCGTGAACGGGTCTCATATC 60.288 54.545 1.53 0.00 38.37 1.63
3760 4092 2.619177 CTCGTGAACGGGTCTCATATCT 59.381 50.000 2.59 0.00 40.29 1.98
3761 4093 3.812262 TCGTGAACGGGTCTCATATCTA 58.188 45.455 2.59 0.00 40.29 1.98
3762 4094 3.813724 TCGTGAACGGGTCTCATATCTAG 59.186 47.826 2.59 0.00 40.29 2.43
3763 4095 3.609644 CGTGAACGGGTCTCATATCTAGC 60.610 52.174 0.00 0.00 35.37 3.42
3764 4096 2.891580 TGAACGGGTCTCATATCTAGCC 59.108 50.000 0.00 0.00 0.00 3.93
3765 4097 2.982339 ACGGGTCTCATATCTAGCCT 57.018 50.000 0.00 0.00 0.00 4.58
3766 4098 4.202535 TGAACGGGTCTCATATCTAGCCTA 60.203 45.833 0.00 0.00 0.00 3.93
3767 4099 3.688235 ACGGGTCTCATATCTAGCCTAC 58.312 50.000 0.00 0.00 0.00 3.18
3768 4100 3.018149 CGGGTCTCATATCTAGCCTACC 58.982 54.545 0.00 0.00 0.00 3.18
3769 4101 3.367321 GGGTCTCATATCTAGCCTACCC 58.633 54.545 0.00 0.00 38.66 3.69
3770 4102 3.367321 GGTCTCATATCTAGCCTACCCC 58.633 54.545 0.00 0.00 0.00 4.95
3771 4103 3.245658 GGTCTCATATCTAGCCTACCCCA 60.246 52.174 0.00 0.00 0.00 4.96
3772 4104 4.417437 GTCTCATATCTAGCCTACCCCAA 58.583 47.826 0.00 0.00 0.00 4.12
3773 4105 4.221041 GTCTCATATCTAGCCTACCCCAAC 59.779 50.000 0.00 0.00 0.00 3.77
3774 4106 4.108124 TCTCATATCTAGCCTACCCCAACT 59.892 45.833 0.00 0.00 0.00 3.16
3775 4107 4.827789 TCATATCTAGCCTACCCCAACTT 58.172 43.478 0.00 0.00 0.00 2.66
3776 4108 4.593206 TCATATCTAGCCTACCCCAACTTG 59.407 45.833 0.00 0.00 0.00 3.16
3777 4109 2.337359 TCTAGCCTACCCCAACTTGT 57.663 50.000 0.00 0.00 0.00 3.16
3778 4110 2.627933 TCTAGCCTACCCCAACTTGTT 58.372 47.619 0.00 0.00 0.00 2.83
3779 4111 2.983898 TCTAGCCTACCCCAACTTGTTT 59.016 45.455 0.00 0.00 0.00 2.83
3780 4112 1.995376 AGCCTACCCCAACTTGTTTG 58.005 50.000 0.00 0.00 34.63 2.93
3800 4132 4.717279 TGGGACAAAAGGCTTAGTAAGT 57.283 40.909 11.51 0.00 31.92 2.24
3801 4133 5.829062 TGGGACAAAAGGCTTAGTAAGTA 57.171 39.130 11.51 0.00 31.92 2.24
3802 4134 5.801380 TGGGACAAAAGGCTTAGTAAGTAG 58.199 41.667 11.51 0.00 31.92 2.57
3803 4135 5.308759 TGGGACAAAAGGCTTAGTAAGTAGT 59.691 40.000 11.51 2.19 31.92 2.73
3804 4136 6.497954 TGGGACAAAAGGCTTAGTAAGTAGTA 59.502 38.462 11.51 0.00 31.92 1.82
3805 4137 7.016465 TGGGACAAAAGGCTTAGTAAGTAGTAA 59.984 37.037 11.51 0.00 31.92 2.24
3806 4138 7.548427 GGGACAAAAGGCTTAGTAAGTAGTAAG 59.452 40.741 11.51 8.11 40.51 2.34
3807 4139 8.093307 GGACAAAAGGCTTAGTAAGTAGTAAGT 58.907 37.037 11.51 4.69 39.98 2.24
3836 4168 2.159707 CCCGCAAAACAATAGTCACTCG 60.160 50.000 0.00 0.00 0.00 4.18
4052 4388 4.765813 AGTGGGTTACAGTACACAACTT 57.234 40.909 0.00 0.00 35.76 2.66
4113 4449 7.076842 ACGGTTTCTATCTTCATCAATTGTG 57.923 36.000 5.13 3.68 0.00 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
146 149 1.205460 ACGGTCTGGCCTAAATGGGT 61.205 55.000 3.32 0.00 36.00 4.51
204 207 2.543861 CGCACGCATGGTACTAAGAGAT 60.544 50.000 0.00 0.00 0.00 2.75
210 213 0.804544 GAAGCGCACGCATGGTACTA 60.805 55.000 18.24 0.00 44.88 1.82
252 255 4.090930 CGAAGTTAAACATTGACGGATCGT 59.909 41.667 0.00 0.00 45.10 3.73
297 300 2.260869 GCAGCAGAAACGCCTTGGA 61.261 57.895 0.00 0.00 0.00 3.53
359 362 7.129425 AGGAAAGATGGTGATTCTAGAGTAGT 58.871 38.462 0.00 0.00 0.00 2.73
366 369 6.215431 TGGAGAAAGGAAAGATGGTGATTCTA 59.785 38.462 0.00 0.00 0.00 2.10
367 370 5.014544 TGGAGAAAGGAAAGATGGTGATTCT 59.985 40.000 0.00 0.00 0.00 2.40
405 408 7.061752 ACGTTGTTAGAGCATCAAGAAATAC 57.938 36.000 0.00 0.00 37.82 1.89
469 752 4.806775 ACCAAAAACACAATTTTAGCGGAC 59.193 37.500 0.00 0.00 31.54 4.79
472 755 6.337853 TGAACCAAAAACACAATTTTAGCG 57.662 33.333 0.00 0.00 31.54 4.26
585 868 5.642919 CCTTCTTCCTTTGAGAGAGTCATTG 59.357 44.000 0.00 0.00 34.17 2.82
602 885 9.528018 CTAGATGATCACTAACTTTCCTTCTTC 57.472 37.037 0.00 0.00 0.00 2.87
674 965 9.455847 TTTTCACAAAACAAACAAAATTCTTGG 57.544 25.926 5.68 0.00 0.00 3.61
941 1249 4.215742 CGGCGGCGGTGGAAGATA 62.216 66.667 25.36 0.00 0.00 1.98
1845 2158 0.324614 TCACAACATCTGGCGGTGAT 59.675 50.000 0.00 0.00 33.88 3.06
1898 2211 0.674581 CGCATTCTCCAGCTCACCAA 60.675 55.000 0.00 0.00 0.00 3.67
2007 2320 3.152341 CCTCAAAGCATCTGAAACCTGT 58.848 45.455 0.00 0.00 0.00 4.00
2406 2719 1.642037 CCTGCTTGCACAGTCCATCG 61.642 60.000 3.87 0.00 35.83 3.84
2469 2782 5.514500 AAACATTCAGCTCTAACCCCTTA 57.486 39.130 0.00 0.00 0.00 2.69
2549 2862 4.684484 TCCATCTCTGTCATGATCCTTG 57.316 45.455 0.00 0.00 0.00 3.61
2550 2863 4.444591 GCTTCCATCTCTGTCATGATCCTT 60.445 45.833 0.00 0.00 0.00 3.36
2762 3075 2.894387 GCATCCACTCGAGCAGCC 60.894 66.667 13.61 0.00 0.00 4.85
2984 3297 8.646004 TGAGTCTAAATCCCTTCTCTATCATTG 58.354 37.037 0.00 0.00 0.00 2.82
3219 3532 4.997395 TCTTAGTTTGTGCCAGCTTTAGAG 59.003 41.667 0.00 0.00 0.00 2.43
3260 3573 2.228582 CCCAAAATCACGTTCTGATGCA 59.771 45.455 0.00 0.00 38.82 3.96
3360 3673 8.362639 CAATTGCTAGTTTAGGATGGCATAAAT 58.637 33.333 0.00 0.00 33.46 1.40
3502 3834 2.427506 CTCCACAGCTTACAAGGGAAC 58.572 52.381 0.00 0.00 0.00 3.62
3601 3933 4.448395 TGCAATACAAAAATGTGAAGCAGC 59.552 37.500 0.00 0.00 0.00 5.25
3705 4037 3.792684 AGGTCACCCATCCTAGTACTACT 59.207 47.826 0.00 0.00 31.66 2.57
3706 4038 4.143543 GAGGTCACCCATCCTAGTACTAC 58.856 52.174 0.00 0.00 33.83 2.73
3707 4039 3.139770 GGAGGTCACCCATCCTAGTACTA 59.860 52.174 1.89 1.89 33.83 1.82
3708 4040 2.091222 GGAGGTCACCCATCCTAGTACT 60.091 54.545 0.00 0.00 33.83 2.73
3709 4041 2.091222 AGGAGGTCACCCATCCTAGTAC 60.091 54.545 2.60 0.00 36.91 2.73
3710 4042 2.091278 CAGGAGGTCACCCATCCTAGTA 60.091 54.545 4.27 0.00 36.69 1.82
3711 4043 1.019650 AGGAGGTCACCCATCCTAGT 58.980 55.000 2.60 0.00 36.91 2.57
3712 4044 1.418334 CAGGAGGTCACCCATCCTAG 58.582 60.000 4.27 0.00 36.69 3.02
3713 4045 0.031111 CCAGGAGGTCACCCATCCTA 60.031 60.000 4.27 0.00 36.69 2.94
3714 4046 1.307343 CCAGGAGGTCACCCATCCT 60.307 63.158 0.00 0.00 38.30 3.24
3715 4047 2.378634 CCCAGGAGGTCACCCATCC 61.379 68.421 0.00 0.00 0.00 3.51
3716 4048 0.914417 TTCCCAGGAGGTCACCCATC 60.914 60.000 0.00 0.00 36.75 3.51
3717 4049 0.477597 TTTCCCAGGAGGTCACCCAT 60.478 55.000 0.00 0.00 36.75 4.00
3718 4050 0.477597 ATTTCCCAGGAGGTCACCCA 60.478 55.000 0.00 0.00 36.75 4.51
3719 4051 0.256177 GATTTCCCAGGAGGTCACCC 59.744 60.000 0.00 0.00 36.75 4.61
3720 4052 0.256177 GGATTTCCCAGGAGGTCACC 59.744 60.000 0.00 0.00 36.75 4.02
3721 4053 1.210722 GAGGATTTCCCAGGAGGTCAC 59.789 57.143 0.00 0.00 37.41 3.67
3722 4054 1.584724 GAGGATTTCCCAGGAGGTCA 58.415 55.000 0.00 0.00 37.41 4.02
3723 4055 0.466124 CGAGGATTTCCCAGGAGGTC 59.534 60.000 0.00 0.00 37.41 3.85
3724 4056 0.252742 ACGAGGATTTCCCAGGAGGT 60.253 55.000 0.00 0.00 37.41 3.85
3725 4057 0.179000 CACGAGGATTTCCCAGGAGG 59.821 60.000 0.00 0.00 37.41 4.30
3726 4058 1.195115 TCACGAGGATTTCCCAGGAG 58.805 55.000 0.00 0.00 37.41 3.69
3727 4059 1.278127 GTTCACGAGGATTTCCCAGGA 59.722 52.381 0.00 0.00 37.41 3.86
3728 4060 1.739067 GTTCACGAGGATTTCCCAGG 58.261 55.000 0.00 0.00 37.41 4.45
3729 4061 1.359848 CGTTCACGAGGATTTCCCAG 58.640 55.000 0.00 0.00 43.02 4.45
3730 4062 0.036765 CCGTTCACGAGGATTTCCCA 60.037 55.000 0.00 0.00 43.02 4.37
3731 4063 0.743345 CCCGTTCACGAGGATTTCCC 60.743 60.000 0.00 0.00 43.02 3.97
3732 4064 0.036671 ACCCGTTCACGAGGATTTCC 60.037 55.000 12.16 0.00 43.02 3.13
3733 4065 1.067071 AGACCCGTTCACGAGGATTTC 60.067 52.381 12.16 2.42 43.02 2.17
3734 4066 0.974383 AGACCCGTTCACGAGGATTT 59.026 50.000 12.16 0.00 43.02 2.17
3735 4067 0.531200 GAGACCCGTTCACGAGGATT 59.469 55.000 12.16 2.34 43.02 3.01
3736 4068 0.611062 TGAGACCCGTTCACGAGGAT 60.611 55.000 12.16 2.84 43.02 3.24
3737 4069 0.611062 ATGAGACCCGTTCACGAGGA 60.611 55.000 12.16 0.00 43.02 3.71
3738 4070 1.100510 TATGAGACCCGTTCACGAGG 58.899 55.000 0.00 3.26 43.02 4.63
3739 4071 2.619177 AGATATGAGACCCGTTCACGAG 59.381 50.000 0.00 0.00 43.02 4.18
3740 4072 2.651455 AGATATGAGACCCGTTCACGA 58.349 47.619 0.00 0.00 43.02 4.35
3741 4073 3.609644 GCTAGATATGAGACCCGTTCACG 60.610 52.174 0.00 0.00 39.44 4.35
3742 4074 3.305471 GGCTAGATATGAGACCCGTTCAC 60.305 52.174 0.00 0.00 0.00 3.18
3743 4075 2.891580 GGCTAGATATGAGACCCGTTCA 59.108 50.000 0.00 0.00 0.00 3.18
3744 4076 3.158676 AGGCTAGATATGAGACCCGTTC 58.841 50.000 0.00 0.00 0.00 3.95
3745 4077 3.246416 AGGCTAGATATGAGACCCGTT 57.754 47.619 0.00 0.00 0.00 4.44
3746 4078 2.982339 AGGCTAGATATGAGACCCGT 57.018 50.000 0.00 0.00 0.00 5.28
3747 4079 3.018149 GGTAGGCTAGATATGAGACCCG 58.982 54.545 0.00 0.00 0.00 5.28
3748 4080 3.367321 GGGTAGGCTAGATATGAGACCC 58.633 54.545 0.00 0.00 38.64 4.46
3749 4081 3.245658 TGGGGTAGGCTAGATATGAGACC 60.246 52.174 0.00 0.00 0.00 3.85
3750 4082 4.048970 TGGGGTAGGCTAGATATGAGAC 57.951 50.000 0.00 0.00 0.00 3.36
3751 4083 4.108124 AGTTGGGGTAGGCTAGATATGAGA 59.892 45.833 0.00 0.00 0.00 3.27
3752 4084 4.421131 AGTTGGGGTAGGCTAGATATGAG 58.579 47.826 0.00 0.00 0.00 2.90
3753 4085 4.487282 AGTTGGGGTAGGCTAGATATGA 57.513 45.455 0.00 0.00 0.00 2.15
3754 4086 4.348168 ACAAGTTGGGGTAGGCTAGATATG 59.652 45.833 7.96 0.00 0.00 1.78
3755 4087 4.567857 ACAAGTTGGGGTAGGCTAGATAT 58.432 43.478 7.96 0.00 0.00 1.63
3756 4088 4.003584 ACAAGTTGGGGTAGGCTAGATA 57.996 45.455 7.96 0.00 0.00 1.98
3757 4089 2.846950 ACAAGTTGGGGTAGGCTAGAT 58.153 47.619 7.96 0.00 0.00 1.98
3758 4090 2.337359 ACAAGTTGGGGTAGGCTAGA 57.663 50.000 7.96 0.00 0.00 2.43
3759 4091 3.081804 CAAACAAGTTGGGGTAGGCTAG 58.918 50.000 7.96 0.00 33.18 3.42
3760 4092 3.149005 CAAACAAGTTGGGGTAGGCTA 57.851 47.619 7.96 0.00 33.18 3.93
3761 4093 1.995376 CAAACAAGTTGGGGTAGGCT 58.005 50.000 7.96 0.00 33.18 4.58
3774 4106 4.027437 ACTAAGCCTTTTGTCCCAAACAA 58.973 39.130 0.00 0.00 46.11 2.83
3775 4107 3.637769 ACTAAGCCTTTTGTCCCAAACA 58.362 40.909 0.00 0.00 35.59 2.83
3776 4108 5.301045 ACTTACTAAGCCTTTTGTCCCAAAC 59.699 40.000 0.00 0.00 0.00 2.93
3777 4109 5.451354 ACTTACTAAGCCTTTTGTCCCAAA 58.549 37.500 0.00 0.00 0.00 3.28
3778 4110 5.056553 ACTTACTAAGCCTTTTGTCCCAA 57.943 39.130 0.00 0.00 0.00 4.12
3779 4111 4.717279 ACTTACTAAGCCTTTTGTCCCA 57.283 40.909 0.00 0.00 0.00 4.37
3780 4112 5.802465 ACTACTTACTAAGCCTTTTGTCCC 58.198 41.667 0.00 0.00 0.00 4.46
3781 4113 8.093307 ACTTACTACTTACTAAGCCTTTTGTCC 58.907 37.037 0.00 0.00 0.00 4.02
3786 4118 9.525826 TCACTACTTACTACTTACTAAGCCTTT 57.474 33.333 0.00 0.00 0.00 3.11
3787 4119 9.697990 ATCACTACTTACTACTTACTAAGCCTT 57.302 33.333 0.00 0.00 0.00 4.35
3788 4120 9.341078 GATCACTACTTACTACTTACTAAGCCT 57.659 37.037 0.00 0.00 0.00 4.58
3789 4121 8.567104 GGATCACTACTTACTACTTACTAAGCC 58.433 40.741 0.00 0.00 0.00 4.35
3790 4122 8.567104 GGGATCACTACTTACTACTTACTAAGC 58.433 40.741 0.00 0.00 0.00 3.09
3791 4123 9.065798 GGGGATCACTACTTACTACTTACTAAG 57.934 40.741 0.00 0.00 0.00 2.18
3792 4124 7.716998 CGGGGATCACTACTTACTACTTACTAA 59.283 40.741 0.00 0.00 0.00 2.24
3793 4125 7.220030 CGGGGATCACTACTTACTACTTACTA 58.780 42.308 0.00 0.00 0.00 1.82
3794 4126 6.060788 CGGGGATCACTACTTACTACTTACT 58.939 44.000 0.00 0.00 0.00 2.24
3795 4127 5.278218 GCGGGGATCACTACTTACTACTTAC 60.278 48.000 0.00 0.00 0.00 2.34
3796 4128 4.823989 GCGGGGATCACTACTTACTACTTA 59.176 45.833 0.00 0.00 0.00 2.24
3797 4129 3.635836 GCGGGGATCACTACTTACTACTT 59.364 47.826 0.00 0.00 0.00 2.24
3798 4130 3.220940 GCGGGGATCACTACTTACTACT 58.779 50.000 0.00 0.00 0.00 2.57
3799 4131 2.954318 TGCGGGGATCACTACTTACTAC 59.046 50.000 0.00 0.00 0.00 2.73
3800 4132 3.301794 TGCGGGGATCACTACTTACTA 57.698 47.619 0.00 0.00 0.00 1.82
3801 4133 2.154567 TGCGGGGATCACTACTTACT 57.845 50.000 0.00 0.00 0.00 2.24
3802 4134 2.973694 TTGCGGGGATCACTACTTAC 57.026 50.000 0.00 0.00 0.00 2.34
3803 4135 3.008157 TGTTTTGCGGGGATCACTACTTA 59.992 43.478 0.00 0.00 0.00 2.24
3804 4136 2.224670 TGTTTTGCGGGGATCACTACTT 60.225 45.455 0.00 0.00 0.00 2.24
3805 4137 1.349688 TGTTTTGCGGGGATCACTACT 59.650 47.619 0.00 0.00 0.00 2.57
3806 4138 1.816074 TGTTTTGCGGGGATCACTAC 58.184 50.000 0.00 0.00 0.00 2.73
3807 4139 2.570415 TTGTTTTGCGGGGATCACTA 57.430 45.000 0.00 0.00 0.00 2.74
3808 4140 1.923356 ATTGTTTTGCGGGGATCACT 58.077 45.000 0.00 0.00 0.00 3.41
3809 4141 2.752903 ACTATTGTTTTGCGGGGATCAC 59.247 45.455 0.00 0.00 0.00 3.06
3836 4168 5.246307 ACTGGCACATCTAAAAACTCCTAC 58.754 41.667 0.00 0.00 38.20 3.18
3963 4296 3.142174 AGGACAAGCAAAGTAACTCTGC 58.858 45.455 0.00 0.00 36.29 4.26
4052 4388 6.146898 GCGGACAGCTTAAAATAAACAAGAA 58.853 36.000 0.00 0.00 44.04 2.52
4113 4449 3.141398 TGATCACTGTCCTTGTTGCTTC 58.859 45.455 0.00 0.00 0.00 3.86


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.