Multiple sequence alignment - TraesCS5D01G567100

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 TraesCS5D01G567100 chr5D 100.000 3629 0 0 1 3629 565049241 565052869 0.000000e+00 6702.0
1 TraesCS5D01G567100 chr5D 96.364 55 1 1 651 704 565049945 565049999 4.990000e-14 89.8
2 TraesCS5D01G567100 chr5B 96.002 2051 55 7 798 2841 708239972 708237942 0.000000e+00 3308.0
3 TraesCS5D01G567100 chr5B 91.808 647 37 10 4 641 708240705 708240066 0.000000e+00 887.0
4 TraesCS5D01G567100 chr5B 88.872 674 40 15 2905 3543 708237778 708237105 0.000000e+00 797.0
5 TraesCS5D01G567100 chr5B 100.000 28 0 0 2878 2905 708237817 708237790 7.000000e-03 52.8
6 TraesCS5D01G567100 chr4A 95.593 2065 63 12 798 2841 606523284 606525341 0.000000e+00 3284.0
7 TraesCS5D01G567100 chr4A 88.763 792 18 21 2905 3629 606525518 606526305 0.000000e+00 904.0
8 TraesCS5D01G567100 chr4A 91.135 564 40 5 1 556 606522596 606523157 0.000000e+00 756.0


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 TraesCS5D01G567100 chr5D 565049241 565052869 3628 False 3395.9 6702 98.182000 1 3629 2 chr5D.!!$F1 3628
1 TraesCS5D01G567100 chr5B 708237105 708240705 3600 True 1261.2 3308 94.170500 4 3543 4 chr5B.!!$R1 3539
2 TraesCS5D01G567100 chr4A 606522596 606526305 3709 False 1648.0 3284 91.830333 1 3629 3 chr4A.!!$F1 3628

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
299 307 0.600557 CGAGCAGAGGTTGACACTCT 59.399 55.0 0.00 0.00 45.77 3.24 F
641 657 0.670239 ACATGCGCGATTCACACTCA 60.670 50.0 12.10 0.00 0.00 3.41 F
644 663 0.878086 TGCGCGATTCACACTCAACA 60.878 50.0 12.10 0.00 0.00 3.33 F
1680 1704 1.333177 AGAACCTCAAGCAGACGTCT 58.667 50.0 13.58 13.58 0.00 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1797 1821 1.451567 CGTGAGGCTCCGGTAGAGA 60.452 63.158 12.86 0.0 46.50 3.10 R
2304 2331 1.653115 GGCTATGTCCGTCGTCGAT 59.347 57.895 2.98 0.0 39.71 3.59 R
2397 2424 4.021925 GCCGCCTCCACCTTGTCT 62.022 66.667 0.00 0.0 0.00 3.41 R
3179 3392 0.034059 CACCTCCTGTGGTCACTCAC 59.966 60.000 2.66 0.0 41.52 3.51 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
37 38 6.398095 AGAACATATGCGATAAATCATCCGA 58.602 36.000 1.58 0.00 0.00 4.55
39 40 6.594284 ACATATGCGATAAATCATCCGATG 57.406 37.500 1.58 1.55 30.13 3.84
82 83 7.222611 CGAAAATTTCACTCTTTGGATTTGTGT 59.777 33.333 6.53 0.00 0.00 3.72
85 86 7.823745 ATTTCACTCTTTGGATTTGTGTAGT 57.176 32.000 0.00 0.00 0.00 2.73
159 162 1.660355 GCCTCTGCATCGATCGGTA 59.340 57.895 16.41 0.00 37.47 4.02
226 233 5.870978 CCCAAGATTTGCTTTGTAAGATTGG 59.129 40.000 0.00 0.00 33.60 3.16
250 258 4.495690 TTTTGATCCGGTGGTATGATCA 57.504 40.909 0.00 0.00 42.20 2.92
299 307 0.600557 CGAGCAGAGGTTGACACTCT 59.399 55.000 0.00 0.00 45.77 3.24
329 337 2.695666 ACCATCCTACAACTCATCCTCG 59.304 50.000 0.00 0.00 0.00 4.63
393 401 1.204062 CACACGTCGCAATTTCGCT 59.796 52.632 0.00 0.00 0.00 4.93
433 441 3.006752 ACGCACCAAACATTCCAAATCAT 59.993 39.130 0.00 0.00 0.00 2.45
457 465 2.134346 TCCTACCACGCGTTTACAAAC 58.866 47.619 10.22 0.00 35.59 2.93
584 600 3.346315 TCAATCGGTTCATGCTTCATGT 58.654 40.909 6.68 0.00 41.98 3.21
601 617 7.123098 TGCTTCATGTTCACATTTAGGAATGAT 59.877 33.333 6.17 0.00 44.37 2.45
604 620 6.604396 TCATGTTCACATTTAGGAATGATGCT 59.396 34.615 6.17 0.00 44.37 3.79
605 621 6.839124 TGTTCACATTTAGGAATGATGCTT 57.161 33.333 6.17 0.00 44.37 3.91
624 640 5.728471 TGCTTTCATCAACCTTTTCAAACA 58.272 33.333 0.00 0.00 0.00 2.83
641 657 0.670239 ACATGCGCGATTCACACTCA 60.670 50.000 12.10 0.00 0.00 3.41
644 663 0.878086 TGCGCGATTCACACTCAACA 60.878 50.000 12.10 0.00 0.00 3.33
648 667 2.157474 CGCGATTCACACTCAACATTCA 59.843 45.455 0.00 0.00 0.00 2.57
650 669 4.536065 GCGATTCACACTCAACATTCAAA 58.464 39.130 0.00 0.00 0.00 2.69
651 670 4.379793 GCGATTCACACTCAACATTCAAAC 59.620 41.667 0.00 0.00 0.00 2.93
652 671 4.911610 CGATTCACACTCAACATTCAAACC 59.088 41.667 0.00 0.00 0.00 3.27
653 672 3.961477 TCACACTCAACATTCAAACCG 57.039 42.857 0.00 0.00 0.00 4.44
655 674 3.942115 TCACACTCAACATTCAAACCGAA 59.058 39.130 0.00 0.00 38.22 4.30
657 676 5.067153 TCACACTCAACATTCAAACCGAATT 59.933 36.000 0.00 0.00 41.83 2.17
658 677 5.748152 CACACTCAACATTCAAACCGAATTT 59.252 36.000 0.00 0.00 41.83 1.82
659 678 5.977129 ACACTCAACATTCAAACCGAATTTC 59.023 36.000 0.00 0.00 41.83 2.17
663 682 5.751028 TCAACATTCAAACCGAATTTCAACC 59.249 36.000 0.00 0.00 41.83 3.77
664 683 5.269505 ACATTCAAACCGAATTTCAACCA 57.730 34.783 0.00 0.00 41.83 3.67
666 685 5.695816 ACATTCAAACCGAATTTCAACCATG 59.304 36.000 0.00 0.00 41.83 3.66
667 686 4.927978 TCAAACCGAATTTCAACCATGT 57.072 36.364 0.00 0.00 0.00 3.21
668 687 4.615949 TCAAACCGAATTTCAACCATGTG 58.384 39.130 0.00 0.00 0.00 3.21
669 688 4.098654 TCAAACCGAATTTCAACCATGTGT 59.901 37.500 0.00 0.00 0.00 3.72
670 689 4.664150 AACCGAATTTCAACCATGTGTT 57.336 36.364 0.00 0.00 37.80 3.32
671 690 4.664150 ACCGAATTTCAACCATGTGTTT 57.336 36.364 0.00 0.00 34.00 2.83
672 691 5.017294 ACCGAATTTCAACCATGTGTTTT 57.983 34.783 0.00 0.00 34.00 2.43
673 692 6.150396 ACCGAATTTCAACCATGTGTTTTA 57.850 33.333 0.00 0.00 34.00 1.52
674 693 6.754193 ACCGAATTTCAACCATGTGTTTTAT 58.246 32.000 0.00 0.00 34.00 1.40
675 694 7.213678 ACCGAATTTCAACCATGTGTTTTATT 58.786 30.769 0.00 0.00 34.00 1.40
676 695 7.713073 ACCGAATTTCAACCATGTGTTTTATTT 59.287 29.630 0.00 0.00 34.00 1.40
677 696 8.555361 CCGAATTTCAACCATGTGTTTTATTTT 58.445 29.630 0.00 0.00 34.00 1.82
678 697 9.928236 CGAATTTCAACCATGTGTTTTATTTTT 57.072 25.926 0.00 0.00 34.00 1.94
710 729 6.266103 ACACTTTGATCATCTTGTGACCAAAT 59.734 34.615 18.26 0.60 46.64 2.32
727 746 7.278868 GTGACCAAATTTCAACCATGTGTTTTA 59.721 33.333 0.00 0.00 34.00 1.52
759 778 5.694231 TCAACACTTTGATCATCTTGTGG 57.306 39.130 16.56 9.60 36.79 4.17
761 780 5.239306 TCAACACTTTGATCATCTTGTGGTC 59.761 40.000 16.56 0.00 36.79 4.02
770 789 7.287512 TGATCATCTTGTGGTCATTTCAAAA 57.712 32.000 0.00 0.00 42.95 2.44
781 800 7.084486 GTGGTCATTTCAAAATTGTAGAGACC 58.916 38.462 16.21 16.21 37.98 3.85
783 802 7.505585 TGGTCATTTCAAAATTGTAGAGACCTT 59.494 33.333 20.04 0.00 38.13 3.50
784 803 8.360390 GGTCATTTCAAAATTGTAGAGACCTTT 58.640 33.333 15.99 0.00 36.40 3.11
785 804 9.750125 GTCATTTCAAAATTGTAGAGACCTTTT 57.250 29.630 0.00 0.00 0.00 2.27
813 832 7.730364 TTGAGAACTCAAAATTGTAGAGACC 57.270 36.000 13.78 1.80 45.56 3.85
899 923 2.171003 GACACCTTTCCATTCCTTGGG 58.829 52.381 0.00 0.00 46.45 4.12
1062 1086 1.586564 CATCTCGTCGAAGCCGTCC 60.587 63.158 0.00 0.00 37.05 4.79
1119 1143 3.499737 GGCAACGTCGGCATCCTG 61.500 66.667 13.31 0.00 0.00 3.86
1368 1392 1.604378 CTTGCGGGAGTTCAGGGAT 59.396 57.895 0.00 0.00 0.00 3.85
1680 1704 1.333177 AGAACCTCAAGCAGACGTCT 58.667 50.000 13.58 13.58 0.00 4.18
2304 2331 1.572085 GGAAGACGACGTCGACCTCA 61.572 60.000 41.52 0.00 43.02 3.86
2541 2571 4.052229 CCCAGCGACTTCGACGGT 62.052 66.667 2.02 0.00 43.02 4.83
2569 2599 3.535962 GCTGCCGAGGAGGAGGAG 61.536 72.222 0.00 0.00 45.00 3.69
2657 2687 2.115266 AGAAACCAACGGCCCTGG 59.885 61.111 15.60 15.60 40.05 4.45
2865 3016 3.518634 TTTTTCCCTTGTGTGCTTGAC 57.481 42.857 0.00 0.00 0.00 3.18
2867 3018 2.136298 TTCCCTTGTGTGCTTGACAA 57.864 45.000 0.00 0.00 35.91 3.18
2868 3019 2.136298 TCCCTTGTGTGCTTGACAAA 57.864 45.000 0.00 0.00 35.91 2.83
2871 3022 2.624838 CCCTTGTGTGCTTGACAAAGAT 59.375 45.455 0.00 0.00 35.91 2.40
2872 3023 3.551454 CCCTTGTGTGCTTGACAAAGATG 60.551 47.826 0.00 0.00 35.91 2.90
2875 3028 3.544684 TGTGTGCTTGACAAAGATGAGT 58.455 40.909 0.00 0.00 35.91 3.41
3106 3284 9.845214 ACATATCTAATCTACCAATCTACCCTT 57.155 33.333 0.00 0.00 0.00 3.95
3126 3331 2.327200 TCCATCTCATCAGCAGCAAG 57.673 50.000 0.00 0.00 0.00 4.01
3127 3332 0.663688 CCATCTCATCAGCAGCAAGC 59.336 55.000 0.00 0.00 46.19 4.01
3160 3373 8.534778 GTTGCTGCTGCTAATTGTTAAATAATC 58.465 33.333 17.00 0.00 40.48 1.75
3179 3392 3.376078 GGGTGCATGTGGTGGCTG 61.376 66.667 0.00 0.00 0.00 4.85
3180 3393 2.598394 GGTGCATGTGGTGGCTGT 60.598 61.111 0.00 0.00 0.00 4.40
3181 3394 2.646719 GTGCATGTGGTGGCTGTG 59.353 61.111 0.00 0.00 0.00 3.66
3182 3395 1.898094 GTGCATGTGGTGGCTGTGA 60.898 57.895 0.00 0.00 0.00 3.58
3316 3537 1.868469 GCTAGCTGCTCCTGAATCAG 58.132 55.000 4.91 2.68 38.95 2.90
3535 3785 4.445453 CTGCTTGTCCTCATGCTGTATTA 58.555 43.478 7.40 0.00 42.66 0.98
3544 3794 9.586435 TGTCCTCATGCTGTATTATTATTATCG 57.414 33.333 0.00 0.00 0.00 2.92
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 6.331369 TCGCATATGTTCTCTATCATGTCA 57.669 37.500 4.29 0.00 0.00 3.58
37 38 9.849166 AATTTTCGGTATTATTTTGAACGACAT 57.151 25.926 0.00 0.00 0.00 3.06
82 83 8.470040 ACTACGAAATCAGCGAAAAATAACTA 57.530 30.769 0.00 0.00 0.00 2.24
117 120 4.566426 AGGTGATCCTCCTTCAAGAAAG 57.434 45.455 1.31 0.00 40.58 2.62
122 125 1.480954 GCGTAGGTGATCCTCCTTCAA 59.519 52.381 11.03 0.00 43.94 2.69
124 127 0.389757 GGCGTAGGTGATCCTCCTTC 59.610 60.000 11.03 6.32 43.94 3.46
130 133 1.068250 GCAGAGGCGTAGGTGATCC 59.932 63.158 0.00 0.00 0.00 3.36
159 162 8.696043 ATAATAATGTATGGTTGTGTGCATCT 57.304 30.769 0.00 0.00 0.00 2.90
250 258 0.944386 GACATGCCTTGTGTCGTGTT 59.056 50.000 0.00 0.00 39.18 3.32
299 307 0.029577 TGTAGGATGGTGGGGGCATA 60.030 55.000 0.00 0.00 0.00 3.14
350 358 4.556697 AGGTGAGTGGTGATGGTGATATA 58.443 43.478 0.00 0.00 0.00 0.86
393 401 7.222161 TGGTGCGTTATAGTAAGATCTAGAGA 58.778 38.462 0.00 0.00 0.00 3.10
549 565 7.981142 TGAACCGATTGATAGTTTTGGTAATC 58.019 34.615 0.00 0.00 0.00 1.75
584 600 7.465353 TGAAAGCATCATTCCTAAATGTGAA 57.535 32.000 0.00 0.00 42.46 3.18
601 617 5.728471 TGTTTGAAAAGGTTGATGAAAGCA 58.272 33.333 0.00 0.00 38.81 3.91
604 620 5.233902 CGCATGTTTGAAAAGGTTGATGAAA 59.766 36.000 0.00 0.00 0.00 2.69
605 621 4.744137 CGCATGTTTGAAAAGGTTGATGAA 59.256 37.500 0.00 0.00 0.00 2.57
621 637 0.443869 GAGTGTGAATCGCGCATGTT 59.556 50.000 8.75 0.00 39.56 2.71
624 640 0.443869 GTTGAGTGTGAATCGCGCAT 59.556 50.000 8.75 0.00 39.56 4.73
641 657 5.665459 TGGTTGAAATTCGGTTTGAATGTT 58.335 33.333 0.00 0.00 46.65 2.71
644 663 8.114651 AACACATGGTTGAAATTCGGTTTGAAT 61.115 33.333 0.00 0.00 43.03 2.57
648 667 4.664150 ACACATGGTTGAAATTCGGTTT 57.336 36.364 0.00 0.00 0.00 3.27
650 669 4.664150 AAACACATGGTTGAAATTCGGT 57.336 36.364 0.00 0.00 40.35 4.69
651 670 7.650834 AATAAAACACATGGTTGAAATTCGG 57.349 32.000 0.00 0.00 40.35 4.30
652 671 9.928236 AAAAATAAAACACATGGTTGAAATTCG 57.072 25.926 0.00 0.00 40.35 3.34
682 701 7.134782 TGGTCACAAGATGATCAAAGTGTTGA 61.135 38.462 10.64 7.45 45.85 3.18
683 702 5.008911 TGGTCACAAGATGATCAAAGTGTTG 59.991 40.000 0.00 1.03 45.85 3.33
684 703 5.132502 TGGTCACAAGATGATCAAAGTGTT 58.867 37.500 0.00 0.00 45.85 3.32
685 704 4.717877 TGGTCACAAGATGATCAAAGTGT 58.282 39.130 0.00 0.80 45.85 3.55
692 711 6.587608 GGTTGAAATTTGGTCACAAGATGATC 59.412 38.462 0.00 0.00 40.28 2.92
693 712 6.041865 TGGTTGAAATTTGGTCACAAGATGAT 59.958 34.615 0.00 0.00 40.28 2.45
694 713 5.362143 TGGTTGAAATTTGGTCACAAGATGA 59.638 36.000 0.00 0.00 37.97 2.92
695 714 5.599732 TGGTTGAAATTTGGTCACAAGATG 58.400 37.500 0.00 0.00 37.97 2.90
696 715 5.867903 TGGTTGAAATTTGGTCACAAGAT 57.132 34.783 0.00 0.00 37.97 2.40
697 716 5.128499 ACATGGTTGAAATTTGGTCACAAGA 59.872 36.000 0.00 0.00 37.97 3.02
698 717 5.234757 CACATGGTTGAAATTTGGTCACAAG 59.765 40.000 0.00 0.00 37.97 3.16
699 718 5.114780 CACATGGTTGAAATTTGGTCACAA 58.885 37.500 0.00 0.00 34.07 3.33
700 719 4.161189 ACACATGGTTGAAATTTGGTCACA 59.839 37.500 0.00 0.00 0.00 3.58
701 720 4.692228 ACACATGGTTGAAATTTGGTCAC 58.308 39.130 0.00 0.00 0.00 3.67
702 721 5.350504 AACACATGGTTGAAATTTGGTCA 57.649 34.783 0.00 0.00 38.60 4.02
703 722 6.676237 AAAACACATGGTTGAAATTTGGTC 57.324 33.333 0.00 0.00 40.35 4.02
759 778 9.750125 AAAAGGTCTCTACAATTTTGAAATGAC 57.250 29.630 0.00 0.00 29.73 3.06
788 807 7.993183 AGGTCTCTACAATTTTGAGTTCTCAAA 59.007 33.333 19.77 19.77 37.77 2.69
789 808 7.509546 AGGTCTCTACAATTTTGAGTTCTCAA 58.490 34.615 10.67 10.67 0.00 3.02
790 809 7.067496 AGGTCTCTACAATTTTGAGTTCTCA 57.933 36.000 0.00 0.00 0.00 3.27
791 810 7.971183 AAGGTCTCTACAATTTTGAGTTCTC 57.029 36.000 0.00 0.00 0.00 2.87
792 811 8.753497 AAAAGGTCTCTACAATTTTGAGTTCT 57.247 30.769 0.00 0.00 29.73 3.01
793 812 9.237846 CAAAAAGGTCTCTACAATTTTGAGTTC 57.762 33.333 0.00 0.00 40.98 3.01
794 813 8.749354 ACAAAAAGGTCTCTACAATTTTGAGTT 58.251 29.630 17.41 2.10 40.98 3.01
795 814 8.190784 CACAAAAAGGTCTCTACAATTTTGAGT 58.809 33.333 17.41 7.35 40.98 3.41
796 815 8.190784 ACACAAAAAGGTCTCTACAATTTTGAG 58.809 33.333 17.41 13.95 40.98 3.02
797 816 8.062065 ACACAAAAAGGTCTCTACAATTTTGA 57.938 30.769 17.41 0.00 40.98 2.69
798 817 8.702163 AACACAAAAAGGTCTCTACAATTTTG 57.298 30.769 12.50 12.50 42.45 2.44
799 818 9.366216 GAAACACAAAAAGGTCTCTACAATTTT 57.634 29.630 0.00 0.00 31.22 1.82
800 819 7.979537 GGAAACACAAAAAGGTCTCTACAATTT 59.020 33.333 0.00 0.00 0.00 1.82
801 820 7.342026 AGGAAACACAAAAAGGTCTCTACAATT 59.658 33.333 0.00 0.00 0.00 2.32
802 821 6.833933 AGGAAACACAAAAAGGTCTCTACAAT 59.166 34.615 0.00 0.00 0.00 2.71
803 822 6.184789 AGGAAACACAAAAAGGTCTCTACAA 58.815 36.000 0.00 0.00 0.00 2.41
804 823 5.751586 AGGAAACACAAAAAGGTCTCTACA 58.248 37.500 0.00 0.00 0.00 2.74
805 824 6.238676 GGAAGGAAACACAAAAAGGTCTCTAC 60.239 42.308 0.00 0.00 0.00 2.59
806 825 5.826208 GGAAGGAAACACAAAAAGGTCTCTA 59.174 40.000 0.00 0.00 0.00 2.43
807 826 4.645136 GGAAGGAAACACAAAAAGGTCTCT 59.355 41.667 0.00 0.00 0.00 3.10
808 827 4.202121 GGGAAGGAAACACAAAAAGGTCTC 60.202 45.833 0.00 0.00 0.00 3.36
809 828 3.704566 GGGAAGGAAACACAAAAAGGTCT 59.295 43.478 0.00 0.00 0.00 3.85
810 829 3.181469 GGGGAAGGAAACACAAAAAGGTC 60.181 47.826 0.00 0.00 0.00 3.85
811 830 2.769663 GGGGAAGGAAACACAAAAAGGT 59.230 45.455 0.00 0.00 0.00 3.50
812 831 2.769095 TGGGGAAGGAAACACAAAAAGG 59.231 45.455 0.00 0.00 0.00 3.11
813 832 4.479786 TTGGGGAAGGAAACACAAAAAG 57.520 40.909 0.00 0.00 0.00 2.27
848 867 7.448161 TCAAAATGTTTCAAGAGCTTCCTATCA 59.552 33.333 0.00 0.00 0.00 2.15
1356 1380 1.817099 CAGCGCATCCCTGAACTCC 60.817 63.158 11.47 0.00 32.03 3.85
1680 1704 2.776526 AAGGTGCACCCCCACAGA 60.777 61.111 32.29 0.00 37.46 3.41
1797 1821 1.451567 CGTGAGGCTCCGGTAGAGA 60.452 63.158 12.86 0.00 46.50 3.10
2301 2328 1.660614 GCTATGTCCGTCGTCGATGAG 60.661 57.143 16.06 5.95 39.71 2.90
2304 2331 1.653115 GGCTATGTCCGTCGTCGAT 59.347 57.895 2.98 0.00 39.71 3.59
2397 2424 4.021925 GCCGCCTCCACCTTGTCT 62.022 66.667 0.00 0.00 0.00 3.41
2657 2687 1.803334 TAAACACACGGATGCCTGAC 58.197 50.000 0.00 0.00 0.00 3.51
2662 2696 3.413558 GAACGATTAAACACACGGATGC 58.586 45.455 0.00 0.00 0.00 3.91
2852 3003 4.036027 ACTCATCTTTGTCAAGCACACAAG 59.964 41.667 0.00 0.00 35.22 3.16
2855 3006 4.035558 TCAACTCATCTTTGTCAAGCACAC 59.964 41.667 0.00 0.00 33.41 3.82
2857 3008 4.512944 TCTCAACTCATCTTTGTCAAGCAC 59.487 41.667 0.00 0.00 0.00 4.40
2859 3010 5.410746 TCATCTCAACTCATCTTTGTCAAGC 59.589 40.000 0.00 0.00 0.00 4.01
2860 3011 6.872547 TCTCATCTCAACTCATCTTTGTCAAG 59.127 38.462 0.00 0.00 0.00 3.02
2861 3012 6.762333 TCTCATCTCAACTCATCTTTGTCAA 58.238 36.000 0.00 0.00 0.00 3.18
2864 3015 6.602410 TCTCTCATCTCAACTCATCTTTGT 57.398 37.500 0.00 0.00 0.00 2.83
2865 3016 7.266400 TCATCTCTCATCTCAACTCATCTTTG 58.734 38.462 0.00 0.00 0.00 2.77
2867 3018 7.438564 CATCATCTCTCATCTCAACTCATCTT 58.561 38.462 0.00 0.00 0.00 2.40
2868 3019 6.014925 CCATCATCTCTCATCTCAACTCATCT 60.015 42.308 0.00 0.00 0.00 2.90
2871 3022 4.961099 ACCATCATCTCTCATCTCAACTCA 59.039 41.667 0.00 0.00 0.00 3.41
2872 3023 5.068855 TCACCATCATCTCTCATCTCAACTC 59.931 44.000 0.00 0.00 0.00 3.01
2875 3028 5.396101 GGTTCACCATCATCTCTCATCTCAA 60.396 44.000 0.00 0.00 35.64 3.02
3103 3281 1.948145 GCTGCTGATGAGATGGAAAGG 59.052 52.381 0.00 0.00 0.00 3.11
3105 3283 2.793288 TGCTGCTGATGAGATGGAAA 57.207 45.000 0.00 0.00 0.00 3.13
3106 3284 2.640184 CTTGCTGCTGATGAGATGGAA 58.360 47.619 0.00 0.00 0.00 3.53
3107 3285 1.746171 GCTTGCTGCTGATGAGATGGA 60.746 52.381 0.00 0.00 38.95 3.41
3127 3332 2.780065 TAGCAGCAGCAACTTTGTTG 57.220 45.000 3.17 6.12 45.49 3.33
3128 3333 4.053295 CAATTAGCAGCAGCAACTTTGTT 58.947 39.130 3.17 0.00 45.49 2.83
3129 3334 3.068590 ACAATTAGCAGCAGCAACTTTGT 59.931 39.130 3.17 5.03 45.49 2.83
3130 3335 3.645884 ACAATTAGCAGCAGCAACTTTG 58.354 40.909 3.17 4.41 45.49 2.77
3160 3373 3.376078 GCCACCACATGCACCCTG 61.376 66.667 0.00 0.00 0.00 4.45
3179 3392 0.034059 CACCTCCTGTGGTCACTCAC 59.966 60.000 2.66 0.00 41.52 3.51
3180 3393 0.105709 TCACCTCCTGTGGTCACTCA 60.106 55.000 2.66 0.00 45.48 3.41
3181 3394 0.605589 CTCACCTCCTGTGGTCACTC 59.394 60.000 2.66 0.00 45.48 3.51
3182 3395 0.833834 CCTCACCTCCTGTGGTCACT 60.834 60.000 2.66 0.00 45.48 3.41
3316 3537 1.001860 AGGCTCTTGCAAGTGTCTCTC 59.998 52.381 25.68 11.11 41.91 3.20
3510 3760 0.677098 AGCATGAGGACAAGCAGCTG 60.677 55.000 10.11 10.11 42.22 4.24
3535 3785 9.706691 AATTCATGACGAACCTACGATAATAAT 57.293 29.630 0.00 0.00 36.12 1.28
3544 3794 6.721571 TTCAGAAATTCATGACGAACCTAC 57.278 37.500 0.00 0.00 36.12 3.18
3546 3796 6.824305 ATTTCAGAAATTCATGACGAACCT 57.176 33.333 2.20 0.00 36.12 3.50
3547 3797 6.863126 ACAATTTCAGAAATTCATGACGAACC 59.137 34.615 16.90 0.00 38.97 3.62
3548 3798 7.858052 ACAATTTCAGAAATTCATGACGAAC 57.142 32.000 16.90 0.00 38.97 3.95
3550 3800 7.083858 GGAACAATTTCAGAAATTCATGACGA 58.916 34.615 16.90 0.00 38.97 4.20
3551 3801 6.308766 GGGAACAATTTCAGAAATTCATGACG 59.691 38.462 16.90 8.53 38.97 4.35


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

AutoCloner maintained by Alex Coulton.