Multiple sequence alignment - TraesCS6A01G270600

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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 TraesCS6A01G270600 chr6A 100.000 3755 0 0 1 3755 496630503 496626749 0.000000e+00 6935.0
1 TraesCS6A01G270600 chr6D 95.420 2926 94 14 852 3755 346824547 346827454 0.000000e+00 4625.0
2 TraesCS6A01G270600 chr6D 91.194 670 51 5 2 667 346823806 346824471 0.000000e+00 904.0
3 TraesCS6A01G270600 chr6B 95.612 2803 99 11 944 3724 534246993 534244193 0.000000e+00 4473.0
4 TraesCS6A01G270600 chr6B 92.958 71 5 0 719 789 534247061 534246991 1.840000e-18 104.0
5 TraesCS6A01G270600 chr6B 91.304 69 6 0 852 920 534247061 534246993 1.110000e-15 95.3
6 TraesCS6A01G270600 chr5D 75.039 637 130 18 43 657 216979048 216979677 6.180000e-68 268.0
7 TraesCS6A01G270600 chr2D 77.995 409 78 10 3 403 95640894 95640490 2.900000e-61 246.0
8 TraesCS6A01G270600 chr3D 80.083 241 40 3 48 287 515265833 515265600 4.990000e-39 172.0
9 TraesCS6A01G270600 chr1D 83.152 184 28 2 43 225 439725889 439725708 8.340000e-37 165.0
10 TraesCS6A01G270600 chr2A 80.741 135 24 2 260 393 94118996 94118863 1.840000e-18 104.0


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 TraesCS6A01G270600 chr6A 496626749 496630503 3754 True 6935.000000 6935 100.000000 1 3755 1 chr6A.!!$R1 3754
1 TraesCS6A01G270600 chr6D 346823806 346827454 3648 False 2764.500000 4625 93.307000 2 3755 2 chr6D.!!$F1 3753
2 TraesCS6A01G270600 chr6B 534244193 534247061 2868 True 1557.433333 4473 93.291333 719 3724 3 chr6B.!!$R1 3005
3 TraesCS6A01G270600 chr5D 216979048 216979677 629 False 268.000000 268 75.039000 43 657 1 chr5D.!!$F1 614

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
785 827 0.035458 CAGGGATCGGTTAGGGATGC 59.965 60.0 0.0 0.0 0.00 3.91 F
786 828 0.104934 AGGGATCGGTTAGGGATGCT 60.105 55.0 0.0 0.0 33.33 3.79 F
846 888 0.105658 TCGGGGGTGGAGATAAGAGG 60.106 60.0 0.0 0.0 0.00 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1756 1798 0.107017 CCGATGCTCCCAACCTTCAT 60.107 55.0 0.00 0.0 0.00 2.57 R
2679 2721 5.928839 GTGTATTCTTGAAGAGAAGCACTCA 59.071 40.0 12.21 0.0 46.99 3.41 R
3008 3055 0.038343 CCAAACGGGGCAGAAATGTG 60.038 55.0 0.00 0.0 0.00 3.21 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
158 159 2.369394 GGCCAATCCGAAGAACAATCT 58.631 47.619 0.00 0.00 37.57 2.40
159 160 3.541632 GGCCAATCCGAAGAACAATCTA 58.458 45.455 0.00 0.00 33.77 1.98
182 184 1.523758 AAATGGCACTCACTTCGTCC 58.476 50.000 0.00 0.00 0.00 4.79
254 256 0.245539 GTGCAACATCAGCTGCCAAT 59.754 50.000 9.47 0.00 36.01 3.16
274 277 4.564782 ATGGTGATCACACTTGATGACT 57.435 40.909 26.47 0.00 43.71 3.41
289 292 0.328592 TGACTGGTAGAGGCTCGTCT 59.671 55.000 16.77 1.20 0.00 4.18
291 294 2.172930 TGACTGGTAGAGGCTCGTCTAT 59.827 50.000 16.77 0.53 31.66 1.98
461 464 0.457853 CGAATCCCTTCAAGACGCGA 60.458 55.000 15.93 0.00 0.00 5.87
499 502 2.591715 GTCGAATCCGGCCATGGG 60.592 66.667 15.13 0.00 33.63 4.00
521 533 2.031420 CGTAGATCCGTCGATTTAGGCA 60.031 50.000 0.00 0.00 0.00 4.75
527 539 4.594123 TCCGTCGATTTAGGCATCAATA 57.406 40.909 0.00 0.00 0.00 1.90
585 600 1.623542 GGTTGCTATGAGGGGTCGGT 61.624 60.000 0.00 0.00 0.00 4.69
610 629 1.327303 CTTGTGGTGGCCAGCTAAAA 58.673 50.000 33.29 22.50 32.34 1.52
682 701 2.277404 GGGGGTTGGTGTGTGTGT 59.723 61.111 0.00 0.00 0.00 3.72
684 703 1.379309 GGGGTTGGTGTGTGTGTGT 60.379 57.895 0.00 0.00 0.00 3.72
685 704 1.662438 GGGGTTGGTGTGTGTGTGTG 61.662 60.000 0.00 0.00 0.00 3.82
689 708 2.143575 TTGGTGTGTGTGTGTGGGGT 62.144 55.000 0.00 0.00 0.00 4.95
691 710 2.118404 GTGTGTGTGTGTGGGGTGG 61.118 63.158 0.00 0.00 0.00 4.61
692 711 2.518349 GTGTGTGTGTGGGGTGGG 60.518 66.667 0.00 0.00 0.00 4.61
693 712 3.814906 TGTGTGTGTGGGGTGGGG 61.815 66.667 0.00 0.00 0.00 4.96
710 729 3.344176 GGTGGGGGTGGGGGTAAG 61.344 72.222 0.00 0.00 0.00 2.34
711 730 2.204182 GTGGGGGTGGGGGTAAGA 60.204 66.667 0.00 0.00 0.00 2.10
713 732 2.694992 GGGGGTGGGGGTAAGAGG 60.695 72.222 0.00 0.00 0.00 3.69
714 733 2.694992 GGGGTGGGGGTAAGAGGG 60.695 72.222 0.00 0.00 0.00 4.30
715 734 2.457794 GGGTGGGGGTAAGAGGGA 59.542 66.667 0.00 0.00 0.00 4.20
716 735 1.999568 GGGTGGGGGTAAGAGGGAC 61.000 68.421 0.00 0.00 0.00 4.46
717 736 1.999568 GGTGGGGGTAAGAGGGACC 61.000 68.421 0.00 0.00 36.12 4.46
728 770 0.609131 AGAGGGACCGTGCAATTTGG 60.609 55.000 0.00 0.00 0.00 3.28
742 784 4.080638 TGCAATTTGGAAGGGAAAAACTGT 60.081 37.500 0.00 0.00 0.00 3.55
753 795 8.635328 GGAAGGGAAAAACTGTATTTTTACTCA 58.365 33.333 6.96 0.00 33.77 3.41
755 797 9.981114 AAGGGAAAAACTGTATTTTTACTCATG 57.019 29.630 6.96 0.00 33.77 3.07
756 798 9.143155 AGGGAAAAACTGTATTTTTACTCATGT 57.857 29.630 6.96 0.00 33.77 3.21
776 818 5.231702 TGTAAAACTTTACAGGGATCGGT 57.768 39.130 10.31 0.00 45.70 4.69
777 819 5.623169 TGTAAAACTTTACAGGGATCGGTT 58.377 37.500 10.31 0.00 45.70 4.44
778 820 6.767456 TGTAAAACTTTACAGGGATCGGTTA 58.233 36.000 10.31 0.00 45.70 2.85
779 821 6.875195 TGTAAAACTTTACAGGGATCGGTTAG 59.125 38.462 10.31 0.00 45.70 2.34
780 822 4.482952 AACTTTACAGGGATCGGTTAGG 57.517 45.455 0.00 0.00 0.00 2.69
781 823 2.770232 ACTTTACAGGGATCGGTTAGGG 59.230 50.000 0.00 0.00 0.00 3.53
782 824 2.852714 TTACAGGGATCGGTTAGGGA 57.147 50.000 0.00 0.00 0.00 4.20
783 825 3.339713 TTACAGGGATCGGTTAGGGAT 57.660 47.619 0.00 0.00 0.00 3.85
784 826 1.424638 ACAGGGATCGGTTAGGGATG 58.575 55.000 0.00 0.00 0.00 3.51
785 827 0.035458 CAGGGATCGGTTAGGGATGC 59.965 60.000 0.00 0.00 0.00 3.91
786 828 0.104934 AGGGATCGGTTAGGGATGCT 60.105 55.000 0.00 0.00 33.33 3.79
787 829 0.321996 GGGATCGGTTAGGGATGCTC 59.678 60.000 0.00 0.00 33.33 4.26
788 830 1.343069 GGATCGGTTAGGGATGCTCT 58.657 55.000 0.00 0.00 30.53 4.09
789 831 1.694696 GGATCGGTTAGGGATGCTCTT 59.305 52.381 0.00 0.00 30.53 2.85
790 832 2.897969 GGATCGGTTAGGGATGCTCTTA 59.102 50.000 0.00 0.00 30.53 2.10
791 833 3.056465 GGATCGGTTAGGGATGCTCTTAG 60.056 52.174 0.00 0.00 30.53 2.18
792 834 3.308035 TCGGTTAGGGATGCTCTTAGA 57.692 47.619 0.00 0.00 0.00 2.10
793 835 2.957006 TCGGTTAGGGATGCTCTTAGAC 59.043 50.000 0.00 0.00 0.00 2.59
794 836 2.693591 CGGTTAGGGATGCTCTTAGACA 59.306 50.000 0.00 0.00 0.00 3.41
795 837 3.243569 CGGTTAGGGATGCTCTTAGACAG 60.244 52.174 0.00 0.00 0.00 3.51
796 838 3.707102 GGTTAGGGATGCTCTTAGACAGT 59.293 47.826 0.00 0.00 0.00 3.55
797 839 4.894114 GGTTAGGGATGCTCTTAGACAGTA 59.106 45.833 0.00 0.00 0.00 2.74
798 840 5.221283 GGTTAGGGATGCTCTTAGACAGTAC 60.221 48.000 0.00 0.00 0.00 2.73
799 841 3.982516 AGGGATGCTCTTAGACAGTACA 58.017 45.455 0.00 0.00 0.00 2.90
800 842 3.957497 AGGGATGCTCTTAGACAGTACAG 59.043 47.826 0.00 0.00 0.00 2.74
801 843 3.702045 GGGATGCTCTTAGACAGTACAGT 59.298 47.826 0.00 0.00 0.00 3.55
802 844 4.888239 GGGATGCTCTTAGACAGTACAGTA 59.112 45.833 0.00 0.00 0.00 2.74
803 845 5.221087 GGGATGCTCTTAGACAGTACAGTAC 60.221 48.000 2.05 2.05 0.00 2.73
804 846 5.357314 GGATGCTCTTAGACAGTACAGTACA 59.643 44.000 13.37 0.00 0.00 2.90
805 847 6.039941 GGATGCTCTTAGACAGTACAGTACAT 59.960 42.308 13.37 0.32 0.00 2.29
806 848 7.228906 GGATGCTCTTAGACAGTACAGTACATA 59.771 40.741 13.37 0.00 0.00 2.29
807 849 8.698973 ATGCTCTTAGACAGTACAGTACATAT 57.301 34.615 13.37 0.90 0.00 1.78
808 850 9.794719 ATGCTCTTAGACAGTACAGTACATATA 57.205 33.333 13.37 0.00 0.00 0.86
809 851 9.274206 TGCTCTTAGACAGTACAGTACATATAG 57.726 37.037 13.37 3.09 0.00 1.31
810 852 9.275398 GCTCTTAGACAGTACAGTACATATAGT 57.725 37.037 13.37 3.46 0.00 2.12
815 857 8.665643 AGACAGTACAGTACATATAGTCTGAC 57.334 38.462 13.37 0.00 33.06 3.51
816 858 8.265764 AGACAGTACAGTACATATAGTCTGACA 58.734 37.037 13.37 0.00 33.06 3.58
817 859 8.803397 ACAGTACAGTACATATAGTCTGACAA 57.197 34.615 13.37 0.00 32.89 3.18
818 860 9.239551 ACAGTACAGTACATATAGTCTGACAAA 57.760 33.333 13.37 0.00 32.89 2.83
819 861 9.504710 CAGTACAGTACATATAGTCTGACAAAC 57.495 37.037 13.37 0.00 32.89 2.93
820 862 9.463902 AGTACAGTACATATAGTCTGACAAACT 57.536 33.333 13.37 0.00 32.89 2.66
821 863 9.504710 GTACAGTACATATAGTCTGACAAACTG 57.495 37.037 10.88 12.94 37.29 3.16
822 864 7.036220 ACAGTACATATAGTCTGACAAACTGC 58.964 38.462 10.88 0.00 35.24 4.40
823 865 7.035612 CAGTACATATAGTCTGACAAACTGCA 58.964 38.462 10.88 0.00 31.28 4.41
824 866 7.009631 CAGTACATATAGTCTGACAAACTGCAC 59.990 40.741 10.88 3.67 31.28 4.57
825 867 4.864806 ACATATAGTCTGACAAACTGCACG 59.135 41.667 10.88 0.00 0.00 5.34
826 868 3.660501 ATAGTCTGACAAACTGCACGA 57.339 42.857 10.88 0.00 0.00 4.35
827 869 2.533266 AGTCTGACAAACTGCACGAT 57.467 45.000 10.88 0.00 0.00 3.73
828 870 2.408050 AGTCTGACAAACTGCACGATC 58.592 47.619 10.88 0.00 0.00 3.69
829 871 1.125021 GTCTGACAAACTGCACGATCG 59.875 52.381 14.88 14.88 0.00 3.69
830 872 0.439985 CTGACAAACTGCACGATCGG 59.560 55.000 20.98 9.59 0.00 4.18
831 873 0.948623 TGACAAACTGCACGATCGGG 60.949 55.000 20.98 17.95 0.00 5.14
832 874 1.635663 GACAAACTGCACGATCGGGG 61.636 60.000 20.80 12.08 0.00 5.73
833 875 2.046314 AAACTGCACGATCGGGGG 60.046 61.111 20.80 9.38 0.00 5.40
834 876 2.890766 AAACTGCACGATCGGGGGT 61.891 57.895 20.80 9.29 0.00 4.95
835 877 3.605749 AACTGCACGATCGGGGGTG 62.606 63.158 20.80 9.35 37.22 4.61
836 878 4.838152 CTGCACGATCGGGGGTGG 62.838 72.222 20.80 2.30 34.76 4.61
838 880 4.530857 GCACGATCGGGGGTGGAG 62.531 72.222 20.80 0.00 34.76 3.86
839 881 2.758327 CACGATCGGGGGTGGAGA 60.758 66.667 20.98 0.00 0.00 3.71
840 882 2.134287 CACGATCGGGGGTGGAGAT 61.134 63.158 20.98 0.00 0.00 2.75
841 883 0.826256 CACGATCGGGGGTGGAGATA 60.826 60.000 20.98 0.00 0.00 1.98
842 884 0.105862 ACGATCGGGGGTGGAGATAA 60.106 55.000 20.98 0.00 0.00 1.75
843 885 0.603569 CGATCGGGGGTGGAGATAAG 59.396 60.000 7.38 0.00 0.00 1.73
844 886 1.822062 CGATCGGGGGTGGAGATAAGA 60.822 57.143 7.38 0.00 0.00 2.10
845 887 1.896465 GATCGGGGGTGGAGATAAGAG 59.104 57.143 0.00 0.00 0.00 2.85
846 888 0.105658 TCGGGGGTGGAGATAAGAGG 60.106 60.000 0.00 0.00 0.00 3.69
847 889 1.122019 CGGGGGTGGAGATAAGAGGG 61.122 65.000 0.00 0.00 0.00 4.30
848 890 0.267960 GGGGGTGGAGATAAGAGGGA 59.732 60.000 0.00 0.00 0.00 4.20
849 891 1.425694 GGGGTGGAGATAAGAGGGAC 58.574 60.000 0.00 0.00 0.00 4.46
850 892 1.425694 GGGTGGAGATAAGAGGGACC 58.574 60.000 0.00 0.00 0.00 4.46
851 893 1.041437 GGTGGAGATAAGAGGGACCG 58.959 60.000 0.00 0.00 0.00 4.79
852 894 1.688627 GGTGGAGATAAGAGGGACCGT 60.689 57.143 0.00 0.00 0.00 4.83
853 895 1.409427 GTGGAGATAAGAGGGACCGTG 59.591 57.143 0.00 0.00 0.00 4.94
854 896 0.389757 GGAGATAAGAGGGACCGTGC 59.610 60.000 0.00 0.00 0.00 5.34
855 897 1.112113 GAGATAAGAGGGACCGTGCA 58.888 55.000 0.00 0.00 0.00 4.57
856 898 1.067821 GAGATAAGAGGGACCGTGCAG 59.932 57.143 0.00 0.00 0.00 4.41
857 899 0.824759 GATAAGAGGGACCGTGCAGT 59.175 55.000 0.00 0.00 0.00 4.40
858 900 1.207329 GATAAGAGGGACCGTGCAGTT 59.793 52.381 0.00 0.00 0.00 3.16
859 901 1.053424 TAAGAGGGACCGTGCAGTTT 58.947 50.000 0.00 0.00 0.00 2.66
860 902 0.535102 AAGAGGGACCGTGCAGTTTG 60.535 55.000 0.00 0.00 0.00 2.93
861 903 1.966451 GAGGGACCGTGCAGTTTGG 60.966 63.158 0.00 0.00 0.00 3.28
862 904 2.112297 GGGACCGTGCAGTTTGGA 59.888 61.111 0.00 0.00 0.00 3.53
863 905 1.527380 GGGACCGTGCAGTTTGGAA 60.527 57.895 0.00 0.00 0.00 3.53
864 906 1.515521 GGGACCGTGCAGTTTGGAAG 61.516 60.000 0.00 0.00 0.00 3.46
865 907 1.515521 GGACCGTGCAGTTTGGAAGG 61.516 60.000 1.40 1.40 42.49 3.46
866 908 1.515521 GACCGTGCAGTTTGGAAGGG 61.516 60.000 7.37 0.00 41.24 3.95
867 909 1.228124 CCGTGCAGTTTGGAAGGGA 60.228 57.895 0.00 0.00 34.05 4.20
868 910 0.821711 CCGTGCAGTTTGGAAGGGAA 60.822 55.000 0.00 0.00 34.05 3.97
869 911 1.028905 CGTGCAGTTTGGAAGGGAAA 58.971 50.000 0.00 0.00 0.00 3.13
870 912 1.407258 CGTGCAGTTTGGAAGGGAAAA 59.593 47.619 0.00 0.00 0.00 2.29
871 913 2.159170 CGTGCAGTTTGGAAGGGAAAAA 60.159 45.455 0.00 0.00 0.00 1.94
872 914 3.194861 GTGCAGTTTGGAAGGGAAAAAC 58.805 45.455 0.00 0.00 34.68 2.43
873 915 2.159170 TGCAGTTTGGAAGGGAAAAACG 60.159 45.455 0.00 0.00 38.52 3.60
874 916 2.801699 GCAGTTTGGAAGGGAAAAACGG 60.802 50.000 0.00 0.00 38.52 4.44
875 917 2.429250 CAGTTTGGAAGGGAAAAACGGT 59.571 45.455 0.00 0.00 38.52 4.83
876 918 3.633065 CAGTTTGGAAGGGAAAAACGGTA 59.367 43.478 0.00 0.00 38.52 4.02
877 919 4.279922 CAGTTTGGAAGGGAAAAACGGTAT 59.720 41.667 0.00 0.00 38.52 2.73
878 920 4.897076 AGTTTGGAAGGGAAAAACGGTATT 59.103 37.500 0.00 0.00 38.52 1.89
879 921 5.364446 AGTTTGGAAGGGAAAAACGGTATTT 59.636 36.000 0.00 0.00 38.52 1.40
880 922 5.873146 TTGGAAGGGAAAAACGGTATTTT 57.127 34.783 0.00 0.00 35.29 1.82
881 923 5.873146 TGGAAGGGAAAAACGGTATTTTT 57.127 34.783 0.00 0.00 32.85 1.94
882 924 6.973460 TGGAAGGGAAAAACGGTATTTTTA 57.027 33.333 0.00 0.00 32.85 1.52
883 925 6.747125 TGGAAGGGAAAAACGGTATTTTTAC 58.253 36.000 0.00 0.00 32.85 2.01
884 926 6.550481 TGGAAGGGAAAAACGGTATTTTTACT 59.450 34.615 6.96 2.69 33.77 2.24
885 927 7.069702 TGGAAGGGAAAAACGGTATTTTTACTT 59.930 33.333 6.96 9.33 33.77 2.24
921 963 2.188817 GGGATCGGTTAGGGATGCTAT 58.811 52.381 0.00 0.00 33.33 2.97
922 964 2.572104 GGGATCGGTTAGGGATGCTATT 59.428 50.000 0.00 0.00 33.33 1.73
924 966 4.141914 GGGATCGGTTAGGGATGCTATTAG 60.142 50.000 0.00 0.00 33.33 1.73
926 968 5.394333 GGATCGGTTAGGGATGCTATTAGAC 60.394 48.000 0.00 0.00 30.53 2.59
927 969 4.476297 TCGGTTAGGGATGCTATTAGACA 58.524 43.478 0.00 0.00 0.00 3.41
928 970 4.523173 TCGGTTAGGGATGCTATTAGACAG 59.477 45.833 0.00 0.00 0.00 3.51
929 971 4.281182 CGGTTAGGGATGCTATTAGACAGT 59.719 45.833 0.00 0.00 0.00 3.55
930 972 5.475909 CGGTTAGGGATGCTATTAGACAGTA 59.524 44.000 0.00 0.00 0.00 2.74
931 973 6.569994 CGGTTAGGGATGCTATTAGACAGTAC 60.570 46.154 0.00 0.00 0.00 2.73
932 974 6.267014 GGTTAGGGATGCTATTAGACAGTACA 59.733 42.308 0.00 0.00 0.00 2.90
933 975 7.371936 GTTAGGGATGCTATTAGACAGTACAG 58.628 42.308 0.00 0.00 0.00 2.74
934 976 5.459505 AGGGATGCTATTAGACAGTACAGT 58.540 41.667 0.00 0.00 0.00 3.55
935 977 6.611785 AGGGATGCTATTAGACAGTACAGTA 58.388 40.000 0.00 0.00 0.00 2.74
936 978 6.490721 AGGGATGCTATTAGACAGTACAGTAC 59.509 42.308 2.05 2.05 0.00 2.73
937 979 6.264744 GGGATGCTATTAGACAGTACAGTACA 59.735 42.308 13.37 0.00 0.00 2.90
938 980 7.039644 GGGATGCTATTAGACAGTACAGTACAT 60.040 40.741 13.37 0.32 0.00 2.29
939 981 9.011095 GGATGCTATTAGACAGTACAGTACATA 57.989 37.037 13.37 0.56 0.00 2.29
940 982 9.828852 GATGCTATTAGACAGTACAGTACATAC 57.171 37.037 13.37 3.66 0.00 2.39
1224 1266 1.016130 CCGACTCAATCACTGCGCTT 61.016 55.000 9.73 0.00 0.00 4.68
1407 1449 1.757118 TCCGATCTCATGTTCCTCACC 59.243 52.381 0.00 0.00 0.00 4.02
1429 1471 3.364964 ATCCGTCCCTCCTCCCCA 61.365 66.667 0.00 0.00 0.00 4.96
1473 1515 2.524887 TTCCCGTGGTCCCGTCTT 60.525 61.111 0.00 0.00 0.00 3.01
1604 1646 1.857638 GCCTGCCTCTCTTTCCCCTT 61.858 60.000 0.00 0.00 0.00 3.95
1756 1798 2.101415 CAGATGTTCTACGATGCTGGGA 59.899 50.000 0.00 0.00 0.00 4.37
1762 1804 1.688735 TCTACGATGCTGGGATGAAGG 59.311 52.381 0.00 0.00 0.00 3.46
1867 1909 3.574074 TTCAAGAGGCTGGGGCTGC 62.574 63.158 0.00 0.00 38.98 5.25
2035 2077 1.444933 TGTGGTTGGGAGGAACAGAT 58.555 50.000 0.00 0.00 0.00 2.90
2658 2700 4.074970 CCAACCTCTACAATATGCATCCC 58.925 47.826 0.19 0.00 0.00 3.85
2930 2977 4.785301 ACACTGGATGTAGGATGAAATGG 58.215 43.478 0.00 0.00 40.88 3.16
3008 3055 5.828299 ACATTGTAGCTCTGAGACTAGTC 57.172 43.478 15.41 15.41 0.00 2.59
3016 3063 5.016173 AGCTCTGAGACTAGTCACATTTCT 58.984 41.667 24.44 16.02 30.24 2.52
3021 3068 2.237392 AGACTAGTCACATTTCTGCCCC 59.763 50.000 24.44 0.00 0.00 5.80
3069 3116 8.820831 AGGAAAGATATTCTGTATTGATCCGAT 58.179 33.333 0.00 0.00 0.00 4.18
3081 3128 7.726216 TGTATTGATCCGATGTGAAAGACTAT 58.274 34.615 0.00 0.00 0.00 2.12
3145 3192 5.357032 TCATCCTCATATCATTGCATCATGC 59.643 40.000 1.35 1.35 45.29 4.06
3236 3297 3.426159 GGTGACGCAATGGTAAGAACATG 60.426 47.826 0.00 0.00 0.00 3.21
3329 3391 2.291605 GGTGGTGAATAAAGGGGCTTCT 60.292 50.000 0.00 0.00 0.00 2.85
3347 3409 0.899720 CTCAGGGCCATTGCATTTGT 59.100 50.000 6.18 0.00 40.13 2.83
3378 3440 0.752054 CTGGTGCTCCCTCTGATCTC 59.248 60.000 1.59 0.00 0.00 2.75
3415 3477 4.702831 TGCACTGTGTGAGATAAAAGTCA 58.297 39.130 9.86 0.00 35.23 3.41
3520 3583 1.706575 CTCCTTCCTCCTCTCCCCA 59.293 63.158 0.00 0.00 0.00 4.96
3528 3591 1.074471 TCCTCTCCCCATGGTAGGC 60.074 63.158 11.73 0.00 36.43 3.93
3554 3617 2.977178 CTGCTGCCTCGTTCCTCT 59.023 61.111 0.00 0.00 0.00 3.69
3561 3624 1.893919 GCCTCGTTCCTCTGCTCCTT 61.894 60.000 0.00 0.00 0.00 3.36
3563 3626 0.891373 CTCGTTCCTCTGCTCCTTCA 59.109 55.000 0.00 0.00 0.00 3.02
3564 3627 0.603569 TCGTTCCTCTGCTCCTTCAC 59.396 55.000 0.00 0.00 0.00 3.18
3598 3661 0.321671 GTCTTGAGCAGGGCACAGTA 59.678 55.000 0.00 0.00 30.09 2.74
3602 3665 1.374947 GAGCAGGGCACAGTAACCA 59.625 57.895 0.00 0.00 0.00 3.67
3604 3667 0.322816 AGCAGGGCACAGTAACCATG 60.323 55.000 2.70 2.70 40.66 3.66
3609 3672 1.003812 GGGCACAGTAACCATGTACCA 59.996 52.381 0.00 0.00 36.03 3.25
3636 3699 0.957395 AGAACTGGACTGCATTGGCG 60.957 55.000 0.00 0.00 45.35 5.69
3637 3700 0.955428 GAACTGGACTGCATTGGCGA 60.955 55.000 0.00 0.00 45.35 5.54
3640 3703 0.109597 CTGGACTGCATTGGCGAAAC 60.110 55.000 0.00 0.00 45.35 2.78
3657 3720 5.123344 GGCGAAACATAACAGGTTAATCACT 59.877 40.000 0.00 0.00 0.00 3.41
3694 3757 2.315176 CTCTAGATCAGGACACCCCAG 58.685 57.143 0.00 0.00 37.41 4.45
3751 3814 7.930325 ACACTGATCATCATGACTGGTAATTAG 59.070 37.037 0.00 0.00 0.00 1.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.199982 AGAGATGAGACTAAAGAGGACCA 57.800 43.478 0.00 0.00 0.00 4.02
2 3 5.825679 TGCTAGAGATGAGACTAAAGAGGAC 59.174 44.000 0.00 0.00 0.00 3.85
3 4 6.007485 TGCTAGAGATGAGACTAAAGAGGA 57.993 41.667 0.00 0.00 0.00 3.71
5 6 6.096141 TGGTTGCTAGAGATGAGACTAAAGAG 59.904 42.308 0.00 0.00 0.00 2.85
7 8 6.214191 TGGTTGCTAGAGATGAGACTAAAG 57.786 41.667 0.00 0.00 0.00 1.85
9 10 6.577103 CATTGGTTGCTAGAGATGAGACTAA 58.423 40.000 0.00 0.00 0.00 2.24
10 11 6.154203 CATTGGTTGCTAGAGATGAGACTA 57.846 41.667 0.00 0.00 0.00 2.59
147 148 7.147976 AGTGCCATTTTGTTAGATTGTTCTTC 58.852 34.615 0.00 0.00 33.17 2.87
158 159 3.880490 ACGAAGTGAGTGCCATTTTGTTA 59.120 39.130 0.00 0.00 42.51 2.41
159 160 2.687935 ACGAAGTGAGTGCCATTTTGTT 59.312 40.909 0.00 0.00 42.51 2.83
182 184 8.454106 CAGATGGGTTTTCTACAAGTATGAAAG 58.546 37.037 0.00 0.00 32.36 2.62
248 250 1.887854 CAAGTGTGATCACCATTGGCA 59.112 47.619 22.85 0.00 44.83 4.92
254 256 3.557686 CCAGTCATCAAGTGTGATCACCA 60.558 47.826 22.85 8.51 42.88 4.17
274 277 2.852449 CTCATAGACGAGCCTCTACCA 58.148 52.381 0.00 0.00 0.00 3.25
461 464 4.052229 CTCGGTCCTCGGCGTTGT 62.052 66.667 6.85 0.00 39.77 3.32
499 502 2.582687 CCTAAATCGACGGATCTACGC 58.417 52.381 0.00 0.00 37.37 4.42
521 533 6.293081 CGATTCGGTTGCTTCTCATTATTGAT 60.293 38.462 0.00 0.00 0.00 2.57
527 539 2.932614 CTCGATTCGGTTGCTTCTCATT 59.067 45.455 6.18 0.00 0.00 2.57
592 607 1.617850 CATTTTAGCTGGCCACCACAA 59.382 47.619 0.00 0.00 0.00 3.33
647 666 4.087892 CTCCTCACCCGCACCCTG 62.088 72.222 0.00 0.00 0.00 4.45
666 685 1.379309 ACACACACACACCAACCCC 60.379 57.895 0.00 0.00 0.00 4.95
668 687 1.662438 CCCACACACACACACCAACC 61.662 60.000 0.00 0.00 0.00 3.77
669 688 1.662438 CCCCACACACACACACCAAC 61.662 60.000 0.00 0.00 0.00 3.77
672 691 2.118404 CACCCCACACACACACACC 61.118 63.158 0.00 0.00 0.00 4.16
673 692 2.118404 CCACCCCACACACACACAC 61.118 63.158 0.00 0.00 0.00 3.82
675 694 2.518349 CCCACCCCACACACACAC 60.518 66.667 0.00 0.00 0.00 3.82
676 695 3.814906 CCCCACCCCACACACACA 61.815 66.667 0.00 0.00 0.00 3.72
677 696 4.596585 CCCCCACCCCACACACAC 62.597 72.222 0.00 0.00 0.00 3.82
679 698 4.596585 CACCCCCACCCCACACAC 62.597 72.222 0.00 0.00 0.00 3.82
693 712 3.344176 CTTACCCCCACCCCCACC 61.344 72.222 0.00 0.00 0.00 4.61
695 714 2.126372 CTCTTACCCCCACCCCCA 59.874 66.667 0.00 0.00 0.00 4.96
697 716 2.694992 CCCTCTTACCCCCACCCC 60.695 72.222 0.00 0.00 0.00 4.95
698 717 1.999568 GTCCCTCTTACCCCCACCC 61.000 68.421 0.00 0.00 0.00 4.61
699 718 1.999568 GGTCCCTCTTACCCCCACC 61.000 68.421 0.00 0.00 0.00 4.61
700 719 2.364780 CGGTCCCTCTTACCCCCAC 61.365 68.421 0.00 0.00 33.10 4.61
702 721 2.040114 ACGGTCCCTCTTACCCCC 59.960 66.667 0.00 0.00 33.10 5.40
703 722 3.027675 GCACGGTCCCTCTTACCCC 62.028 68.421 0.00 0.00 33.10 4.95
705 724 0.252197 ATTGCACGGTCCCTCTTACC 59.748 55.000 0.00 0.00 0.00 2.85
707 726 2.432444 CAAATTGCACGGTCCCTCTTA 58.568 47.619 0.00 0.00 0.00 2.10
708 727 1.247567 CAAATTGCACGGTCCCTCTT 58.752 50.000 0.00 0.00 0.00 2.85
709 728 0.609131 CCAAATTGCACGGTCCCTCT 60.609 55.000 0.00 0.00 0.00 3.69
710 729 0.608035 TCCAAATTGCACGGTCCCTC 60.608 55.000 0.00 0.00 0.00 4.30
711 730 0.178975 TTCCAAATTGCACGGTCCCT 60.179 50.000 0.00 0.00 0.00 4.20
713 732 0.243636 CCTTCCAAATTGCACGGTCC 59.756 55.000 0.00 0.00 0.00 4.46
714 733 0.243636 CCCTTCCAAATTGCACGGTC 59.756 55.000 0.00 0.00 0.00 4.79
715 734 0.178975 TCCCTTCCAAATTGCACGGT 60.179 50.000 0.00 0.00 0.00 4.83
716 735 0.965439 TTCCCTTCCAAATTGCACGG 59.035 50.000 0.00 0.00 0.00 4.94
717 736 2.810439 TTTCCCTTCCAAATTGCACG 57.190 45.000 0.00 0.00 0.00 5.34
755 797 6.314648 CCTAACCGATCCCTGTAAAGTTTTAC 59.685 42.308 7.62 7.62 42.51 2.01
756 798 6.408869 CCTAACCGATCCCTGTAAAGTTTTA 58.591 40.000 0.00 0.00 0.00 1.52
757 799 5.250982 CCTAACCGATCCCTGTAAAGTTTT 58.749 41.667 0.00 0.00 0.00 2.43
758 800 4.324022 CCCTAACCGATCCCTGTAAAGTTT 60.324 45.833 0.00 0.00 0.00 2.66
759 801 3.199289 CCCTAACCGATCCCTGTAAAGTT 59.801 47.826 0.00 0.00 0.00 2.66
760 802 2.770232 CCCTAACCGATCCCTGTAAAGT 59.230 50.000 0.00 0.00 0.00 2.66
761 803 3.036091 TCCCTAACCGATCCCTGTAAAG 58.964 50.000 0.00 0.00 0.00 1.85
762 804 3.119009 TCCCTAACCGATCCCTGTAAA 57.881 47.619 0.00 0.00 0.00 2.01
763 805 2.852714 TCCCTAACCGATCCCTGTAA 57.147 50.000 0.00 0.00 0.00 2.41
764 806 2.605257 CATCCCTAACCGATCCCTGTA 58.395 52.381 0.00 0.00 0.00 2.74
765 807 1.424638 CATCCCTAACCGATCCCTGT 58.575 55.000 0.00 0.00 0.00 4.00
766 808 0.035458 GCATCCCTAACCGATCCCTG 59.965 60.000 0.00 0.00 0.00 4.45
767 809 0.104934 AGCATCCCTAACCGATCCCT 60.105 55.000 0.00 0.00 0.00 4.20
768 810 0.321996 GAGCATCCCTAACCGATCCC 59.678 60.000 0.00 0.00 0.00 3.85
769 811 1.343069 AGAGCATCCCTAACCGATCC 58.657 55.000 0.00 0.00 33.66 3.36
770 812 3.827302 TCTAAGAGCATCCCTAACCGATC 59.173 47.826 0.00 0.00 33.66 3.69
771 813 3.574826 GTCTAAGAGCATCCCTAACCGAT 59.425 47.826 0.00 0.00 33.66 4.18
772 814 2.957006 GTCTAAGAGCATCCCTAACCGA 59.043 50.000 0.00 0.00 33.66 4.69
773 815 2.693591 TGTCTAAGAGCATCCCTAACCG 59.306 50.000 0.00 0.00 33.66 4.44
774 816 3.707102 ACTGTCTAAGAGCATCCCTAACC 59.293 47.826 0.00 0.00 33.66 2.85
775 817 5.360144 TGTACTGTCTAAGAGCATCCCTAAC 59.640 44.000 0.00 0.00 33.66 2.34
776 818 5.516044 TGTACTGTCTAAGAGCATCCCTAA 58.484 41.667 0.00 0.00 33.66 2.69
777 819 5.125367 TGTACTGTCTAAGAGCATCCCTA 57.875 43.478 0.00 0.00 33.66 3.53
778 820 3.957497 CTGTACTGTCTAAGAGCATCCCT 59.043 47.826 0.00 0.00 33.66 4.20
779 821 3.702045 ACTGTACTGTCTAAGAGCATCCC 59.298 47.826 0.00 0.00 33.66 3.85
780 822 4.993029 ACTGTACTGTCTAAGAGCATCC 57.007 45.455 0.00 0.00 33.66 3.51
781 823 6.438259 TGTACTGTACTGTCTAAGAGCATC 57.562 41.667 17.98 0.00 0.00 3.91
782 824 8.698973 ATATGTACTGTACTGTCTAAGAGCAT 57.301 34.615 17.98 6.56 0.00 3.79
783 825 9.274206 CTATATGTACTGTACTGTCTAAGAGCA 57.726 37.037 17.98 0.15 0.00 4.26
784 826 9.275398 ACTATATGTACTGTACTGTCTAAGAGC 57.725 37.037 17.98 0.00 0.00 4.09
789 831 9.761504 GTCAGACTATATGTACTGTACTGTCTA 57.238 37.037 17.98 6.17 32.04 2.59
790 832 8.265764 TGTCAGACTATATGTACTGTACTGTCT 58.734 37.037 17.98 17.20 33.26 3.41
791 833 8.434733 TGTCAGACTATATGTACTGTACTGTC 57.565 38.462 17.98 15.71 0.00 3.51
792 834 8.803397 TTGTCAGACTATATGTACTGTACTGT 57.197 34.615 17.98 10.46 0.00 3.55
793 835 9.504710 GTTTGTCAGACTATATGTACTGTACTG 57.495 37.037 17.98 6.41 0.00 2.74
794 836 9.463902 AGTTTGTCAGACTATATGTACTGTACT 57.536 33.333 17.98 7.21 0.00 2.73
795 837 9.504710 CAGTTTGTCAGACTATATGTACTGTAC 57.495 37.037 10.98 10.98 0.00 2.90
796 838 8.188799 GCAGTTTGTCAGACTATATGTACTGTA 58.811 37.037 12.46 0.00 33.63 2.74
797 839 7.036220 GCAGTTTGTCAGACTATATGTACTGT 58.964 38.462 12.46 0.00 33.63 3.55
798 840 7.009631 GTGCAGTTTGTCAGACTATATGTACTG 59.990 40.741 1.31 5.87 34.08 2.74
799 841 7.036220 GTGCAGTTTGTCAGACTATATGTACT 58.964 38.462 1.31 0.00 0.00 2.73
800 842 6.020599 CGTGCAGTTTGTCAGACTATATGTAC 60.021 42.308 1.31 5.38 0.00 2.90
801 843 6.033966 CGTGCAGTTTGTCAGACTATATGTA 58.966 40.000 1.31 0.00 0.00 2.29
802 844 4.864806 CGTGCAGTTTGTCAGACTATATGT 59.135 41.667 1.31 0.00 0.00 2.29
803 845 5.102313 TCGTGCAGTTTGTCAGACTATATG 58.898 41.667 1.31 0.00 0.00 1.78
804 846 5.324784 TCGTGCAGTTTGTCAGACTATAT 57.675 39.130 1.31 0.00 0.00 0.86
805 847 4.776795 TCGTGCAGTTTGTCAGACTATA 57.223 40.909 1.31 0.00 0.00 1.31
806 848 3.660501 TCGTGCAGTTTGTCAGACTAT 57.339 42.857 1.31 0.00 0.00 2.12
807 849 3.575630 GATCGTGCAGTTTGTCAGACTA 58.424 45.455 1.31 0.00 0.00 2.59
808 850 2.408050 GATCGTGCAGTTTGTCAGACT 58.592 47.619 1.31 0.00 0.00 3.24
809 851 1.125021 CGATCGTGCAGTTTGTCAGAC 59.875 52.381 7.03 0.00 0.00 3.51
810 852 1.418373 CGATCGTGCAGTTTGTCAGA 58.582 50.000 7.03 0.00 0.00 3.27
811 853 0.439985 CCGATCGTGCAGTTTGTCAG 59.560 55.000 15.09 0.00 0.00 3.51
812 854 0.948623 CCCGATCGTGCAGTTTGTCA 60.949 55.000 15.09 0.00 0.00 3.58
813 855 1.635663 CCCCGATCGTGCAGTTTGTC 61.636 60.000 15.09 0.00 0.00 3.18
814 856 1.671054 CCCCGATCGTGCAGTTTGT 60.671 57.895 15.09 0.00 0.00 2.83
815 857 2.398554 CCCCCGATCGTGCAGTTTG 61.399 63.158 15.09 0.00 0.00 2.93
816 858 2.046314 CCCCCGATCGTGCAGTTT 60.046 61.111 15.09 0.00 0.00 2.66
817 859 3.319198 ACCCCCGATCGTGCAGTT 61.319 61.111 15.09 0.00 0.00 3.16
818 860 4.082523 CACCCCCGATCGTGCAGT 62.083 66.667 15.09 2.94 0.00 4.40
819 861 4.838152 CCACCCCCGATCGTGCAG 62.838 72.222 15.09 2.27 0.00 4.41
821 863 4.530857 CTCCACCCCCGATCGTGC 62.531 72.222 15.09 0.00 0.00 5.34
822 864 0.826256 TATCTCCACCCCCGATCGTG 60.826 60.000 15.09 1.60 0.00 4.35
823 865 0.105862 TTATCTCCACCCCCGATCGT 60.106 55.000 15.09 0.00 0.00 3.73
824 866 0.603569 CTTATCTCCACCCCCGATCG 59.396 60.000 8.51 8.51 0.00 3.69
825 867 1.896465 CTCTTATCTCCACCCCCGATC 59.104 57.143 0.00 0.00 0.00 3.69
826 868 1.483307 CCTCTTATCTCCACCCCCGAT 60.483 57.143 0.00 0.00 0.00 4.18
827 869 0.105658 CCTCTTATCTCCACCCCCGA 60.106 60.000 0.00 0.00 0.00 5.14
828 870 1.122019 CCCTCTTATCTCCACCCCCG 61.122 65.000 0.00 0.00 0.00 5.73
829 871 0.267960 TCCCTCTTATCTCCACCCCC 59.732 60.000 0.00 0.00 0.00 5.40
830 872 1.425694 GTCCCTCTTATCTCCACCCC 58.574 60.000 0.00 0.00 0.00 4.95
831 873 1.425694 GGTCCCTCTTATCTCCACCC 58.574 60.000 0.00 0.00 0.00 4.61
832 874 1.041437 CGGTCCCTCTTATCTCCACC 58.959 60.000 0.00 0.00 0.00 4.61
833 875 1.409427 CACGGTCCCTCTTATCTCCAC 59.591 57.143 0.00 0.00 0.00 4.02
834 876 1.776662 CACGGTCCCTCTTATCTCCA 58.223 55.000 0.00 0.00 0.00 3.86
835 877 0.389757 GCACGGTCCCTCTTATCTCC 59.610 60.000 0.00 0.00 0.00 3.71
836 878 1.067821 CTGCACGGTCCCTCTTATCTC 59.932 57.143 0.00 0.00 0.00 2.75
837 879 1.115467 CTGCACGGTCCCTCTTATCT 58.885 55.000 0.00 0.00 0.00 1.98
838 880 0.824759 ACTGCACGGTCCCTCTTATC 59.175 55.000 0.00 0.00 0.00 1.75
839 881 1.276622 AACTGCACGGTCCCTCTTAT 58.723 50.000 0.00 0.00 0.00 1.73
840 882 1.053424 AAACTGCACGGTCCCTCTTA 58.947 50.000 0.00 0.00 0.00 2.10
841 883 0.535102 CAAACTGCACGGTCCCTCTT 60.535 55.000 0.00 0.00 0.00 2.85
842 884 1.071471 CAAACTGCACGGTCCCTCT 59.929 57.895 0.00 0.00 0.00 3.69
843 885 1.966451 CCAAACTGCACGGTCCCTC 60.966 63.158 0.00 0.00 0.00 4.30
844 886 1.990160 TTCCAAACTGCACGGTCCCT 61.990 55.000 0.00 0.00 0.00 4.20
845 887 1.515521 CTTCCAAACTGCACGGTCCC 61.516 60.000 0.00 0.00 0.00 4.46
846 888 1.515521 CCTTCCAAACTGCACGGTCC 61.516 60.000 0.00 0.00 0.00 4.46
847 889 1.515521 CCCTTCCAAACTGCACGGTC 61.516 60.000 0.00 0.00 0.00 4.79
848 890 1.528309 CCCTTCCAAACTGCACGGT 60.528 57.895 0.00 0.00 0.00 4.83
849 891 0.821711 TTCCCTTCCAAACTGCACGG 60.822 55.000 0.00 0.00 0.00 4.94
850 892 1.028905 TTTCCCTTCCAAACTGCACG 58.971 50.000 0.00 0.00 0.00 5.34
851 893 3.194861 GTTTTTCCCTTCCAAACTGCAC 58.805 45.455 0.00 0.00 0.00 4.57
852 894 2.159170 CGTTTTTCCCTTCCAAACTGCA 60.159 45.455 0.00 0.00 0.00 4.41
853 895 2.469826 CGTTTTTCCCTTCCAAACTGC 58.530 47.619 0.00 0.00 0.00 4.40
854 896 2.429250 ACCGTTTTTCCCTTCCAAACTG 59.571 45.455 0.00 0.00 0.00 3.16
855 897 2.742348 ACCGTTTTTCCCTTCCAAACT 58.258 42.857 0.00 0.00 0.00 2.66
856 898 4.859304 ATACCGTTTTTCCCTTCCAAAC 57.141 40.909 0.00 0.00 0.00 2.93
857 899 5.873146 AAATACCGTTTTTCCCTTCCAAA 57.127 34.783 0.00 0.00 0.00 3.28
858 900 5.873146 AAAATACCGTTTTTCCCTTCCAA 57.127 34.783 0.00 0.00 0.00 3.53
859 901 5.873146 AAAAATACCGTTTTTCCCTTCCA 57.127 34.783 0.00 0.00 0.00 3.53
860 902 6.985117 AGTAAAAATACCGTTTTTCCCTTCC 58.015 36.000 2.15 0.00 34.01 3.46
861 903 7.922278 ACAAGTAAAAATACCGTTTTTCCCTTC 59.078 33.333 2.15 0.00 34.01 3.46
862 904 7.707464 CACAAGTAAAAATACCGTTTTTCCCTT 59.293 33.333 2.15 4.25 34.01 3.95
863 905 7.147863 ACACAAGTAAAAATACCGTTTTTCCCT 60.148 33.333 2.15 0.00 34.01 4.20
864 906 6.979817 ACACAAGTAAAAATACCGTTTTTCCC 59.020 34.615 2.15 0.00 34.01 3.97
865 907 7.990541 ACACAAGTAAAAATACCGTTTTTCC 57.009 32.000 2.15 0.00 34.01 3.13
868 910 9.022915 GCTTTACACAAGTAAAAATACCGTTTT 57.977 29.630 2.89 0.00 46.40 2.43
869 911 8.407832 AGCTTTACACAAGTAAAAATACCGTTT 58.592 29.630 2.89 0.00 46.40 3.60
870 912 7.933396 AGCTTTACACAAGTAAAAATACCGTT 58.067 30.769 2.89 0.00 46.40 4.44
871 913 7.500720 AGCTTTACACAAGTAAAAATACCGT 57.499 32.000 2.89 0.00 46.40 4.83
872 914 8.791355 AAAGCTTTACACAAGTAAAAATACCG 57.209 30.769 10.72 0.00 46.40 4.02
876 918 9.744468 CCTGTAAAGCTTTACACAAGTAAAAAT 57.256 29.630 36.66 4.81 46.40 1.82
877 919 8.192110 CCCTGTAAAGCTTTACACAAGTAAAAA 58.808 33.333 36.66 18.80 46.40 1.94
878 920 7.556996 TCCCTGTAAAGCTTTACACAAGTAAAA 59.443 33.333 36.66 19.39 46.40 1.52
879 921 7.055378 TCCCTGTAAAGCTTTACACAAGTAAA 58.945 34.615 36.66 19.97 45.70 2.01
880 922 6.593807 TCCCTGTAAAGCTTTACACAAGTAA 58.406 36.000 36.66 20.57 45.70 2.24
881 923 6.177310 TCCCTGTAAAGCTTTACACAAGTA 57.823 37.500 36.66 22.06 45.70 2.24
882 924 5.043737 TCCCTGTAAAGCTTTACACAAGT 57.956 39.130 36.66 8.00 45.70 3.16
883 925 5.163854 CGATCCCTGTAAAGCTTTACACAAG 60.164 44.000 36.66 28.60 45.70 3.16
884 926 4.693566 CGATCCCTGTAAAGCTTTACACAA 59.306 41.667 36.66 26.85 45.70 3.33
885 927 4.250464 CGATCCCTGTAAAGCTTTACACA 58.750 43.478 36.66 26.29 45.70 3.72
924 966 6.148976 TGTCAGACTGTATGTACTGTACTGTC 59.851 42.308 24.49 24.49 44.53 3.51
926 968 6.496338 TGTCAGACTGTATGTACTGTACTG 57.504 41.667 17.98 6.41 38.28 2.74
927 969 7.368833 GTTTGTCAGACTGTATGTACTGTACT 58.631 38.462 17.98 7.21 38.28 2.73
928 970 6.585322 GGTTTGTCAGACTGTATGTACTGTAC 59.415 42.308 10.98 10.98 38.28 2.90
929 971 6.294899 GGGTTTGTCAGACTGTATGTACTGTA 60.295 42.308 1.59 0.00 38.28 2.74
930 972 5.510861 GGGTTTGTCAGACTGTATGTACTGT 60.511 44.000 1.59 2.84 40.40 3.55
931 973 4.929808 GGGTTTGTCAGACTGTATGTACTG 59.070 45.833 1.59 0.00 0.00 2.74
932 974 4.838986 AGGGTTTGTCAGACTGTATGTACT 59.161 41.667 1.59 0.00 0.00 2.73
933 975 5.148651 AGGGTTTGTCAGACTGTATGTAC 57.851 43.478 1.59 0.96 0.00 2.90
934 976 6.295462 GGTTAGGGTTTGTCAGACTGTATGTA 60.295 42.308 1.59 0.00 0.00 2.29
935 977 5.512576 GGTTAGGGTTTGTCAGACTGTATGT 60.513 44.000 1.59 0.00 0.00 2.29
936 978 4.935808 GGTTAGGGTTTGTCAGACTGTATG 59.064 45.833 1.59 0.00 0.00 2.39
937 979 4.019591 GGGTTAGGGTTTGTCAGACTGTAT 60.020 45.833 1.59 0.00 0.00 2.29
938 980 3.325716 GGGTTAGGGTTTGTCAGACTGTA 59.674 47.826 1.59 0.00 0.00 2.74
939 981 2.105993 GGGTTAGGGTTTGTCAGACTGT 59.894 50.000 1.59 0.00 0.00 3.55
940 982 2.552373 GGGGTTAGGGTTTGTCAGACTG 60.552 54.545 1.31 0.00 0.00 3.51
1470 1512 0.918799 TGGGGAATAGCAGGCCAAGA 60.919 55.000 5.01 0.00 0.00 3.02
1473 1515 0.106066 CATTGGGGAATAGCAGGCCA 60.106 55.000 5.01 0.00 0.00 5.36
1756 1798 0.107017 CCGATGCTCCCAACCTTCAT 60.107 55.000 0.00 0.00 0.00 2.57
2679 2721 5.928839 GTGTATTCTTGAAGAGAAGCACTCA 59.071 40.000 12.21 0.00 46.99 3.41
3008 3055 0.038343 CCAAACGGGGCAGAAATGTG 60.038 55.000 0.00 0.00 0.00 3.21
3021 3068 4.804608 TGAAATACATATCCGCCAAACG 57.195 40.909 0.00 0.00 43.15 3.60
3099 3146 7.780008 TGATGGTACGATCGATAACAAAAAT 57.220 32.000 24.34 4.41 0.00 1.82
3104 3151 4.765339 AGGATGATGGTACGATCGATAACA 59.235 41.667 24.34 18.45 0.00 2.41
3145 3192 8.400947 CCACTTGGAAATTATACATGAGTTCAG 58.599 37.037 0.00 0.00 37.39 3.02
3236 3297 9.454859 AAGGGAGCAATCTATGTTTAATATAGC 57.545 33.333 4.19 0.00 0.00 2.97
3329 3391 0.609151 CACAAATGCAATGGCCCTGA 59.391 50.000 0.00 0.00 40.13 3.86
3347 3409 1.220749 GCACCAGATCTAACGGCCA 59.779 57.895 2.24 0.00 0.00 5.36
3554 3617 2.142357 CTGACGGACGTGAAGGAGCA 62.142 60.000 0.53 0.00 0.00 4.26
3561 3624 3.371063 GGAGGCTGACGGACGTGA 61.371 66.667 0.53 0.00 0.00 4.35
3564 3627 4.477975 GACGGAGGCTGACGGACG 62.478 72.222 12.08 0.00 0.00 4.79
3602 3665 7.418368 CAGTCCAGTTCTGATTAGATGGTACAT 60.418 40.741 6.94 0.00 37.95 2.29
3604 3667 6.276847 CAGTCCAGTTCTGATTAGATGGTAC 58.723 44.000 6.94 5.02 35.49 3.34
3609 3672 5.627182 ATGCAGTCCAGTTCTGATTAGAT 57.373 39.130 1.00 0.00 35.20 1.98
3636 3699 7.023575 CAGCAGTGATTAACCTGTTATGTTTC 58.976 38.462 0.00 0.00 0.00 2.78
3637 3700 6.714810 TCAGCAGTGATTAACCTGTTATGTTT 59.285 34.615 0.00 0.00 0.00 2.83
3640 3703 6.741992 TTCAGCAGTGATTAACCTGTTATG 57.258 37.500 0.00 0.00 30.85 1.90
3657 3720 5.610398 TCTAGAGTCAACATGTTTTCAGCA 58.390 37.500 8.77 0.00 0.00 4.41
3694 3757 6.410540 ACTCTTCTACAATGGATTTCTGGAC 58.589 40.000 0.00 0.00 0.00 4.02
3703 3766 7.015292 AGTGTGACTTAACTCTTCTACAATGGA 59.985 37.037 0.00 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.