Multiple sequence alignment - TraesCS7A01G393700

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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 TraesCS7A01G393700 chr7A 100.000 3266 0 0 1 3266 571934045 571937310 0.000000e+00 6032
1 TraesCS7A01G393700 chr7B 95.656 2371 88 7 906 3266 532287411 532289776 0.000000e+00 3794
2 TraesCS7A01G393700 chr7B 78.247 308 62 5 2959 3263 532468407 532468712 3.330000e-45 193
3 TraesCS7A01G393700 chr7D 93.635 2388 118 19 906 3266 504249552 504251932 0.000000e+00 3537
4 TraesCS7A01G393700 chr7D 78.457 311 66 1 2954 3263 504544874 504545184 5.530000e-48 202
5 TraesCS7A01G393700 chr5D 96.121 696 26 1 1 696 322944168 322943474 0.000000e+00 1134
6 TraesCS7A01G393700 chr5D 95.665 692 29 1 1 692 361069140 361069830 0.000000e+00 1110
7 TraesCS7A01G393700 chr3D 96.243 692 25 1 1 692 295168794 295168104 0.000000e+00 1133
8 TraesCS7A01G393700 chr3D 95.791 689 28 1 1 689 114715557 114716244 0.000000e+00 1110
9 TraesCS7A01G393700 chr4A 95.809 692 28 1 1 692 76306453 76307143 0.000000e+00 1116
10 TraesCS7A01G393700 chr2D 95.809 692 28 1 1 692 614338034 614337344 0.000000e+00 1116
11 TraesCS7A01G393700 chr1B 95.809 692 28 1 1 692 610288472 610289162 0.000000e+00 1116
12 TraesCS7A01G393700 chr1D 95.671 693 29 1 1 693 433858194 433858885 0.000000e+00 1112
13 TraesCS7A01G393700 chr1A 95.797 690 28 1 3 692 347690346 347691034 0.000000e+00 1112


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 TraesCS7A01G393700 chr7A 571934045 571937310 3265 False 6032 6032 100.000 1 3266 1 chr7A.!!$F1 3265
1 TraesCS7A01G393700 chr7B 532287411 532289776 2365 False 3794 3794 95.656 906 3266 1 chr7B.!!$F1 2360
2 TraesCS7A01G393700 chr7D 504249552 504251932 2380 False 3537 3537 93.635 906 3266 1 chr7D.!!$F1 2360
3 TraesCS7A01G393700 chr5D 322943474 322944168 694 True 1134 1134 96.121 1 696 1 chr5D.!!$R1 695
4 TraesCS7A01G393700 chr5D 361069140 361069830 690 False 1110 1110 95.665 1 692 1 chr5D.!!$F1 691
5 TraesCS7A01G393700 chr3D 295168104 295168794 690 True 1133 1133 96.243 1 692 1 chr3D.!!$R1 691
6 TraesCS7A01G393700 chr3D 114715557 114716244 687 False 1110 1110 95.791 1 689 1 chr3D.!!$F1 688
7 TraesCS7A01G393700 chr4A 76306453 76307143 690 False 1116 1116 95.809 1 692 1 chr4A.!!$F1 691
8 TraesCS7A01G393700 chr2D 614337344 614338034 690 True 1116 1116 95.809 1 692 1 chr2D.!!$R1 691
9 TraesCS7A01G393700 chr1B 610288472 610289162 690 False 1116 1116 95.809 1 692 1 chr1B.!!$F1 691
10 TraesCS7A01G393700 chr1D 433858194 433858885 691 False 1112 1112 95.671 1 693 1 chr1D.!!$F1 692
11 TraesCS7A01G393700 chr1A 347690346 347691034 688 False 1112 1112 95.797 3 692 1 chr1A.!!$F1 689

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
48 49 0.174845 TTGCCCGAGATTCGATCGTT 59.825 50.0 15.94 3.86 43.74 3.85 F
799 800 0.174845 CGGCCGAACAGATCCTGTAA 59.825 55.0 24.07 0.00 44.62 2.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2091 2094 0.803768 CCAGCGACTTCATGGACTCG 60.804 60.0 0.0 0.0 36.09 4.18 R
2431 2435 0.039798 GAACGACCGACTGTGCTGTA 60.040 55.0 0.0 0.0 0.00 2.74 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
48 49 0.174845 TTGCCCGAGATTCGATCGTT 59.825 50.000 15.94 3.86 43.74 3.85
86 87 2.459060 TCAATCTCGTTACCGGCAAA 57.541 45.000 0.00 0.00 33.95 3.68
90 91 4.116961 CAATCTCGTTACCGGCAAATCTA 58.883 43.478 0.00 0.00 33.95 1.98
216 217 4.311606 TCGAAAATCGGAGTGACAAATCA 58.688 39.130 0.00 0.00 40.88 2.57
224 225 6.471233 TCGGAGTGACAAATCATAATCTCT 57.529 37.500 0.00 0.00 37.14 3.10
233 234 8.699749 TGACAAATCATAATCTCTAAATACGCG 58.300 33.333 3.53 3.53 0.00 6.01
290 291 6.727394 AGCACCTTTATAATCACCCAGTTAA 58.273 36.000 0.00 0.00 0.00 2.01
300 301 4.431416 TCACCCAGTTAAGTTGTGATGT 57.569 40.909 7.89 0.00 31.45 3.06
359 360 5.413833 GGAGTTGCATAATCCCATAGTCATG 59.586 44.000 4.62 0.00 0.00 3.07
483 484 8.715190 TGATGTGATCCCATTAATCAAATGAT 57.285 30.769 0.00 0.00 46.81 2.45
535 536 8.556213 AACCATTTTTGATTAACGAGCTAGTA 57.444 30.769 0.00 0.00 0.00 1.82
598 599 7.857734 ATTCACACATGTATTATGTTTCCGA 57.142 32.000 0.00 0.00 0.00 4.55
693 694 3.631250 TCTTGGGCATATTTCCTTCACC 58.369 45.455 0.00 0.00 0.00 4.02
696 697 2.310538 GGGCATATTTCCTTCACCCTG 58.689 52.381 0.00 0.00 32.88 4.45
697 698 1.683385 GGCATATTTCCTTCACCCTGC 59.317 52.381 0.00 0.00 0.00 4.85
698 699 1.334869 GCATATTTCCTTCACCCTGCG 59.665 52.381 0.00 0.00 0.00 5.18
699 700 1.334869 CATATTTCCTTCACCCTGCGC 59.665 52.381 0.00 0.00 0.00 6.09
700 701 0.618458 TATTTCCTTCACCCTGCGCT 59.382 50.000 9.73 0.00 0.00 5.92
701 702 0.962356 ATTTCCTTCACCCTGCGCTG 60.962 55.000 9.73 8.47 0.00 5.18
702 703 4.704833 TCCTTCACCCTGCGCTGC 62.705 66.667 9.73 0.00 0.00 5.25
704 705 2.749044 CTTCACCCTGCGCTGCAT 60.749 61.111 9.73 0.00 38.13 3.96
705 706 2.747460 TTCACCCTGCGCTGCATC 60.747 61.111 9.73 0.00 38.13 3.91
706 707 4.783621 TCACCCTGCGCTGCATCC 62.784 66.667 9.73 0.00 38.13 3.51
709 710 4.790962 CCCTGCGCTGCATCCACT 62.791 66.667 9.73 0.00 38.13 4.00
710 711 3.200593 CCTGCGCTGCATCCACTC 61.201 66.667 9.73 0.00 38.13 3.51
711 712 3.200593 CTGCGCTGCATCCACTCC 61.201 66.667 9.73 0.00 38.13 3.85
712 713 3.963687 CTGCGCTGCATCCACTCCA 62.964 63.158 9.73 0.00 38.13 3.86
713 714 3.503363 GCGCTGCATCCACTCCAC 61.503 66.667 0.00 0.00 0.00 4.02
714 715 2.046988 CGCTGCATCCACTCCACA 60.047 61.111 0.00 0.00 0.00 4.17
715 716 1.672030 CGCTGCATCCACTCCACAA 60.672 57.895 0.00 0.00 0.00 3.33
716 717 1.236616 CGCTGCATCCACTCCACAAA 61.237 55.000 0.00 0.00 0.00 2.83
717 718 1.180029 GCTGCATCCACTCCACAAAT 58.820 50.000 0.00 0.00 0.00 2.32
718 719 1.547372 GCTGCATCCACTCCACAAATT 59.453 47.619 0.00 0.00 0.00 1.82
719 720 2.028748 GCTGCATCCACTCCACAAATTT 60.029 45.455 0.00 0.00 0.00 1.82
720 721 3.841643 CTGCATCCACTCCACAAATTTC 58.158 45.455 0.00 0.00 0.00 2.17
721 722 2.562298 TGCATCCACTCCACAAATTTCC 59.438 45.455 0.00 0.00 0.00 3.13
722 723 2.094026 GCATCCACTCCACAAATTTCCC 60.094 50.000 0.00 0.00 0.00 3.97
723 724 3.434309 CATCCACTCCACAAATTTCCCT 58.566 45.455 0.00 0.00 0.00 4.20
724 725 3.154827 TCCACTCCACAAATTTCCCTC 57.845 47.619 0.00 0.00 0.00 4.30
725 726 2.171003 CCACTCCACAAATTTCCCTCC 58.829 52.381 0.00 0.00 0.00 4.30
726 727 2.490718 CCACTCCACAAATTTCCCTCCA 60.491 50.000 0.00 0.00 0.00 3.86
727 728 3.434309 CACTCCACAAATTTCCCTCCAT 58.566 45.455 0.00 0.00 0.00 3.41
728 729 4.569653 CCACTCCACAAATTTCCCTCCATA 60.570 45.833 0.00 0.00 0.00 2.74
729 730 5.203528 CACTCCACAAATTTCCCTCCATAT 58.796 41.667 0.00 0.00 0.00 1.78
730 731 5.068198 CACTCCACAAATTTCCCTCCATATG 59.932 44.000 0.00 0.00 0.00 1.78
731 732 5.203528 CTCCACAAATTTCCCTCCATATGT 58.796 41.667 1.24 0.00 0.00 2.29
732 733 4.955450 TCCACAAATTTCCCTCCATATGTG 59.045 41.667 1.24 0.00 37.31 3.21
733 734 4.711355 CCACAAATTTCCCTCCATATGTGT 59.289 41.667 1.24 0.00 36.17 3.72
734 735 5.890985 CCACAAATTTCCCTCCATATGTGTA 59.109 40.000 1.24 0.00 36.17 2.90
735 736 6.379703 CCACAAATTTCCCTCCATATGTGTAA 59.620 38.462 1.24 0.00 36.17 2.41
736 737 7.069826 CCACAAATTTCCCTCCATATGTGTAAT 59.930 37.037 1.24 0.00 36.17 1.89
737 738 9.130661 CACAAATTTCCCTCCATATGTGTAATA 57.869 33.333 1.24 0.00 33.93 0.98
738 739 9.881773 ACAAATTTCCCTCCATATGTGTAATAT 57.118 29.630 1.24 0.00 0.00 1.28
740 741 9.881773 AAATTTCCCTCCATATGTGTAATATGT 57.118 29.630 1.24 0.00 31.77 2.29
741 742 9.881773 AATTTCCCTCCATATGTGTAATATGTT 57.118 29.630 1.24 0.00 31.77 2.71
742 743 9.881773 ATTTCCCTCCATATGTGTAATATGTTT 57.118 29.630 1.24 0.00 31.77 2.83
743 744 8.690203 TTCCCTCCATATGTGTAATATGTTTG 57.310 34.615 1.24 0.00 31.77 2.93
744 745 8.040002 TCCCTCCATATGTGTAATATGTTTGA 57.960 34.615 1.24 0.00 31.77 2.69
745 746 8.668653 TCCCTCCATATGTGTAATATGTTTGAT 58.331 33.333 1.24 0.00 31.77 2.57
746 747 8.733458 CCCTCCATATGTGTAATATGTTTGATG 58.267 37.037 1.24 0.00 31.77 3.07
747 748 9.288576 CCTCCATATGTGTAATATGTTTGATGT 57.711 33.333 1.24 0.00 31.77 3.06
768 769 8.704234 TGATGTTTTATGAAAATTTTACGGTGC 58.296 29.630 2.75 0.00 32.22 5.01
769 770 7.095024 TGTTTTATGAAAATTTTACGGTGCG 57.905 32.000 2.75 0.00 32.22 5.34
770 771 6.916387 TGTTTTATGAAAATTTTACGGTGCGA 59.084 30.769 2.75 0.00 32.22 5.10
771 772 6.914760 TTTATGAAAATTTTACGGTGCGAC 57.085 33.333 2.75 0.00 0.00 5.19
772 773 2.906153 TGAAAATTTTACGGTGCGACG 58.094 42.857 2.75 0.00 40.31 5.12
773 774 2.543012 TGAAAATTTTACGGTGCGACGA 59.457 40.909 2.75 0.00 37.61 4.20
774 775 2.867456 AAATTTTACGGTGCGACGAG 57.133 45.000 0.00 0.00 37.61 4.18
792 793 4.514577 CGCTCCGGCCGAACAGAT 62.515 66.667 30.73 0.00 34.44 2.90
793 794 2.586357 GCTCCGGCCGAACAGATC 60.586 66.667 30.73 7.00 0.00 2.75
794 795 2.107141 CTCCGGCCGAACAGATCC 59.893 66.667 30.73 0.00 0.00 3.36
795 796 2.363795 TCCGGCCGAACAGATCCT 60.364 61.111 30.73 0.00 0.00 3.24
796 797 2.202932 CCGGCCGAACAGATCCTG 60.203 66.667 30.73 0.44 37.52 3.86
798 799 1.672854 CCGGCCGAACAGATCCTGTA 61.673 60.000 30.73 0.00 44.62 2.74
799 800 0.174845 CGGCCGAACAGATCCTGTAA 59.825 55.000 24.07 0.00 44.62 2.41
800 801 1.404986 CGGCCGAACAGATCCTGTAAA 60.405 52.381 24.07 0.00 44.62 2.01
801 802 2.007608 GGCCGAACAGATCCTGTAAAC 58.992 52.381 0.00 0.00 44.62 2.01
802 803 2.614481 GGCCGAACAGATCCTGTAAACA 60.614 50.000 0.00 0.00 44.62 2.83
803 804 2.415512 GCCGAACAGATCCTGTAAACAC 59.584 50.000 0.00 0.00 44.62 3.32
804 805 3.659786 CCGAACAGATCCTGTAAACACA 58.340 45.455 0.00 0.00 44.62 3.72
805 806 4.253685 CCGAACAGATCCTGTAAACACAT 58.746 43.478 0.00 0.00 44.62 3.21
806 807 4.330074 CCGAACAGATCCTGTAAACACATC 59.670 45.833 0.00 0.00 44.62 3.06
807 808 4.330074 CGAACAGATCCTGTAAACACATCC 59.670 45.833 0.00 0.00 44.62 3.51
808 809 4.222124 ACAGATCCTGTAAACACATCCC 57.778 45.455 0.00 0.00 43.46 3.85
809 810 3.846588 ACAGATCCTGTAAACACATCCCT 59.153 43.478 0.00 0.00 43.46 4.20
810 811 4.289672 ACAGATCCTGTAAACACATCCCTT 59.710 41.667 0.00 0.00 43.46 3.95
811 812 4.637534 CAGATCCTGTAAACACATCCCTTG 59.362 45.833 0.00 0.00 0.00 3.61
812 813 4.289672 AGATCCTGTAAACACATCCCTTGT 59.710 41.667 0.00 0.00 39.91 3.16
813 814 4.447138 TCCTGTAAACACATCCCTTGTT 57.553 40.909 0.00 0.00 38.88 2.83
814 815 5.570205 TCCTGTAAACACATCCCTTGTTA 57.430 39.130 0.00 0.00 36.13 2.41
815 816 6.134535 TCCTGTAAACACATCCCTTGTTAT 57.865 37.500 0.00 0.00 36.13 1.89
816 817 7.260387 TCCTGTAAACACATCCCTTGTTATA 57.740 36.000 0.00 0.00 36.13 0.98
817 818 7.107542 TCCTGTAAACACATCCCTTGTTATAC 58.892 38.462 0.00 0.00 36.13 1.47
818 819 6.882140 CCTGTAAACACATCCCTTGTTATACA 59.118 38.462 0.00 0.00 36.13 2.29
819 820 7.148306 CCTGTAAACACATCCCTTGTTATACAC 60.148 40.741 0.00 0.00 36.13 2.90
820 821 7.225011 TGTAAACACATCCCTTGTTATACACA 58.775 34.615 0.00 0.00 36.13 3.72
821 822 7.885922 TGTAAACACATCCCTTGTTATACACAT 59.114 33.333 0.00 0.00 36.13 3.21
822 823 7.775053 AAACACATCCCTTGTTATACACATT 57.225 32.000 0.00 0.00 36.13 2.71
823 824 7.775053 AACACATCCCTTGTTATACACATTT 57.225 32.000 0.00 0.00 36.00 2.32
824 825 7.775053 ACACATCCCTTGTTATACACATTTT 57.225 32.000 0.00 0.00 36.00 1.82
825 826 8.871629 ACACATCCCTTGTTATACACATTTTA 57.128 30.769 0.00 0.00 36.00 1.52
826 827 9.474313 ACACATCCCTTGTTATACACATTTTAT 57.526 29.630 0.00 0.00 36.00 1.40
827 828 9.734620 CACATCCCTTGTTATACACATTTTATG 57.265 33.333 0.00 0.00 36.00 1.90
828 829 8.912988 ACATCCCTTGTTATACACATTTTATGG 58.087 33.333 0.00 0.00 33.74 2.74
829 830 7.889873 TCCCTTGTTATACACATTTTATGGG 57.110 36.000 0.00 0.00 40.30 4.00
830 831 7.644062 TCCCTTGTTATACACATTTTATGGGA 58.356 34.615 0.00 0.00 37.07 4.37
831 832 7.558444 TCCCTTGTTATACACATTTTATGGGAC 59.442 37.037 0.00 0.00 37.07 4.46
832 833 7.414436 CCTTGTTATACACATTTTATGGGACG 58.586 38.462 0.00 0.00 37.07 4.79
833 834 6.366315 TGTTATACACATTTTATGGGACGC 57.634 37.500 0.00 0.00 37.07 5.19
834 835 5.006844 TGTTATACACATTTTATGGGACGCG 59.993 40.000 3.53 3.53 37.07 6.01
835 836 1.816074 ACACATTTTATGGGACGCGT 58.184 45.000 13.85 13.85 37.07 6.01
836 837 1.466950 ACACATTTTATGGGACGCGTG 59.533 47.619 20.70 0.00 37.07 5.34
837 838 1.091537 ACATTTTATGGGACGCGTGG 58.908 50.000 20.70 0.00 33.60 4.94
838 839 1.091537 CATTTTATGGGACGCGTGGT 58.908 50.000 20.70 1.40 0.00 4.16
839 840 1.470890 CATTTTATGGGACGCGTGGTT 59.529 47.619 20.70 0.35 0.00 3.67
840 841 0.875728 TTTTATGGGACGCGTGGTTG 59.124 50.000 20.70 0.00 0.00 3.77
841 842 1.579084 TTTATGGGACGCGTGGTTGC 61.579 55.000 20.70 0.00 0.00 4.17
842 843 2.733319 TTATGGGACGCGTGGTTGCA 62.733 55.000 20.70 0.00 34.15 4.08
844 845 4.980805 GGGACGCGTGGTTGCAGA 62.981 66.667 20.70 0.00 34.15 4.26
845 846 2.970324 GGACGCGTGGTTGCAGAA 60.970 61.111 20.70 0.00 34.15 3.02
846 847 2.325082 GGACGCGTGGTTGCAGAAT 61.325 57.895 20.70 0.00 34.15 2.40
847 848 1.132640 GACGCGTGGTTGCAGAATC 59.867 57.895 20.70 0.00 34.15 2.52
848 849 1.291877 GACGCGTGGTTGCAGAATCT 61.292 55.000 20.70 0.00 34.15 2.40
849 850 1.133253 CGCGTGGTTGCAGAATCTG 59.867 57.895 5.78 5.78 34.15 2.90
861 862 3.042871 CAGAATCTGCTAGAGATGCCC 57.957 52.381 0.00 0.00 40.89 5.36
862 863 2.633967 CAGAATCTGCTAGAGATGCCCT 59.366 50.000 0.00 0.00 40.89 5.19
863 864 3.831333 CAGAATCTGCTAGAGATGCCCTA 59.169 47.826 0.00 0.00 40.89 3.53
864 865 4.282957 CAGAATCTGCTAGAGATGCCCTAA 59.717 45.833 0.00 0.00 40.89 2.69
865 866 4.283212 AGAATCTGCTAGAGATGCCCTAAC 59.717 45.833 0.00 0.00 40.89 2.34
866 867 3.320610 TCTGCTAGAGATGCCCTAACT 57.679 47.619 0.00 0.00 0.00 2.24
867 868 4.455070 TCTGCTAGAGATGCCCTAACTA 57.545 45.455 0.00 0.00 0.00 2.24
868 869 5.004361 TCTGCTAGAGATGCCCTAACTAT 57.996 43.478 0.00 0.00 0.00 2.12
869 870 5.013547 TCTGCTAGAGATGCCCTAACTATC 58.986 45.833 0.00 0.00 0.00 2.08
870 871 5.004361 TGCTAGAGATGCCCTAACTATCT 57.996 43.478 0.00 0.00 34.06 1.98
871 872 6.012421 TCTGCTAGAGATGCCCTAACTATCTA 60.012 42.308 0.00 0.00 31.67 1.98
872 873 5.946972 TGCTAGAGATGCCCTAACTATCTAC 59.053 44.000 0.00 0.00 31.67 2.59
873 874 6.184789 GCTAGAGATGCCCTAACTATCTACT 58.815 44.000 0.00 0.00 31.67 2.57
874 875 7.037514 TGCTAGAGATGCCCTAACTATCTACTA 60.038 40.741 0.00 0.00 31.67 1.82
875 876 7.281549 GCTAGAGATGCCCTAACTATCTACTAC 59.718 44.444 0.00 0.00 31.67 2.73
876 877 7.092748 AGAGATGCCCTAACTATCTACTACA 57.907 40.000 0.00 0.00 31.67 2.74
877 878 7.172342 AGAGATGCCCTAACTATCTACTACAG 58.828 42.308 0.00 0.00 31.67 2.74
878 879 7.017750 AGAGATGCCCTAACTATCTACTACAGA 59.982 40.741 0.00 0.00 37.79 3.41
879 880 7.527796 AGATGCCCTAACTATCTACTACAGAA 58.472 38.462 0.00 0.00 36.67 3.02
880 881 6.956202 TGCCCTAACTATCTACTACAGAAC 57.044 41.667 0.00 0.00 36.67 3.01
881 882 6.670617 TGCCCTAACTATCTACTACAGAACT 58.329 40.000 0.00 0.00 36.67 3.01
882 883 7.809238 TGCCCTAACTATCTACTACAGAACTA 58.191 38.462 0.00 0.00 36.67 2.24
883 884 7.718753 TGCCCTAACTATCTACTACAGAACTAC 59.281 40.741 0.00 0.00 36.67 2.73
884 885 7.718753 GCCCTAACTATCTACTACAGAACTACA 59.281 40.741 0.00 0.00 36.67 2.74
885 886 9.796180 CCCTAACTATCTACTACAGAACTACAT 57.204 37.037 0.00 0.00 36.67 2.29
896 897 8.465273 ACTACAGAACTACATACTGATATGCA 57.535 34.615 0.00 0.00 41.83 3.96
897 898 8.914011 ACTACAGAACTACATACTGATATGCAA 58.086 33.333 0.00 0.00 41.83 4.08
898 899 9.404348 CTACAGAACTACATACTGATATGCAAG 57.596 37.037 0.00 0.00 41.83 4.01
899 900 6.703607 ACAGAACTACATACTGATATGCAAGC 59.296 38.462 0.00 0.00 41.83 4.01
900 901 6.146837 CAGAACTACATACTGATATGCAAGCC 59.853 42.308 0.00 0.00 41.83 4.35
901 902 4.899502 ACTACATACTGATATGCAAGCCC 58.100 43.478 0.00 0.00 41.83 5.19
902 903 4.594920 ACTACATACTGATATGCAAGCCCT 59.405 41.667 0.00 0.00 41.83 5.19
903 904 4.443978 ACATACTGATATGCAAGCCCTT 57.556 40.909 0.00 0.00 41.83 3.95
904 905 4.139786 ACATACTGATATGCAAGCCCTTG 58.860 43.478 3.70 3.70 41.83 3.61
941 942 4.274214 CAGAACAACAACATGCTTCTGAGA 59.726 41.667 0.00 0.00 38.86 3.27
957 958 7.018235 GCTTCTGAGAAACTAAAACATGCTAC 58.982 38.462 0.00 0.00 0.00 3.58
1233 1236 1.077501 GGCCACCAAGCTGCTGATA 60.078 57.895 1.35 0.00 0.00 2.15
1240 1243 5.452356 GCCACCAAGCTGCTGATATTTTATT 60.452 40.000 1.35 0.00 0.00 1.40
1242 1245 6.211515 CACCAAGCTGCTGATATTTTATTCC 58.788 40.000 1.35 0.00 0.00 3.01
1378 1381 2.040544 GTGGACATGTTCGGCCTGG 61.041 63.158 0.00 0.00 0.00 4.45
1770 1773 3.148279 GGGCTCGTCGATGAGGGT 61.148 66.667 30.64 0.00 36.47 4.34
1775 1778 1.313772 CTCGTCGATGAGGGTCTGAT 58.686 55.000 24.33 0.00 32.18 2.90
2095 2098 3.387091 TGGCCGGTATGCACGAGT 61.387 61.111 1.90 0.00 0.00 4.18
2109 2112 0.109086 ACGAGTCCATGAAGTCGCTG 60.109 55.000 9.30 0.00 44.14 5.18
2164 2167 1.376037 GTCCAGGGGAAGAAGCACG 60.376 63.158 0.00 0.00 31.38 5.34
2197 2200 1.736126 GAGACACATACCACGACGAGA 59.264 52.381 0.00 0.00 0.00 4.04
2243 2246 2.125147 CTTGGCCCGCTCGATCAA 60.125 61.111 0.00 0.00 0.00 2.57
2244 2247 2.435938 TTGGCCCGCTCGATCAAC 60.436 61.111 0.00 0.00 0.00 3.18
2279 2282 3.265791 GAGTGTGAGCTATGGTGGAAAG 58.734 50.000 0.00 0.00 0.00 2.62
2280 2283 2.026822 AGTGTGAGCTATGGTGGAAAGG 60.027 50.000 0.00 0.00 0.00 3.11
2359 2362 1.034838 TGCTGGCCTTGTCGTTTGTT 61.035 50.000 3.32 0.00 0.00 2.83
2431 2435 5.044624 TCTGAAGGGGATGTTTCTGAATGAT 60.045 40.000 0.00 0.00 31.21 2.45
2471 2476 3.131223 TCGGAAAGAGATAGAACAGCTGG 59.869 47.826 19.93 0.00 0.00 4.85
2568 2573 6.201806 TGAAACTTTCCCAAATGTTTATTGCG 59.798 34.615 0.00 0.00 40.70 4.85
2577 2582 5.219951 CCAAATGTTTATTGCGCTTAACGTC 60.220 40.000 9.73 1.75 46.11 4.34
2658 2698 0.843309 TCAGGTGGGCAAAGTTGAGA 59.157 50.000 0.00 0.00 0.00 3.27
2687 2727 4.375313 ACACTATTTCCTCCTCTTCCCAT 58.625 43.478 0.00 0.00 0.00 4.00
2695 2735 3.265995 TCCTCCTCTTCCCATAACAAACC 59.734 47.826 0.00 0.00 0.00 3.27
2696 2736 3.270877 CTCCTCTTCCCATAACAAACCG 58.729 50.000 0.00 0.00 0.00 4.44
2750 2790 8.466798 CCCTTATGTTATTCTTTTCGGACAAAT 58.533 33.333 0.00 0.00 0.00 2.32
2844 2884 0.449388 GCTTCACAGCACATGCCTAC 59.551 55.000 0.00 0.00 46.49 3.18
2862 2904 4.155462 GCCTACCAGCTAAAACAAACCTAC 59.845 45.833 0.00 0.00 0.00 3.18
2910 2952 4.702392 GTGCTGTTACACTGAATCTTTCG 58.298 43.478 0.00 0.00 37.58 3.46
3017 3059 5.503683 CGATGGATTGCATGAAGAGAAAGAC 60.504 44.000 0.00 0.00 0.00 3.01
3066 3108 7.839680 AAGGTCATAACTTCCACAAAAGAAT 57.160 32.000 0.00 0.00 0.00 2.40
3152 3194 3.768215 AGAGTTGAGAGATGCACATGAGA 59.232 43.478 0.00 0.00 0.00 3.27
3235 3279 7.750229 TGCTTTGTACTTTCATCTTCAGAAT 57.250 32.000 0.00 0.00 0.00 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
86 87 9.197694 GATGCATTACAGAACGAGTAAATAGAT 57.802 33.333 0.00 0.00 35.33 1.98
90 91 7.041780 GGATGATGCATTACAGAACGAGTAAAT 60.042 37.037 0.00 0.00 35.33 1.40
194 195 4.311606 TGATTTGTCACTCCGATTTTCGA 58.688 39.130 0.00 0.00 43.74 3.71
198 199 7.989741 AGAGATTATGATTTGTCACTCCGATTT 59.010 33.333 0.00 0.00 0.00 2.17
216 217 7.919091 TGTTGAGTTCGCGTATTTAGAGATTAT 59.081 33.333 5.77 0.00 0.00 1.28
224 225 5.345741 GGTACTTGTTGAGTTCGCGTATTTA 59.654 40.000 5.77 0.00 39.86 1.40
290 291 3.951037 TGTGCTACCAAAACATCACAACT 59.049 39.130 0.00 0.00 32.35 3.16
300 301 4.381079 GGAACACTTTGTGTGCTACCAAAA 60.381 41.667 8.51 0.00 46.79 2.44
359 360 8.506168 TTTCTTCATGACTTATACATGTTCCC 57.494 34.615 2.30 0.00 43.56 3.97
483 484 9.802039 AAGTTTCCTAACCATAAACATGAGTTA 57.198 29.630 0.00 0.00 35.93 2.24
535 536 5.952947 AGTGTCACTAGTATGCCTCTACTTT 59.047 40.000 2.87 0.00 33.96 2.66
675 676 1.929494 AGGGTGAAGGAAATATGCCCA 59.071 47.619 0.00 0.00 37.16 5.36
693 694 3.200593 GAGTGGATGCAGCGCAGG 61.201 66.667 11.47 1.51 43.65 4.85
696 697 3.503363 GTGGAGTGGATGCAGCGC 61.503 66.667 0.00 0.00 0.00 5.92
697 698 1.236616 TTTGTGGAGTGGATGCAGCG 61.237 55.000 0.00 0.00 0.00 5.18
698 699 1.180029 ATTTGTGGAGTGGATGCAGC 58.820 50.000 0.00 0.00 0.00 5.25
699 700 3.367703 GGAAATTTGTGGAGTGGATGCAG 60.368 47.826 0.00 0.00 0.00 4.41
700 701 2.562298 GGAAATTTGTGGAGTGGATGCA 59.438 45.455 0.00 0.00 0.00 3.96
701 702 2.094026 GGGAAATTTGTGGAGTGGATGC 60.094 50.000 0.00 0.00 0.00 3.91
702 703 3.434309 AGGGAAATTTGTGGAGTGGATG 58.566 45.455 0.00 0.00 0.00 3.51
703 704 3.564352 GGAGGGAAATTTGTGGAGTGGAT 60.564 47.826 0.00 0.00 0.00 3.41
704 705 2.225017 GGAGGGAAATTTGTGGAGTGGA 60.225 50.000 0.00 0.00 0.00 4.02
705 706 2.171003 GGAGGGAAATTTGTGGAGTGG 58.829 52.381 0.00 0.00 0.00 4.00
706 707 2.875296 TGGAGGGAAATTTGTGGAGTG 58.125 47.619 0.00 0.00 0.00 3.51
707 708 3.833559 ATGGAGGGAAATTTGTGGAGT 57.166 42.857 0.00 0.00 0.00 3.85
708 709 5.068198 CACATATGGAGGGAAATTTGTGGAG 59.932 44.000 7.80 0.00 34.23 3.86
709 710 4.955450 CACATATGGAGGGAAATTTGTGGA 59.045 41.667 7.80 0.00 34.23 4.02
710 711 4.711355 ACACATATGGAGGGAAATTTGTGG 59.289 41.667 7.80 0.00 38.96 4.17
711 712 5.920193 ACACATATGGAGGGAAATTTGTG 57.080 39.130 7.80 0.00 39.88 3.33
712 713 9.881773 ATATTACACATATGGAGGGAAATTTGT 57.118 29.630 7.80 0.88 0.00 2.83
714 715 9.881773 ACATATTACACATATGGAGGGAAATTT 57.118 29.630 7.80 0.00 36.56 1.82
715 716 9.881773 AACATATTACACATATGGAGGGAAATT 57.118 29.630 7.80 0.00 36.56 1.82
716 717 9.881773 AAACATATTACACATATGGAGGGAAAT 57.118 29.630 7.80 4.51 36.56 2.17
717 718 9.130661 CAAACATATTACACATATGGAGGGAAA 57.869 33.333 7.80 0.00 36.56 3.13
718 719 8.498575 TCAAACATATTACACATATGGAGGGAA 58.501 33.333 7.80 0.00 36.56 3.97
719 720 8.040002 TCAAACATATTACACATATGGAGGGA 57.960 34.615 7.80 0.00 36.56 4.20
720 721 8.733458 CATCAAACATATTACACATATGGAGGG 58.267 37.037 7.80 0.00 36.56 4.30
721 722 9.288576 ACATCAAACATATTACACATATGGAGG 57.711 33.333 7.80 0.00 36.56 4.30
742 743 8.704234 GCACCGTAAAATTTTCATAAAACATCA 58.296 29.630 6.72 0.00 32.37 3.07
743 744 7.890717 CGCACCGTAAAATTTTCATAAAACATC 59.109 33.333 6.72 0.00 32.37 3.06
744 745 7.595502 TCGCACCGTAAAATTTTCATAAAACAT 59.404 29.630 6.72 0.00 32.37 2.71
745 746 6.916387 TCGCACCGTAAAATTTTCATAAAACA 59.084 30.769 6.72 0.00 32.37 2.83
746 747 7.215167 GTCGCACCGTAAAATTTTCATAAAAC 58.785 34.615 6.72 0.00 32.37 2.43
747 748 6.086502 CGTCGCACCGTAAAATTTTCATAAAA 59.913 34.615 6.72 0.00 34.41 1.52
748 749 5.564504 CGTCGCACCGTAAAATTTTCATAAA 59.435 36.000 6.72 0.00 0.00 1.40
749 750 5.080731 CGTCGCACCGTAAAATTTTCATAA 58.919 37.500 6.72 0.00 0.00 1.90
750 751 4.388165 TCGTCGCACCGTAAAATTTTCATA 59.612 37.500 6.72 0.00 0.00 2.15
751 752 3.186817 TCGTCGCACCGTAAAATTTTCAT 59.813 39.130 6.72 0.00 0.00 2.57
752 753 2.543012 TCGTCGCACCGTAAAATTTTCA 59.457 40.909 6.72 0.00 0.00 2.69
753 754 3.150731 CTCGTCGCACCGTAAAATTTTC 58.849 45.455 6.72 0.00 0.00 2.29
754 755 2.663606 GCTCGTCGCACCGTAAAATTTT 60.664 45.455 8.75 8.75 38.92 1.82
755 756 1.136169 GCTCGTCGCACCGTAAAATTT 60.136 47.619 0.00 0.00 38.92 1.82
756 757 0.441145 GCTCGTCGCACCGTAAAATT 59.559 50.000 0.00 0.00 38.92 1.82
757 758 1.680105 CGCTCGTCGCACCGTAAAAT 61.680 55.000 0.00 0.00 39.08 1.82
758 759 2.366584 CGCTCGTCGCACCGTAAAA 61.367 57.895 0.00 0.00 39.08 1.52
759 760 2.801996 CGCTCGTCGCACCGTAAA 60.802 61.111 0.00 0.00 39.08 2.01
775 776 4.514577 ATCTGTTCGGCCGGAGCG 62.515 66.667 27.83 10.76 41.24 5.03
776 777 2.586357 GATCTGTTCGGCCGGAGC 60.586 66.667 27.83 13.84 38.76 4.70
777 778 2.107141 GGATCTGTTCGGCCGGAG 59.893 66.667 27.83 18.58 0.00 4.63
778 779 2.363795 AGGATCTGTTCGGCCGGA 60.364 61.111 27.83 16.16 0.00 5.14
779 780 1.672854 TACAGGATCTGTTCGGCCGG 61.673 60.000 27.83 9.38 42.59 6.13
780 781 0.174845 TTACAGGATCTGTTCGGCCG 59.825 55.000 22.12 22.12 42.59 6.13
781 782 2.007608 GTTTACAGGATCTGTTCGGCC 58.992 52.381 5.86 0.00 42.59 6.13
782 783 2.415512 GTGTTTACAGGATCTGTTCGGC 59.584 50.000 5.86 0.00 42.59 5.54
783 784 3.659786 TGTGTTTACAGGATCTGTTCGG 58.340 45.455 5.86 0.00 42.59 4.30
784 785 4.330074 GGATGTGTTTACAGGATCTGTTCG 59.670 45.833 5.86 0.00 42.59 3.95
785 786 4.636206 GGGATGTGTTTACAGGATCTGTTC 59.364 45.833 5.86 0.00 42.59 3.18
786 787 4.289672 AGGGATGTGTTTACAGGATCTGTT 59.710 41.667 5.86 0.00 42.59 3.16
787 788 8.167150 ACAAGGGATGTGTTTACAGGATCTGT 62.167 42.308 5.84 5.84 43.63 3.41
788 789 4.494091 AGGGATGTGTTTACAGGATCTG 57.506 45.455 0.00 0.00 40.79 2.90
789 790 4.289672 ACAAGGGATGTGTTTACAGGATCT 59.710 41.667 0.00 0.00 41.93 2.75
790 791 4.589908 ACAAGGGATGTGTTTACAGGATC 58.410 43.478 0.00 0.00 41.93 3.36
791 792 4.657814 ACAAGGGATGTGTTTACAGGAT 57.342 40.909 0.00 0.00 41.93 3.24
792 793 4.447138 AACAAGGGATGTGTTTACAGGA 57.553 40.909 0.00 0.00 42.99 3.86
793 794 6.882140 TGTATAACAAGGGATGTGTTTACAGG 59.118 38.462 0.00 0.00 42.99 4.00
794 795 7.389330 TGTGTATAACAAGGGATGTGTTTACAG 59.611 37.037 0.00 0.00 42.99 2.74
795 796 7.225011 TGTGTATAACAAGGGATGTGTTTACA 58.775 34.615 0.00 2.82 42.99 2.41
796 797 7.675962 TGTGTATAACAAGGGATGTGTTTAC 57.324 36.000 0.00 0.63 42.99 2.01
797 798 8.871629 AATGTGTATAACAAGGGATGTGTTTA 57.128 30.769 0.00 0.00 42.99 2.01
798 799 7.775053 AATGTGTATAACAAGGGATGTGTTT 57.225 32.000 0.00 0.00 42.99 2.83
799 800 7.775053 AAATGTGTATAACAAGGGATGTGTT 57.225 32.000 0.00 0.00 42.99 3.32
800 801 7.775053 AAAATGTGTATAACAAGGGATGTGT 57.225 32.000 0.00 0.00 42.99 3.72
801 802 9.734620 CATAAAATGTGTATAACAAGGGATGTG 57.265 33.333 0.00 0.00 42.99 3.21
802 803 8.912988 CCATAAAATGTGTATAACAAGGGATGT 58.087 33.333 0.00 0.00 46.82 3.06
803 804 8.359642 CCCATAAAATGTGTATAACAAGGGATG 58.640 37.037 0.00 0.00 43.61 3.51
804 805 8.285891 TCCCATAAAATGTGTATAACAAGGGAT 58.714 33.333 0.00 0.00 43.61 3.85
805 806 7.558444 GTCCCATAAAATGTGTATAACAAGGGA 59.442 37.037 0.00 0.00 43.61 4.20
806 807 7.468084 CGTCCCATAAAATGTGTATAACAAGGG 60.468 40.741 0.00 0.00 43.61 3.95
807 808 7.414436 CGTCCCATAAAATGTGTATAACAAGG 58.586 38.462 0.00 0.00 43.61 3.61
808 809 6.910433 GCGTCCCATAAAATGTGTATAACAAG 59.090 38.462 0.00 0.00 43.61 3.16
809 810 6.457122 CGCGTCCCATAAAATGTGTATAACAA 60.457 38.462 0.00 0.00 43.61 2.83
810 811 5.006844 CGCGTCCCATAAAATGTGTATAACA 59.993 40.000 0.00 0.00 44.79 2.41
811 812 5.006941 ACGCGTCCCATAAAATGTGTATAAC 59.993 40.000 5.58 0.00 0.00 1.89
812 813 5.006844 CACGCGTCCCATAAAATGTGTATAA 59.993 40.000 9.86 0.00 0.00 0.98
813 814 4.508492 CACGCGTCCCATAAAATGTGTATA 59.492 41.667 9.86 0.00 0.00 1.47
814 815 3.311322 CACGCGTCCCATAAAATGTGTAT 59.689 43.478 9.86 0.00 0.00 2.29
815 816 2.673862 CACGCGTCCCATAAAATGTGTA 59.326 45.455 9.86 0.00 0.00 2.90
816 817 1.466950 CACGCGTCCCATAAAATGTGT 59.533 47.619 9.86 0.00 0.00 3.72
817 818 1.202132 CCACGCGTCCCATAAAATGTG 60.202 52.381 9.86 0.00 0.00 3.21
818 819 1.091537 CCACGCGTCCCATAAAATGT 58.908 50.000 9.86 0.00 0.00 2.71
819 820 1.091537 ACCACGCGTCCCATAAAATG 58.908 50.000 9.86 0.00 0.00 2.32
820 821 1.470890 CAACCACGCGTCCCATAAAAT 59.529 47.619 9.86 0.00 0.00 1.82
821 822 0.875728 CAACCACGCGTCCCATAAAA 59.124 50.000 9.86 0.00 0.00 1.52
822 823 1.579084 GCAACCACGCGTCCCATAAA 61.579 55.000 9.86 0.00 0.00 1.40
823 824 2.036006 GCAACCACGCGTCCCATAA 61.036 57.895 9.86 0.00 0.00 1.90
824 825 2.435234 GCAACCACGCGTCCCATA 60.435 61.111 9.86 0.00 0.00 2.74
825 826 4.634703 TGCAACCACGCGTCCCAT 62.635 61.111 9.86 0.00 33.35 4.00
827 828 4.980805 TCTGCAACCACGCGTCCC 62.981 66.667 9.86 0.00 33.35 4.46
828 829 2.240612 GATTCTGCAACCACGCGTCC 62.241 60.000 9.86 0.00 33.35 4.79
829 830 1.132640 GATTCTGCAACCACGCGTC 59.867 57.895 9.86 0.00 33.35 5.19
830 831 1.301716 AGATTCTGCAACCACGCGT 60.302 52.632 5.58 5.58 33.35 6.01
831 832 1.133253 CAGATTCTGCAACCACGCG 59.867 57.895 3.53 3.53 33.35 6.01
841 842 2.633967 AGGGCATCTCTAGCAGATTCTG 59.366 50.000 9.40 9.40 40.20 3.02
842 843 2.975075 AGGGCATCTCTAGCAGATTCT 58.025 47.619 2.93 0.00 40.20 2.40
843 844 4.283212 AGTTAGGGCATCTCTAGCAGATTC 59.717 45.833 2.93 0.00 40.20 2.52
844 845 4.230455 AGTTAGGGCATCTCTAGCAGATT 58.770 43.478 2.93 0.00 40.20 2.40
845 846 3.855668 AGTTAGGGCATCTCTAGCAGAT 58.144 45.455 0.00 0.44 43.33 2.90
846 847 3.320610 AGTTAGGGCATCTCTAGCAGA 57.679 47.619 0.00 0.00 34.78 4.26
847 848 5.016173 AGATAGTTAGGGCATCTCTAGCAG 58.984 45.833 0.00 0.00 0.00 4.24
848 849 5.004361 AGATAGTTAGGGCATCTCTAGCA 57.996 43.478 0.00 0.00 0.00 3.49
849 850 6.184789 AGTAGATAGTTAGGGCATCTCTAGC 58.815 44.000 0.00 0.00 31.60 3.42
850 851 8.322828 TGTAGTAGATAGTTAGGGCATCTCTAG 58.677 40.741 0.00 0.00 31.60 2.43
851 852 8.215954 TGTAGTAGATAGTTAGGGCATCTCTA 57.784 38.462 0.00 0.00 31.60 2.43
852 853 7.017750 TCTGTAGTAGATAGTTAGGGCATCTCT 59.982 40.741 0.00 0.00 31.60 3.10
853 854 7.169591 TCTGTAGTAGATAGTTAGGGCATCTC 58.830 42.308 0.00 0.00 31.60 2.75
854 855 7.092748 TCTGTAGTAGATAGTTAGGGCATCT 57.907 40.000 0.00 0.00 33.66 2.90
855 856 7.449086 AGTTCTGTAGTAGATAGTTAGGGCATC 59.551 40.741 0.00 0.00 34.80 3.91
856 857 7.299134 AGTTCTGTAGTAGATAGTTAGGGCAT 58.701 38.462 0.00 0.00 34.80 4.40
857 858 6.670617 AGTTCTGTAGTAGATAGTTAGGGCA 58.329 40.000 0.00 0.00 34.80 5.36
858 859 7.718753 TGTAGTTCTGTAGTAGATAGTTAGGGC 59.281 40.741 0.00 0.00 34.80 5.19
859 860 9.796180 ATGTAGTTCTGTAGTAGATAGTTAGGG 57.204 37.037 0.00 0.00 34.80 3.53
870 871 9.569122 TGCATATCAGTATGTAGTTCTGTAGTA 57.431 33.333 0.00 0.00 39.90 1.82
871 872 8.465273 TGCATATCAGTATGTAGTTCTGTAGT 57.535 34.615 0.00 0.00 39.90 2.73
872 873 9.404348 CTTGCATATCAGTATGTAGTTCTGTAG 57.596 37.037 0.00 0.00 39.90 2.74
873 874 7.867909 GCTTGCATATCAGTATGTAGTTCTGTA 59.132 37.037 0.00 0.00 39.90 2.74
874 875 6.703607 GCTTGCATATCAGTATGTAGTTCTGT 59.296 38.462 0.00 0.00 39.90 3.41
875 876 6.146837 GGCTTGCATATCAGTATGTAGTTCTG 59.853 42.308 0.00 0.00 39.90 3.02
876 877 6.226787 GGCTTGCATATCAGTATGTAGTTCT 58.773 40.000 0.00 0.00 39.90 3.01
877 878 5.409826 GGGCTTGCATATCAGTATGTAGTTC 59.590 44.000 0.00 0.00 39.90 3.01
878 879 5.072329 AGGGCTTGCATATCAGTATGTAGTT 59.928 40.000 0.00 0.00 39.90 2.24
879 880 4.594920 AGGGCTTGCATATCAGTATGTAGT 59.405 41.667 0.00 0.00 39.90 2.73
880 881 5.157940 AGGGCTTGCATATCAGTATGTAG 57.842 43.478 0.00 0.00 39.90 2.74
881 882 5.163205 ACAAGGGCTTGCATATCAGTATGTA 60.163 40.000 0.00 0.00 44.03 2.29
882 883 4.139786 CAAGGGCTTGCATATCAGTATGT 58.860 43.478 0.00 0.00 39.90 2.29
883 884 4.139786 ACAAGGGCTTGCATATCAGTATG 58.860 43.478 0.00 0.00 44.03 2.39
884 885 4.443978 ACAAGGGCTTGCATATCAGTAT 57.556 40.909 0.00 0.00 44.03 2.12
885 886 3.931907 ACAAGGGCTTGCATATCAGTA 57.068 42.857 0.00 0.00 44.03 2.74
886 887 2.814805 ACAAGGGCTTGCATATCAGT 57.185 45.000 0.00 0.00 44.03 3.41
887 888 2.360165 GGAACAAGGGCTTGCATATCAG 59.640 50.000 0.00 0.00 44.03 2.90
888 889 2.378038 GGAACAAGGGCTTGCATATCA 58.622 47.619 0.00 0.00 44.03 2.15
889 890 1.334869 CGGAACAAGGGCTTGCATATC 59.665 52.381 0.00 0.00 44.03 1.63
890 891 1.340991 ACGGAACAAGGGCTTGCATAT 60.341 47.619 0.00 0.00 44.03 1.78
891 892 0.037590 ACGGAACAAGGGCTTGCATA 59.962 50.000 0.00 0.00 44.03 3.14
892 893 0.827507 AACGGAACAAGGGCTTGCAT 60.828 50.000 0.00 0.00 44.03 3.96
893 894 1.454847 AACGGAACAAGGGCTTGCA 60.455 52.632 0.00 0.00 44.03 4.08
894 895 1.007387 CAACGGAACAAGGGCTTGC 60.007 57.895 0.00 0.00 44.03 4.01
895 896 0.821711 TCCAACGGAACAAGGGCTTG 60.822 55.000 0.00 0.00 45.58 4.01
896 897 0.106419 TTCCAACGGAACAAGGGCTT 60.106 50.000 0.00 0.00 36.71 4.35
897 898 0.112412 ATTCCAACGGAACAAGGGCT 59.888 50.000 0.00 0.00 45.07 5.19
898 899 0.966179 AATTCCAACGGAACAAGGGC 59.034 50.000 0.00 0.00 45.07 5.19
899 900 2.228822 CTGAATTCCAACGGAACAAGGG 59.771 50.000 2.27 0.00 45.07 3.95
900 901 3.146066 TCTGAATTCCAACGGAACAAGG 58.854 45.455 2.27 0.00 45.07 3.61
901 902 4.537015 GTTCTGAATTCCAACGGAACAAG 58.463 43.478 2.27 0.00 45.07 3.16
902 903 4.561735 GTTCTGAATTCCAACGGAACAA 57.438 40.909 2.27 0.00 45.07 2.83
904 905 4.201970 TGTTGTTCTGAATTCCAACGGAAC 60.202 41.667 15.84 12.53 45.07 3.62
941 942 8.024865 GGAATTAACCGTAGCATGTTTTAGTTT 58.975 33.333 0.00 0.00 0.00 2.66
957 958 3.007635 GTCAGAACAGGGGAATTAACCG 58.992 50.000 0.00 0.00 0.00 4.44
1233 1236 4.141158 AGCTCCCCGATCTTGGAATAAAAT 60.141 41.667 0.00 0.00 0.00 1.82
1240 1243 2.127869 CGAGCTCCCCGATCTTGGA 61.128 63.158 8.47 0.36 0.00 3.53
1242 1245 2.419198 CCGAGCTCCCCGATCTTG 59.581 66.667 8.47 0.00 0.00 3.02
1270 1273 0.953960 GGCATTCCGTCGAACAGGTT 60.954 55.000 0.00 0.00 0.00 3.50
1365 1368 3.803082 CGCACCAGGCCGAACATG 61.803 66.667 0.00 0.00 40.31 3.21
1764 1767 1.552337 GAGAAGTGCATCAGACCCTCA 59.448 52.381 0.00 0.00 0.00 3.86
1770 1773 1.256812 TGGACGAGAAGTGCATCAGA 58.743 50.000 0.00 0.00 46.44 3.27
1875 1878 1.257743 TCTTGACAAGCTCGTAGGCT 58.742 50.000 10.50 0.00 45.30 4.58
1991 1994 3.426568 GCAGCCGAAAGAAGCGCT 61.427 61.111 2.64 2.64 0.00 5.92
2019 2022 3.902162 GACGACGTACTTGCCGGCA 62.902 63.158 29.03 29.03 31.12 5.69
2091 2094 0.803768 CCAGCGACTTCATGGACTCG 60.804 60.000 0.00 0.00 36.09 4.18
2095 2098 1.913951 ATGCCCAGCGACTTCATGGA 61.914 55.000 0.00 0.00 36.09 3.41
2109 2112 2.124278 GGGTCCTTCCGAATGCCC 60.124 66.667 0.00 0.00 37.00 5.36
2164 2167 0.109039 GTGTCTCTGGCGAGGAAGAC 60.109 60.000 9.73 9.73 37.86 3.01
2197 2200 4.263243 GCAGGCTTCATATATCTCCCAACT 60.263 45.833 0.00 0.00 0.00 3.16
2236 2239 0.888619 AAGGAGTGCTCGTTGATCGA 59.111 50.000 6.37 0.00 46.83 3.59
2251 2254 1.134995 CATAGCTCACACTCGCAAGGA 60.135 52.381 0.00 0.00 38.47 3.36
2431 2435 0.039798 GAACGACCGACTGTGCTGTA 60.040 55.000 0.00 0.00 0.00 2.74
2471 2476 4.096382 TGAGTTTGTTGCTTCCAGAGAAAC 59.904 41.667 0.00 0.00 43.29 2.78
2658 2698 3.515901 GAGGAGGAAATAGTGTCTGGTGT 59.484 47.826 0.00 0.00 0.00 4.16
2687 2727 2.147958 CTTAGCAGGCACGGTTTGTTA 58.852 47.619 0.00 0.00 0.00 2.41
2695 2735 1.662629 CATTCAGTCTTAGCAGGCACG 59.337 52.381 0.00 0.00 0.00 5.34
2696 2736 2.977914 TCATTCAGTCTTAGCAGGCAC 58.022 47.619 0.00 0.00 0.00 5.01
2750 2790 5.586243 GCAGTAGATTGCTGAGGTTTAATCA 59.414 40.000 0.00 0.00 40.89 2.57
2844 2884 7.865706 AGATATGTAGGTTTGTTTTAGCTGG 57.134 36.000 0.00 0.00 0.00 4.85
2910 2952 4.142182 CCATTCATGGTGTAATGTTGTCCC 60.142 45.833 0.00 0.00 43.05 4.46
2970 3012 1.227438 CTTTGTCGTCGGTGTGGGT 60.227 57.895 0.00 0.00 0.00 4.51
3066 3108 3.136443 AGCTTGGTGTTGCAGCCTATATA 59.864 43.478 0.00 0.00 33.73 0.86
3235 3279 4.072131 GGTGACAGAAAAGCTTGGTGATA 58.928 43.478 0.00 0.00 0.00 2.15


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

AutoCloner maintained by Alex Coulton.