Multiple sequence alignment - TraesCS7D01G451600

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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 TraesCS7D01G451600 chr7D 100.000 4768 0 0 1 4768 571275581 571270814 0.000000e+00 8805
1 TraesCS7D01G451600 chr7D 87.711 2018 166 36 930 2934 571861875 571863823 0.000000e+00 2278
2 TraesCS7D01G451600 chr7D 96.044 733 26 3 1 731 630454822 630454091 0.000000e+00 1190
3 TraesCS7D01G451600 chr7D 89.345 901 63 8 3035 3919 571863936 571864819 0.000000e+00 1101
4 TraesCS7D01G451600 chr7A 93.007 2045 100 21 897 2924 660466988 660464970 0.000000e+00 2944
5 TraesCS7D01G451600 chr7A 94.267 1064 32 9 3036 4073 660464854 660463794 0.000000e+00 1600
6 TraesCS7D01G451600 chr7A 91.214 774 60 5 2169 2934 661158083 661158856 0.000000e+00 1046
7 TraesCS7D01G451600 chr7A 89.837 738 52 14 3032 3749 661158969 661159703 0.000000e+00 926
8 TraesCS7D01G451600 chr7A 91.135 643 52 4 4129 4767 660463590 660462949 0.000000e+00 867
9 TraesCS7D01G451600 chr7A 85.714 861 77 26 1156 2011 661157253 661158072 0.000000e+00 867
10 TraesCS7D01G451600 chr7A 92.746 193 8 3 930 1120 661157064 661157252 1.690000e-69 274
11 TraesCS7D01G451600 chr7A 90.805 87 3 1 2930 3016 660464920 660464839 1.400000e-20 111
12 TraesCS7D01G451600 chr7B 88.471 2021 158 38 930 2934 628451612 628453573 0.000000e+00 2372
13 TraesCS7D01G451600 chr7B 93.804 1388 68 9 1548 2931 627446101 627444728 0.000000e+00 2071
14 TraesCS7D01G451600 chr7B 93.744 1087 39 8 3037 4097 627444595 627443512 0.000000e+00 1604
15 TraesCS7D01G451600 chr7B 89.234 901 64 8 3035 3919 628453689 628454572 0.000000e+00 1096
16 TraesCS7D01G451600 chr7B 92.290 441 19 11 901 1333 627446558 627446125 3.150000e-171 612
17 TraesCS7D01G451600 chr7B 92.840 419 21 7 4088 4504 627443474 627443063 2.460000e-167 599
18 TraesCS7D01G451600 chr7B 95.755 212 9 0 4557 4768 627443068 627442857 4.570000e-90 342
19 TraesCS7D01G451600 chr7B 96.552 87 3 0 2930 3016 627444667 627444581 1.380000e-30 145
20 TraesCS7D01G451600 chr4D 96.491 741 22 4 2 739 482709032 482709771 0.000000e+00 1221
21 TraesCS7D01G451600 chr1D 96.486 740 24 2 1 739 62152882 62152144 0.000000e+00 1221
22 TraesCS7D01G451600 chr1D 95.816 741 27 4 1 739 420002083 420002821 0.000000e+00 1194
23 TraesCS7D01G451600 chr2D 96.356 741 23 4 1 739 650594887 650594149 0.000000e+00 1216
24 TraesCS7D01G451600 chr5D 96.351 740 18 6 1 739 437049605 437050336 0.000000e+00 1208
25 TraesCS7D01G451600 chr2B 96.201 737 26 2 1 736 251119788 251120523 0.000000e+00 1205
26 TraesCS7D01G451600 chr2B 96.332 736 21 4 1 731 683484950 683484216 0.000000e+00 1205
27 TraesCS7D01G451600 chr3D 95.946 740 26 4 3 739 432643135 432643873 0.000000e+00 1197
28 TraesCS7D01G451600 chr3D 85.271 516 50 9 3426 3931 17702288 17701789 4.260000e-140 508


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 TraesCS7D01G451600 chr7D 571270814 571275581 4767 True 8805.00 8805 100.000000 1 4768 1 chr7D.!!$R1 4767
1 TraesCS7D01G451600 chr7D 571861875 571864819 2944 False 1689.50 2278 88.528000 930 3919 2 chr7D.!!$F1 2989
2 TraesCS7D01G451600 chr7D 630454091 630454822 731 True 1190.00 1190 96.044000 1 731 1 chr7D.!!$R2 730
3 TraesCS7D01G451600 chr7A 660462949 660466988 4039 True 1380.50 2944 92.303500 897 4767 4 chr7A.!!$R1 3870
4 TraesCS7D01G451600 chr7A 661157064 661159703 2639 False 778.25 1046 89.877750 930 3749 4 chr7A.!!$F1 2819
5 TraesCS7D01G451600 chr7B 628451612 628454572 2960 False 1734.00 2372 88.852500 930 3919 2 chr7B.!!$F1 2989
6 TraesCS7D01G451600 chr7B 627442857 627446558 3701 True 895.50 2071 94.164167 901 4768 6 chr7B.!!$R1 3867
7 TraesCS7D01G451600 chr4D 482709032 482709771 739 False 1221.00 1221 96.491000 2 739 1 chr4D.!!$F1 737
8 TraesCS7D01G451600 chr1D 62152144 62152882 738 True 1221.00 1221 96.486000 1 739 1 chr1D.!!$R1 738
9 TraesCS7D01G451600 chr1D 420002083 420002821 738 False 1194.00 1194 95.816000 1 739 1 chr1D.!!$F1 738
10 TraesCS7D01G451600 chr2D 650594149 650594887 738 True 1216.00 1216 96.356000 1 739 1 chr2D.!!$R1 738
11 TraesCS7D01G451600 chr5D 437049605 437050336 731 False 1208.00 1208 96.351000 1 739 1 chr5D.!!$F1 738
12 TraesCS7D01G451600 chr2B 251119788 251120523 735 False 1205.00 1205 96.201000 1 736 1 chr2B.!!$F1 735
13 TraesCS7D01G451600 chr2B 683484216 683484950 734 True 1205.00 1205 96.332000 1 731 1 chr2B.!!$R1 730
14 TraesCS7D01G451600 chr3D 432643135 432643873 738 False 1197.00 1197 95.946000 3 739 1 chr3D.!!$F1 736

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
796 803 0.109319 CGAATCTTTTTGTGCGGGGG 60.109 55.0 0.0 0.0 0.00 5.40 F
804 811 0.251564 TTTGTGCGGGGGAATGTCAT 60.252 50.0 0.0 0.0 0.00 3.06 F
1882 1916 0.251634 TCTGTGCCATGCCAATACGA 59.748 50.0 0.0 0.0 0.00 3.43 F
3658 3866 0.667993 CAGAGGAGAGATGGCTCGAC 59.332 60.0 0.0 0.0 45.98 4.20 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2239 2289 0.176680 AAGTGTGAGCGCCTATCAGG 59.823 55.000 2.29 0.0 38.80 3.86 R
2248 2298 1.512926 AGGTAAAGCAAGTGTGAGCG 58.487 50.000 0.00 0.0 35.48 5.03 R
3668 3876 1.202758 ACGTCATCCACTTGCTTCCAA 60.203 47.619 0.00 0.0 0.00 3.53 R
4527 4894 1.070134 CACCAAAGAGACCGAGGTCAA 59.930 52.381 22.66 0.0 46.76 3.18 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
595 600 1.496060 AGCACCCCTTCATCGTATGA 58.504 50.000 0.00 0.00 37.55 2.15
618 623 1.762957 AGGAGTAGCGGCATATGTTGT 59.237 47.619 1.45 0.00 0.00 3.32
619 624 2.170607 AGGAGTAGCGGCATATGTTGTT 59.829 45.455 1.45 0.00 0.00 2.83
635 640 8.685427 CATATGTTGTTAAGATGGTGGATTCAA 58.315 33.333 0.00 0.00 0.00 2.69
643 648 9.066892 GTTAAGATGGTGGATTCAAGCATATTA 57.933 33.333 13.65 13.65 37.86 0.98
752 759 6.663944 TTTTTAAAAATCGTTTGTGGTGGG 57.336 33.333 9.31 0.00 0.00 4.61
753 760 2.900716 AAAAATCGTTTGTGGTGGGG 57.099 45.000 0.00 0.00 0.00 4.96
754 761 2.074729 AAAATCGTTTGTGGTGGGGA 57.925 45.000 0.00 0.00 0.00 4.81
755 762 2.074729 AAATCGTTTGTGGTGGGGAA 57.925 45.000 0.00 0.00 0.00 3.97
756 763 2.074729 AATCGTTTGTGGTGGGGAAA 57.925 45.000 0.00 0.00 0.00 3.13
757 764 2.074729 ATCGTTTGTGGTGGGGAAAA 57.925 45.000 0.00 0.00 0.00 2.29
758 765 1.104630 TCGTTTGTGGTGGGGAAAAC 58.895 50.000 0.00 0.00 0.00 2.43
759 766 0.818296 CGTTTGTGGTGGGGAAAACA 59.182 50.000 0.00 0.00 33.16 2.83
760 767 1.410882 CGTTTGTGGTGGGGAAAACAT 59.589 47.619 0.00 0.00 33.16 2.71
761 768 2.801342 CGTTTGTGGTGGGGAAAACATG 60.801 50.000 0.00 0.00 33.16 3.21
762 769 2.166907 TTGTGGTGGGGAAAACATGT 57.833 45.000 0.00 0.00 0.00 3.21
763 770 3.314307 TTGTGGTGGGGAAAACATGTA 57.686 42.857 0.00 0.00 0.00 2.29
764 771 3.534357 TGTGGTGGGGAAAACATGTAT 57.466 42.857 0.00 0.00 0.00 2.29
765 772 3.850752 TGTGGTGGGGAAAACATGTATT 58.149 40.909 0.00 0.00 0.00 1.89
766 773 3.576118 TGTGGTGGGGAAAACATGTATTG 59.424 43.478 0.00 0.00 0.00 1.90
767 774 3.576550 GTGGTGGGGAAAACATGTATTGT 59.423 43.478 0.00 0.00 41.53 2.71
782 789 9.935682 AACATGTATTGTTAATGTCATCGAATC 57.064 29.630 0.00 0.00 46.75 2.52
783 790 9.330063 ACATGTATTGTTAATGTCATCGAATCT 57.670 29.630 0.00 0.00 33.74 2.40
789 796 9.912634 ATTGTTAATGTCATCGAATCTTTTTGT 57.087 25.926 0.00 0.00 0.00 2.83
790 797 8.726650 TGTTAATGTCATCGAATCTTTTTGTG 57.273 30.769 0.00 0.00 0.00 3.33
791 798 7.325821 TGTTAATGTCATCGAATCTTTTTGTGC 59.674 33.333 0.00 0.00 0.00 4.57
792 799 3.809234 TGTCATCGAATCTTTTTGTGCG 58.191 40.909 0.00 0.00 0.00 5.34
793 800 3.163594 GTCATCGAATCTTTTTGTGCGG 58.836 45.455 0.00 0.00 0.00 5.69
794 801 2.161410 TCATCGAATCTTTTTGTGCGGG 59.839 45.455 0.00 0.00 0.00 6.13
795 802 0.878416 TCGAATCTTTTTGTGCGGGG 59.122 50.000 0.00 0.00 0.00 5.73
796 803 0.109319 CGAATCTTTTTGTGCGGGGG 60.109 55.000 0.00 0.00 0.00 5.40
797 804 1.253100 GAATCTTTTTGTGCGGGGGA 58.747 50.000 0.00 0.00 0.00 4.81
798 805 1.616374 GAATCTTTTTGTGCGGGGGAA 59.384 47.619 0.00 0.00 0.00 3.97
799 806 1.937191 ATCTTTTTGTGCGGGGGAAT 58.063 45.000 0.00 0.00 0.00 3.01
800 807 0.965439 TCTTTTTGTGCGGGGGAATG 59.035 50.000 0.00 0.00 0.00 2.67
801 808 0.678950 CTTTTTGTGCGGGGGAATGT 59.321 50.000 0.00 0.00 0.00 2.71
802 809 0.676736 TTTTTGTGCGGGGGAATGTC 59.323 50.000 0.00 0.00 0.00 3.06
803 810 0.468214 TTTTGTGCGGGGGAATGTCA 60.468 50.000 0.00 0.00 0.00 3.58
804 811 0.251564 TTTGTGCGGGGGAATGTCAT 60.252 50.000 0.00 0.00 0.00 3.06
805 812 0.679640 TTGTGCGGGGGAATGTCATC 60.680 55.000 0.00 0.00 0.00 2.92
806 813 2.180204 GTGCGGGGGAATGTCATCG 61.180 63.158 0.00 0.00 0.00 3.84
807 814 2.363172 TGCGGGGGAATGTCATCGA 61.363 57.895 0.00 0.00 0.00 3.59
808 815 1.071471 GCGGGGGAATGTCATCGAT 59.929 57.895 0.00 0.00 0.00 3.59
809 816 0.535102 GCGGGGGAATGTCATCGATT 60.535 55.000 0.00 0.00 0.00 3.34
810 817 1.512926 CGGGGGAATGTCATCGATTC 58.487 55.000 0.00 0.00 0.00 2.52
811 818 1.202639 CGGGGGAATGTCATCGATTCA 60.203 52.381 0.00 0.00 32.34 2.57
812 819 2.498167 GGGGGAATGTCATCGATTCAG 58.502 52.381 0.00 0.00 32.34 3.02
813 820 2.104792 GGGGGAATGTCATCGATTCAGA 59.895 50.000 0.00 0.00 32.34 3.27
814 821 3.134458 GGGGAATGTCATCGATTCAGAC 58.866 50.000 0.00 0.79 32.34 3.51
815 822 2.797156 GGGAATGTCATCGATTCAGACG 59.203 50.000 0.00 0.00 35.09 4.18
816 823 3.490933 GGGAATGTCATCGATTCAGACGA 60.491 47.826 0.00 0.00 43.65 4.20
818 825 4.747108 GGAATGTCATCGATTCAGACGATT 59.253 41.667 0.00 3.92 46.06 3.34
819 826 5.235186 GGAATGTCATCGATTCAGACGATTT 59.765 40.000 0.00 0.00 46.06 2.17
820 827 5.648033 ATGTCATCGATTCAGACGATTTG 57.352 39.130 0.00 0.00 46.06 2.32
821 828 4.494484 TGTCATCGATTCAGACGATTTGT 58.506 39.130 0.00 0.00 46.06 2.83
822 829 4.929211 TGTCATCGATTCAGACGATTTGTT 59.071 37.500 0.00 0.00 46.06 2.83
823 830 6.096695 TGTCATCGATTCAGACGATTTGTTA 58.903 36.000 0.00 0.00 46.06 2.41
824 831 6.756542 TGTCATCGATTCAGACGATTTGTTAT 59.243 34.615 0.00 0.00 46.06 1.89
825 832 7.277760 TGTCATCGATTCAGACGATTTGTTATT 59.722 33.333 0.00 0.00 46.06 1.40
826 833 8.116753 GTCATCGATTCAGACGATTTGTTATTT 58.883 33.333 0.00 0.00 46.06 1.40
827 834 8.664798 TCATCGATTCAGACGATTTGTTATTTT 58.335 29.630 0.00 0.00 46.06 1.82
828 835 8.937932 CATCGATTCAGACGATTTGTTATTTTC 58.062 33.333 0.00 0.00 46.06 2.29
829 836 8.251750 TCGATTCAGACGATTTGTTATTTTCT 57.748 30.769 0.00 0.00 34.85 2.52
830 837 9.361315 TCGATTCAGACGATTTGTTATTTTCTA 57.639 29.630 0.00 0.00 34.85 2.10
831 838 9.625009 CGATTCAGACGATTTGTTATTTTCTAG 57.375 33.333 0.00 0.00 0.00 2.43
834 841 9.483916 TTCAGACGATTTGTTATTTTCTAGTGA 57.516 29.630 0.00 0.00 0.00 3.41
835 842 9.483916 TCAGACGATTTGTTATTTTCTAGTGAA 57.516 29.630 0.00 0.00 0.00 3.18
872 879 8.522178 AATTTTGTTTCAAAATATTACGGCGA 57.478 26.923 16.62 0.00 30.38 5.54
873 880 8.696410 ATTTTGTTTCAAAATATTACGGCGAT 57.304 26.923 16.62 0.00 0.00 4.58
874 881 7.499438 TTTGTTTCAAAATATTACGGCGATG 57.501 32.000 16.62 0.00 0.00 3.84
875 882 6.424176 TGTTTCAAAATATTACGGCGATGA 57.576 33.333 16.62 0.00 0.00 2.92
876 883 6.843208 TGTTTCAAAATATTACGGCGATGAA 58.157 32.000 16.62 4.85 0.00 2.57
877 884 6.964370 TGTTTCAAAATATTACGGCGATGAAG 59.036 34.615 16.62 0.00 0.00 3.02
878 885 6.912203 TTCAAAATATTACGGCGATGAAGA 57.088 33.333 16.62 1.96 0.00 2.87
879 886 6.281848 TCAAAATATTACGGCGATGAAGAC 57.718 37.500 16.62 0.00 0.00 3.01
880 887 6.046593 TCAAAATATTACGGCGATGAAGACT 58.953 36.000 16.62 0.00 0.00 3.24
881 888 5.907197 AAATATTACGGCGATGAAGACTG 57.093 39.130 16.62 0.00 0.00 3.51
882 889 4.848562 ATATTACGGCGATGAAGACTGA 57.151 40.909 16.62 0.00 0.00 3.41
883 890 3.520290 ATTACGGCGATGAAGACTGAA 57.480 42.857 16.62 0.00 0.00 3.02
884 891 3.306917 TTACGGCGATGAAGACTGAAA 57.693 42.857 16.62 0.00 0.00 2.69
885 892 2.163818 ACGGCGATGAAGACTGAAAA 57.836 45.000 16.62 0.00 0.00 2.29
886 893 2.069273 ACGGCGATGAAGACTGAAAAG 58.931 47.619 16.62 0.00 0.00 2.27
887 894 1.201965 CGGCGATGAAGACTGAAAAGC 60.202 52.381 0.00 0.00 0.00 3.51
888 895 1.806542 GGCGATGAAGACTGAAAAGCA 59.193 47.619 0.00 0.00 0.00 3.91
889 896 2.421424 GGCGATGAAGACTGAAAAGCAT 59.579 45.455 0.00 0.00 0.00 3.79
890 897 3.623060 GGCGATGAAGACTGAAAAGCATA 59.377 43.478 0.00 0.00 0.00 3.14
891 898 4.094887 GGCGATGAAGACTGAAAAGCATAA 59.905 41.667 0.00 0.00 0.00 1.90
892 899 5.261661 GCGATGAAGACTGAAAAGCATAAG 58.738 41.667 0.00 0.00 0.00 1.73
893 900 5.261661 CGATGAAGACTGAAAAGCATAAGC 58.738 41.667 0.00 0.00 42.56 3.09
894 901 5.163824 CGATGAAGACTGAAAAGCATAAGCA 60.164 40.000 0.00 0.00 45.49 3.91
895 902 6.579666 ATGAAGACTGAAAAGCATAAGCAA 57.420 33.333 0.00 0.00 45.49 3.91
937 948 1.669795 GGACATTTGGAGGCAAAAGCG 60.670 52.381 0.00 0.00 0.00 4.68
946 957 4.940593 GCAAAAGCGCAACCGGCA 62.941 61.111 11.47 0.00 45.17 5.69
1139 1156 2.222819 CGCCTTGTCGATTTACTTCTGC 60.223 50.000 0.00 0.00 0.00 4.26
1230 1251 4.755123 GGTCGAATTCTTGTTCCTTTCAGA 59.245 41.667 3.52 0.00 0.00 3.27
1287 1316 3.244044 CGGGGATTGTGAAATGTGGTTTT 60.244 43.478 0.00 0.00 0.00 2.43
1324 1353 5.045359 GCCCCCGTATTAGAACCCTATTATT 60.045 44.000 0.00 0.00 0.00 1.40
1398 1427 1.402968 CCGTACGCTTTGCTAGTCCTA 59.597 52.381 10.49 0.00 0.00 2.94
1552 1584 0.461961 ATTGCTACGTCTCCCTCTGC 59.538 55.000 0.00 0.00 0.00 4.26
1577 1609 6.887376 TTTGTTATGATGTCTAGCTTCGTC 57.113 37.500 0.00 0.00 0.00 4.20
1665 1697 5.007430 CAGAATATGGTCATGTGTGCTTCTC 59.993 44.000 0.00 0.00 0.00 2.87
1672 1704 3.929610 GTCATGTGTGCTTCTCTAAGTCC 59.070 47.826 0.00 0.00 34.99 3.85
1716 1750 2.957006 GCCATTGCAGGAAGATCAGAAT 59.043 45.455 0.00 0.00 37.47 2.40
1722 1756 4.293494 TGCAGGAAGATCAGAATACCTCT 58.707 43.478 0.00 0.00 33.23 3.69
1822 1856 4.010349 GCTACAAGGCAGAAAGGTAATGT 58.990 43.478 0.00 0.00 0.00 2.71
1881 1915 1.093972 TTCTGTGCCATGCCAATACG 58.906 50.000 0.00 0.00 0.00 3.06
1882 1916 0.251634 TCTGTGCCATGCCAATACGA 59.748 50.000 0.00 0.00 0.00 3.43
1894 1943 3.179048 GCCAATACGAATGCAGTTTTCC 58.821 45.455 0.00 0.00 0.00 3.13
1951 2000 9.871238 ACACGATATTACTTTGACTTTACATCT 57.129 29.630 0.00 0.00 0.00 2.90
1989 2038 5.873712 TCATCAATTTGTTTTGCTGTTGTGT 59.126 32.000 0.00 0.00 0.00 3.72
2027 2076 3.707611 TGTTACTGACTTACTGTGGTGGT 59.292 43.478 0.00 0.00 33.04 4.16
2030 2079 2.365617 ACTGACTTACTGTGGTGGTGAG 59.634 50.000 0.00 0.00 0.00 3.51
2042 2091 5.630121 TGTGGTGGTGAGACTATGAAATTT 58.370 37.500 0.00 0.00 0.00 1.82
2099 2148 7.658982 TGAGAACATCATGGATAATTAGAGCAC 59.341 37.037 0.00 0.00 31.12 4.40
2269 2319 3.064207 CGCTCACACTTGCTTTACCTAA 58.936 45.455 0.00 0.00 0.00 2.69
2314 2368 2.941720 GCAATGTCCAAGCCTCTCTAAG 59.058 50.000 0.00 0.00 0.00 2.18
2371 2425 7.840981 ATAAAACTTAAAACTGTTTACGCCG 57.159 32.000 6.16 0.00 35.63 6.46
2378 2432 8.223100 ACTTAAAACTGTTTACGCCGTATTAAG 58.777 33.333 16.60 16.60 34.48 1.85
2503 2557 6.706055 TGATTTGTGTCAGTTATCTTCGTC 57.294 37.500 0.00 0.00 0.00 4.20
2700 2762 3.204382 TCTTTCTTTCTTGGGACCACCTT 59.796 43.478 0.00 0.00 41.11 3.50
2762 2824 3.981071 TGGCTGCTCCATATACCATAC 57.019 47.619 0.00 0.00 40.72 2.39
3001 3147 5.262412 GGAGAATCTTAGGTGCACCTGCT 62.262 52.174 42.35 28.18 40.65 4.24
3002 3148 6.680522 GGAGAATCTTAGGTGCACCTGCTT 62.681 50.000 42.35 29.00 40.65 3.91
3003 3149 7.372312 GGAGAATCTTAGGTGCACCTGCTTA 62.372 48.000 42.35 26.60 40.65 3.09
3006 3152 3.906980 AGGTGCACCTGCTTAGGT 58.093 55.556 37.39 11.23 46.55 3.08
3101 3253 8.025243 CGAAGCACAATTTTTCCTACTTACTA 57.975 34.615 0.00 0.00 0.00 1.82
3650 3858 0.754957 CGCCACCTCAGAGGAGAGAT 60.755 60.000 24.45 0.00 44.26 2.75
3658 3866 0.667993 CAGAGGAGAGATGGCTCGAC 59.332 60.000 0.00 0.00 45.98 4.20
3668 3876 0.747255 ATGGCTCGACGCTCAATAGT 59.253 50.000 6.78 0.00 39.13 2.12
3683 3891 4.922206 TCAATAGTTGGAAGCAAGTGGAT 58.078 39.130 0.00 0.00 0.00 3.41
3972 4185 2.378208 TGTTTTGGATCCATGAGGGTGA 59.622 45.455 17.06 0.00 38.11 4.02
4037 4250 6.533367 TGAAGTTTAACCAAAAGCAACATCAC 59.467 34.615 0.00 0.00 0.00 3.06
4104 4450 2.173669 CATCTTCGCCCGCGTCATT 61.174 57.895 4.92 0.00 40.74 2.57
4174 4537 9.253832 TCTTTAATTAATTGATTCTCCTTGGCA 57.746 29.630 11.05 0.00 0.00 4.92
4199 4562 4.104383 TCTCTTGCCTCAATTGGTTCTT 57.896 40.909 5.42 0.00 0.00 2.52
4200 4563 3.822735 TCTCTTGCCTCAATTGGTTCTTG 59.177 43.478 5.42 0.00 0.00 3.02
4203 4566 2.942804 TGCCTCAATTGGTTCTTGTCA 58.057 42.857 5.42 0.00 0.00 3.58
4229 4592 9.601217 AAGAAGAAATATACGCTTATCTGTGTT 57.399 29.630 0.00 0.00 32.52 3.32
4297 4661 4.101585 TCTTCTCTTGTTGCTTCTTCTCCA 59.898 41.667 0.00 0.00 0.00 3.86
4315 4679 3.686016 TCCATCAACTCTAACTTTGCCC 58.314 45.455 0.00 0.00 0.00 5.36
4434 4800 2.628187 ATCTTCCTCCCATCGGGCCT 62.628 60.000 0.84 0.00 43.94 5.19
4448 4814 1.749033 GGCCTCCCCTTGATAGACG 59.251 63.158 0.00 0.00 0.00 4.18
4509 4876 4.148128 TCTTCATCCCATCTTCAAGCTC 57.852 45.455 0.00 0.00 0.00 4.09
4519 4886 4.037923 CCATCTTCAAGCTCTAGAGAGGAC 59.962 50.000 24.24 5.46 42.29 3.85
4520 4887 3.275143 TCTTCAAGCTCTAGAGAGGACG 58.725 50.000 24.24 13.38 42.29 4.79
4523 4890 2.502130 TCAAGCTCTAGAGAGGACGAGA 59.498 50.000 24.24 7.51 42.29 4.04
4527 4894 3.901844 AGCTCTAGAGAGGACGAGATACT 59.098 47.826 24.24 3.22 42.29 2.12
4555 4922 0.390472 GTCTCTTTGGTGGAGCCTCG 60.390 60.000 0.00 0.00 38.35 4.63
4564 4931 1.112113 GTGGAGCCTCGTCATTCCTA 58.888 55.000 0.00 0.00 0.00 2.94
4586 4953 7.070074 TCCTATTCCTCCACTTCTCATAGTTTC 59.930 40.741 0.00 0.00 0.00 2.78
4587 4954 6.627087 ATTCCTCCACTTCTCATAGTTTCA 57.373 37.500 0.00 0.00 0.00 2.69
4610 4977 1.002315 GAAATGCCCAACAATGGTGCT 59.998 47.619 0.00 0.00 46.01 4.40
4658 5025 8.725148 ACTAATGTTTTTGCTTGTATCTCTCTG 58.275 33.333 0.00 0.00 0.00 3.35
4672 5039 3.566351 TCTCTCTGGAGTGAACTTGTCA 58.434 45.455 0.62 0.00 40.29 3.58
4697 5064 5.061179 ACAACATACAACTACAAGGTGGTC 58.939 41.667 0.00 0.00 37.20 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
182 183 3.808265 GCCATCATCATCTGATCCGGAAA 60.808 47.826 9.01 0.00 42.91 3.13
222 223 1.606313 CCAAAACGATGCCCCCAGT 60.606 57.895 0.00 0.00 0.00 4.00
357 359 0.032615 AGACAGCTACCTCCTCCTGG 60.033 60.000 0.00 0.00 0.00 4.45
595 600 4.040461 ACAACATATGCCGCTACTCCTATT 59.960 41.667 1.58 0.00 0.00 1.73
618 623 9.812347 ATAATATGCTTGAATCCACCATCTTAA 57.188 29.630 0.00 0.00 0.00 1.85
619 624 9.812347 AATAATATGCTTGAATCCACCATCTTA 57.188 29.630 0.00 0.00 0.00 2.10
732 739 3.958798 TCCCCACCACAAACGATTTTTAA 59.041 39.130 0.00 0.00 0.00 1.52
739 746 1.104630 GTTTTCCCCACCACAAACGA 58.895 50.000 0.00 0.00 0.00 3.85
740 747 0.818296 TGTTTTCCCCACCACAAACG 59.182 50.000 0.00 0.00 32.73 3.60
741 748 2.169561 ACATGTTTTCCCCACCACAAAC 59.830 45.455 0.00 0.00 0.00 2.93
742 749 2.472029 ACATGTTTTCCCCACCACAAA 58.528 42.857 0.00 0.00 0.00 2.83
743 750 2.166907 ACATGTTTTCCCCACCACAA 57.833 45.000 0.00 0.00 0.00 3.33
744 751 3.534357 ATACATGTTTTCCCCACCACA 57.466 42.857 2.30 0.00 0.00 4.17
745 752 3.576550 ACAATACATGTTTTCCCCACCAC 59.423 43.478 2.30 0.00 40.06 4.16
746 753 3.850752 ACAATACATGTTTTCCCCACCA 58.149 40.909 2.30 0.00 40.06 4.17
757 764 9.330063 AGATTCGATGACATTAACAATACATGT 57.670 29.630 2.69 2.69 46.82 3.21
763 770 9.912634 ACAAAAAGATTCGATGACATTAACAAT 57.087 25.926 0.00 0.00 0.00 2.71
764 771 9.179552 CACAAAAAGATTCGATGACATTAACAA 57.820 29.630 0.00 0.00 0.00 2.83
765 772 7.325821 GCACAAAAAGATTCGATGACATTAACA 59.674 33.333 0.00 0.00 0.00 2.41
766 773 7.460120 CGCACAAAAAGATTCGATGACATTAAC 60.460 37.037 0.00 0.00 0.00 2.01
767 774 6.522855 CGCACAAAAAGATTCGATGACATTAA 59.477 34.615 0.00 0.00 0.00 1.40
768 775 6.020984 CGCACAAAAAGATTCGATGACATTA 58.979 36.000 0.00 0.00 0.00 1.90
769 776 4.853196 CGCACAAAAAGATTCGATGACATT 59.147 37.500 0.00 0.00 0.00 2.71
770 777 4.406069 CGCACAAAAAGATTCGATGACAT 58.594 39.130 0.00 0.00 0.00 3.06
771 778 3.364864 CCGCACAAAAAGATTCGATGACA 60.365 43.478 0.00 0.00 0.00 3.58
772 779 3.163594 CCGCACAAAAAGATTCGATGAC 58.836 45.455 0.00 0.00 0.00 3.06
773 780 2.161410 CCCGCACAAAAAGATTCGATGA 59.839 45.455 0.00 0.00 0.00 2.92
774 781 2.518949 CCCGCACAAAAAGATTCGATG 58.481 47.619 0.00 0.00 0.00 3.84
775 782 1.472480 CCCCGCACAAAAAGATTCGAT 59.528 47.619 0.00 0.00 0.00 3.59
776 783 0.878416 CCCCGCACAAAAAGATTCGA 59.122 50.000 0.00 0.00 0.00 3.71
777 784 0.109319 CCCCCGCACAAAAAGATTCG 60.109 55.000 0.00 0.00 0.00 3.34
778 785 1.253100 TCCCCCGCACAAAAAGATTC 58.747 50.000 0.00 0.00 0.00 2.52
779 786 1.710816 TTCCCCCGCACAAAAAGATT 58.289 45.000 0.00 0.00 0.00 2.40
780 787 1.550072 CATTCCCCCGCACAAAAAGAT 59.450 47.619 0.00 0.00 0.00 2.40
781 788 0.965439 CATTCCCCCGCACAAAAAGA 59.035 50.000 0.00 0.00 0.00 2.52
782 789 0.678950 ACATTCCCCCGCACAAAAAG 59.321 50.000 0.00 0.00 0.00 2.27
783 790 0.676736 GACATTCCCCCGCACAAAAA 59.323 50.000 0.00 0.00 0.00 1.94
784 791 0.468214 TGACATTCCCCCGCACAAAA 60.468 50.000 0.00 0.00 0.00 2.44
785 792 0.251564 ATGACATTCCCCCGCACAAA 60.252 50.000 0.00 0.00 0.00 2.83
786 793 0.679640 GATGACATTCCCCCGCACAA 60.680 55.000 0.00 0.00 0.00 3.33
787 794 1.077787 GATGACATTCCCCCGCACA 60.078 57.895 0.00 0.00 0.00 4.57
788 795 2.180204 CGATGACATTCCCCCGCAC 61.180 63.158 0.00 0.00 0.00 5.34
789 796 1.695114 ATCGATGACATTCCCCCGCA 61.695 55.000 0.00 0.00 0.00 5.69
790 797 0.535102 AATCGATGACATTCCCCCGC 60.535 55.000 0.00 0.00 0.00 6.13
791 798 1.202639 TGAATCGATGACATTCCCCCG 60.203 52.381 0.00 0.00 30.30 5.73
792 799 2.104792 TCTGAATCGATGACATTCCCCC 59.895 50.000 0.00 0.00 30.30 5.40
793 800 3.134458 GTCTGAATCGATGACATTCCCC 58.866 50.000 0.00 0.00 30.30 4.81
794 801 2.797156 CGTCTGAATCGATGACATTCCC 59.203 50.000 13.05 0.77 30.30 3.97
795 802 3.706698 TCGTCTGAATCGATGACATTCC 58.293 45.455 13.05 2.59 32.30 3.01
796 803 5.896922 AATCGTCTGAATCGATGACATTC 57.103 39.130 13.05 2.57 45.33 2.67
797 804 5.582269 ACAAATCGTCTGAATCGATGACATT 59.418 36.000 13.05 9.30 45.33 2.71
798 805 5.111989 ACAAATCGTCTGAATCGATGACAT 58.888 37.500 13.05 0.00 45.33 3.06
799 806 4.494484 ACAAATCGTCTGAATCGATGACA 58.506 39.130 13.05 9.44 45.33 3.58
800 807 5.456192 AACAAATCGTCTGAATCGATGAC 57.544 39.130 0.00 1.06 45.33 3.06
801 808 7.770801 AATAACAAATCGTCTGAATCGATGA 57.229 32.000 0.00 0.00 45.33 2.92
802 809 8.826546 AAAATAACAAATCGTCTGAATCGATG 57.173 30.769 0.00 0.00 45.33 3.84
804 811 8.251750 AGAAAATAACAAATCGTCTGAATCGA 57.748 30.769 0.00 0.00 41.45 3.59
805 812 9.625009 CTAGAAAATAACAAATCGTCTGAATCG 57.375 33.333 0.00 0.00 0.00 3.34
808 815 9.483916 TCACTAGAAAATAACAAATCGTCTGAA 57.516 29.630 0.00 0.00 0.00 3.02
809 816 9.483916 TTCACTAGAAAATAACAAATCGTCTGA 57.516 29.630 0.00 0.00 0.00 3.27
846 853 8.979574 TCGCCGTAATATTTTGAAACAAAATTT 58.020 25.926 21.60 17.51 32.64 1.82
847 854 8.522178 TCGCCGTAATATTTTGAAACAAAATT 57.478 26.923 21.60 12.00 32.64 1.82
848 855 8.591312 CATCGCCGTAATATTTTGAAACAAAAT 58.409 29.630 20.66 20.66 34.55 1.82
849 856 7.808381 TCATCGCCGTAATATTTTGAAACAAAA 59.192 29.630 11.14 11.14 0.00 2.44
850 857 7.306213 TCATCGCCGTAATATTTTGAAACAAA 58.694 30.769 0.00 0.00 0.00 2.83
851 858 6.843208 TCATCGCCGTAATATTTTGAAACAA 58.157 32.000 0.00 0.00 0.00 2.83
852 859 6.424176 TCATCGCCGTAATATTTTGAAACA 57.576 33.333 0.00 0.00 0.00 2.83
853 860 7.163682 GTCTTCATCGCCGTAATATTTTGAAAC 59.836 37.037 0.00 0.00 0.00 2.78
854 861 7.065324 AGTCTTCATCGCCGTAATATTTTGAAA 59.935 33.333 0.00 0.00 0.00 2.69
855 862 6.537301 AGTCTTCATCGCCGTAATATTTTGAA 59.463 34.615 0.00 0.00 0.00 2.69
856 863 6.019075 CAGTCTTCATCGCCGTAATATTTTGA 60.019 38.462 0.00 0.00 0.00 2.69
857 864 6.019075 TCAGTCTTCATCGCCGTAATATTTTG 60.019 38.462 0.00 0.00 0.00 2.44
858 865 6.046593 TCAGTCTTCATCGCCGTAATATTTT 58.953 36.000 0.00 0.00 0.00 1.82
859 866 5.597806 TCAGTCTTCATCGCCGTAATATTT 58.402 37.500 0.00 0.00 0.00 1.40
860 867 5.196341 TCAGTCTTCATCGCCGTAATATT 57.804 39.130 0.00 0.00 0.00 1.28
861 868 4.848562 TCAGTCTTCATCGCCGTAATAT 57.151 40.909 0.00 0.00 0.00 1.28
862 869 4.642445 TTCAGTCTTCATCGCCGTAATA 57.358 40.909 0.00 0.00 0.00 0.98
863 870 3.520290 TTCAGTCTTCATCGCCGTAAT 57.480 42.857 0.00 0.00 0.00 1.89
864 871 3.306917 TTTCAGTCTTCATCGCCGTAA 57.693 42.857 0.00 0.00 0.00 3.18
865 872 3.250744 CTTTTCAGTCTTCATCGCCGTA 58.749 45.455 0.00 0.00 0.00 4.02
866 873 2.069273 CTTTTCAGTCTTCATCGCCGT 58.931 47.619 0.00 0.00 0.00 5.68
867 874 1.201965 GCTTTTCAGTCTTCATCGCCG 60.202 52.381 0.00 0.00 0.00 6.46
868 875 1.806542 TGCTTTTCAGTCTTCATCGCC 59.193 47.619 0.00 0.00 0.00 5.54
869 876 3.754188 ATGCTTTTCAGTCTTCATCGC 57.246 42.857 0.00 0.00 0.00 4.58
870 877 5.163824 TGCTTATGCTTTTCAGTCTTCATCG 60.164 40.000 1.96 0.00 40.48 3.84
871 878 6.187125 TGCTTATGCTTTTCAGTCTTCATC 57.813 37.500 1.96 0.00 40.48 2.92
872 879 6.579666 TTGCTTATGCTTTTCAGTCTTCAT 57.420 33.333 1.96 0.00 40.48 2.57
873 880 5.563475 GCTTGCTTATGCTTTTCAGTCTTCA 60.563 40.000 1.96 0.00 40.48 3.02
874 881 4.855937 GCTTGCTTATGCTTTTCAGTCTTC 59.144 41.667 1.96 0.00 40.48 2.87
875 882 4.522022 AGCTTGCTTATGCTTTTCAGTCTT 59.478 37.500 1.96 0.00 40.48 3.01
876 883 4.077822 AGCTTGCTTATGCTTTTCAGTCT 58.922 39.130 1.96 0.00 40.48 3.24
877 884 4.083110 TGAGCTTGCTTATGCTTTTCAGTC 60.083 41.667 1.96 0.00 39.91 3.51
878 885 3.822735 TGAGCTTGCTTATGCTTTTCAGT 59.177 39.130 1.96 0.00 39.91 3.41
879 886 4.413087 CTGAGCTTGCTTATGCTTTTCAG 58.587 43.478 1.96 6.43 39.91 3.02
880 887 3.366679 GCTGAGCTTGCTTATGCTTTTCA 60.367 43.478 0.00 1.12 39.91 2.69
881 888 3.177487 GCTGAGCTTGCTTATGCTTTTC 58.823 45.455 0.00 0.00 39.91 2.29
882 889 2.559668 TGCTGAGCTTGCTTATGCTTTT 59.440 40.909 5.83 0.00 39.91 2.27
883 890 2.094854 GTGCTGAGCTTGCTTATGCTTT 60.095 45.455 5.83 0.00 39.91 3.51
884 891 1.471684 GTGCTGAGCTTGCTTATGCTT 59.528 47.619 5.83 0.00 39.91 3.91
885 892 1.093159 GTGCTGAGCTTGCTTATGCT 58.907 50.000 5.83 0.00 42.82 3.79
886 893 1.093159 AGTGCTGAGCTTGCTTATGC 58.907 50.000 5.83 2.97 40.20 3.14
887 894 2.353323 TCAGTGCTGAGCTTGCTTATG 58.647 47.619 5.83 9.04 34.14 1.90
888 895 2.775911 TCAGTGCTGAGCTTGCTTAT 57.224 45.000 5.83 0.00 34.14 1.73
914 921 1.988293 TTTGCCTCCAAATGTCCGAA 58.012 45.000 0.00 0.00 36.09 4.30
946 957 1.592669 CGATGATTTCGCCTCGCCT 60.593 57.895 0.00 0.00 41.69 5.52
1145 1163 1.661463 TGACAGGAGAGGGATTTGCT 58.339 50.000 0.00 0.00 0.00 3.91
1146 1164 2.496899 TTGACAGGAGAGGGATTTGC 57.503 50.000 0.00 0.00 0.00 3.68
1230 1251 4.442472 CGAGGAACGGAACCCTACAATTAT 60.442 45.833 0.00 0.00 38.46 1.28
1287 1316 4.329545 GGGGCTGCACTCGGTTCA 62.330 66.667 0.21 0.00 0.00 3.18
1337 1366 2.819608 GCTTAGCCTGTTCAAACCATGA 59.180 45.455 0.00 0.00 35.85 3.07
1398 1427 4.977739 TGATTCCCCATAGATGTTCCTCTT 59.022 41.667 0.00 0.00 0.00 2.85
1462 1491 7.500227 TCCAAGATTGCTAGGTTTCAATAGATG 59.500 37.037 0.00 0.00 33.49 2.90
1506 1538 6.759497 ACAGAGTAACAATTTTAGATGGGC 57.241 37.500 0.00 0.00 0.00 5.36
1540 1572 1.884235 AACAAAAGCAGAGGGAGACG 58.116 50.000 0.00 0.00 0.00 4.18
1552 1584 7.063426 TGACGAAGCTAGACATCATAACAAAAG 59.937 37.037 0.00 0.00 0.00 2.27
1619 1651 8.673626 TCTGCGAAATAAAAAGAACAATCATC 57.326 30.769 0.00 0.00 0.00 2.92
1665 1697 7.494625 TGACAACAAAGAAGTGTAAGGACTTAG 59.505 37.037 0.00 0.00 36.27 2.18
1672 1704 5.739161 GCAAGTGACAACAAAGAAGTGTAAG 59.261 40.000 0.00 0.00 0.00 2.34
1716 1750 4.593206 AGGTCATCACTTTTGTCAGAGGTA 59.407 41.667 0.00 0.00 0.00 3.08
1722 1756 3.118075 TCACCAGGTCATCACTTTTGTCA 60.118 43.478 0.00 0.00 0.00 3.58
1881 1915 6.849588 AATCAACAAAGGAAAACTGCATTC 57.150 33.333 0.00 0.00 0.00 2.67
1882 1916 6.705825 GGTAATCAACAAAGGAAAACTGCATT 59.294 34.615 0.00 0.00 0.00 3.56
1894 1943 6.322491 GGATCGGAAAAGGTAATCAACAAAG 58.678 40.000 0.00 0.00 0.00 2.77
2027 2076 6.962182 ACCTCATGGAAATTTCATAGTCTCA 58.038 36.000 19.49 6.97 37.04 3.27
2042 2091 7.815383 ACCAAGAATATGAATAACCTCATGGA 58.185 34.615 0.00 0.00 36.69 3.41
2099 2148 8.442632 TGATAGAAGCAAATGTATCTCCAAAG 57.557 34.615 0.00 0.00 0.00 2.77
2230 2280 3.169099 AGCGCCTATCAGGTTCATAGAT 58.831 45.455 2.29 0.00 37.80 1.98
2239 2289 0.176680 AAGTGTGAGCGCCTATCAGG 59.823 55.000 2.29 0.00 38.80 3.86
2248 2298 1.512926 AGGTAAAGCAAGTGTGAGCG 58.487 50.000 0.00 0.00 35.48 5.03
2314 2368 6.019881 CAGTTAAAAGCTTTAACCTTGCACAC 60.020 38.462 13.10 0.00 35.95 3.82
2371 2425 6.968131 TCTGCTTGTGATCACACTTAATAC 57.032 37.500 27.88 12.27 46.07 1.89
2378 2432 5.611796 TGTTATTCTGCTTGTGATCACAC 57.388 39.130 27.88 17.65 46.09 3.82
2700 2762 8.740123 TTTCTTCACACAATAACCTGAGTAAA 57.260 30.769 0.00 0.00 0.00 2.01
2762 2824 8.648557 TCCAGATCTTGTAATTAGTCGATTTG 57.351 34.615 0.00 0.00 0.00 2.32
2945 3089 8.863049 CAATACATTGTAAAGAATGCCAAGAAC 58.137 33.333 0.00 0.00 36.89 3.01
3028 3174 5.470845 AAAGAAATCACCTAAGCGATTCG 57.529 39.130 0.62 0.62 30.64 3.34
3029 3175 7.303634 TGTAAAGAAATCACCTAAGCGATTC 57.696 36.000 0.00 0.00 30.64 2.52
3030 3176 7.681939 TTGTAAAGAAATCACCTAAGCGATT 57.318 32.000 0.00 0.00 33.27 3.34
3031 3177 7.148239 CCTTTGTAAAGAAATCACCTAAGCGAT 60.148 37.037 5.95 0.00 38.28 4.58
3032 3178 6.148811 CCTTTGTAAAGAAATCACCTAAGCGA 59.851 38.462 5.95 0.00 38.28 4.93
3033 3179 6.148811 TCCTTTGTAAAGAAATCACCTAAGCG 59.851 38.462 5.95 0.00 38.28 4.68
3034 3180 7.448748 TCCTTTGTAAAGAAATCACCTAAGC 57.551 36.000 5.95 0.00 38.28 3.09
3035 3181 9.846248 CATTCCTTTGTAAAGAAATCACCTAAG 57.154 33.333 5.95 0.00 38.28 2.18
3101 3253 9.852091 GAATTGTTTCTGAGAAGAAGCAAATAT 57.148 29.630 17.68 9.90 46.45 1.28
3104 3256 7.338800 AGAATTGTTTCTGAGAAGAAGCAAA 57.661 32.000 17.68 6.00 46.45 3.68
3113 3265 3.259374 AGCTCCGAGAATTGTTTCTGAGA 59.741 43.478 0.00 0.00 42.34 3.27
3332 3503 8.602328 CATTTGTCATCTCTAGATTTGACAGTC 58.398 37.037 25.05 0.00 41.91 3.51
3448 3654 7.067981 GCATTTCCTTCAGAGATAAAAGATGGT 59.932 37.037 0.00 0.00 0.00 3.55
3450 3656 8.223177 AGCATTTCCTTCAGAGATAAAAGATG 57.777 34.615 0.00 0.00 0.00 2.90
3658 3866 2.744202 ACTTGCTTCCAACTATTGAGCG 59.256 45.455 0.00 0.00 34.32 5.03
3668 3876 1.202758 ACGTCATCCACTTGCTTCCAA 60.203 47.619 0.00 0.00 0.00 3.53
3683 3891 3.823281 TCACTTTCAGGGTTTACGTCA 57.177 42.857 0.00 0.00 0.00 4.35
3905 4116 3.412237 TGTGGAAAGCCTACTGGTAAC 57.588 47.619 0.00 0.00 35.27 2.50
4037 4250 7.022979 TGATTTTTGTGTTGAAGATATGAGCG 58.977 34.615 0.00 0.00 0.00 5.03
4156 4519 4.314522 TGGTGCCAAGGAGAATCAATTA 57.685 40.909 0.00 0.00 36.25 1.40
4158 4521 2.905415 TGGTGCCAAGGAGAATCAAT 57.095 45.000 0.00 0.00 36.25 2.57
4174 4537 2.042162 ACCAATTGAGGCAAGAGATGGT 59.958 45.455 7.12 0.00 35.20 3.55
4199 4562 9.249457 CAGATAAGCGTATATTTCTTCTTGACA 57.751 33.333 0.00 0.00 0.00 3.58
4200 4563 9.250624 ACAGATAAGCGTATATTTCTTCTTGAC 57.749 33.333 0.00 0.00 0.00 3.18
4203 4566 9.601217 AACACAGATAAGCGTATATTTCTTCTT 57.399 29.630 0.00 0.00 0.00 2.52
4229 4592 3.326006 AGAGAATGAGAAGCACAAGGACA 59.674 43.478 0.00 0.00 0.00 4.02
4297 4661 2.084546 GCGGGCAAAGTTAGAGTTGAT 58.915 47.619 0.00 0.00 0.00 2.57
4315 4679 1.394917 GGTGTCAACTCAAGCTATGCG 59.605 52.381 0.00 0.00 0.00 4.73
4434 4800 1.209504 CTTTGGCGTCTATCAAGGGGA 59.790 52.381 0.00 0.00 0.00 4.81
4448 4814 2.861147 ACAAGGAGTCCTACTTTGGC 57.139 50.000 13.43 0.00 29.53 4.52
4509 4876 4.753107 GGTCAAGTATCTCGTCCTCTCTAG 59.247 50.000 0.00 0.00 0.00 2.43
4520 4887 3.547746 AGAGACCGAGGTCAAGTATCTC 58.452 50.000 22.66 10.42 46.76 2.75
4523 4890 3.195825 CCAAAGAGACCGAGGTCAAGTAT 59.804 47.826 22.66 2.98 46.76 2.12
4527 4894 1.070134 CACCAAAGAGACCGAGGTCAA 59.930 52.381 22.66 0.00 46.76 3.18
4555 4922 5.129485 TGAGAAGTGGAGGAATAGGAATGAC 59.871 44.000 0.00 0.00 0.00 3.06
4564 4931 6.441924 TCTGAAACTATGAGAAGTGGAGGAAT 59.558 38.462 0.00 0.00 0.00 3.01
4586 4953 3.241067 CCATTGTTGGGCATTTCTCTG 57.759 47.619 0.00 0.00 39.56 3.35
4610 4977 5.538433 AGTCAAAAAGTAAGCCATTTGCCTA 59.462 36.000 0.00 0.00 42.71 3.93
4658 5025 6.649141 TGTATGTTGTATGACAAGTTCACTCC 59.351 38.462 0.00 0.00 39.00 3.85
4672 5039 6.775708 ACCACCTTGTAGTTGTATGTTGTAT 58.224 36.000 0.00 0.00 0.00 2.29
4697 5064 8.679288 AAATTTCAATTATCTTTGCTCACGAG 57.321 30.769 0.00 0.00 0.00 4.18
4739 5106 6.145535 GTGAGTGATTTTGTCATCTTTGTCC 58.854 40.000 0.00 0.00 39.48 4.02


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

AutoCloner maintained by Alex Coulton.