Multiple sequence alignment - TraesCS7B01G267200

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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 TraesCS7B01G267200 chr7B 100.000 3547 0 0 1 3547 490428504 490432050 0.000000e+00 6551
1 TraesCS7B01G267200 chr7B 80.368 652 86 33 48 686 739581095 739580473 1.160000e-124 457
2 TraesCS7B01G267200 chr7D 93.528 2194 103 10 911 3093 465890456 465892621 0.000000e+00 3229
3 TraesCS7B01G267200 chr7D 94.600 463 18 5 3088 3547 465912807 465913265 0.000000e+00 710
4 TraesCS7B01G267200 chr7D 85.260 597 53 16 102 686 577908520 577907947 1.840000e-162 582
5 TraesCS7B01G267200 chr7A 90.847 1180 96 6 844 2022 533999266 533998098 0.000000e+00 1570
6 TraesCS7B01G267200 chr7A 90.407 1105 50 18 2019 3111 533998051 533996991 0.000000e+00 1402
7 TraesCS7B01G267200 chr7A 84.783 644 70 18 1 632 33336372 33336999 3.890000e-174 621
8 TraesCS7B01G267200 chr7A 83.910 665 80 22 1 651 275277958 275278609 8.420000e-171 610
9 TraesCS7B01G267200 chr7A 83.535 662 88 18 1 651 275235086 275235737 1.820000e-167 599
10 TraesCS7B01G267200 chr7A 86.220 508 32 20 3039 3517 533996992 533996494 1.890000e-142 516
11 TraesCS7B01G267200 chr5B 91.403 663 45 10 26 684 467048012 467048666 0.000000e+00 898
12 TraesCS7B01G267200 chr4A 88.696 690 50 12 1 684 493805028 493804361 0.000000e+00 817
13 TraesCS7B01G267200 chr6B 86.317 687 48 17 1 681 413917756 413918402 0.000000e+00 706
14 TraesCS7B01G267200 chr1B 84.169 638 78 19 55 681 32782123 32781498 6.550000e-167 597
15 TraesCS7B01G267200 chr3A 82.828 693 88 20 8 677 233896924 233897608 3.050000e-165 592
16 TraesCS7B01G267200 chr2B 85.971 556 56 18 68 611 708894509 708893964 3.070000e-160 575


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 TraesCS7B01G267200 chr7B 490428504 490432050 3546 False 6551.000000 6551 100.000 1 3547 1 chr7B.!!$F1 3546
1 TraesCS7B01G267200 chr7B 739580473 739581095 622 True 457.000000 457 80.368 48 686 1 chr7B.!!$R1 638
2 TraesCS7B01G267200 chr7D 465890456 465892621 2165 False 3229.000000 3229 93.528 911 3093 1 chr7D.!!$F1 2182
3 TraesCS7B01G267200 chr7D 577907947 577908520 573 True 582.000000 582 85.260 102 686 1 chr7D.!!$R1 584
4 TraesCS7B01G267200 chr7A 533996494 533999266 2772 True 1162.666667 1570 89.158 844 3517 3 chr7A.!!$R1 2673
5 TraesCS7B01G267200 chr7A 33336372 33336999 627 False 621.000000 621 84.783 1 632 1 chr7A.!!$F1 631
6 TraesCS7B01G267200 chr7A 275277958 275278609 651 False 610.000000 610 83.910 1 651 1 chr7A.!!$F3 650
7 TraesCS7B01G267200 chr7A 275235086 275235737 651 False 599.000000 599 83.535 1 651 1 chr7A.!!$F2 650
8 TraesCS7B01G267200 chr5B 467048012 467048666 654 False 898.000000 898 91.403 26 684 1 chr5B.!!$F1 658
9 TraesCS7B01G267200 chr4A 493804361 493805028 667 True 817.000000 817 88.696 1 684 1 chr4A.!!$R1 683
10 TraesCS7B01G267200 chr6B 413917756 413918402 646 False 706.000000 706 86.317 1 681 1 chr6B.!!$F1 680
11 TraesCS7B01G267200 chr1B 32781498 32782123 625 True 597.000000 597 84.169 55 681 1 chr1B.!!$R1 626
12 TraesCS7B01G267200 chr3A 233896924 233897608 684 False 592.000000 592 82.828 8 677 1 chr3A.!!$F1 669
13 TraesCS7B01G267200 chr2B 708893964 708894509 545 True 575.000000 575 85.971 68 611 1 chr2B.!!$R1 543

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
831 891 0.034896 ACAGTTCAGTTACCGGGCTG 59.965 55.0 6.32 11.49 0.0 4.85 F
1473 1543 0.041238 TGGAGGTGACGAAGGAGGAT 59.959 55.0 0.00 0.00 0.0 3.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2393 2515 0.465705 TCTCATCCTGTTCATCCGCC 59.534 55.0 0.00 0.0 0.0 6.13 R
3323 3547 0.107945 GCTCCGGAAGTTCAGATGCT 60.108 55.0 5.23 0.0 0.0 3.79 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
53 55 2.241259 TTTCAGCGCGCAAACTAATC 57.759 45.000 35.10 0.00 0.00 1.75
236 248 8.870160 TGTGTAAGGAGAACAATTTTTGAATG 57.130 30.769 0.00 0.00 0.00 2.67
560 617 0.460459 GGCTGGGAACGCTCTAGAAC 60.460 60.000 0.00 0.00 0.00 3.01
684 744 0.657368 GCGGCAAATAGGAAATCGCG 60.657 55.000 0.00 0.00 32.72 5.87
685 745 0.655733 CGGCAAATAGGAAATCGCGT 59.344 50.000 5.77 0.00 0.00 6.01
686 746 1.332904 CGGCAAATAGGAAATCGCGTC 60.333 52.381 5.77 0.00 0.00 5.19
687 747 1.332904 GGCAAATAGGAAATCGCGTCG 60.333 52.381 5.77 0.00 0.00 5.12
688 748 1.915965 GCAAATAGGAAATCGCGTCGC 60.916 52.381 7.29 7.29 0.00 5.19
689 749 0.935196 AAATAGGAAATCGCGTCGCC 59.065 50.000 12.44 3.86 0.00 5.54
690 750 1.213094 AATAGGAAATCGCGTCGCCG 61.213 55.000 12.44 7.18 37.07 6.46
691 751 2.345880 ATAGGAAATCGCGTCGCCGT 62.346 55.000 12.44 1.21 36.15 5.68
692 752 1.713937 TAGGAAATCGCGTCGCCGTA 61.714 55.000 12.44 0.20 36.15 4.02
693 753 2.574222 GGAAATCGCGTCGCCGTAG 61.574 63.158 12.44 0.00 36.15 3.51
694 754 1.584483 GAAATCGCGTCGCCGTAGA 60.584 57.895 12.44 3.07 36.15 2.59
695 755 1.795432 GAAATCGCGTCGCCGTAGAC 61.795 60.000 12.44 0.00 37.76 2.59
701 761 2.021106 GTCGCCGTAGACGTCTCG 59.979 66.667 23.89 22.90 37.74 4.04
702 762 2.433145 TCGCCGTAGACGTCTCGT 60.433 61.111 23.89 0.16 45.10 4.18
715 775 4.379221 CTCGTCGACGGGAATGTC 57.621 61.111 33.64 0.00 43.86 3.06
716 776 1.801332 CTCGTCGACGGGAATGTCT 59.199 57.895 33.64 0.00 43.86 3.41
717 777 0.248134 CTCGTCGACGGGAATGTCTC 60.248 60.000 33.64 0.00 43.86 3.36
718 778 1.226603 CGTCGACGGGAATGTCTCC 60.227 63.158 29.70 0.00 44.54 3.71
728 788 3.857549 GGAATGTCTCCCTTCAAAAGC 57.142 47.619 0.00 0.00 38.44 3.51
729 789 2.162408 GGAATGTCTCCCTTCAAAAGCG 59.838 50.000 0.00 0.00 38.44 4.68
730 790 1.168714 ATGTCTCCCTTCAAAAGCGC 58.831 50.000 0.00 0.00 0.00 5.92
731 791 0.889186 TGTCTCCCTTCAAAAGCGCC 60.889 55.000 2.29 0.00 0.00 6.53
732 792 1.303317 TCTCCCTTCAAAAGCGCCC 60.303 57.895 2.29 0.00 0.00 6.13
733 793 1.603455 CTCCCTTCAAAAGCGCCCA 60.603 57.895 2.29 0.00 0.00 5.36
734 794 1.866853 CTCCCTTCAAAAGCGCCCAC 61.867 60.000 2.29 0.00 0.00 4.61
735 795 1.903404 CCCTTCAAAAGCGCCCACT 60.903 57.895 2.29 0.00 0.00 4.00
736 796 1.286880 CCTTCAAAAGCGCCCACTG 59.713 57.895 2.29 0.00 0.00 3.66
737 797 1.372128 CTTCAAAAGCGCCCACTGC 60.372 57.895 2.29 0.00 0.00 4.40
738 798 2.753931 CTTCAAAAGCGCCCACTGCC 62.754 60.000 2.29 0.00 36.24 4.85
739 799 4.362476 CAAAAGCGCCCACTGCCC 62.362 66.667 2.29 0.00 36.24 5.36
754 814 4.939368 CCCCGGCCACGTGAACAA 62.939 66.667 19.30 0.00 38.78 2.83
755 815 2.902846 CCCGGCCACGTGAACAAA 60.903 61.111 19.30 0.00 38.78 2.83
756 816 2.482333 CCCGGCCACGTGAACAAAA 61.482 57.895 19.30 0.00 38.78 2.44
757 817 1.433879 CCGGCCACGTGAACAAAAA 59.566 52.632 19.30 0.00 38.78 1.94
758 818 0.868177 CCGGCCACGTGAACAAAAAC 60.868 55.000 19.30 0.00 38.78 2.43
759 819 0.868177 CGGCCACGTGAACAAAAACC 60.868 55.000 19.30 4.15 34.81 3.27
760 820 0.458260 GGCCACGTGAACAAAAACCT 59.542 50.000 19.30 0.00 0.00 3.50
761 821 1.677052 GGCCACGTGAACAAAAACCTA 59.323 47.619 19.30 0.00 0.00 3.08
762 822 2.099427 GGCCACGTGAACAAAAACCTAA 59.901 45.455 19.30 0.00 0.00 2.69
763 823 3.368495 GCCACGTGAACAAAAACCTAAG 58.632 45.455 19.30 0.00 0.00 2.18
764 824 3.368495 CCACGTGAACAAAAACCTAAGC 58.632 45.455 19.30 0.00 0.00 3.09
765 825 3.368495 CACGTGAACAAAAACCTAAGCC 58.632 45.455 10.90 0.00 0.00 4.35
766 826 2.032426 ACGTGAACAAAAACCTAAGCCG 59.968 45.455 0.00 0.00 0.00 5.52
767 827 2.603652 CGTGAACAAAAACCTAAGCCGG 60.604 50.000 0.00 0.00 0.00 6.13
768 828 1.338655 TGAACAAAAACCTAAGCCGGC 59.661 47.619 21.89 21.89 0.00 6.13
769 829 0.677288 AACAAAAACCTAAGCCGGCC 59.323 50.000 26.15 5.07 0.00 6.13
770 830 0.468400 ACAAAAACCTAAGCCGGCCA 60.468 50.000 26.15 11.01 0.00 5.36
771 831 0.894835 CAAAAACCTAAGCCGGCCAT 59.105 50.000 26.15 15.94 0.00 4.40
772 832 2.096248 CAAAAACCTAAGCCGGCCATA 58.904 47.619 26.15 16.26 0.00 2.74
773 833 2.693074 CAAAAACCTAAGCCGGCCATAT 59.307 45.455 26.15 10.05 0.00 1.78
774 834 2.748209 AAACCTAAGCCGGCCATATT 57.252 45.000 26.15 13.90 0.00 1.28
775 835 2.748209 AACCTAAGCCGGCCATATTT 57.252 45.000 26.15 13.46 0.00 1.40
776 836 1.981256 ACCTAAGCCGGCCATATTTG 58.019 50.000 26.15 11.72 0.00 2.32
777 837 1.214424 ACCTAAGCCGGCCATATTTGT 59.786 47.619 26.15 8.83 0.00 2.83
778 838 2.306847 CCTAAGCCGGCCATATTTGTT 58.693 47.619 26.15 10.96 0.00 2.83
779 839 2.293399 CCTAAGCCGGCCATATTTGTTC 59.707 50.000 26.15 0.00 0.00 3.18
780 840 0.738389 AAGCCGGCCATATTTGTTCG 59.262 50.000 26.15 0.00 0.00 3.95
781 841 1.299089 GCCGGCCATATTTGTTCGC 60.299 57.895 18.11 0.00 0.00 4.70
782 842 1.010125 CCGGCCATATTTGTTCGCG 60.010 57.895 2.24 0.00 0.00 5.87
783 843 1.711060 CCGGCCATATTTGTTCGCGT 61.711 55.000 5.77 0.00 0.00 6.01
784 844 0.098025 CGGCCATATTTGTTCGCGTT 59.902 50.000 5.77 0.00 0.00 4.84
785 845 1.466697 CGGCCATATTTGTTCGCGTTT 60.467 47.619 5.77 0.00 0.00 3.60
786 846 1.917303 GGCCATATTTGTTCGCGTTTG 59.083 47.619 5.77 0.00 0.00 2.93
787 847 1.320259 GCCATATTTGTTCGCGTTTGC 59.680 47.619 5.77 0.00 37.91 3.68
797 857 2.560861 GCGTTTGCGATCCAAGCA 59.439 55.556 9.97 1.58 43.59 3.91
798 858 1.512734 GCGTTTGCGATCCAAGCAG 60.513 57.895 9.97 5.55 46.01 4.24
799 859 1.135315 CGTTTGCGATCCAAGCAGG 59.865 57.895 9.97 0.00 46.01 4.85
800 860 1.153958 GTTTGCGATCCAAGCAGGC 60.154 57.895 0.00 0.00 46.01 4.85
801 861 2.342650 TTTGCGATCCAAGCAGGCC 61.343 57.895 0.00 0.00 46.01 5.19
802 862 3.565961 TTGCGATCCAAGCAGGCCA 62.566 57.895 5.01 0.00 46.01 5.36
803 863 3.512516 GCGATCCAAGCAGGCCAC 61.513 66.667 5.01 0.00 37.29 5.01
804 864 2.046023 CGATCCAAGCAGGCCACA 60.046 61.111 5.01 0.00 37.29 4.17
805 865 1.675310 CGATCCAAGCAGGCCACAA 60.675 57.895 5.01 0.00 37.29 3.33
806 866 1.651240 CGATCCAAGCAGGCCACAAG 61.651 60.000 5.01 0.00 37.29 3.16
807 867 0.610232 GATCCAAGCAGGCCACAAGT 60.610 55.000 5.01 0.00 37.29 3.16
808 868 0.896940 ATCCAAGCAGGCCACAAGTG 60.897 55.000 5.01 0.00 37.29 3.16
809 869 2.337532 CAAGCAGGCCACAAGTGC 59.662 61.111 5.01 5.48 37.48 4.40
810 870 2.123769 AAGCAGGCCACAAGTGCA 60.124 55.556 15.53 0.00 39.80 4.57
811 871 2.198287 AAGCAGGCCACAAGTGCAG 61.198 57.895 15.53 0.00 39.80 4.41
812 872 2.595463 GCAGGCCACAAGTGCAGA 60.595 61.111 5.01 0.00 37.16 4.26
813 873 2.912624 GCAGGCCACAAGTGCAGAC 61.913 63.158 5.01 0.00 37.16 3.51
814 874 1.526686 CAGGCCACAAGTGCAGACA 60.527 57.895 5.01 0.00 0.00 3.41
815 875 1.228063 AGGCCACAAGTGCAGACAG 60.228 57.895 5.01 0.00 0.00 3.51
816 876 1.526917 GGCCACAAGTGCAGACAGT 60.527 57.895 0.00 0.00 0.00 3.55
817 877 1.103398 GGCCACAAGTGCAGACAGTT 61.103 55.000 0.00 0.00 40.15 3.16
818 878 0.308993 GCCACAAGTGCAGACAGTTC 59.691 55.000 0.00 0.00 37.34 3.01
819 879 1.667236 CCACAAGTGCAGACAGTTCA 58.333 50.000 0.00 0.00 37.34 3.18
820 880 1.600957 CCACAAGTGCAGACAGTTCAG 59.399 52.381 0.00 0.00 37.34 3.02
821 881 2.283298 CACAAGTGCAGACAGTTCAGT 58.717 47.619 0.00 0.00 37.34 3.41
822 882 2.679837 CACAAGTGCAGACAGTTCAGTT 59.320 45.455 0.00 0.00 37.34 3.16
823 883 3.871006 CACAAGTGCAGACAGTTCAGTTA 59.129 43.478 0.00 0.00 37.34 2.24
824 884 3.871594 ACAAGTGCAGACAGTTCAGTTAC 59.128 43.478 0.00 0.00 37.34 2.50
825 885 3.113260 AGTGCAGACAGTTCAGTTACC 57.887 47.619 0.00 0.00 0.00 2.85
826 886 1.792949 GTGCAGACAGTTCAGTTACCG 59.207 52.381 0.00 0.00 0.00 4.02
827 887 1.270094 TGCAGACAGTTCAGTTACCGG 60.270 52.381 0.00 0.00 0.00 5.28
828 888 1.939838 GCAGACAGTTCAGTTACCGGG 60.940 57.143 6.32 0.00 0.00 5.73
829 889 0.320697 AGACAGTTCAGTTACCGGGC 59.679 55.000 6.32 0.00 0.00 6.13
830 890 0.320697 GACAGTTCAGTTACCGGGCT 59.679 55.000 6.32 0.00 0.00 5.19
831 891 0.034896 ACAGTTCAGTTACCGGGCTG 59.965 55.000 6.32 11.49 0.00 4.85
832 892 0.320374 CAGTTCAGTTACCGGGCTGA 59.680 55.000 17.76 17.76 39.66 4.26
833 893 1.053424 AGTTCAGTTACCGGGCTGAA 58.947 50.000 24.65 24.65 45.88 3.02
835 895 2.107950 TTCAGTTACCGGGCTGAATG 57.892 50.000 24.65 10.67 44.01 2.67
836 896 1.271856 TCAGTTACCGGGCTGAATGA 58.728 50.000 18.89 8.45 38.61 2.57
837 897 1.626321 TCAGTTACCGGGCTGAATGAA 59.374 47.619 18.89 1.53 38.61 2.57
838 898 2.238646 TCAGTTACCGGGCTGAATGAAT 59.761 45.455 18.89 0.00 38.61 2.57
839 899 2.614057 CAGTTACCGGGCTGAATGAATC 59.386 50.000 6.32 0.00 34.87 2.52
840 900 1.947456 GTTACCGGGCTGAATGAATCC 59.053 52.381 6.32 0.00 0.00 3.01
841 901 1.208706 TACCGGGCTGAATGAATCCA 58.791 50.000 6.32 0.00 0.00 3.41
842 902 0.107017 ACCGGGCTGAATGAATCCAG 60.107 55.000 6.32 0.00 0.00 3.86
863 923 0.456221 CTGGTCTACCCACGTAGCAG 59.544 60.000 0.00 0.00 41.62 4.24
886 946 3.746792 AGCCTAAAAAGCCCAGATCTT 57.253 42.857 0.00 0.00 0.00 2.40
887 947 4.862641 AGCCTAAAAAGCCCAGATCTTA 57.137 40.909 0.00 0.00 0.00 2.10
934 995 1.348775 CCCCACTCTCCCTCCATTCC 61.349 65.000 0.00 0.00 0.00 3.01
961 1022 1.671379 GTCGCCTCCCACTCCAAAC 60.671 63.158 0.00 0.00 0.00 2.93
962 1023 2.144078 TCGCCTCCCACTCCAAACA 61.144 57.895 0.00 0.00 0.00 2.83
963 1024 1.966451 CGCCTCCCACTCCAAACAC 60.966 63.158 0.00 0.00 0.00 3.32
1066 1136 4.361971 TCTCCAGCGAGTCCCCGT 62.362 66.667 0.00 0.00 37.40 5.28
1106 1176 2.125912 CCTGGTTCTCGCAGACCG 60.126 66.667 0.00 0.00 38.61 4.79
1113 1183 0.245266 TTCTCGCAGACCGCAACATA 59.755 50.000 0.00 0.00 42.60 2.29
1143 1213 3.519930 GTCTCCCTCCGCCTCGTC 61.520 72.222 0.00 0.00 0.00 4.20
1179 1249 2.401766 GGTCGCCTTCGAGGTCGTA 61.402 63.158 0.00 0.00 46.46 3.43
1340 1410 2.683933 GGAGGAGGAGGCGGTTGA 60.684 66.667 0.00 0.00 0.00 3.18
1441 1511 2.997897 AAAGGGAGAGGCGAGCGT 60.998 61.111 0.00 0.00 0.00 5.07
1473 1543 0.041238 TGGAGGTGACGAAGGAGGAT 59.959 55.000 0.00 0.00 0.00 3.24
1568 1638 0.535102 CCGGTTCAAGGTGAGCTTGT 60.535 55.000 22.00 0.00 33.84 3.16
1607 1677 5.881443 CCTTTCAGAGAGAGAATGCAATCTT 59.119 40.000 5.59 0.00 0.00 2.40
1608 1678 6.037391 CCTTTCAGAGAGAGAATGCAATCTTC 59.963 42.308 5.59 5.89 0.00 2.87
1609 1679 5.672421 TCAGAGAGAGAATGCAATCTTCA 57.328 39.130 5.59 0.00 0.00 3.02
1632 1702 0.543174 CCGGGAAATTTGTTGGGGGA 60.543 55.000 0.00 0.00 0.00 4.81
1655 1725 6.703165 GGAAATGTTGCAGAGAGAAATTGTTT 59.297 34.615 0.00 0.00 0.00 2.83
1742 1813 4.576463 GCCTCTTATGGTTAGGATGTGTTG 59.424 45.833 0.00 0.00 31.64 3.33
1753 1824 6.386654 GTTAGGATGTGTTGGTTATTGGTTG 58.613 40.000 0.00 0.00 0.00 3.77
1754 1825 3.258123 AGGATGTGTTGGTTATTGGTTGC 59.742 43.478 0.00 0.00 0.00 4.17
1766 1837 7.116075 TGGTTATTGGTTGCTGATAGTACATT 58.884 34.615 0.00 0.00 0.00 2.71
1774 1845 7.173562 TGGTTGCTGATAGTACATTTTTAACGT 59.826 33.333 0.00 0.00 0.00 3.99
1781 1852 9.811995 TGATAGTACATTTTTAACGTCTGCTAT 57.188 29.630 0.00 0.00 0.00 2.97
1902 1974 2.538861 CGAGTCTGCTTCATACATGCTG 59.461 50.000 0.00 0.00 0.00 4.41
2016 2088 2.554893 GGTAATTTCGTTGGTGCTTCCA 59.445 45.455 0.00 0.00 45.60 3.53
2032 2154 7.153315 GGTGCTTCCATACTAAGGAGTATAAC 58.847 42.308 0.00 0.00 45.42 1.89
2034 2156 9.075678 GTGCTTCCATACTAAGGAGTATAACTA 57.924 37.037 0.00 0.00 45.42 2.24
2094 2216 5.163447 GAATTTGACAATTACCCTAAGGGCC 60.163 44.000 0.00 0.00 38.43 5.80
2165 2287 1.530293 GGCAGCGATGATGAAGATGAC 59.470 52.381 4.02 0.00 0.00 3.06
2208 2330 3.119352 ACGTAAATCAAGGGGTCGTAGTC 60.119 47.826 0.00 0.00 0.00 2.59
2233 2355 6.202226 GTGCGAACAAGAAGAAGAAAAAGAT 58.798 36.000 0.00 0.00 0.00 2.40
2273 2395 1.474478 GAGTGGACTGATGAGAGCGAA 59.526 52.381 0.00 0.00 0.00 4.70
2286 2408 3.006859 TGAGAGCGAAGATGGAAAAGACA 59.993 43.478 0.00 0.00 0.00 3.41
2372 2494 1.048601 AACCTCGCAAGGAGAACTCA 58.951 50.000 0.00 0.00 46.67 3.41
2393 2515 7.584987 ACTCAAAAACAGAAAATGAGGATACG 58.415 34.615 6.11 0.00 41.34 3.06
2466 2597 4.404715 TGGGAGGTTTTATAGTCGGAGAAG 59.595 45.833 0.00 0.00 39.69 2.85
2467 2598 4.648307 GGGAGGTTTTATAGTCGGAGAAGA 59.352 45.833 0.00 0.00 39.69 2.87
2468 2599 5.221283 GGGAGGTTTTATAGTCGGAGAAGAG 60.221 48.000 0.00 0.00 39.69 2.85
2469 2600 5.221283 GGAGGTTTTATAGTCGGAGAAGAGG 60.221 48.000 0.00 0.00 39.69 3.69
2470 2601 5.516984 AGGTTTTATAGTCGGAGAAGAGGA 58.483 41.667 0.00 0.00 39.69 3.71
2471 2602 6.137559 AGGTTTTATAGTCGGAGAAGAGGAT 58.862 40.000 0.00 0.00 39.69 3.24
2558 2689 1.910880 CGACTGATAGCAACGTCGC 59.089 57.895 9.40 0.00 41.97 5.19
2590 2721 1.337703 TGCTTTCATGTCAAGGTGTGC 59.662 47.619 8.78 0.00 0.00 4.57
2612 2743 4.115516 CTGAATTCGATGATGAAGACGGT 58.884 43.478 0.04 0.00 0.00 4.83
2721 2852 5.996219 TGAAACTGTGTACATATTGTGTGC 58.004 37.500 0.00 0.00 42.24 4.57
2763 2894 5.852282 AACTGTTGTGGAAGTGCTTATTT 57.148 34.783 0.00 0.00 0.00 1.40
2771 2902 3.640967 TGGAAGTGCTTATTTGGCTGTTT 59.359 39.130 0.00 0.00 0.00 2.83
2786 2917 8.410673 TTTGGCTGTTTTTATATCCAGTTACA 57.589 30.769 0.00 0.00 0.00 2.41
2849 2980 4.994217 TCAGTACAGATGCGTTGATTTTCA 59.006 37.500 0.00 0.00 0.00 2.69
2868 2999 9.211485 GATTTTCATCTATTATTTGCATTGGGG 57.789 33.333 0.00 0.00 0.00 4.96
2870 3001 7.673641 TTCATCTATTATTTGCATTGGGGTT 57.326 32.000 0.00 0.00 0.00 4.11
2871 3002 7.288810 TCATCTATTATTTGCATTGGGGTTC 57.711 36.000 0.00 0.00 0.00 3.62
2938 3071 2.143122 GCCTGTGACGAAATCAAGACA 58.857 47.619 0.00 0.00 39.72 3.41
3088 3291 7.170658 AGACTTCTTTTTGAGAGATCAACGAAG 59.829 37.037 15.23 15.23 36.20 3.79
3116 3319 6.601332 ACTTGAAATGGAGTAGTCCTGAAAA 58.399 36.000 17.62 5.41 44.30 2.29
3127 3345 4.437682 AGTCCTGAAAACACCATTCTGA 57.562 40.909 0.00 0.00 0.00 3.27
3131 3349 4.036262 TCCTGAAAACACCATTCTGAAACG 59.964 41.667 0.00 0.00 0.00 3.60
3136 3354 3.208747 ACACCATTCTGAAACGTTCCT 57.791 42.857 0.00 0.00 0.00 3.36
3155 3373 7.041576 ACGTTCCTAGTTCCTACAAATCAAAAC 60.042 37.037 0.00 0.00 0.00 2.43
3160 3378 5.816919 AGTTCCTACAAATCAAAACACACG 58.183 37.500 0.00 0.00 0.00 4.49
3165 3383 6.706716 TCCTACAAATCAAAACACACGTCATA 59.293 34.615 0.00 0.00 0.00 2.15
3174 3396 3.319137 ACACACGTCATAATCACAGCT 57.681 42.857 0.00 0.00 0.00 4.24
3184 3406 8.296713 ACGTCATAATCACAGCTTTTTAATGTT 58.703 29.630 0.00 0.00 0.00 2.71
3188 3410 9.520204 CATAATCACAGCTTTTTAATGTTAGGG 57.480 33.333 0.00 0.00 0.00 3.53
3190 3412 8.644374 AATCACAGCTTTTTAATGTTAGGGTA 57.356 30.769 0.00 0.00 0.00 3.69
3191 3413 8.823220 ATCACAGCTTTTTAATGTTAGGGTAT 57.177 30.769 0.00 0.00 0.00 2.73
3204 3426 4.981647 TGTTAGGGTATCCATCCCAGATTT 59.018 41.667 0.00 0.00 46.82 2.17
3228 3451 3.313274 TCGAACGCTGAAGAAACAAAC 57.687 42.857 0.00 0.00 0.00 2.93
3236 3459 5.758296 ACGCTGAAGAAACAAACTAGAATGA 59.242 36.000 0.00 0.00 0.00 2.57
3298 3522 5.447279 CGTCAGCCCAATACAAGTAATGAAC 60.447 44.000 0.00 0.00 0.00 3.18
3321 3545 0.032952 GATGCATCGGCGGTACCTAA 59.967 55.000 11.68 0.00 45.35 2.69
3322 3546 0.466543 ATGCATCGGCGGTACCTAAA 59.533 50.000 10.90 0.00 45.35 1.85
3323 3547 0.249676 TGCATCGGCGGTACCTAAAA 59.750 50.000 10.90 0.00 45.35 1.52
3343 3567 0.391661 GCATCTGAACTTCCGGAGCA 60.392 55.000 3.34 1.07 0.00 4.26
3353 3577 0.175760 TTCCGGAGCATACTGACTGC 59.824 55.000 3.34 0.00 39.97 4.40
3355 3579 1.680522 CCGGAGCATACTGACTGCCT 61.681 60.000 0.00 0.00 40.56 4.75
3356 3580 0.529337 CGGAGCATACTGACTGCCTG 60.529 60.000 0.00 0.00 40.56 4.85
3358 3582 1.472376 GGAGCATACTGACTGCCTGTC 60.472 57.143 0.00 0.00 45.54 3.51
3383 3607 1.303236 TTCCACACCTTGCATCCCG 60.303 57.895 0.00 0.00 0.00 5.14
3438 3662 2.609459 ACGCAGAATCCGAATTAGCAAG 59.391 45.455 0.00 0.00 0.00 4.01
3454 3678 4.220693 AGCAAGGACAAGCACACATATA 57.779 40.909 0.00 0.00 0.00 0.86
3482 3709 5.105756 ACCATAATCAAACTGCAAAGCTACC 60.106 40.000 0.00 0.00 0.00 3.18
3497 3724 0.533755 CTACCATGCCCTGCTGCTAC 60.534 60.000 0.00 0.00 0.00 3.58
3498 3725 0.982852 TACCATGCCCTGCTGCTACT 60.983 55.000 0.00 0.00 0.00 2.57
3499 3726 0.982852 ACCATGCCCTGCTGCTACTA 60.983 55.000 0.00 0.00 0.00 1.82
3500 3727 0.533755 CCATGCCCTGCTGCTACTAC 60.534 60.000 0.00 0.00 0.00 2.73
3501 3728 0.467384 CATGCCCTGCTGCTACTACT 59.533 55.000 0.00 0.00 0.00 2.57
3502 3729 1.688735 CATGCCCTGCTGCTACTACTA 59.311 52.381 0.00 0.00 0.00 1.82
3506 3733 3.181465 TGCCCTGCTGCTACTACTAAATC 60.181 47.826 0.00 0.00 0.00 2.17
3507 3734 3.070302 GCCCTGCTGCTACTACTAAATCT 59.930 47.826 0.00 0.00 0.00 2.40
3508 3735 4.281182 GCCCTGCTGCTACTACTAAATCTA 59.719 45.833 0.00 0.00 0.00 1.98
3509 3736 5.774630 CCCTGCTGCTACTACTAAATCTAC 58.225 45.833 0.00 0.00 0.00 2.59
3510 3737 5.536916 CCCTGCTGCTACTACTAAATCTACT 59.463 44.000 0.00 0.00 0.00 2.57
3511 3738 6.715718 CCCTGCTGCTACTACTAAATCTACTA 59.284 42.308 0.00 0.00 0.00 1.82
3512 3739 7.094549 CCCTGCTGCTACTACTAAATCTACTAG 60.095 44.444 0.00 0.00 0.00 2.57
3513 3740 7.446013 CCTGCTGCTACTACTAAATCTACTAGT 59.554 40.741 0.00 0.00 34.08 2.57
3514 3741 9.491675 CTGCTGCTACTACTAAATCTACTAGTA 57.508 37.037 1.89 1.89 31.98 1.82
3540 3767 8.975663 ATACTGAAGTGATCATGATGAATTGT 57.024 30.769 14.30 8.11 37.44 2.71
3541 3768 7.085052 ACTGAAGTGATCATGATGAATTGTG 57.915 36.000 14.30 7.65 37.44 3.33
3542 3769 5.886992 TGAAGTGATCATGATGAATTGTGC 58.113 37.500 14.30 0.00 31.50 4.57
3543 3770 5.650703 TGAAGTGATCATGATGAATTGTGCT 59.349 36.000 14.30 0.00 31.50 4.40
3544 3771 5.500645 AGTGATCATGATGAATTGTGCTG 57.499 39.130 14.30 0.00 0.00 4.41
3545 3772 5.190677 AGTGATCATGATGAATTGTGCTGA 58.809 37.500 14.30 0.00 0.00 4.26
3546 3773 5.297029 AGTGATCATGATGAATTGTGCTGAG 59.703 40.000 14.30 0.00 0.00 3.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
218 230 6.748132 TCTCCACATTCAAAAATTGTTCTCC 58.252 36.000 0.00 0.00 0.00 3.71
236 248 9.581099 TTCAGTTTTTAGAAAAATGTTCTCCAC 57.419 29.630 11.70 0.00 39.75 4.02
377 414 8.477984 TTCTTTCAGTTTTCCATTTCAAGTTG 57.522 30.769 0.00 0.00 0.00 3.16
387 424 9.936759 ACTTATTTGTTTTCTTTCAGTTTTCCA 57.063 25.926 0.00 0.00 0.00 3.53
533 588 2.325082 CGTTCCCAGCCGGTTCTTG 61.325 63.158 1.90 0.00 0.00 3.02
560 617 0.676782 AGCTTCCGGTTTTGGGATCG 60.677 55.000 0.00 0.00 32.58 3.69
696 756 0.522915 GACATTCCCGTCGACGAGAC 60.523 60.000 37.65 15.36 46.16 3.36
697 757 0.675837 AGACATTCCCGTCGACGAGA 60.676 55.000 37.65 28.72 43.02 4.04
698 758 0.248134 GAGACATTCCCGTCGACGAG 60.248 60.000 37.65 26.69 43.02 4.18
699 759 1.651240 GGAGACATTCCCGTCGACGA 61.651 60.000 37.65 19.79 40.37 4.20
700 760 1.226603 GGAGACATTCCCGTCGACG 60.227 63.158 30.33 30.33 40.37 5.12
701 761 4.808649 GGAGACATTCCCGTCGAC 57.191 61.111 5.18 5.18 40.37 4.20
710 770 1.541588 GCGCTTTTGAAGGGAGACATT 59.458 47.619 0.00 0.00 43.53 2.71
711 771 1.168714 GCGCTTTTGAAGGGAGACAT 58.831 50.000 0.00 0.00 43.53 3.06
712 772 0.889186 GGCGCTTTTGAAGGGAGACA 60.889 55.000 7.64 0.00 43.53 3.41
713 773 1.587043 GGGCGCTTTTGAAGGGAGAC 61.587 60.000 7.64 0.00 43.53 3.36
714 774 1.303317 GGGCGCTTTTGAAGGGAGA 60.303 57.895 7.64 0.00 43.53 3.71
715 775 1.603455 TGGGCGCTTTTGAAGGGAG 60.603 57.895 7.64 0.00 43.53 4.30
716 776 1.901464 GTGGGCGCTTTTGAAGGGA 60.901 57.895 7.64 0.00 43.53 4.20
717 777 1.903404 AGTGGGCGCTTTTGAAGGG 60.903 57.895 7.64 0.88 43.66 3.95
718 778 1.286880 CAGTGGGCGCTTTTGAAGG 59.713 57.895 7.64 0.00 0.00 3.46
719 779 1.372128 GCAGTGGGCGCTTTTGAAG 60.372 57.895 7.64 0.00 0.00 3.02
720 780 2.727544 GCAGTGGGCGCTTTTGAA 59.272 55.556 7.64 0.00 0.00 2.69
721 781 3.294493 GGCAGTGGGCGCTTTTGA 61.294 61.111 7.64 0.00 46.16 2.69
737 797 4.939368 TTGTTCACGTGGCCGGGG 62.939 66.667 17.00 0.00 38.30 5.73
738 798 2.005960 TTTTTGTTCACGTGGCCGGG 62.006 55.000 17.00 0.00 39.43 5.73
739 799 0.868177 GTTTTTGTTCACGTGGCCGG 60.868 55.000 17.00 0.00 38.78 6.13
740 800 0.868177 GGTTTTTGTTCACGTGGCCG 60.868 55.000 17.00 0.00 40.83 6.13
741 801 0.458260 AGGTTTTTGTTCACGTGGCC 59.542 50.000 17.00 7.07 0.00 5.36
742 802 3.368495 CTTAGGTTTTTGTTCACGTGGC 58.632 45.455 17.00 9.81 0.00 5.01
743 803 3.368495 GCTTAGGTTTTTGTTCACGTGG 58.632 45.455 17.00 0.00 0.00 4.94
744 804 3.368495 GGCTTAGGTTTTTGTTCACGTG 58.632 45.455 9.94 9.94 0.00 4.49
745 805 2.032426 CGGCTTAGGTTTTTGTTCACGT 59.968 45.455 0.00 0.00 0.00 4.49
746 806 2.603652 CCGGCTTAGGTTTTTGTTCACG 60.604 50.000 0.00 0.00 0.00 4.35
747 807 2.860971 GCCGGCTTAGGTTTTTGTTCAC 60.861 50.000 22.15 0.00 0.00 3.18
748 808 1.338655 GCCGGCTTAGGTTTTTGTTCA 59.661 47.619 22.15 0.00 0.00 3.18
749 809 1.336517 GGCCGGCTTAGGTTTTTGTTC 60.337 52.381 28.56 0.00 0.00 3.18
750 810 0.677288 GGCCGGCTTAGGTTTTTGTT 59.323 50.000 28.56 0.00 0.00 2.83
751 811 0.468400 TGGCCGGCTTAGGTTTTTGT 60.468 50.000 28.56 0.00 0.00 2.83
752 812 0.894835 ATGGCCGGCTTAGGTTTTTG 59.105 50.000 28.56 0.00 0.00 2.44
753 813 2.517998 TATGGCCGGCTTAGGTTTTT 57.482 45.000 28.56 2.26 0.00 1.94
754 814 2.748209 ATATGGCCGGCTTAGGTTTT 57.252 45.000 28.56 3.00 0.00 2.43
755 815 2.693074 CAAATATGGCCGGCTTAGGTTT 59.307 45.455 28.56 17.36 0.00 3.27
756 816 2.306847 CAAATATGGCCGGCTTAGGTT 58.693 47.619 28.56 12.73 0.00 3.50
757 817 1.214424 ACAAATATGGCCGGCTTAGGT 59.786 47.619 28.56 12.70 0.00 3.08
758 818 1.981256 ACAAATATGGCCGGCTTAGG 58.019 50.000 28.56 12.03 0.00 2.69
759 819 2.032030 CGAACAAATATGGCCGGCTTAG 60.032 50.000 28.56 11.82 0.00 2.18
760 820 1.944024 CGAACAAATATGGCCGGCTTA 59.056 47.619 28.56 18.70 0.00 3.09
761 821 0.738389 CGAACAAATATGGCCGGCTT 59.262 50.000 28.56 16.98 0.00 4.35
762 822 1.724582 GCGAACAAATATGGCCGGCT 61.725 55.000 28.56 10.45 0.00 5.52
763 823 1.299089 GCGAACAAATATGGCCGGC 60.299 57.895 21.18 21.18 0.00 6.13
764 824 1.010125 CGCGAACAAATATGGCCGG 60.010 57.895 0.00 0.00 0.00 6.13
765 825 0.098025 AACGCGAACAAATATGGCCG 59.902 50.000 15.93 0.00 0.00 6.13
766 826 1.917303 CAAACGCGAACAAATATGGCC 59.083 47.619 15.93 0.00 0.00 5.36
767 827 1.320259 GCAAACGCGAACAAATATGGC 59.680 47.619 15.93 0.00 0.00 4.40
780 840 1.512734 CTGCTTGGATCGCAAACGC 60.513 57.895 0.00 0.00 39.84 4.84
781 841 1.135315 CCTGCTTGGATCGCAAACG 59.865 57.895 0.00 0.00 36.88 3.60
782 842 1.153958 GCCTGCTTGGATCGCAAAC 60.154 57.895 0.49 0.00 36.88 2.93
783 843 2.342650 GGCCTGCTTGGATCGCAAA 61.343 57.895 0.00 0.00 36.88 3.68
784 844 2.751436 GGCCTGCTTGGATCGCAA 60.751 61.111 0.00 0.00 36.88 4.85
785 845 4.032452 TGGCCTGCTTGGATCGCA 62.032 61.111 3.32 0.00 38.35 5.10
786 846 3.512516 GTGGCCTGCTTGGATCGC 61.513 66.667 3.32 0.00 38.35 4.58
787 847 1.651240 CTTGTGGCCTGCTTGGATCG 61.651 60.000 3.32 0.00 38.35 3.69
788 848 0.610232 ACTTGTGGCCTGCTTGGATC 60.610 55.000 3.32 0.00 38.35 3.36
789 849 0.896940 CACTTGTGGCCTGCTTGGAT 60.897 55.000 3.32 0.00 38.35 3.41
790 850 1.529010 CACTTGTGGCCTGCTTGGA 60.529 57.895 3.32 0.00 38.35 3.53
791 851 3.045142 CACTTGTGGCCTGCTTGG 58.955 61.111 3.32 0.00 39.35 3.61
792 852 2.337532 GCACTTGTGGCCTGCTTG 59.662 61.111 3.32 0.00 0.00 4.01
793 853 2.123769 TGCACTTGTGGCCTGCTT 60.124 55.556 14.32 0.00 0.00 3.91
794 854 2.596631 CTGCACTTGTGGCCTGCT 60.597 61.111 14.32 0.00 0.00 4.24
795 855 2.595463 TCTGCACTTGTGGCCTGC 60.595 61.111 3.32 5.48 0.00 4.85
796 856 1.512996 CTGTCTGCACTTGTGGCCTG 61.513 60.000 3.32 0.00 0.00 4.85
797 857 1.228063 CTGTCTGCACTTGTGGCCT 60.228 57.895 3.32 0.00 0.00 5.19
798 858 1.103398 AACTGTCTGCACTTGTGGCC 61.103 55.000 0.00 0.00 0.00 5.36
799 859 0.308993 GAACTGTCTGCACTTGTGGC 59.691 55.000 2.81 0.00 0.00 5.01
800 860 1.600957 CTGAACTGTCTGCACTTGTGG 59.399 52.381 2.81 0.00 0.00 4.17
801 861 2.283298 ACTGAACTGTCTGCACTTGTG 58.717 47.619 0.00 0.00 0.00 3.33
802 862 2.698855 ACTGAACTGTCTGCACTTGT 57.301 45.000 0.00 0.00 0.00 3.16
803 863 3.248602 GGTAACTGAACTGTCTGCACTTG 59.751 47.826 0.00 0.00 0.00 3.16
804 864 3.467803 GGTAACTGAACTGTCTGCACTT 58.532 45.455 0.00 0.00 0.00 3.16
805 865 2.545952 CGGTAACTGAACTGTCTGCACT 60.546 50.000 0.00 0.00 0.00 4.40
806 866 1.792949 CGGTAACTGAACTGTCTGCAC 59.207 52.381 0.00 0.00 0.00 4.57
807 867 1.270094 CCGGTAACTGAACTGTCTGCA 60.270 52.381 0.00 0.00 0.00 4.41
808 868 1.429463 CCGGTAACTGAACTGTCTGC 58.571 55.000 0.00 0.00 0.00 4.26
809 869 1.939838 GCCCGGTAACTGAACTGTCTG 60.940 57.143 0.00 0.00 0.00 3.51
810 870 0.320697 GCCCGGTAACTGAACTGTCT 59.679 55.000 0.00 0.00 0.00 3.41
811 871 0.320697 AGCCCGGTAACTGAACTGTC 59.679 55.000 0.00 0.00 0.00 3.51
812 872 0.034896 CAGCCCGGTAACTGAACTGT 59.965 55.000 10.08 0.00 35.90 3.55
813 873 0.320374 TCAGCCCGGTAACTGAACTG 59.680 55.000 14.66 3.43 39.89 3.16
814 874 1.053424 TTCAGCCCGGTAACTGAACT 58.947 50.000 21.40 0.00 45.48 3.01
815 875 3.618171 TTCAGCCCGGTAACTGAAC 57.382 52.632 21.40 0.00 45.48 3.18
817 877 1.271856 TCATTCAGCCCGGTAACTGA 58.728 50.000 13.40 13.40 41.06 3.41
818 878 2.107950 TTCATTCAGCCCGGTAACTG 57.892 50.000 0.00 5.29 35.15 3.16
819 879 2.421529 GGATTCATTCAGCCCGGTAACT 60.422 50.000 0.00 0.00 0.00 2.24
820 880 1.947456 GGATTCATTCAGCCCGGTAAC 59.053 52.381 0.00 0.00 0.00 2.50
821 881 1.562008 TGGATTCATTCAGCCCGGTAA 59.438 47.619 0.00 0.00 0.00 2.85
822 882 1.140852 CTGGATTCATTCAGCCCGGTA 59.859 52.381 0.00 0.00 0.00 4.02
823 883 0.107017 CTGGATTCATTCAGCCCGGT 60.107 55.000 0.00 0.00 0.00 5.28
824 884 2.711711 CTGGATTCATTCAGCCCGG 58.288 57.895 0.00 0.00 0.00 5.73
829 889 2.092538 AGACCAGGCTGGATTCATTCAG 60.093 50.000 38.99 9.52 40.96 3.02
830 890 1.918262 AGACCAGGCTGGATTCATTCA 59.082 47.619 38.99 0.00 40.96 2.57
831 891 2.725221 AGACCAGGCTGGATTCATTC 57.275 50.000 38.99 23.94 40.96 2.67
832 892 2.173569 GGTAGACCAGGCTGGATTCATT 59.826 50.000 38.99 16.59 40.96 2.57
833 893 1.771255 GGTAGACCAGGCTGGATTCAT 59.229 52.381 38.99 17.41 40.96 2.57
834 894 1.204146 GGTAGACCAGGCTGGATTCA 58.796 55.000 38.99 17.82 40.96 2.57
835 895 0.470341 GGGTAGACCAGGCTGGATTC 59.530 60.000 38.99 26.12 40.96 2.52
836 896 0.253160 TGGGTAGACCAGGCTGGATT 60.253 55.000 38.99 26.26 46.80 3.01
837 897 1.396185 TGGGTAGACCAGGCTGGAT 59.604 57.895 38.99 27.10 46.80 3.41
838 898 2.866378 TGGGTAGACCAGGCTGGA 59.134 61.111 38.99 15.41 46.80 3.86
863 923 4.019858 AGATCTGGGCTTTTTAGGCTTTC 58.980 43.478 0.00 0.00 34.52 2.62
875 935 1.826024 CGGTGCTAAGATCTGGGCT 59.174 57.895 17.32 0.00 0.00 5.19
886 946 2.515996 CTTTTCGGGAGGCGGTGCTA 62.516 60.000 0.00 0.00 0.00 3.49
887 947 3.901797 CTTTTCGGGAGGCGGTGCT 62.902 63.158 0.00 0.00 0.00 4.40
934 995 4.838486 GGAGGCGACGACTGCGAG 62.838 72.222 8.65 0.00 41.64 5.03
961 1022 0.614697 GGAAGTGGGGGATTTGGGTG 60.615 60.000 0.00 0.00 0.00 4.61
962 1023 0.780090 AGGAAGTGGGGGATTTGGGT 60.780 55.000 0.00 0.00 0.00 4.51
963 1024 0.033109 GAGGAAGTGGGGGATTTGGG 60.033 60.000 0.00 0.00 0.00 4.12
1106 1176 4.666532 GGCGGCGCGATATGTTGC 62.667 66.667 26.95 4.31 0.00 4.17
1159 1229 4.144703 GACCTCGAAGGCGACCCC 62.145 72.222 0.00 0.00 42.51 4.95
1207 1277 0.900647 ACCTTGTCTCCTCCGACTGG 60.901 60.000 0.00 0.00 35.73 4.00
1296 1366 2.579201 CTCCGCACCGTCCAGAAT 59.421 61.111 0.00 0.00 0.00 2.40
1441 1511 2.444706 CTCCATGGCCTCCTCCGA 60.445 66.667 6.96 0.00 0.00 4.55
1473 1543 4.823419 CCGGACGCCGCCATAACA 62.823 66.667 12.03 0.00 46.86 2.41
1500 1570 5.365025 CAGATCCTCTACTTCCTCATCCAAA 59.635 44.000 0.00 0.00 0.00 3.28
1568 1638 3.699038 CTGAAAGGAAGAACAACCCAACA 59.301 43.478 0.00 0.00 0.00 3.33
1607 1677 1.339610 CAACAAATTTCCCGGCACTGA 59.660 47.619 0.00 0.00 0.00 3.41
1608 1678 1.605202 CCAACAAATTTCCCGGCACTG 60.605 52.381 0.00 0.00 0.00 3.66
1609 1679 0.678950 CCAACAAATTTCCCGGCACT 59.321 50.000 0.00 0.00 0.00 4.40
1632 1702 7.011669 CCAAAACAATTTCTCTCTGCAACATTT 59.988 33.333 0.00 0.00 0.00 2.32
1655 1725 0.693622 TAACCTGACCCGAATGCCAA 59.306 50.000 0.00 0.00 0.00 4.52
1742 1813 7.568199 AATGTACTATCAGCAACCAATAACC 57.432 36.000 0.00 0.00 0.00 2.85
1753 1824 6.900299 GCAGACGTTAAAAATGTACTATCAGC 59.100 38.462 0.00 0.00 0.00 4.26
1754 1825 8.186178 AGCAGACGTTAAAAATGTACTATCAG 57.814 34.615 0.00 0.00 0.00 2.90
1791 1862 6.535865 TCTGGCATTTCAAATGAACATAATGC 59.464 34.615 14.65 16.60 40.81 3.56
1902 1974 7.167468 CACAGCCACATTAACTTAAAGAACAAC 59.833 37.037 0.00 0.00 0.00 3.32
2008 2080 7.953752 AGTTATACTCCTTAGTATGGAAGCAC 58.046 38.462 6.27 0.70 46.28 4.40
2032 2154 2.119801 ACCAAACTCTGCAGCCATAG 57.880 50.000 9.47 3.41 0.00 2.23
2034 2156 1.708341 AAACCAAACTCTGCAGCCAT 58.292 45.000 9.47 0.00 0.00 4.40
2061 2183 8.933642 AGGGTAATTGTCAAATTCATGACCCAC 61.934 40.741 16.61 1.79 45.54 4.61
2165 2287 2.159531 TCCCGTGTTACTAACATCGTCG 60.160 50.000 4.93 4.25 44.35 5.12
2208 2330 3.585748 TTTCTTCTTCTTGTTCGCACG 57.414 42.857 0.00 0.00 0.00 5.34
2233 2355 5.303845 CACTCATCATCATCTTCACCCTCTA 59.696 44.000 0.00 0.00 0.00 2.43
2273 2395 1.707427 AGCAGGGTGTCTTTTCCATCT 59.293 47.619 0.00 0.00 0.00 2.90
2372 2494 5.619086 CGCCGTATCCTCATTTTCTGTTTTT 60.619 40.000 0.00 0.00 0.00 1.94
2393 2515 0.465705 TCTCATCCTGTTCATCCGCC 59.534 55.000 0.00 0.00 0.00 6.13
2466 2597 2.500910 CCATAGGCTCATCCTCATCCTC 59.499 54.545 0.00 0.00 43.20 3.71
2467 2598 2.113233 TCCATAGGCTCATCCTCATCCT 59.887 50.000 0.00 0.00 43.20 3.24
2468 2599 2.544721 TCCATAGGCTCATCCTCATCC 58.455 52.381 0.00 0.00 43.20 3.51
2469 2600 3.837146 TCTTCCATAGGCTCATCCTCATC 59.163 47.826 0.00 0.00 43.20 2.92
2470 2601 3.839490 CTCTTCCATAGGCTCATCCTCAT 59.161 47.826 0.00 0.00 43.20 2.90
2471 2602 3.237746 CTCTTCCATAGGCTCATCCTCA 58.762 50.000 0.00 0.00 43.20 3.86
2590 2721 4.026228 CACCGTCTTCATCATCGAATTCAG 60.026 45.833 6.22 0.00 0.00 3.02
2612 2743 2.750712 TCGACAGTGTTATCGGTCATCA 59.249 45.455 0.00 0.00 38.86 3.07
2677 2808 1.582502 GTACGTGACGATGCTACTTGC 59.417 52.381 13.70 0.00 43.25 4.01
2721 2852 1.888215 TCCAGACAGCAGCAGAAAAG 58.112 50.000 0.00 0.00 0.00 2.27
2763 2894 8.588290 AATGTAACTGGATATAAAAACAGCCA 57.412 30.769 0.00 0.00 34.40 4.75
2786 2917 8.907222 AAAATCCATAACTTGAGCAAACAAAT 57.093 26.923 0.00 0.00 0.00 2.32
2849 2980 5.833131 ACGAACCCCAATGCAAATAATAGAT 59.167 36.000 0.00 0.00 0.00 1.98
2868 2999 4.447365 GCATCAGCAAGCACGAAC 57.553 55.556 0.00 0.00 41.58 3.95
2938 3071 8.463930 TCACTGACTTCTTTACATGGAAAATT 57.536 30.769 4.29 0.00 0.00 1.82
3088 3291 6.153000 TCAGGACTACTCCATTTCAAGTCTAC 59.847 42.308 0.00 0.00 39.39 2.59
3116 3319 3.208747 AGGAACGTTTCAGAATGGTGT 57.791 42.857 9.76 0.00 36.16 4.16
3127 3345 6.527423 TGATTTGTAGGAACTAGGAACGTTT 58.473 36.000 0.46 0.00 44.14 3.60
3131 3349 8.074370 GTGTTTTGATTTGTAGGAACTAGGAAC 58.926 37.037 0.00 0.00 44.14 3.62
3136 3354 6.539464 ACGTGTGTTTTGATTTGTAGGAACTA 59.461 34.615 0.00 0.00 41.75 2.24
3155 3373 4.668576 AAAGCTGTGATTATGACGTGTG 57.331 40.909 0.00 0.00 0.00 3.82
3165 3383 7.539034 ACCCTAACATTAAAAAGCTGTGATT 57.461 32.000 0.00 0.00 0.00 2.57
3174 3396 7.653503 TGGGATGGATACCCTAACATTAAAAA 58.346 34.615 0.00 0.00 46.82 1.94
3184 3406 4.577096 ACAAATCTGGGATGGATACCCTA 58.423 43.478 0.00 0.00 46.82 3.53
3188 3410 6.037786 TCGATACAAATCTGGGATGGATAC 57.962 41.667 0.00 0.00 0.00 2.24
3190 3412 5.308825 GTTCGATACAAATCTGGGATGGAT 58.691 41.667 0.00 0.00 0.00 3.41
3191 3413 4.703897 GTTCGATACAAATCTGGGATGGA 58.296 43.478 0.00 0.00 0.00 3.41
3204 3426 3.644823 TGTTTCTTCAGCGTTCGATACA 58.355 40.909 0.00 0.00 0.00 2.29
3253 3476 9.197694 CTGACGATTTTCTCTCCGAATATAAAT 57.802 33.333 0.00 0.00 0.00 1.40
3254 3477 7.169308 GCTGACGATTTTCTCTCCGAATATAAA 59.831 37.037 0.00 0.00 0.00 1.40
3255 3478 6.641314 GCTGACGATTTTCTCTCCGAATATAA 59.359 38.462 0.00 0.00 0.00 0.98
3256 3479 6.150318 GCTGACGATTTTCTCTCCGAATATA 58.850 40.000 0.00 0.00 0.00 0.86
3257 3480 4.985409 GCTGACGATTTTCTCTCCGAATAT 59.015 41.667 0.00 0.00 0.00 1.28
3298 3522 1.301637 TACCGCCGATGCATCCATG 60.302 57.895 20.87 10.69 37.32 3.66
3321 3545 2.704572 CTCCGGAAGTTCAGATGCTTT 58.295 47.619 5.23 0.00 0.00 3.51
3322 3546 1.677217 GCTCCGGAAGTTCAGATGCTT 60.677 52.381 5.23 0.00 0.00 3.91
3323 3547 0.107945 GCTCCGGAAGTTCAGATGCT 60.108 55.000 5.23 0.00 0.00 3.79
3353 3577 2.153401 TGTGGAAGGGGGTGACAGG 61.153 63.158 0.00 0.00 0.00 4.00
3355 3579 2.457323 GGTGTGGAAGGGGGTGACA 61.457 63.158 0.00 0.00 0.00 3.58
3356 3580 1.716028 AAGGTGTGGAAGGGGGTGAC 61.716 60.000 0.00 0.00 0.00 3.67
3358 3582 1.228552 CAAGGTGTGGAAGGGGGTG 60.229 63.158 0.00 0.00 0.00 4.61
3359 3583 3.146828 GCAAGGTGTGGAAGGGGGT 62.147 63.158 0.00 0.00 0.00 4.95
3360 3584 2.283173 GCAAGGTGTGGAAGGGGG 60.283 66.667 0.00 0.00 0.00 5.40
3361 3585 0.967380 GATGCAAGGTGTGGAAGGGG 60.967 60.000 0.00 0.00 0.00 4.79
3383 3607 1.403814 TCCGGATGATGGAGTCTGTC 58.596 55.000 0.00 0.00 0.00 3.51
3438 3662 3.871594 GGTCACTATATGTGTGCTTGTCC 59.128 47.826 5.99 0.00 46.27 4.02
3454 3678 5.565439 GCTTTGCAGTTTGATTATGGTCACT 60.565 40.000 0.00 0.00 0.00 3.41
3457 3681 5.064441 AGCTTTGCAGTTTGATTATGGTC 57.936 39.130 0.00 0.00 0.00 4.02
3459 3683 5.105797 TGGTAGCTTTGCAGTTTGATTATGG 60.106 40.000 0.00 0.00 0.00 2.74
3482 3709 0.467384 AGTAGTAGCAGCAGGGCATG 59.533 55.000 0.00 0.00 35.83 4.06
3514 3741 9.404848 ACAATTCATCATGATCACTTCAGTATT 57.595 29.630 4.86 0.00 37.89 1.89
3516 3743 7.201670 GCACAATTCATCATGATCACTTCAGTA 60.202 37.037 4.86 0.00 37.89 2.74
3517 3744 6.404403 GCACAATTCATCATGATCACTTCAGT 60.404 38.462 4.86 0.00 37.89 3.41
3518 3745 5.971792 GCACAATTCATCATGATCACTTCAG 59.028 40.000 4.86 0.00 37.89 3.02
3519 3746 5.650703 AGCACAATTCATCATGATCACTTCA 59.349 36.000 4.86 0.00 39.12 3.02
3520 3747 5.971792 CAGCACAATTCATCATGATCACTTC 59.028 40.000 4.86 0.00 0.00 3.01
3521 3748 5.650703 TCAGCACAATTCATCATGATCACTT 59.349 36.000 4.86 0.00 0.00 3.16
3522 3749 5.190677 TCAGCACAATTCATCATGATCACT 58.809 37.500 4.86 0.00 0.00 3.41
3523 3750 5.494632 TCAGCACAATTCATCATGATCAC 57.505 39.130 4.86 0.00 0.00 3.06
3524 3751 5.751243 CTCAGCACAATTCATCATGATCA 57.249 39.130 4.86 0.00 0.00 2.92


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

AutoCloner maintained by Alex Coulton.