Multiple sequence alignment - TraesCS2D01G195100

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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 TraesCS2D01G195100 chr2D 100.000 4651 0 0 1 4651 141471199 141475849 0.000000e+00 8589
1 TraesCS2D01G195100 chr2A 94.768 3899 140 16 773 4651 159882008 159878154 0.000000e+00 6011
2 TraesCS2D01G195100 chr2B 91.429 3827 206 50 866 4651 199024329 199020584 0.000000e+00 5138
3 TraesCS2D01G195100 chr2B 80.580 690 95 23 1 666 440594932 440595606 3.230000e-136 496
4 TraesCS2D01G195100 chr5A 83.475 708 75 22 1 674 477686642 477685943 5.110000e-174 621
5 TraesCS2D01G195100 chr7D 81.118 805 110 24 1 780 424716419 424717206 1.430000e-169 606
6 TraesCS2D01G195100 chr7D 82.689 595 60 24 2 570 74956356 74955779 5.410000e-134 488
7 TraesCS2D01G195100 chr6A 83.851 644 74 13 1 620 197773322 197772685 1.860000e-163 586
8 TraesCS2D01G195100 chr4D 83.564 651 79 13 1 624 319113518 319112869 6.710000e-163 584
9 TraesCS2D01G195100 chr4D 88.089 403 43 5 1 401 485518407 485518008 1.510000e-129 473
10 TraesCS2D01G195100 chr7B 80.813 787 105 27 1 761 442406323 442407089 4.040000e-160 575
11 TraesCS2D01G195100 chr4B 82.048 713 92 18 1 685 192697570 192698274 4.040000e-160 575
12 TraesCS2D01G195100 chr4A 81.844 716 92 23 1 691 628934019 628933317 6.750000e-158 568
13 TraesCS2D01G195100 chr4A 80.839 548 75 15 165 685 667055282 667055826 2.020000e-108 403
14 TraesCS2D01G195100 chr1D 82.923 650 86 14 1 627 150907907 150908554 3.140000e-156 562
15 TraesCS2D01G195100 chr1D 82.667 675 72 28 1 652 204284975 204285627 1.460000e-154 556
16 TraesCS2D01G195100 chr3D 84.175 594 70 12 4 575 98786243 98786834 5.260000e-154 555
17 TraesCS2D01G195100 chr3D 81.818 682 81 27 1 655 588129863 588130528 2.460000e-147 532
18 TraesCS2D01G195100 chr5B 81.545 699 90 22 1 674 101827967 101827283 1.470000e-149 540
19 TraesCS2D01G195100 chr5B 82.481 645 80 15 39 652 16195320 16195962 6.850000e-148 534
20 TraesCS2D01G195100 chr5D 83.165 594 69 13 2 578 291900886 291901465 8.920000e-142 514


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 TraesCS2D01G195100 chr2D 141471199 141475849 4650 False 8589 8589 100.000 1 4651 1 chr2D.!!$F1 4650
1 TraesCS2D01G195100 chr2A 159878154 159882008 3854 True 6011 6011 94.768 773 4651 1 chr2A.!!$R1 3878
2 TraesCS2D01G195100 chr2B 199020584 199024329 3745 True 5138 5138 91.429 866 4651 1 chr2B.!!$R1 3785
3 TraesCS2D01G195100 chr2B 440594932 440595606 674 False 496 496 80.580 1 666 1 chr2B.!!$F1 665
4 TraesCS2D01G195100 chr5A 477685943 477686642 699 True 621 621 83.475 1 674 1 chr5A.!!$R1 673
5 TraesCS2D01G195100 chr7D 424716419 424717206 787 False 606 606 81.118 1 780 1 chr7D.!!$F1 779
6 TraesCS2D01G195100 chr7D 74955779 74956356 577 True 488 488 82.689 2 570 1 chr7D.!!$R1 568
7 TraesCS2D01G195100 chr6A 197772685 197773322 637 True 586 586 83.851 1 620 1 chr6A.!!$R1 619
8 TraesCS2D01G195100 chr4D 319112869 319113518 649 True 584 584 83.564 1 624 1 chr4D.!!$R1 623
9 TraesCS2D01G195100 chr7B 442406323 442407089 766 False 575 575 80.813 1 761 1 chr7B.!!$F1 760
10 TraesCS2D01G195100 chr4B 192697570 192698274 704 False 575 575 82.048 1 685 1 chr4B.!!$F1 684
11 TraesCS2D01G195100 chr4A 628933317 628934019 702 True 568 568 81.844 1 691 1 chr4A.!!$R1 690
12 TraesCS2D01G195100 chr4A 667055282 667055826 544 False 403 403 80.839 165 685 1 chr4A.!!$F1 520
13 TraesCS2D01G195100 chr1D 150907907 150908554 647 False 562 562 82.923 1 627 1 chr1D.!!$F1 626
14 TraesCS2D01G195100 chr1D 204284975 204285627 652 False 556 556 82.667 1 652 1 chr1D.!!$F2 651
15 TraesCS2D01G195100 chr3D 98786243 98786834 591 False 555 555 84.175 4 575 1 chr3D.!!$F1 571
16 TraesCS2D01G195100 chr3D 588129863 588130528 665 False 532 532 81.818 1 655 1 chr3D.!!$F2 654
17 TraesCS2D01G195100 chr5B 101827283 101827967 684 True 540 540 81.545 1 674 1 chr5B.!!$R1 673
18 TraesCS2D01G195100 chr5B 16195320 16195962 642 False 534 534 82.481 39 652 1 chr5B.!!$F1 613
19 TraesCS2D01G195100 chr5D 291900886 291901465 579 False 514 514 83.165 2 578 1 chr5D.!!$F1 576

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
771 892 0.040067 GTTTGGGTCTGCGAGCTTTG 60.040 55.0 7.48 0.0 0.00 2.77 F
965 1086 0.324830 GAGCCTACCTCCCAGACACT 60.325 60.0 0.00 0.0 34.35 3.55 F
2734 2893 0.756294 TTTGTCGGCTTCAGACCTCA 59.244 50.0 0.00 0.0 37.80 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2712 2871 1.204312 GTCTGAAGCCGACAAACGC 59.796 57.895 0.00 0.0 41.07 4.84 R
2793 2952 0.543277 CCAGCAGTATTGGCCTGAGA 59.457 55.000 3.32 0.0 31.38 3.27 R
3820 3980 0.817654 CACACGTCCATAGCTCTCCA 59.182 55.000 0.00 0.0 0.00 3.86 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
27 28 2.171237 TGAGATCAATGGCCACCACTAG 59.829 50.000 8.16 0.00 35.80 2.57
104 105 0.856982 ACAATCCCCAACCCTGTTGA 59.143 50.000 8.47 0.00 0.00 3.18
135 158 2.125773 AGAGATTTGCCCAAGAGCAG 57.874 50.000 0.00 0.00 45.13 4.24
163 205 2.307768 CTAGGAAGGATGTGGAGCGTA 58.692 52.381 0.00 0.00 0.00 4.42
189 231 6.547141 TCTTTGGTGTTCTTCAATCTCAATGT 59.453 34.615 0.00 0.00 0.00 2.71
241 289 0.178990 ACCAAGAAGTTGTGGGAGGC 60.179 55.000 0.00 0.00 39.39 4.70
261 309 3.193263 GCGATGACTGATTGTGTGATCT 58.807 45.455 0.00 0.00 0.00 2.75
289 337 5.105554 ACAATATGATCGTAGAGGATGAGCC 60.106 44.000 0.41 0.00 43.63 4.70
393 442 5.786311 CACAGTTCACCAAATTCCATCATT 58.214 37.500 0.00 0.00 0.00 2.57
428 503 7.554211 TGCAAAATGATTTGGTTGAGCATATA 58.446 30.769 0.00 0.00 44.93 0.86
433 508 5.704354 TGATTTGGTTGAGCATATATGGGT 58.296 37.500 14.51 1.14 0.00 4.51
436 511 5.387113 TTGGTTGAGCATATATGGGTTCT 57.613 39.130 14.51 2.77 0.00 3.01
439 514 3.319137 TGAGCATATATGGGTTCTCGC 57.681 47.619 14.51 0.00 0.00 5.03
440 515 2.263077 GAGCATATATGGGTTCTCGCG 58.737 52.381 14.51 0.00 0.00 5.87
627 748 2.271944 AAGAGCTAAAAACTGGCCGT 57.728 45.000 0.00 0.00 30.04 5.68
655 776 0.179250 CGCGAGGACGAAAATGTGTG 60.179 55.000 0.00 0.00 42.66 3.82
657 778 0.165944 CGAGGACGAAAATGTGTGCC 59.834 55.000 0.00 0.00 42.66 5.01
659 780 1.197721 GAGGACGAAAATGTGTGCCTG 59.802 52.381 0.00 0.00 0.00 4.85
660 781 0.387239 GGACGAAAATGTGTGCCTGC 60.387 55.000 0.00 0.00 0.00 4.85
661 782 0.725784 GACGAAAATGTGTGCCTGCG 60.726 55.000 0.00 0.00 0.00 5.18
662 783 1.442520 CGAAAATGTGTGCCTGCGG 60.443 57.895 0.00 0.00 0.00 5.69
663 784 1.080569 GAAAATGTGTGCCTGCGGG 60.081 57.895 7.41 7.41 0.00 6.13
664 785 1.805428 GAAAATGTGTGCCTGCGGGT 61.805 55.000 14.55 0.00 34.45 5.28
665 786 1.398958 AAAATGTGTGCCTGCGGGTT 61.399 50.000 14.55 0.00 34.45 4.11
666 787 1.398958 AAATGTGTGCCTGCGGGTTT 61.399 50.000 14.55 1.23 34.45 3.27
667 788 2.086251 AATGTGTGCCTGCGGGTTTG 62.086 55.000 14.55 0.00 34.45 2.93
668 789 3.977244 GTGTGCCTGCGGGTTTGG 61.977 66.667 14.55 0.00 34.45 3.28
693 814 2.427232 TGGCGACACAAGTACAGTAC 57.573 50.000 2.05 2.05 33.40 2.73
694 815 1.682323 TGGCGACACAAGTACAGTACA 59.318 47.619 13.37 0.00 33.40 2.90
695 816 2.287970 TGGCGACACAAGTACAGTACAG 60.288 50.000 13.37 7.46 33.40 2.74
696 817 2.030540 GGCGACACAAGTACAGTACAGA 60.031 50.000 13.37 0.00 0.00 3.41
697 818 3.551454 GGCGACACAAGTACAGTACAGAA 60.551 47.826 13.37 0.00 0.00 3.02
698 819 3.669122 GCGACACAAGTACAGTACAGAAG 59.331 47.826 13.37 3.08 0.00 2.85
699 820 4.792057 GCGACACAAGTACAGTACAGAAGT 60.792 45.833 13.37 6.11 0.00 3.01
700 821 4.675565 CGACACAAGTACAGTACAGAAGTG 59.324 45.833 13.37 15.43 34.42 3.16
701 822 5.505159 CGACACAAGTACAGTACAGAAGTGA 60.505 44.000 21.57 0.00 32.41 3.41
702 823 5.833082 ACACAAGTACAGTACAGAAGTGAG 58.167 41.667 21.57 10.60 32.41 3.51
703 824 4.681942 CACAAGTACAGTACAGAAGTGAGC 59.318 45.833 13.37 0.00 32.41 4.26
704 825 4.341235 ACAAGTACAGTACAGAAGTGAGCA 59.659 41.667 13.37 0.00 32.41 4.26
705 826 4.775058 AGTACAGTACAGAAGTGAGCAG 57.225 45.455 13.37 0.00 32.41 4.24
706 827 4.399219 AGTACAGTACAGAAGTGAGCAGA 58.601 43.478 13.37 0.00 32.41 4.26
707 828 3.651803 ACAGTACAGAAGTGAGCAGAC 57.348 47.619 0.00 0.00 32.41 3.51
708 829 2.959030 ACAGTACAGAAGTGAGCAGACA 59.041 45.455 0.00 0.00 32.41 3.41
709 830 3.384789 ACAGTACAGAAGTGAGCAGACAA 59.615 43.478 0.00 0.00 32.41 3.18
710 831 4.039730 ACAGTACAGAAGTGAGCAGACAAT 59.960 41.667 0.00 0.00 32.41 2.71
711 832 4.624882 CAGTACAGAAGTGAGCAGACAATC 59.375 45.833 0.00 0.00 0.00 2.67
712 833 4.526262 AGTACAGAAGTGAGCAGACAATCT 59.474 41.667 0.00 0.00 0.00 2.40
713 834 3.661944 ACAGAAGTGAGCAGACAATCTG 58.338 45.455 14.25 14.25 46.90 2.90
716 837 4.936411 CAGAAGTGAGCAGACAATCTGATT 59.064 41.667 10.02 0.00 44.01 2.57
717 838 5.411977 CAGAAGTGAGCAGACAATCTGATTT 59.588 40.000 10.02 0.00 44.01 2.17
718 839 6.592994 CAGAAGTGAGCAGACAATCTGATTTA 59.407 38.462 10.02 0.00 44.01 1.40
719 840 7.118825 CAGAAGTGAGCAGACAATCTGATTTAA 59.881 37.037 10.02 0.00 44.01 1.52
720 841 7.663081 AGAAGTGAGCAGACAATCTGATTTAAA 59.337 33.333 10.02 0.00 44.01 1.52
721 842 7.138692 AGTGAGCAGACAATCTGATTTAAAC 57.861 36.000 10.02 2.02 44.01 2.01
722 843 6.017933 GTGAGCAGACAATCTGATTTAAACG 58.982 40.000 10.02 0.00 44.01 3.60
723 844 5.122239 TGAGCAGACAATCTGATTTAAACGG 59.878 40.000 10.02 0.00 44.01 4.44
724 845 5.351465 GAGCAGACAATCTGATTTAAACGGA 59.649 40.000 10.02 0.00 44.01 4.69
725 846 6.673316 GAGCAGACAATCTGATTTAAACGGAC 60.673 42.308 10.02 0.00 44.01 4.79
726 847 5.779806 AGACAATCTGATTTAAACGGACG 57.220 39.130 0.00 0.00 0.00 4.79
727 848 5.475719 AGACAATCTGATTTAAACGGACGA 58.524 37.500 0.00 0.00 0.00 4.20
728 849 5.929992 AGACAATCTGATTTAAACGGACGAA 59.070 36.000 0.00 0.00 0.00 3.85
729 850 6.425721 AGACAATCTGATTTAAACGGACGAAA 59.574 34.615 0.00 0.00 0.00 3.46
730 851 6.961576 ACAATCTGATTTAAACGGACGAAAA 58.038 32.000 0.00 0.00 0.00 2.29
731 852 7.419204 ACAATCTGATTTAAACGGACGAAAAA 58.581 30.769 0.00 0.00 0.00 1.94
732 853 7.589954 ACAATCTGATTTAAACGGACGAAAAAG 59.410 33.333 0.00 0.00 0.00 2.27
733 854 5.992729 TCTGATTTAAACGGACGAAAAAGG 58.007 37.500 0.00 0.00 0.00 3.11
734 855 5.049267 TCTGATTTAAACGGACGAAAAAGGG 60.049 40.000 0.00 0.00 0.00 3.95
735 856 3.986442 TTTAAACGGACGAAAAAGGGG 57.014 42.857 0.00 0.00 0.00 4.79
736 857 2.926778 TAAACGGACGAAAAAGGGGA 57.073 45.000 0.00 0.00 0.00 4.81
737 858 1.311859 AAACGGACGAAAAAGGGGAC 58.688 50.000 0.00 0.00 0.00 4.46
738 859 0.180878 AACGGACGAAAAAGGGGACA 59.819 50.000 0.00 0.00 0.00 4.02
739 860 0.180878 ACGGACGAAAAAGGGGACAA 59.819 50.000 0.00 0.00 0.00 3.18
740 861 1.310904 CGGACGAAAAAGGGGACAAA 58.689 50.000 0.00 0.00 0.00 2.83
741 862 1.677052 CGGACGAAAAAGGGGACAAAA 59.323 47.619 0.00 0.00 0.00 2.44
742 863 2.542205 CGGACGAAAAAGGGGACAAAAC 60.542 50.000 0.00 0.00 0.00 2.43
743 864 2.542205 GGACGAAAAAGGGGACAAAACG 60.542 50.000 0.00 0.00 0.00 3.60
744 865 1.202325 ACGAAAAAGGGGACAAAACGC 60.202 47.619 0.00 0.00 0.00 4.84
745 866 1.202313 CGAAAAAGGGGACAAAACGCA 60.202 47.619 0.00 0.00 0.00 5.24
746 867 2.544903 CGAAAAAGGGGACAAAACGCAT 60.545 45.455 0.00 0.00 0.00 4.73
747 868 2.524569 AAAAGGGGACAAAACGCATG 57.475 45.000 0.00 0.00 0.00 4.06
748 869 1.698506 AAAGGGGACAAAACGCATGA 58.301 45.000 0.00 0.00 0.00 3.07
749 870 1.923356 AAGGGGACAAAACGCATGAT 58.077 45.000 0.00 0.00 0.00 2.45
750 871 1.463674 AGGGGACAAAACGCATGATC 58.536 50.000 0.00 0.00 0.00 2.92
751 872 0.455815 GGGGACAAAACGCATGATCC 59.544 55.000 0.00 0.00 0.00 3.36
752 873 0.098728 GGGACAAAACGCATGATCCG 59.901 55.000 0.00 0.00 0.00 4.18
753 874 0.802494 GGACAAAACGCATGATCCGT 59.198 50.000 0.00 0.00 41.24 4.69
758 879 2.179764 AACGCATGATCCGTTTGGG 58.820 52.632 0.00 1.21 45.56 4.12
759 880 0.608035 AACGCATGATCCGTTTGGGT 60.608 50.000 0.00 1.75 45.56 4.51
760 881 1.024579 ACGCATGATCCGTTTGGGTC 61.025 55.000 0.00 0.00 46.43 4.46
761 882 0.744414 CGCATGATCCGTTTGGGTCT 60.744 55.000 0.00 0.00 46.39 3.85
762 883 0.734889 GCATGATCCGTTTGGGTCTG 59.265 55.000 0.00 0.00 46.39 3.51
763 884 0.734889 CATGATCCGTTTGGGTCTGC 59.265 55.000 0.00 0.00 46.39 4.26
764 885 0.744414 ATGATCCGTTTGGGTCTGCG 60.744 55.000 0.00 0.00 46.39 5.18
765 886 1.079405 GATCCGTTTGGGTCTGCGA 60.079 57.895 0.00 0.00 42.60 5.10
766 887 1.079127 ATCCGTTTGGGTCTGCGAG 60.079 57.895 0.00 0.00 37.00 5.03
767 888 3.423154 CCGTTTGGGTCTGCGAGC 61.423 66.667 0.00 0.08 0.00 5.03
768 889 2.357517 CGTTTGGGTCTGCGAGCT 60.358 61.111 0.00 0.00 0.00 4.09
769 890 1.961277 CGTTTGGGTCTGCGAGCTT 60.961 57.895 7.48 0.00 0.00 3.74
770 891 1.507141 CGTTTGGGTCTGCGAGCTTT 61.507 55.000 7.48 0.00 0.00 3.51
771 892 0.040067 GTTTGGGTCTGCGAGCTTTG 60.040 55.000 7.48 0.00 0.00 2.77
803 924 1.667830 CCGCATCTGTGTGAACGGT 60.668 57.895 0.00 0.00 41.02 4.83
964 1085 0.614979 TGAGCCTACCTCCCAGACAC 60.615 60.000 0.00 0.00 39.98 3.67
965 1086 0.324830 GAGCCTACCTCCCAGACACT 60.325 60.000 0.00 0.00 34.35 3.55
966 1087 1.008403 AGCCTACCTCCCAGACACTA 58.992 55.000 0.00 0.00 0.00 2.74
1152 1276 1.061570 CGCGAGCTTTCCTGATTGC 59.938 57.895 0.00 0.00 0.00 3.56
1182 1307 4.530857 GAGATCCGGCCCGTGGTG 62.531 72.222 0.85 0.00 0.00 4.17
1201 1326 2.049767 TCCATCCGCACTGCTACGA 61.050 57.895 0.00 0.00 0.00 3.43
1218 1343 3.969250 GAGATTTCCACCCCGCGCA 62.969 63.158 8.75 0.00 0.00 6.09
1222 1347 3.851897 TTTCCACCCCGCGCATCAA 62.852 57.895 8.75 0.00 0.00 2.57
1449 1577 4.767255 GGTGTCAGGGCTCGCAGG 62.767 72.222 0.00 0.00 0.00 4.85
1460 1588 1.555741 GCTCGCAGGAATCGATCAGC 61.556 60.000 0.00 0.00 35.25 4.26
1590 1718 1.666189 GGTAAAGCTGAGATGAACGCC 59.334 52.381 0.00 0.00 0.00 5.68
1681 1809 4.083537 CGCTGGTAAGTGTTTTCATGCTTA 60.084 41.667 0.00 0.00 0.00 3.09
1721 1849 3.128589 TGAGAAGTGGTTTGTTGAACTGC 59.871 43.478 0.00 0.00 38.35 4.40
1857 2003 3.920231 AAGAACAGCATCATAGCCTCA 57.080 42.857 0.00 0.00 34.23 3.86
1895 2041 6.428159 ACTTGGTCTTGTTCTGTGTTGATATC 59.572 38.462 0.00 0.00 0.00 1.63
1954 2100 2.357327 TGCTCATGCTGTTCAAATGC 57.643 45.000 0.00 0.00 40.48 3.56
2004 2150 4.097286 TCCTTTCCTTTGAAGTTTGAACCG 59.903 41.667 0.00 0.00 0.00 4.44
2056 2204 3.840437 GGCTGTTTGGTGCAGACA 58.160 55.556 0.00 0.00 41.45 3.41
2118 2266 7.230510 TGTCTTAACTGTTTCCACAATATTGCT 59.769 33.333 15.48 0.27 30.36 3.91
2177 2325 7.372714 CAATATGCATGTATTATGTGGTTGCT 58.627 34.615 10.16 0.00 0.00 3.91
2178 2326 4.898829 TGCATGTATTATGTGGTTGCTC 57.101 40.909 0.00 0.00 0.00 4.26
2179 2327 4.525996 TGCATGTATTATGTGGTTGCTCT 58.474 39.130 0.00 0.00 0.00 4.09
2180 2328 4.949238 TGCATGTATTATGTGGTTGCTCTT 59.051 37.500 0.00 0.00 0.00 2.85
2181 2329 5.163632 TGCATGTATTATGTGGTTGCTCTTG 60.164 40.000 0.00 0.00 0.00 3.02
2182 2330 5.734220 GCATGTATTATGTGGTTGCTCTTGG 60.734 44.000 0.00 0.00 0.00 3.61
2208 2364 6.254157 GCCTAATTAAATCATGCACACTGTTG 59.746 38.462 0.00 0.00 0.00 3.33
2247 2404 5.941948 ACGCATTTACCTAGCCATATTTC 57.058 39.130 0.00 0.00 0.00 2.17
2257 2414 9.573166 TTACCTAGCCATATTTCGTAAGTAGTA 57.427 33.333 0.00 0.00 39.48 1.82
2311 2468 6.051717 CGAAAGTGATGTATGAAGGGAGATT 58.948 40.000 0.00 0.00 0.00 2.40
2336 2494 9.884636 TTCATAACAATGCTTCTTAGTAGCTTA 57.115 29.630 11.85 3.23 39.38 3.09
2423 2582 2.368439 TGCCATTGTGCCTAATGTCTC 58.632 47.619 8.61 0.77 36.54 3.36
2448 2607 2.387757 ACTGTGGGCAAAAACAGATGT 58.612 42.857 9.63 0.00 45.43 3.06
2712 2871 2.672961 TATGCTTCCAAGAGTCCGTG 57.327 50.000 0.00 0.00 0.00 4.94
2734 2893 0.756294 TTTGTCGGCTTCAGACCTCA 59.244 50.000 0.00 0.00 37.80 3.86
2752 2911 5.805728 ACCTCATTTAGTTAACTCTGGTGG 58.194 41.667 12.39 14.60 0.00 4.61
2770 2929 1.198178 TGGCGATTTAAACGAGGCAAC 59.802 47.619 11.41 0.00 34.46 4.17
2793 2952 4.206375 TGATATTCACCGGAAATGCACAT 58.794 39.130 9.46 0.00 36.43 3.21
2876 3035 9.749490 GTGAAAAAGATCGATGTTATTAAACGA 57.251 29.630 8.38 0.00 38.53 3.85
2892 3051 3.296584 GACGAACTGCGCCGATAC 58.703 61.111 4.18 0.00 46.04 2.24
2920 3079 2.223377 CCGAAGCTGTTTGTGGAGTAAC 59.777 50.000 0.00 0.00 0.00 2.50
2966 3125 3.851976 TGGAAGATCCATTGGAAGGAAGA 59.148 43.478 9.98 0.00 42.67 2.87
3012 3172 2.353269 AGAAGAGTCAGAGTCGCATACG 59.647 50.000 0.00 0.00 42.01 3.06
3172 3332 0.813184 AATGCAAAGGAGCCATCACG 59.187 50.000 0.00 0.00 0.00 4.35
3173 3333 0.322816 ATGCAAAGGAGCCATCACGT 60.323 50.000 0.00 0.00 0.00 4.49
3183 3343 0.165944 GCCATCACGTCAAAGGAACG 59.834 55.000 0.00 0.00 0.00 3.95
3188 3348 0.234884 CACGTCAAAGGAACGGCTTC 59.765 55.000 0.52 0.00 0.00 3.86
3243 3403 4.386711 TGCAGAAGATGAAGCATATGGAG 58.613 43.478 4.56 0.00 31.05 3.86
3338 3498 2.825075 AATCAGCCAGCGCACCATCA 62.825 55.000 11.47 0.00 37.52 3.07
3340 3500 2.515523 AGCCAGCGCACCATCATC 60.516 61.111 11.47 0.00 37.52 2.92
3374 3534 4.699257 GGATGTCAGACAAGAGAAGCAAAT 59.301 41.667 7.50 0.00 0.00 2.32
3528 3688 1.494721 GAAGGTTGGGATGGCCATCTA 59.505 52.381 37.94 26.72 37.92 1.98
3598 3758 0.179936 GCAGGGAGGAAGAGATGTGG 59.820 60.000 0.00 0.00 0.00 4.17
3700 3860 9.394767 TGTGTGTTGTAATAGCATTTCTGATAT 57.605 29.630 0.00 0.00 35.52 1.63
3756 3916 4.370917 AGGTGTTGATTTGTTGTTCATGC 58.629 39.130 0.00 0.00 0.00 4.06
3808 3968 7.337184 TCACAGGAAAGTGTAACACAAATTGTA 59.663 33.333 0.00 0.00 41.43 2.41
3812 3972 8.784043 AGGAAAGTGTAACACAAATTGTAGATC 58.216 33.333 0.00 0.00 41.43 2.75
3837 3997 2.672961 TTTGGAGAGCTATGGACGTG 57.327 50.000 0.00 0.00 0.00 4.49
3898 4059 2.142292 ATTCTGCCTGTGACCACCCC 62.142 60.000 0.00 0.00 0.00 4.95
3911 4072 1.492176 ACCACCCCTCTGAGCATTATG 59.508 52.381 0.00 0.00 0.00 1.90
3942 4103 7.526608 TGTTGATTTCTGGATAACACGATTTC 58.473 34.615 0.00 0.00 0.00 2.17
3958 4119 4.026804 ACGATTTCGAGCTTATACTTTGCG 60.027 41.667 7.01 0.00 43.02 4.85
3975 4136 4.511617 TTGCGCATTGGTTCATCTTTTA 57.488 36.364 12.75 0.00 0.00 1.52
4140 4309 2.027192 TCAAAAGGGAACATCCGAGGAG 60.027 50.000 0.00 0.00 37.43 3.69
4143 4312 2.367202 GGGAACATCCGAGGAGGCA 61.367 63.158 3.45 0.00 37.43 4.75
4167 4337 3.522731 CTCCCCTCCGCTCGACTG 61.523 72.222 0.00 0.00 0.00 3.51
4259 4429 2.124983 TCCTTCGCCATCAGCTGC 60.125 61.111 9.47 0.00 40.39 5.25
4260 4430 2.437180 CCTTCGCCATCAGCTGCA 60.437 61.111 9.47 0.00 40.39 4.41
4261 4431 2.470362 CCTTCGCCATCAGCTGCAG 61.470 63.158 10.11 10.11 40.39 4.41
4262 4432 3.109612 CTTCGCCATCAGCTGCAGC 62.110 63.158 31.53 31.53 40.39 5.25
4581 4751 2.131067 GCGAGGAGGAGGAAGAGGG 61.131 68.421 0.00 0.00 0.00 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 6.274579 GTCAGCTAGGTAGTATCCTTTGTTC 58.725 44.000 0.00 0.00 38.86 3.18
104 105 4.324176 GGGCAAATCTCTTCCTCTTCTCTT 60.324 45.833 0.00 0.00 0.00 2.85
135 158 2.102252 CACATCCTTCCTAGCACTCTCC 59.898 54.545 0.00 0.00 0.00 3.71
163 205 7.232127 ACATTGAGATTGAAGAACACCAAAGAT 59.768 33.333 0.00 0.00 0.00 2.40
189 231 1.739667 CAGGATACCGACGATGCCA 59.260 57.895 0.00 0.00 37.17 4.92
241 289 7.649306 TGTATAAGATCACACAATCAGTCATCG 59.351 37.037 0.00 0.00 0.00 3.84
289 337 3.344515 TGGTCGTAGATATCATCCGGAG 58.655 50.000 11.34 2.05 40.67 4.63
428 503 4.028490 TTGCCCGCGAGAACCCAT 62.028 61.111 8.23 0.00 0.00 4.00
433 508 0.742990 CTATTGGTTGCCCGCGAGAA 60.743 55.000 8.23 0.00 0.00 2.87
436 511 0.813610 CATCTATTGGTTGCCCGCGA 60.814 55.000 8.23 0.00 0.00 5.87
439 514 2.736721 CGATACATCTATTGGTTGCCCG 59.263 50.000 0.00 0.00 0.00 6.13
440 515 3.074412 CCGATACATCTATTGGTTGCCC 58.926 50.000 0.00 0.00 31.16 5.36
503 605 8.451908 AATATCTCATAGTTTACAGGCCAAAC 57.548 34.615 5.01 7.35 36.37 2.93
627 748 3.818787 GTCCTCGCGACCGGCTTA 61.819 66.667 3.71 0.00 40.44 3.09
671 792 0.443869 CTGTACTTGTGTCGCCATGC 59.556 55.000 0.00 0.00 0.00 4.06
672 793 1.795768 ACTGTACTTGTGTCGCCATG 58.204 50.000 0.00 0.00 0.00 3.66
673 794 2.297880 TGTACTGTACTTGTGTCGCCAT 59.702 45.455 17.98 0.00 0.00 4.40
674 795 1.682323 TGTACTGTACTTGTGTCGCCA 59.318 47.619 17.98 0.00 0.00 5.69
675 796 2.030540 TCTGTACTGTACTTGTGTCGCC 60.031 50.000 17.98 0.00 0.00 5.54
676 797 3.278367 TCTGTACTGTACTTGTGTCGC 57.722 47.619 17.98 0.00 0.00 5.19
677 798 4.675565 CACTTCTGTACTGTACTTGTGTCG 59.324 45.833 17.98 4.23 0.00 4.35
678 799 5.828747 TCACTTCTGTACTGTACTTGTGTC 58.171 41.667 17.98 0.00 0.00 3.67
679 800 5.736492 GCTCACTTCTGTACTGTACTTGTGT 60.736 44.000 17.98 9.59 0.00 3.72
680 801 4.681942 GCTCACTTCTGTACTGTACTTGTG 59.318 45.833 17.98 17.89 0.00 3.33
681 802 4.341235 TGCTCACTTCTGTACTGTACTTGT 59.659 41.667 17.98 9.00 0.00 3.16
682 803 4.871513 TGCTCACTTCTGTACTGTACTTG 58.128 43.478 17.98 11.20 0.00 3.16
683 804 4.827835 TCTGCTCACTTCTGTACTGTACTT 59.172 41.667 17.98 0.00 0.00 2.24
684 805 4.216687 GTCTGCTCACTTCTGTACTGTACT 59.783 45.833 17.98 0.00 0.00 2.73
685 806 4.023107 TGTCTGCTCACTTCTGTACTGTAC 60.023 45.833 10.98 10.98 0.00 2.90
686 807 4.142038 TGTCTGCTCACTTCTGTACTGTA 58.858 43.478 0.00 0.00 0.00 2.74
687 808 2.959030 TGTCTGCTCACTTCTGTACTGT 59.041 45.455 0.00 0.00 0.00 3.55
688 809 3.650070 TGTCTGCTCACTTCTGTACTG 57.350 47.619 0.00 0.00 0.00 2.74
689 810 4.526262 AGATTGTCTGCTCACTTCTGTACT 59.474 41.667 0.00 0.00 0.00 2.73
690 811 4.624882 CAGATTGTCTGCTCACTTCTGTAC 59.375 45.833 0.00 0.00 37.72 2.90
691 812 4.524328 TCAGATTGTCTGCTCACTTCTGTA 59.476 41.667 2.13 4.70 43.95 2.74
692 813 3.323115 TCAGATTGTCTGCTCACTTCTGT 59.677 43.478 2.13 0.00 43.95 3.41
693 814 3.922910 TCAGATTGTCTGCTCACTTCTG 58.077 45.455 2.13 10.24 43.95 3.02
694 815 4.822685 ATCAGATTGTCTGCTCACTTCT 57.177 40.909 2.13 0.00 43.95 2.85
695 816 5.876612 AAATCAGATTGTCTGCTCACTTC 57.123 39.130 0.00 0.00 43.95 3.01
696 817 7.571983 CGTTTAAATCAGATTGTCTGCTCACTT 60.572 37.037 0.00 0.00 43.95 3.16
697 818 6.128445 CGTTTAAATCAGATTGTCTGCTCACT 60.128 38.462 0.00 0.00 43.95 3.41
698 819 6.017933 CGTTTAAATCAGATTGTCTGCTCAC 58.982 40.000 0.00 0.00 43.95 3.51
699 820 5.122239 CCGTTTAAATCAGATTGTCTGCTCA 59.878 40.000 0.00 0.00 43.95 4.26
700 821 5.351465 TCCGTTTAAATCAGATTGTCTGCTC 59.649 40.000 0.00 0.00 43.95 4.26
701 822 5.122396 GTCCGTTTAAATCAGATTGTCTGCT 59.878 40.000 0.00 0.00 43.95 4.24
702 823 5.324697 GTCCGTTTAAATCAGATTGTCTGC 58.675 41.667 0.00 0.00 43.95 4.26
703 824 5.347635 TCGTCCGTTTAAATCAGATTGTCTG 59.652 40.000 0.00 0.55 45.59 3.51
704 825 5.475719 TCGTCCGTTTAAATCAGATTGTCT 58.524 37.500 0.00 0.00 0.00 3.41
705 826 5.773239 TCGTCCGTTTAAATCAGATTGTC 57.227 39.130 0.00 0.00 0.00 3.18
706 827 6.548441 TTTCGTCCGTTTAAATCAGATTGT 57.452 33.333 0.00 0.00 0.00 2.71
707 828 7.060633 CCTTTTTCGTCCGTTTAAATCAGATTG 59.939 37.037 0.00 0.00 0.00 2.67
708 829 7.081976 CCTTTTTCGTCCGTTTAAATCAGATT 58.918 34.615 0.00 0.00 0.00 2.40
709 830 6.349033 CCCTTTTTCGTCCGTTTAAATCAGAT 60.349 38.462 0.00 0.00 0.00 2.90
710 831 5.049267 CCCTTTTTCGTCCGTTTAAATCAGA 60.049 40.000 0.00 0.00 0.00 3.27
711 832 5.151389 CCCTTTTTCGTCCGTTTAAATCAG 58.849 41.667 0.00 0.00 0.00 2.90
712 833 4.023021 CCCCTTTTTCGTCCGTTTAAATCA 60.023 41.667 0.00 0.00 0.00 2.57
713 834 4.216042 TCCCCTTTTTCGTCCGTTTAAATC 59.784 41.667 0.00 0.00 0.00 2.17
714 835 4.022935 GTCCCCTTTTTCGTCCGTTTAAAT 60.023 41.667 0.00 0.00 0.00 1.40
715 836 3.314913 GTCCCCTTTTTCGTCCGTTTAAA 59.685 43.478 0.00 0.00 0.00 1.52
716 837 2.877786 GTCCCCTTTTTCGTCCGTTTAA 59.122 45.455 0.00 0.00 0.00 1.52
717 838 2.158842 TGTCCCCTTTTTCGTCCGTTTA 60.159 45.455 0.00 0.00 0.00 2.01
718 839 1.311859 GTCCCCTTTTTCGTCCGTTT 58.688 50.000 0.00 0.00 0.00 3.60
719 840 0.180878 TGTCCCCTTTTTCGTCCGTT 59.819 50.000 0.00 0.00 0.00 4.44
720 841 0.180878 TTGTCCCCTTTTTCGTCCGT 59.819 50.000 0.00 0.00 0.00 4.69
721 842 1.310904 TTTGTCCCCTTTTTCGTCCG 58.689 50.000 0.00 0.00 0.00 4.79
722 843 2.542205 CGTTTTGTCCCCTTTTTCGTCC 60.542 50.000 0.00 0.00 0.00 4.79
723 844 2.723209 CGTTTTGTCCCCTTTTTCGTC 58.277 47.619 0.00 0.00 0.00 4.20
724 845 1.202325 GCGTTTTGTCCCCTTTTTCGT 60.202 47.619 0.00 0.00 0.00 3.85
725 846 1.202313 TGCGTTTTGTCCCCTTTTTCG 60.202 47.619 0.00 0.00 0.00 3.46
726 847 2.588027 TGCGTTTTGTCCCCTTTTTC 57.412 45.000 0.00 0.00 0.00 2.29
727 848 2.432510 TCATGCGTTTTGTCCCCTTTTT 59.567 40.909 0.00 0.00 0.00 1.94
728 849 2.035632 TCATGCGTTTTGTCCCCTTTT 58.964 42.857 0.00 0.00 0.00 2.27
729 850 1.698506 TCATGCGTTTTGTCCCCTTT 58.301 45.000 0.00 0.00 0.00 3.11
730 851 1.818674 GATCATGCGTTTTGTCCCCTT 59.181 47.619 0.00 0.00 0.00 3.95
731 852 1.463674 GATCATGCGTTTTGTCCCCT 58.536 50.000 0.00 0.00 0.00 4.79
732 853 0.455815 GGATCATGCGTTTTGTCCCC 59.544 55.000 0.00 0.00 0.00 4.81
733 854 0.098728 CGGATCATGCGTTTTGTCCC 59.901 55.000 0.00 0.00 0.00 4.46
734 855 0.802494 ACGGATCATGCGTTTTGTCC 59.198 50.000 0.00 0.00 43.30 4.02
742 863 0.744414 AGACCCAAACGGATCATGCG 60.744 55.000 0.00 0.00 37.19 4.73
743 864 0.734889 CAGACCCAAACGGATCATGC 59.265 55.000 0.00 0.00 34.64 4.06
744 865 0.734889 GCAGACCCAAACGGATCATG 59.265 55.000 0.00 0.00 34.64 3.07
745 866 0.744414 CGCAGACCCAAACGGATCAT 60.744 55.000 0.00 0.00 34.64 2.45
746 867 1.375396 CGCAGACCCAAACGGATCA 60.375 57.895 0.00 0.00 34.64 2.92
747 868 1.079405 TCGCAGACCCAAACGGATC 60.079 57.895 0.00 0.00 34.64 3.36
748 869 1.079127 CTCGCAGACCCAAACGGAT 60.079 57.895 0.00 0.00 34.64 4.18
749 870 2.342279 CTCGCAGACCCAAACGGA 59.658 61.111 0.00 0.00 34.64 4.69
750 871 3.423154 GCTCGCAGACCCAAACGG 61.423 66.667 0.00 0.00 37.81 4.44
751 872 1.507141 AAAGCTCGCAGACCCAAACG 61.507 55.000 0.00 0.00 0.00 3.60
752 873 0.040067 CAAAGCTCGCAGACCCAAAC 60.040 55.000 0.00 0.00 0.00 2.93
753 874 1.172180 CCAAAGCTCGCAGACCCAAA 61.172 55.000 0.00 0.00 0.00 3.28
754 875 1.600636 CCAAAGCTCGCAGACCCAA 60.601 57.895 0.00 0.00 0.00 4.12
755 876 2.032528 CCAAAGCTCGCAGACCCA 59.967 61.111 0.00 0.00 0.00 4.51
756 877 1.743252 CTCCAAAGCTCGCAGACCC 60.743 63.158 0.00 0.00 0.00 4.46
757 878 2.394563 GCTCCAAAGCTCGCAGACC 61.395 63.158 0.00 0.00 45.55 3.85
758 879 3.172919 GCTCCAAAGCTCGCAGAC 58.827 61.111 0.00 0.00 45.55 3.51
767 888 1.584380 GGCTCACAGCAGCTCCAAAG 61.584 60.000 0.00 0.00 44.75 2.77
768 889 1.601759 GGCTCACAGCAGCTCCAAA 60.602 57.895 0.00 0.00 44.75 3.28
769 890 2.033141 GGCTCACAGCAGCTCCAA 59.967 61.111 0.00 0.00 44.75 3.53
770 891 4.383861 CGGCTCACAGCAGCTCCA 62.384 66.667 0.00 0.00 44.75 3.86
780 901 0.950555 TTCACACAGATGCGGCTCAC 60.951 55.000 0.00 0.00 0.00 3.51
859 980 5.185635 TGATTTGGAATTTTGGACTAGGCAG 59.814 40.000 0.00 0.00 0.00 4.85
956 1077 2.223803 ACTCTCTGGTAGTGTCTGGG 57.776 55.000 0.00 0.00 0.00 4.45
964 1085 1.874872 GCCTAGCGTACTCTCTGGTAG 59.125 57.143 0.00 0.00 34.38 3.18
965 1086 1.211212 TGCCTAGCGTACTCTCTGGTA 59.789 52.381 0.00 0.00 0.00 3.25
966 1087 0.034380 TGCCTAGCGTACTCTCTGGT 60.034 55.000 0.00 0.00 0.00 4.00
1181 1306 1.218047 GTAGCAGTGCGGATGGACA 59.782 57.895 10.00 0.00 39.20 4.02
1182 1307 1.878522 CGTAGCAGTGCGGATGGAC 60.879 63.158 10.00 1.74 36.56 4.02
1201 1326 3.344137 ATGCGCGGGGTGGAAATCT 62.344 57.895 8.83 0.00 0.00 2.40
1218 1343 6.423182 TCCGACCCTAGAATTTGAATTTGAT 58.577 36.000 0.00 0.00 0.00 2.57
1222 1347 6.187682 ACAATCCGACCCTAGAATTTGAATT 58.812 36.000 0.00 0.00 0.00 2.17
1449 1577 1.116436 CGACGACAGCTGATCGATTC 58.884 55.000 31.39 22.29 42.25 2.52
1460 1588 0.662374 GTACACCACCACGACGACAG 60.662 60.000 0.00 0.00 0.00 3.51
1706 1834 3.067461 GTGTATGGCAGTTCAACAAACCA 59.933 43.478 0.00 0.00 38.76 3.67
1721 1849 6.707637 TGTGTTAGTGCACACTTGTGTATGG 61.708 44.000 21.04 0.00 46.29 2.74
1796 1928 4.160642 ACTTGCAGCCATGATTCTCATA 57.839 40.909 0.00 0.00 34.28 2.15
1797 1929 3.014304 ACTTGCAGCCATGATTCTCAT 57.986 42.857 0.00 0.00 37.65 2.90
1798 1930 2.502142 ACTTGCAGCCATGATTCTCA 57.498 45.000 0.00 0.00 0.00 3.27
1800 1932 3.015327 GAGAACTTGCAGCCATGATTCT 58.985 45.455 0.00 0.00 0.00 2.40
1801 1933 2.223203 CGAGAACTTGCAGCCATGATTC 60.223 50.000 0.00 0.00 0.00 2.52
1807 1952 2.253758 GCACGAGAACTTGCAGCCA 61.254 57.895 0.00 0.00 40.31 4.75
1857 2003 6.062095 ACAAGACCAAGTAACTACTTTGCAT 58.938 36.000 0.00 0.00 43.57 3.96
1895 2041 3.120792 TCAAAAGGAAGTCTTCGACACG 58.879 45.455 6.50 0.00 34.60 4.49
1954 2100 6.749216 ATTAACACGACACTCTTATATGCG 57.251 37.500 0.00 0.00 0.00 4.73
2118 2266 2.665165 ACAGTCCATTTGGTGCTGAAA 58.335 42.857 21.50 0.00 39.61 2.69
2128 2276 5.745227 CCAGGTATCAACTACAGTCCATTT 58.255 41.667 0.00 0.00 31.44 2.32
2177 2325 5.068987 GTGCATGATTTAATTAGGCCCAAGA 59.931 40.000 0.00 0.00 0.00 3.02
2178 2326 5.163426 TGTGCATGATTTAATTAGGCCCAAG 60.163 40.000 0.00 0.00 0.00 3.61
2179 2327 4.713814 TGTGCATGATTTAATTAGGCCCAA 59.286 37.500 0.00 0.00 0.00 4.12
2180 2328 4.099266 GTGTGCATGATTTAATTAGGCCCA 59.901 41.667 0.00 0.00 0.00 5.36
2181 2329 4.342092 AGTGTGCATGATTTAATTAGGCCC 59.658 41.667 0.00 0.00 0.00 5.80
2182 2330 5.163519 ACAGTGTGCATGATTTAATTAGGCC 60.164 40.000 4.07 0.00 0.00 5.19
2208 2364 7.524294 AAATGCGTACAAATCAATTTCCATC 57.476 32.000 0.00 0.00 0.00 3.51
2275 2432 4.152402 ACATCACTTTCGACGGAAGATTTG 59.848 41.667 22.62 16.27 32.80 2.32
2336 2494 7.687941 AAAATGATCCGTTCTGTTTCTGTAT 57.312 32.000 0.00 0.00 0.00 2.29
2423 2582 1.405821 TGTTTTTGCCCACAGTAACGG 59.594 47.619 0.00 0.00 0.00 4.44
2712 2871 1.204312 GTCTGAAGCCGACAAACGC 59.796 57.895 0.00 0.00 41.07 4.84
2734 2893 4.546829 TCGCCACCAGAGTTAACTAAAT 57.453 40.909 8.42 0.00 0.00 1.40
2752 2911 2.158841 TCAGTTGCCTCGTTTAAATCGC 59.841 45.455 0.00 0.00 0.00 4.58
2770 2929 3.627123 TGTGCATTTCCGGTGAATATCAG 59.373 43.478 0.00 0.00 0.00 2.90
2793 2952 0.543277 CCAGCAGTATTGGCCTGAGA 59.457 55.000 3.32 0.00 31.38 3.27
2876 3035 2.578713 CGTATCGGCGCAGTTCGT 60.579 61.111 10.83 0.00 41.07 3.85
2948 3107 5.339861 CCTCTTTCTTCCTTCCAATGGATCT 60.340 44.000 1.39 0.00 33.09 2.75
3172 3332 1.194772 CTTCGAAGCCGTTCCTTTGAC 59.805 52.381 13.09 0.00 35.50 3.18
3173 3333 1.508632 CTTCGAAGCCGTTCCTTTGA 58.491 50.000 13.09 0.00 34.28 2.69
3188 3348 4.337763 CGATTTTCATCTCCTTTGCTTCG 58.662 43.478 0.00 0.00 0.00 3.79
3222 3382 3.188873 GCTCCATATGCTTCATCTTCTGC 59.811 47.826 0.00 0.00 0.00 4.26
3243 3403 0.182061 TGAGATTCTGCATGGGAGGC 59.818 55.000 0.00 0.00 0.00 4.70
3338 3498 0.755686 GACATCCTTGGCCTCTCGAT 59.244 55.000 3.32 0.00 0.00 3.59
3340 3500 0.179089 CTGACATCCTTGGCCTCTCG 60.179 60.000 3.32 0.00 0.00 4.04
3374 3534 0.389025 ATATGGCTGATGCGTCGTCA 59.611 50.000 7.36 7.36 40.82 4.35
3528 3688 0.388659 GATGCTCGAGCTCCACAGAT 59.611 55.000 35.27 20.09 42.66 2.90
3598 3758 2.799562 GCTCTTTGACCTTTGTGCAACC 60.800 50.000 0.00 0.00 34.36 3.77
3785 3945 7.925993 TCTACAATTTGTGTTACACTTTCCTG 58.074 34.615 16.79 9.62 41.98 3.86
3808 3968 7.067981 GTCCATAGCTCTCCAAAAATTTGATCT 59.932 37.037 7.44 0.00 40.55 2.75
3812 3972 5.106157 ACGTCCATAGCTCTCCAAAAATTTG 60.106 40.000 0.00 0.00 37.90 2.32
3820 3980 0.817654 CACACGTCCATAGCTCTCCA 59.182 55.000 0.00 0.00 0.00 3.86
3837 3997 5.302568 TCCATCAGCAAATCCAATTATCCAC 59.697 40.000 0.00 0.00 0.00 4.02
3911 4072 5.048782 TGTTATCCAGAAATCAACAGTGCAC 60.049 40.000 9.40 9.40 0.00 4.57
3918 4079 6.682863 CGAAATCGTGTTATCCAGAAATCAAC 59.317 38.462 0.00 0.00 34.11 3.18
3942 4103 3.283256 CAATGCGCAAAGTATAAGCTCG 58.717 45.455 17.11 0.00 0.00 5.03
3958 4119 9.435688 ACCTAAAAATAAAAGATGAACCAATGC 57.564 29.630 0.00 0.00 0.00 3.56
3998 4160 7.603024 TGCTCTGCTTGATCATAGATAAAGATG 59.397 37.037 8.05 1.08 0.00 2.90
4013 4182 2.251818 AGAGGTACTTGCTCTGCTTGA 58.748 47.619 0.00 0.00 41.55 3.02
4014 4183 2.758736 AGAGGTACTTGCTCTGCTTG 57.241 50.000 0.00 0.00 41.55 4.01
4015 4184 4.891992 TTTAGAGGTACTTGCTCTGCTT 57.108 40.909 9.62 0.00 41.55 3.91
4026 4195 6.026947 TCTCTCTGCAAGTTTTAGAGGTAC 57.973 41.667 11.37 0.00 38.72 3.34
4140 4309 4.432741 GAGGGGAGGGTGCTTGCC 62.433 72.222 0.00 0.00 0.00 4.52
4167 4337 2.024319 GGAGCATAGTGATCCGCGC 61.024 63.158 0.00 0.00 43.58 6.86
4414 4584 4.115199 CCTTCCGCCTCCCCCTTG 62.115 72.222 0.00 0.00 0.00 3.61


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

AutoCloner maintained by Alex Coulton.