Multiple sequence alignment - TraesCS5B01G129200

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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 TraesCS5B01G129200 chr5B 100.000 4175 0 0 1 4175 238314067 238318241 0.000000e+00 7710.0
1 TraesCS5B01G129200 chr5B 95.283 3392 61 21 804 4175 242138475 242135163 0.000000e+00 5286.0
2 TraesCS5B01G129200 chr5B 97.260 146 4 0 704 849 238314628 238314773 8.960000e-62 248.0
3 TraesCS5B01G129200 chr5A 92.472 3414 160 33 804 4175 292861804 292858446 0.000000e+00 4791.0
4 TraesCS5B01G129200 chr5D 92.775 3377 136 39 830 4175 219526659 219523360 0.000000e+00 4785.0
5 TraesCS5B01G129200 chr7B 93.643 645 34 3 3 640 371043669 371044313 0.000000e+00 957.0
6 TraesCS5B01G129200 chr7B 93.157 643 34 5 3 638 528022070 528021431 0.000000e+00 935.0
7 TraesCS5B01G129200 chr3B 93.653 646 32 5 3 640 776173855 776173211 0.000000e+00 957.0
8 TraesCS5B01G129200 chr3B 89.189 74 8 0 707 780 130052247 130052320 4.440000e-15 93.5
9 TraesCS5B01G129200 chr1B 93.157 643 37 3 3 638 403192829 403192187 0.000000e+00 937.0
10 TraesCS5B01G129200 chr1B 92.879 646 38 4 3 640 646503917 646503272 0.000000e+00 931.0
11 TraesCS5B01G129200 chr1B 87.342 79 10 0 704 782 623692043 623692121 1.600000e-14 91.6
12 TraesCS5B01G129200 chr6B 92.991 642 38 3 3 638 702273709 702273069 0.000000e+00 929.0
13 TraesCS5B01G129200 chr6B 92.713 645 37 5 3 638 91125908 91126551 0.000000e+00 922.0
14 TraesCS5B01G129200 chr6B 92.105 76 6 0 707 782 490644295 490644370 1.590000e-19 108.0
15 TraesCS5B01G129200 chr2B 92.736 647 38 5 3 640 78416686 78416040 0.000000e+00 926.0
16 TraesCS5B01G129200 chr2B 92.208 77 6 0 707 783 609151039 609150963 4.410000e-20 110.0
17 TraesCS5B01G129200 chr4B 92.679 642 39 4 3 638 611398879 611399518 0.000000e+00 918.0
18 TraesCS5B01G129200 chr6A 92.000 75 6 0 709 783 91381867 91381793 5.710000e-19 106.0
19 TraesCS5B01G129200 chr6A 90.769 65 6 0 718 782 596755571 596755635 2.070000e-13 87.9
20 TraesCS5B01G129200 chr3A 89.474 76 8 0 707 782 555443386 555443461 3.440000e-16 97.1
21 TraesCS5B01G129200 chr7A 89.189 74 8 0 707 780 43533068 43532995 4.440000e-15 93.5


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 TraesCS5B01G129200 chr5B 238314067 238318241 4174 False 3979 7710 98.630 1 4175 2 chr5B.!!$F1 4174
1 TraesCS5B01G129200 chr5B 242135163 242138475 3312 True 5286 5286 95.283 804 4175 1 chr5B.!!$R1 3371
2 TraesCS5B01G129200 chr5A 292858446 292861804 3358 True 4791 4791 92.472 804 4175 1 chr5A.!!$R1 3371
3 TraesCS5B01G129200 chr5D 219523360 219526659 3299 True 4785 4785 92.775 830 4175 1 chr5D.!!$R1 3345
4 TraesCS5B01G129200 chr7B 371043669 371044313 644 False 957 957 93.643 3 640 1 chr7B.!!$F1 637
5 TraesCS5B01G129200 chr7B 528021431 528022070 639 True 935 935 93.157 3 638 1 chr7B.!!$R1 635
6 TraesCS5B01G129200 chr3B 776173211 776173855 644 True 957 957 93.653 3 640 1 chr3B.!!$R1 637
7 TraesCS5B01G129200 chr1B 403192187 403192829 642 True 937 937 93.157 3 638 1 chr1B.!!$R1 635
8 TraesCS5B01G129200 chr1B 646503272 646503917 645 True 931 931 92.879 3 640 1 chr1B.!!$R2 637
9 TraesCS5B01G129200 chr6B 702273069 702273709 640 True 929 929 92.991 3 638 1 chr6B.!!$R1 635
10 TraesCS5B01G129200 chr6B 91125908 91126551 643 False 922 922 92.713 3 638 1 chr6B.!!$F1 635
11 TraesCS5B01G129200 chr2B 78416040 78416686 646 True 926 926 92.736 3 640 1 chr2B.!!$R1 637
12 TraesCS5B01G129200 chr4B 611398879 611399518 639 False 918 918 92.679 3 638 1 chr4B.!!$F1 635

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
640 656 0.035439 CGTGGTGGAGTTGGCCTAAT 60.035 55.000 3.32 0.00 0.00 1.73 F
782 798 0.035439 CGTGGTGGAGTTGGCCTAAT 60.035 55.000 3.32 0.00 0.00 1.73 F
784 800 1.282157 GTGGTGGAGTTGGCCTAATCT 59.718 52.381 14.09 2.22 0.00 2.40 F
785 801 1.559682 TGGTGGAGTTGGCCTAATCTC 59.440 52.381 14.09 10.63 0.00 2.75 F
1528 1563 1.613255 CCAGTTTGGGCGGTATCTGTT 60.613 52.381 0.00 0.00 32.67 3.16 F
1529 1564 2.355310 CCAGTTTGGGCGGTATCTGTTA 60.355 50.000 0.00 0.00 32.67 2.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1871 1917 0.249447 TGAGAGCGCATACCATTCCG 60.249 55.000 11.47 0.0 0.00 4.30 R
1996 2046 3.270027 CATCCGCCACTAGATCACAAAA 58.730 45.455 0.00 0.0 0.00 2.44 R
2389 2467 3.386768 TGCAGAGTCCAAACTACTCAC 57.613 47.619 6.06 0.0 44.77 3.51 R
2446 2526 5.314923 AGCCAATTTGCATTGTGTACTAG 57.685 39.130 4.12 0.0 38.58 2.57 R
3146 3230 0.322008 GGGAGTCAAGCAGAGGTTGG 60.322 60.000 8.81 0.0 40.81 3.77 R
3261 3345 0.401395 TTCTCCCCCAACTGGACTGT 60.401 55.000 0.00 0.0 37.39 3.55 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
63 64 3.695747 GAGAAGCTCCTGGGCCAGC 62.696 68.421 28.51 18.12 35.73 4.85
266 272 4.063230 CGACGACGACGACACCGA 62.063 66.667 15.32 0.00 42.66 4.69
382 391 1.074889 TCTGGGCCTTTTAAGTGACCC 59.925 52.381 4.53 0.00 37.88 4.46
507 522 2.349755 CCCGGACACGATTTGGGT 59.650 61.111 0.73 0.00 44.60 4.51
508 523 1.597989 CCCGGACACGATTTGGGTA 59.402 57.895 0.73 0.00 44.60 3.69
509 524 0.179468 CCCGGACACGATTTGGGTAT 59.821 55.000 0.73 0.00 44.60 2.73
548 564 1.255882 GCATGACCCAATGGACACAA 58.744 50.000 0.00 0.00 39.13 3.33
640 656 0.035439 CGTGGTGGAGTTGGCCTAAT 60.035 55.000 3.32 0.00 0.00 1.73
641 657 1.751437 GTGGTGGAGTTGGCCTAATC 58.249 55.000 3.32 4.89 0.00 1.75
642 658 1.282157 GTGGTGGAGTTGGCCTAATCT 59.718 52.381 14.09 2.22 0.00 2.40
643 659 1.559682 TGGTGGAGTTGGCCTAATCTC 59.440 52.381 14.09 10.63 0.00 2.75
644 660 1.840635 GGTGGAGTTGGCCTAATCTCT 59.159 52.381 14.09 0.00 0.00 3.10
645 661 3.039011 GGTGGAGTTGGCCTAATCTCTA 58.961 50.000 14.09 6.77 0.00 2.43
646 662 3.648545 GGTGGAGTTGGCCTAATCTCTAT 59.351 47.826 14.09 0.00 0.00 1.98
647 663 4.262678 GGTGGAGTTGGCCTAATCTCTATC 60.263 50.000 14.09 6.32 0.00 2.08
648 664 4.591072 GTGGAGTTGGCCTAATCTCTATCT 59.409 45.833 14.09 0.00 0.00 1.98
649 665 4.590647 TGGAGTTGGCCTAATCTCTATCTG 59.409 45.833 14.09 0.00 0.00 2.90
650 666 4.591072 GGAGTTGGCCTAATCTCTATCTGT 59.409 45.833 14.09 0.00 0.00 3.41
651 667 5.071115 GGAGTTGGCCTAATCTCTATCTGTT 59.929 44.000 14.09 0.00 0.00 3.16
652 668 6.408662 GGAGTTGGCCTAATCTCTATCTGTTT 60.409 42.308 14.09 0.00 0.00 2.83
653 669 6.963322 AGTTGGCCTAATCTCTATCTGTTTT 58.037 36.000 3.32 0.00 0.00 2.43
654 670 8.090788 AGTTGGCCTAATCTCTATCTGTTTTA 57.909 34.615 3.32 0.00 0.00 1.52
655 671 8.718656 AGTTGGCCTAATCTCTATCTGTTTTAT 58.281 33.333 3.32 0.00 0.00 1.40
656 672 8.994170 GTTGGCCTAATCTCTATCTGTTTTATC 58.006 37.037 3.32 0.00 0.00 1.75
657 673 8.497910 TGGCCTAATCTCTATCTGTTTTATCT 57.502 34.615 3.32 0.00 0.00 1.98
658 674 8.589338 TGGCCTAATCTCTATCTGTTTTATCTC 58.411 37.037 3.32 0.00 0.00 2.75
659 675 8.811994 GGCCTAATCTCTATCTGTTTTATCTCT 58.188 37.037 0.00 0.00 0.00 3.10
660 676 9.638239 GCCTAATCTCTATCTGTTTTATCTCTG 57.362 37.037 0.00 0.00 0.00 3.35
661 677 9.638239 CCTAATCTCTATCTGTTTTATCTCTGC 57.362 37.037 0.00 0.00 0.00 4.26
666 682 9.579932 TCTCTATCTGTTTTATCTCTGCATAGA 57.420 33.333 4.05 4.05 0.00 1.98
668 684 9.973450 TCTATCTGTTTTATCTCTGCATAGAAC 57.027 33.333 5.83 0.67 31.21 3.01
669 685 9.979578 CTATCTGTTTTATCTCTGCATAGAACT 57.020 33.333 5.83 0.00 31.21 3.01
671 687 9.678260 ATCTGTTTTATCTCTGCATAGAACTTT 57.322 29.630 5.83 0.00 31.21 2.66
672 688 8.939929 TCTGTTTTATCTCTGCATAGAACTTTG 58.060 33.333 5.83 0.00 31.21 2.77
673 689 8.044060 TGTTTTATCTCTGCATAGAACTTTGG 57.956 34.615 5.83 0.00 31.21 3.28
674 690 6.683974 TTTATCTCTGCATAGAACTTTGGC 57.316 37.500 5.83 0.00 31.21 4.52
675 691 3.701205 TCTCTGCATAGAACTTTGGCA 57.299 42.857 0.00 0.00 31.21 4.92
676 692 4.226427 TCTCTGCATAGAACTTTGGCAT 57.774 40.909 0.00 0.00 33.50 4.40
677 693 5.357742 TCTCTGCATAGAACTTTGGCATA 57.642 39.130 0.00 0.00 33.50 3.14
678 694 5.118990 TCTCTGCATAGAACTTTGGCATAC 58.881 41.667 0.00 0.00 33.50 2.39
679 695 3.871006 TCTGCATAGAACTTTGGCATACG 59.129 43.478 0.00 0.00 33.50 3.06
680 696 2.354510 TGCATAGAACTTTGGCATACGC 59.645 45.455 0.00 0.00 37.44 4.42
681 697 2.614057 GCATAGAACTTTGGCATACGCT 59.386 45.455 0.00 0.00 38.60 5.07
682 698 3.807622 GCATAGAACTTTGGCATACGCTA 59.192 43.478 0.00 0.00 38.60 4.26
683 699 4.318831 GCATAGAACTTTGGCATACGCTAC 60.319 45.833 0.00 0.00 38.60 3.58
684 700 3.611766 AGAACTTTGGCATACGCTACT 57.388 42.857 0.00 0.00 38.60 2.57
685 701 4.730949 AGAACTTTGGCATACGCTACTA 57.269 40.909 0.00 0.00 38.60 1.82
686 702 4.683832 AGAACTTTGGCATACGCTACTAG 58.316 43.478 0.00 0.00 38.60 2.57
687 703 4.159879 AGAACTTTGGCATACGCTACTAGT 59.840 41.667 0.00 0.00 38.60 2.57
688 704 5.359009 AGAACTTTGGCATACGCTACTAGTA 59.641 40.000 1.89 1.89 38.60 1.82
689 705 4.929781 ACTTTGGCATACGCTACTAGTAC 58.070 43.478 0.00 0.00 38.60 2.73
690 706 4.400251 ACTTTGGCATACGCTACTAGTACA 59.600 41.667 0.00 0.00 38.60 2.90
691 707 4.987408 TTGGCATACGCTACTAGTACAA 57.013 40.909 0.00 0.00 38.60 2.41
692 708 4.297299 TGGCATACGCTACTAGTACAAC 57.703 45.455 0.00 0.00 38.60 3.32
693 709 3.695556 TGGCATACGCTACTAGTACAACA 59.304 43.478 0.00 0.00 38.60 3.33
694 710 4.201980 TGGCATACGCTACTAGTACAACAG 60.202 45.833 0.00 0.00 38.60 3.16
695 711 4.201990 GGCATACGCTACTAGTACAACAGT 60.202 45.833 0.00 0.00 38.60 3.55
696 712 4.733887 GCATACGCTACTAGTACAACAGTG 59.266 45.833 0.00 0.00 34.30 3.66
697 713 3.213249 ACGCTACTAGTACAACAGTGC 57.787 47.619 0.00 0.00 0.00 4.40
698 714 2.818432 ACGCTACTAGTACAACAGTGCT 59.182 45.455 0.00 0.00 32.78 4.40
699 715 4.005650 ACGCTACTAGTACAACAGTGCTA 58.994 43.478 0.00 0.00 30.63 3.49
700 716 4.142730 ACGCTACTAGTACAACAGTGCTAC 60.143 45.833 0.00 0.00 30.63 3.58
701 717 4.094590 CGCTACTAGTACAACAGTGCTACT 59.905 45.833 0.00 0.00 30.63 2.57
707 723 4.800554 AACAGTGCTACTGGTGCC 57.199 55.556 17.01 0.00 45.96 5.01
708 724 1.073199 AACAGTGCTACTGGTGCCC 59.927 57.895 17.01 0.00 45.96 5.36
709 725 1.705002 AACAGTGCTACTGGTGCCCA 61.705 55.000 17.01 0.00 45.96 5.36
710 726 1.300963 CAGTGCTACTGGTGCCCAT 59.699 57.895 8.03 0.00 42.35 4.00
711 727 0.745845 CAGTGCTACTGGTGCCCATC 60.746 60.000 8.03 0.00 42.35 3.51
712 728 1.815421 GTGCTACTGGTGCCCATCG 60.815 63.158 0.00 0.00 30.82 3.84
713 729 2.203070 GCTACTGGTGCCCATCGG 60.203 66.667 0.00 0.00 30.82 4.18
725 741 4.794648 CATCGGCGCCCCAAAGGA 62.795 66.667 23.46 11.83 38.24 3.36
726 742 4.041762 ATCGGCGCCCCAAAGGAA 62.042 61.111 23.46 0.00 38.24 3.36
729 745 3.373565 GGCGCCCCAAAGGAACAG 61.374 66.667 18.11 0.00 38.24 3.16
730 746 2.282180 GCGCCCCAAAGGAACAGA 60.282 61.111 0.00 0.00 38.24 3.41
731 747 1.678970 GCGCCCCAAAGGAACAGAT 60.679 57.895 0.00 0.00 38.24 2.90
732 748 1.250840 GCGCCCCAAAGGAACAGATT 61.251 55.000 0.00 0.00 38.24 2.40
733 749 0.811281 CGCCCCAAAGGAACAGATTC 59.189 55.000 0.00 0.00 38.24 2.52
734 750 0.811281 GCCCCAAAGGAACAGATTCG 59.189 55.000 0.00 0.00 38.24 3.34
735 751 1.463674 CCCCAAAGGAACAGATTCGG 58.536 55.000 0.00 0.00 38.24 4.30
736 752 1.463674 CCCAAAGGAACAGATTCGGG 58.536 55.000 0.00 0.00 35.48 5.14
737 753 0.811281 CCAAAGGAACAGATTCGGGC 59.189 55.000 0.00 0.00 35.48 6.13
738 754 0.811281 CAAAGGAACAGATTCGGGCC 59.189 55.000 0.00 0.00 35.48 5.80
739 755 0.404040 AAAGGAACAGATTCGGGCCA 59.596 50.000 4.39 0.00 35.48 5.36
740 756 0.404040 AAGGAACAGATTCGGGCCAA 59.596 50.000 4.39 0.00 35.48 4.52
741 757 0.625849 AGGAACAGATTCGGGCCAAT 59.374 50.000 4.39 2.31 35.48 3.16
742 758 1.025041 GGAACAGATTCGGGCCAATC 58.975 55.000 4.39 16.28 35.48 2.67
743 759 1.025041 GAACAGATTCGGGCCAATCC 58.975 55.000 18.85 6.20 33.79 3.01
752 768 3.192922 GGCCAATCCGGACGTTCG 61.193 66.667 6.12 9.95 36.56 3.95
753 769 2.433664 GCCAATCCGGACGTTCGT 60.434 61.111 16.40 0.00 36.56 3.85
754 770 2.030958 GCCAATCCGGACGTTCGTT 61.031 57.895 16.40 0.10 36.56 3.85
755 771 1.571215 GCCAATCCGGACGTTCGTTT 61.571 55.000 16.40 5.65 36.56 3.60
756 772 0.165079 CCAATCCGGACGTTCGTTTG 59.835 55.000 16.40 17.17 36.56 2.93
757 773 0.165079 CAATCCGGACGTTCGTTTGG 59.835 55.000 16.40 0.00 0.00 3.28
758 774 0.952010 AATCCGGACGTTCGTTTGGG 60.952 55.000 16.40 0.00 0.00 4.12
759 775 2.791501 ATCCGGACGTTCGTTTGGGG 62.792 60.000 16.40 0.00 0.00 4.96
760 776 2.280321 CGGACGTTCGTTTGGGGT 60.280 61.111 8.45 0.00 0.00 4.95
761 777 2.312436 CGGACGTTCGTTTGGGGTC 61.312 63.158 8.45 0.00 0.00 4.46
762 778 2.312436 GGACGTTCGTTTGGGGTCG 61.312 63.158 0.00 0.00 0.00 4.79
763 779 2.946752 GACGTTCGTTTGGGGTCGC 61.947 63.158 0.00 0.00 0.00 5.19
764 780 4.067016 CGTTCGTTTGGGGTCGCG 62.067 66.667 0.00 0.00 0.00 5.87
765 781 2.968697 GTTCGTTTGGGGTCGCGT 60.969 61.111 5.77 0.00 0.00 6.01
766 782 2.968156 TTCGTTTGGGGTCGCGTG 60.968 61.111 5.77 0.00 0.00 5.34
767 783 4.973055 TCGTTTGGGGTCGCGTGG 62.973 66.667 5.77 0.00 0.00 4.94
769 785 3.656045 GTTTGGGGTCGCGTGGTG 61.656 66.667 5.77 0.00 0.00 4.17
770 786 4.939368 TTTGGGGTCGCGTGGTGG 62.939 66.667 5.77 0.00 0.00 4.61
774 790 4.309950 GGGTCGCGTGGTGGAGTT 62.310 66.667 5.77 0.00 0.00 3.01
775 791 3.041940 GGTCGCGTGGTGGAGTTG 61.042 66.667 5.77 0.00 0.00 3.16
776 792 3.041940 GTCGCGTGGTGGAGTTGG 61.042 66.667 5.77 0.00 0.00 3.77
777 793 4.980805 TCGCGTGGTGGAGTTGGC 62.981 66.667 5.77 0.00 0.00 4.52
779 795 4.643387 GCGTGGTGGAGTTGGCCT 62.643 66.667 3.32 0.00 0.00 5.19
780 796 3.065306 CGTGGTGGAGTTGGCCTA 58.935 61.111 3.32 0.00 0.00 3.93
781 797 1.373435 CGTGGTGGAGTTGGCCTAA 59.627 57.895 3.32 0.00 0.00 2.69
782 798 0.035439 CGTGGTGGAGTTGGCCTAAT 60.035 55.000 3.32 0.00 0.00 1.73
783 799 1.751437 GTGGTGGAGTTGGCCTAATC 58.249 55.000 3.32 4.89 0.00 1.75
784 800 1.282157 GTGGTGGAGTTGGCCTAATCT 59.718 52.381 14.09 2.22 0.00 2.40
785 801 1.559682 TGGTGGAGTTGGCCTAATCTC 59.440 52.381 14.09 10.63 0.00 2.75
786 802 1.840635 GGTGGAGTTGGCCTAATCTCT 59.159 52.381 14.09 0.00 0.00 3.10
787 803 3.039011 GGTGGAGTTGGCCTAATCTCTA 58.961 50.000 14.09 6.77 0.00 2.43
788 804 3.648545 GGTGGAGTTGGCCTAATCTCTAT 59.351 47.826 14.09 0.00 0.00 1.98
789 805 4.262678 GGTGGAGTTGGCCTAATCTCTATC 60.263 50.000 14.09 6.32 0.00 2.08
790 806 4.591072 GTGGAGTTGGCCTAATCTCTATCT 59.409 45.833 14.09 0.00 0.00 1.98
791 807 4.590647 TGGAGTTGGCCTAATCTCTATCTG 59.409 45.833 14.09 0.00 0.00 2.90
792 808 4.591072 GGAGTTGGCCTAATCTCTATCTGT 59.409 45.833 14.09 0.00 0.00 3.41
793 809 5.071115 GGAGTTGGCCTAATCTCTATCTGTT 59.929 44.000 14.09 0.00 0.00 3.16
794 810 6.408662 GGAGTTGGCCTAATCTCTATCTGTTT 60.409 42.308 14.09 0.00 0.00 2.83
795 811 6.963322 AGTTGGCCTAATCTCTATCTGTTTT 58.037 36.000 3.32 0.00 0.00 2.43
796 812 8.090788 AGTTGGCCTAATCTCTATCTGTTTTA 57.909 34.615 3.32 0.00 0.00 1.52
797 813 8.718656 AGTTGGCCTAATCTCTATCTGTTTTAT 58.281 33.333 3.32 0.00 0.00 1.40
798 814 8.994170 GTTGGCCTAATCTCTATCTGTTTTATC 58.006 37.037 3.32 0.00 0.00 1.75
799 815 8.497910 TGGCCTAATCTCTATCTGTTTTATCT 57.502 34.615 3.32 0.00 0.00 1.98
800 816 8.589338 TGGCCTAATCTCTATCTGTTTTATCTC 58.411 37.037 3.32 0.00 0.00 2.75
801 817 8.811994 GGCCTAATCTCTATCTGTTTTATCTCT 58.188 37.037 0.00 0.00 0.00 3.10
802 818 9.638239 GCCTAATCTCTATCTGTTTTATCTCTG 57.362 37.037 0.00 0.00 0.00 3.35
820 836 5.118990 TCTCTGCATAGAACTTTGGCATAC 58.881 41.667 0.00 0.00 33.50 2.39
826 842 2.629051 AGAACTTTGGCATACGCTACC 58.371 47.619 0.00 0.00 38.60 3.18
1405 1437 2.398498 CGTATGCTCCTTCTGGAATCG 58.602 52.381 0.00 0.00 42.66 3.34
1528 1563 1.613255 CCAGTTTGGGCGGTATCTGTT 60.613 52.381 0.00 0.00 32.67 3.16
1529 1564 2.355310 CCAGTTTGGGCGGTATCTGTTA 60.355 50.000 0.00 0.00 32.67 2.41
1530 1565 2.676342 CAGTTTGGGCGGTATCTGTTAC 59.324 50.000 0.00 0.00 0.00 2.50
1871 1917 8.296713 TCCTTAAATACTTGTGATTTGTGAAGC 58.703 33.333 0.00 0.00 0.00 3.86
1995 2045 8.960591 CCTCTACTTTTCCATTACATTGTGAAT 58.039 33.333 0.00 0.00 0.00 2.57
2102 2152 2.618241 GCGCATAATGTCATTCTCCCAA 59.382 45.455 0.30 0.00 0.00 4.12
2325 2403 8.100791 GCCTATGTATTAAGAGAGAGAGAGAGA 58.899 40.741 0.00 0.00 0.00 3.10
2326 2404 9.658799 CCTATGTATTAAGAGAGAGAGAGAGAG 57.341 40.741 0.00 0.00 0.00 3.20
2329 2407 8.547481 TGTATTAAGAGAGAGAGAGAGAGAGA 57.453 38.462 0.00 0.00 0.00 3.10
2330 2408 8.642432 TGTATTAAGAGAGAGAGAGAGAGAGAG 58.358 40.741 0.00 0.00 0.00 3.20
2389 2467 6.429624 TCTCTGTTGAATGTTTCATTTGTCG 58.570 36.000 0.00 0.00 39.84 4.35
2501 2581 8.945195 ATGTACATATGTGGATGGATGAATTT 57.055 30.769 18.81 0.00 0.00 1.82
2768 2848 5.504830 GCTTTTCAAGTTCTCTCACACCTTC 60.505 44.000 0.00 0.00 0.00 3.46
2775 2855 3.325293 TCTCTCACACCTTCTGCATTC 57.675 47.619 0.00 0.00 0.00 2.67
2794 2875 5.866092 GCATTCTGAAACCATCTTTTCTTCC 59.134 40.000 0.00 0.00 36.58 3.46
3245 3329 1.278238 GCGTTGACTGGGTTCTATCG 58.722 55.000 0.00 0.00 0.00 2.92
3261 3345 7.309255 GGGTTCTATCGTAATCAGCTAGATCAA 60.309 40.741 0.00 0.00 35.39 2.57
3500 3588 2.092429 TGTTTCCAGAGTCACTGCCTTT 60.092 45.455 0.00 0.00 44.52 3.11
3507 3595 3.567164 CAGAGTCACTGCCTTTTGTTGAT 59.433 43.478 0.00 0.00 39.86 2.57
3527 3616 8.898761 TGTTGATGTGTGTACTTTTGATTTAGT 58.101 29.630 0.00 0.00 0.00 2.24
3529 3618 7.359595 TGATGTGTGTACTTTTGATTTAGTGC 58.640 34.615 0.00 0.00 0.00 4.40
3531 3620 7.089770 TGTGTGTACTTTTGATTTAGTGCAA 57.910 32.000 0.00 0.00 38.43 4.08
3533 3622 8.194104 TGTGTGTACTTTTGATTTAGTGCAATT 58.806 29.630 0.00 0.00 38.43 2.32
3534 3623 9.030301 GTGTGTACTTTTGATTTAGTGCAATTT 57.970 29.630 0.00 0.00 38.43 1.82
3535 3624 9.029243 TGTGTACTTTTGATTTAGTGCAATTTG 57.971 29.630 0.00 0.00 38.43 2.32
3536 3625 8.003784 GTGTACTTTTGATTTAGTGCAATTTGC 58.996 33.333 14.49 14.49 45.29 3.68
3612 3701 3.619483 CCTGTTGACGTGTGTTACTTTCA 59.381 43.478 0.00 0.00 0.00 2.69
3762 3851 0.549469 CCCAATTTAGTAGGGCGGGT 59.451 55.000 0.00 0.00 35.44 5.28
3933 4022 2.579410 AGTAAATTTGCTGGACCGGT 57.421 45.000 6.92 6.92 0.00 5.28
3989 4079 5.620738 AGCTTAAGTCTCCAGCATATTGA 57.379 39.130 4.02 0.00 35.88 2.57
4083 4175 6.956299 AAATCATGAAACATGCAAAGTAGC 57.044 33.333 0.00 0.00 0.00 3.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
266 272 4.681978 GCCGTCTTCACTGGCCGT 62.682 66.667 0.00 0.00 43.06 5.68
382 391 1.136110 ACAAAACGGCCCAGTTTCAAG 59.864 47.619 8.93 5.77 42.81 3.02
472 485 2.742348 GGGGTGGACGGGATTAAAAAT 58.258 47.619 0.00 0.00 0.00 1.82
532 548 0.536233 CGGTTGTGTCCATTGGGTCA 60.536 55.000 2.09 0.22 34.93 4.02
640 656 9.579932 TCTATGCAGAGATAAAACAGATAGAGA 57.420 33.333 7.02 0.00 0.00 3.10
642 658 9.973450 GTTCTATGCAGAGATAAAACAGATAGA 57.027 33.333 12.63 0.00 30.73 1.98
643 659 9.979578 AGTTCTATGCAGAGATAAAACAGATAG 57.020 33.333 12.63 0.00 30.73 2.08
645 661 9.678260 AAAGTTCTATGCAGAGATAAAACAGAT 57.322 29.630 12.63 0.00 30.73 2.90
646 662 8.939929 CAAAGTTCTATGCAGAGATAAAACAGA 58.060 33.333 12.63 0.00 30.73 3.41
647 663 8.180267 CCAAAGTTCTATGCAGAGATAAAACAG 58.820 37.037 12.63 2.19 30.73 3.16
648 664 7.362056 GCCAAAGTTCTATGCAGAGATAAAACA 60.362 37.037 12.63 0.00 30.73 2.83
649 665 6.969473 GCCAAAGTTCTATGCAGAGATAAAAC 59.031 38.462 12.63 7.33 30.73 2.43
650 666 6.658816 TGCCAAAGTTCTATGCAGAGATAAAA 59.341 34.615 12.63 0.00 30.73 1.52
651 667 6.179756 TGCCAAAGTTCTATGCAGAGATAAA 58.820 36.000 12.63 0.00 30.73 1.40
652 668 5.744171 TGCCAAAGTTCTATGCAGAGATAA 58.256 37.500 12.63 0.00 30.73 1.75
653 669 5.357742 TGCCAAAGTTCTATGCAGAGATA 57.642 39.130 12.63 0.49 30.73 1.98
654 670 4.226427 TGCCAAAGTTCTATGCAGAGAT 57.774 40.909 12.63 0.00 30.73 2.75
655 671 3.701205 TGCCAAAGTTCTATGCAGAGA 57.299 42.857 7.02 7.02 30.73 3.10
656 672 4.025396 CGTATGCCAAAGTTCTATGCAGAG 60.025 45.833 0.69 0.69 35.10 3.35
657 673 3.871006 CGTATGCCAAAGTTCTATGCAGA 59.129 43.478 0.00 0.00 35.10 4.26
658 674 3.546815 GCGTATGCCAAAGTTCTATGCAG 60.547 47.826 0.00 0.00 35.10 4.41
659 675 2.354510 GCGTATGCCAAAGTTCTATGCA 59.645 45.455 0.00 0.00 36.23 3.96
660 676 2.614057 AGCGTATGCCAAAGTTCTATGC 59.386 45.455 2.51 0.00 44.31 3.14
661 677 5.050490 AGTAGCGTATGCCAAAGTTCTATG 58.950 41.667 2.51 0.00 44.31 2.23
662 678 5.277857 AGTAGCGTATGCCAAAGTTCTAT 57.722 39.130 2.51 0.00 44.31 1.98
663 679 4.730949 AGTAGCGTATGCCAAAGTTCTA 57.269 40.909 2.51 0.00 44.31 2.10
664 680 3.611766 AGTAGCGTATGCCAAAGTTCT 57.388 42.857 2.51 0.00 44.31 3.01
665 681 4.430908 ACTAGTAGCGTATGCCAAAGTTC 58.569 43.478 2.51 0.00 44.31 3.01
666 682 4.467198 ACTAGTAGCGTATGCCAAAGTT 57.533 40.909 2.51 0.00 44.31 2.66
667 683 4.400251 TGTACTAGTAGCGTATGCCAAAGT 59.600 41.667 1.87 5.31 44.31 2.66
668 684 4.928601 TGTACTAGTAGCGTATGCCAAAG 58.071 43.478 1.87 0.00 44.31 2.77
669 685 4.987408 TGTACTAGTAGCGTATGCCAAA 57.013 40.909 1.87 0.00 44.31 3.28
670 686 4.158209 TGTTGTACTAGTAGCGTATGCCAA 59.842 41.667 1.87 0.00 44.31 4.52
671 687 3.695556 TGTTGTACTAGTAGCGTATGCCA 59.304 43.478 1.87 0.00 44.31 4.92
672 688 4.201990 ACTGTTGTACTAGTAGCGTATGCC 60.202 45.833 1.87 0.00 44.31 4.40
673 689 4.733887 CACTGTTGTACTAGTAGCGTATGC 59.266 45.833 1.87 0.00 43.24 3.14
674 690 4.733887 GCACTGTTGTACTAGTAGCGTATG 59.266 45.833 1.87 0.00 0.00 2.39
675 691 4.639310 AGCACTGTTGTACTAGTAGCGTAT 59.361 41.667 1.87 0.00 0.00 3.06
676 692 4.005650 AGCACTGTTGTACTAGTAGCGTA 58.994 43.478 1.87 0.00 0.00 4.42
677 693 2.818432 AGCACTGTTGTACTAGTAGCGT 59.182 45.455 1.87 0.00 0.00 5.07
678 694 3.489180 AGCACTGTTGTACTAGTAGCG 57.511 47.619 1.87 0.00 0.00 4.26
679 695 5.333513 CAGTAGCACTGTTGTACTAGTAGC 58.666 45.833 1.87 1.32 41.19 3.58
680 696 5.415077 ACCAGTAGCACTGTTGTACTAGTAG 59.585 44.000 1.87 0.00 44.50 2.57
681 697 5.182570 CACCAGTAGCACTGTTGTACTAGTA 59.817 44.000 13.06 0.00 44.50 1.82
682 698 4.022242 CACCAGTAGCACTGTTGTACTAGT 60.022 45.833 0.00 0.00 44.50 2.57
683 699 4.486090 CACCAGTAGCACTGTTGTACTAG 58.514 47.826 13.06 0.00 44.50 2.57
684 700 3.305813 GCACCAGTAGCACTGTTGTACTA 60.306 47.826 12.73 0.00 44.50 1.82
685 701 2.548067 GCACCAGTAGCACTGTTGTACT 60.548 50.000 12.73 0.00 44.50 2.73
686 702 1.798813 GCACCAGTAGCACTGTTGTAC 59.201 52.381 12.73 0.00 44.50 2.90
687 703 1.270625 GGCACCAGTAGCACTGTTGTA 60.271 52.381 12.73 0.00 44.50 2.41
688 704 0.535102 GGCACCAGTAGCACTGTTGT 60.535 55.000 12.73 4.82 44.50 3.32
689 705 2.247790 GGCACCAGTAGCACTGTTG 58.752 57.895 13.06 10.88 44.50 3.33
690 706 4.800554 GGCACCAGTAGCACTGTT 57.199 55.556 13.06 0.00 44.50 3.16
708 724 4.794648 TCCTTTGGGGCGCCGATG 62.795 66.667 22.54 15.02 34.39 3.84
709 725 4.041762 TTCCTTTGGGGCGCCGAT 62.042 61.111 22.54 0.00 34.39 4.18
712 728 3.373565 CTGTTCCTTTGGGGCGCC 61.374 66.667 21.18 21.18 34.39 6.53
713 729 1.250840 AATCTGTTCCTTTGGGGCGC 61.251 55.000 0.00 0.00 34.39 6.53
714 730 0.811281 GAATCTGTTCCTTTGGGGCG 59.189 55.000 0.00 0.00 34.39 6.13
715 731 0.811281 CGAATCTGTTCCTTTGGGGC 59.189 55.000 0.00 0.00 34.39 5.80
716 732 1.463674 CCGAATCTGTTCCTTTGGGG 58.536 55.000 0.00 0.00 0.00 4.96
717 733 1.463674 CCCGAATCTGTTCCTTTGGG 58.536 55.000 0.00 0.00 39.24 4.12
718 734 0.811281 GCCCGAATCTGTTCCTTTGG 59.189 55.000 0.00 0.00 0.00 3.28
719 735 0.811281 GGCCCGAATCTGTTCCTTTG 59.189 55.000 0.00 0.00 0.00 2.77
720 736 0.404040 TGGCCCGAATCTGTTCCTTT 59.596 50.000 0.00 0.00 0.00 3.11
721 737 0.404040 TTGGCCCGAATCTGTTCCTT 59.596 50.000 0.00 0.00 0.00 3.36
722 738 0.625849 ATTGGCCCGAATCTGTTCCT 59.374 50.000 0.00 0.00 0.00 3.36
723 739 1.025041 GATTGGCCCGAATCTGTTCC 58.975 55.000 0.00 0.00 30.79 3.62
724 740 1.025041 GGATTGGCCCGAATCTGTTC 58.975 55.000 13.82 0.00 33.52 3.18
725 741 3.191182 GGATTGGCCCGAATCTGTT 57.809 52.632 13.82 0.00 33.52 3.16
726 742 4.986467 GGATTGGCCCGAATCTGT 57.014 55.556 13.82 0.00 33.52 3.41
734 750 2.822701 GAACGTCCGGATTGGCCC 60.823 66.667 7.81 0.00 37.80 5.80
735 751 3.192922 CGAACGTCCGGATTGGCC 61.193 66.667 7.81 0.00 37.80 5.36
736 752 1.571215 AAACGAACGTCCGGATTGGC 61.571 55.000 7.81 0.00 37.80 4.52
737 753 0.165079 CAAACGAACGTCCGGATTGG 59.835 55.000 7.81 2.33 40.09 3.16
738 754 0.165079 CCAAACGAACGTCCGGATTG 59.835 55.000 7.81 6.03 33.39 2.67
739 755 0.952010 CCCAAACGAACGTCCGGATT 60.952 55.000 7.81 0.00 0.00 3.01
740 756 1.375013 CCCAAACGAACGTCCGGAT 60.375 57.895 7.81 0.00 0.00 4.18
741 757 2.029369 CCCAAACGAACGTCCGGA 59.971 61.111 0.00 0.00 0.00 5.14
742 758 3.045492 CCCCAAACGAACGTCCGG 61.045 66.667 0.00 0.00 0.00 5.14
743 759 2.280321 ACCCCAAACGAACGTCCG 60.280 61.111 0.00 0.00 0.00 4.79
744 760 2.312436 CGACCCCAAACGAACGTCC 61.312 63.158 0.00 0.00 0.00 4.79
745 761 2.946752 GCGACCCCAAACGAACGTC 61.947 63.158 0.00 0.00 0.00 4.34
746 762 2.968697 GCGACCCCAAACGAACGT 60.969 61.111 0.00 0.00 0.00 3.99
747 763 4.067016 CGCGACCCCAAACGAACG 62.067 66.667 0.00 0.00 0.00 3.95
748 764 2.968697 ACGCGACCCCAAACGAAC 60.969 61.111 15.93 0.00 0.00 3.95
749 765 2.968156 CACGCGACCCCAAACGAA 60.968 61.111 15.93 0.00 0.00 3.85
750 766 4.973055 CCACGCGACCCCAAACGA 62.973 66.667 15.93 0.00 0.00 3.85
752 768 3.656045 CACCACGCGACCCCAAAC 61.656 66.667 15.93 0.00 0.00 2.93
753 769 4.939368 CCACCACGCGACCCCAAA 62.939 66.667 15.93 0.00 0.00 3.28
757 773 4.309950 AACTCCACCACGCGACCC 62.310 66.667 15.93 0.00 0.00 4.46
758 774 3.041940 CAACTCCACCACGCGACC 61.042 66.667 15.93 0.00 0.00 4.79
759 775 3.041940 CCAACTCCACCACGCGAC 61.042 66.667 15.93 0.00 0.00 5.19
760 776 4.980805 GCCAACTCCACCACGCGA 62.981 66.667 15.93 0.00 0.00 5.87
762 778 2.741486 TTAGGCCAACTCCACCACGC 62.741 60.000 5.01 0.00 0.00 5.34
763 779 0.035439 ATTAGGCCAACTCCACCACG 60.035 55.000 5.01 0.00 0.00 4.94
764 780 1.282157 AGATTAGGCCAACTCCACCAC 59.718 52.381 5.01 0.00 0.00 4.16
765 781 1.559682 GAGATTAGGCCAACTCCACCA 59.440 52.381 5.01 0.00 0.00 4.17
766 782 1.840635 AGAGATTAGGCCAACTCCACC 59.159 52.381 5.01 0.00 0.00 4.61
767 783 4.591072 AGATAGAGATTAGGCCAACTCCAC 59.409 45.833 5.01 3.00 0.00 4.02
768 784 4.590647 CAGATAGAGATTAGGCCAACTCCA 59.409 45.833 5.01 0.00 0.00 3.86
769 785 4.591072 ACAGATAGAGATTAGGCCAACTCC 59.409 45.833 5.01 0.00 0.00 3.85
770 786 5.799827 ACAGATAGAGATTAGGCCAACTC 57.200 43.478 5.01 7.94 0.00 3.01
771 787 6.567602 AAACAGATAGAGATTAGGCCAACT 57.432 37.500 5.01 0.00 0.00 3.16
772 788 8.910351 ATAAAACAGATAGAGATTAGGCCAAC 57.090 34.615 5.01 0.00 0.00 3.77
773 789 8.938883 AGATAAAACAGATAGAGATTAGGCCAA 58.061 33.333 5.01 0.00 0.00 4.52
774 790 8.497910 AGATAAAACAGATAGAGATTAGGCCA 57.502 34.615 5.01 0.00 0.00 5.36
775 791 8.811994 AGAGATAAAACAGATAGAGATTAGGCC 58.188 37.037 0.00 0.00 0.00 5.19
776 792 9.638239 CAGAGATAAAACAGATAGAGATTAGGC 57.362 37.037 0.00 0.00 0.00 3.93
777 793 9.638239 GCAGAGATAAAACAGATAGAGATTAGG 57.362 37.037 0.00 0.00 0.00 2.69
782 798 9.579932 TCTATGCAGAGATAAAACAGATAGAGA 57.420 33.333 7.02 0.00 0.00 3.10
784 800 9.973450 GTTCTATGCAGAGATAAAACAGATAGA 57.027 33.333 12.63 0.00 30.73 1.98
785 801 9.979578 AGTTCTATGCAGAGATAAAACAGATAG 57.020 33.333 12.63 0.00 30.73 2.08
787 803 9.678260 AAAGTTCTATGCAGAGATAAAACAGAT 57.322 29.630 12.63 0.00 30.73 2.90
788 804 8.939929 CAAAGTTCTATGCAGAGATAAAACAGA 58.060 33.333 12.63 0.00 30.73 3.41
789 805 8.180267 CCAAAGTTCTATGCAGAGATAAAACAG 58.820 37.037 12.63 2.19 30.73 3.16
790 806 7.362056 GCCAAAGTTCTATGCAGAGATAAAACA 60.362 37.037 12.63 0.00 30.73 2.83
791 807 6.969473 GCCAAAGTTCTATGCAGAGATAAAAC 59.031 38.462 12.63 7.33 30.73 2.43
792 808 6.658816 TGCCAAAGTTCTATGCAGAGATAAAA 59.341 34.615 12.63 0.00 30.73 1.52
793 809 6.179756 TGCCAAAGTTCTATGCAGAGATAAA 58.820 36.000 12.63 0.00 30.73 1.40
794 810 5.744171 TGCCAAAGTTCTATGCAGAGATAA 58.256 37.500 12.63 0.00 30.73 1.75
795 811 5.357742 TGCCAAAGTTCTATGCAGAGATA 57.642 39.130 12.63 0.49 30.73 1.98
796 812 4.226427 TGCCAAAGTTCTATGCAGAGAT 57.774 40.909 12.63 0.00 30.73 2.75
797 813 3.701205 TGCCAAAGTTCTATGCAGAGA 57.299 42.857 7.02 7.02 30.73 3.10
798 814 4.025396 CGTATGCCAAAGTTCTATGCAGAG 60.025 45.833 0.69 0.69 35.10 3.35
799 815 3.871006 CGTATGCCAAAGTTCTATGCAGA 59.129 43.478 0.00 0.00 35.10 4.26
800 816 3.546815 GCGTATGCCAAAGTTCTATGCAG 60.547 47.826 0.00 0.00 35.10 4.41
801 817 2.354510 GCGTATGCCAAAGTTCTATGCA 59.645 45.455 0.00 0.00 36.23 3.96
802 818 2.614057 AGCGTATGCCAAAGTTCTATGC 59.386 45.455 2.51 0.00 44.31 3.14
820 836 1.068474 GCACTGTTGTACTGGTAGCG 58.932 55.000 0.00 0.00 0.00 4.26
826 842 3.059884 CACCAGTAGCACTGTTGTACTG 58.940 50.000 15.03 15.03 44.50 2.74
1046 1072 1.153667 GCTCTGAACAGGCCGAGAG 60.154 63.158 7.21 9.94 35.93 3.20
1269 1301 2.361483 ATCTGCATGCCGTTGCCA 60.361 55.556 16.68 0.00 42.06 4.92
1351 1383 1.753463 GGATCTGTCGTCTCCCCGT 60.753 63.158 0.00 0.00 0.00 5.28
1405 1437 2.480802 GGTCGCTCAAGAAGAAGGTTTC 59.519 50.000 0.00 0.00 0.00 2.78
1724 1759 7.274904 CGAAATCATCTAACTTTCTAACGGACA 59.725 37.037 0.00 0.00 0.00 4.02
1871 1917 0.249447 TGAGAGCGCATACCATTCCG 60.249 55.000 11.47 0.00 0.00 4.30
1995 2045 3.410631 TCCGCCACTAGATCACAAAAA 57.589 42.857 0.00 0.00 0.00 1.94
1996 2046 3.270027 CATCCGCCACTAGATCACAAAA 58.730 45.455 0.00 0.00 0.00 2.44
2325 2403 6.321181 TCTTGTAAAATGTTTGGTTGCTCTCT 59.679 34.615 0.00 0.00 0.00 3.10
2326 2404 6.503524 TCTTGTAAAATGTTTGGTTGCTCTC 58.496 36.000 0.00 0.00 0.00 3.20
2327 2405 6.463995 TCTTGTAAAATGTTTGGTTGCTCT 57.536 33.333 0.00 0.00 0.00 4.09
2328 2406 7.713764 ATTCTTGTAAAATGTTTGGTTGCTC 57.286 32.000 0.00 0.00 0.00 4.26
2329 2407 7.467131 GCAATTCTTGTAAAATGTTTGGTTGCT 60.467 33.333 0.00 0.00 34.54 3.91
2330 2408 6.632434 GCAATTCTTGTAAAATGTTTGGTTGC 59.368 34.615 0.00 0.00 0.00 4.17
2389 2467 3.386768 TGCAGAGTCCAAACTACTCAC 57.613 47.619 6.06 0.00 44.77 3.51
2446 2526 5.314923 AGCCAATTTGCATTGTGTACTAG 57.685 39.130 4.12 0.00 38.58 2.57
2447 2527 6.825944 TTAGCCAATTTGCATTGTGTACTA 57.174 33.333 4.12 0.00 38.58 1.82
2448 2528 5.720371 TTAGCCAATTTGCATTGTGTACT 57.280 34.783 4.12 0.00 38.58 2.73
2501 2581 5.876357 ACAGACCAGTTAAAATAGGCAAGA 58.124 37.500 0.00 0.00 0.00 3.02
2768 2848 6.022163 AGAAAAGATGGTTTCAGAATGCAG 57.978 37.500 0.00 0.00 39.52 4.41
2775 2855 6.714356 AGAGAAGGAAGAAAAGATGGTTTCAG 59.286 38.462 0.97 0.00 39.52 3.02
2794 2875 4.617959 TCAGACGGTTTGTGTTAGAGAAG 58.382 43.478 0.00 0.00 0.00 2.85
3146 3230 0.322008 GGGAGTCAAGCAGAGGTTGG 60.322 60.000 8.81 0.00 40.81 3.77
3245 3329 5.907207 TGGACTGTTGATCTAGCTGATTAC 58.093 41.667 0.00 1.74 35.14 1.89
3261 3345 0.401395 TTCTCCCCCAACTGGACTGT 60.401 55.000 0.00 0.00 37.39 3.55
3500 3588 9.729023 CTAAATCAAAAGTACACACATCAACAA 57.271 29.630 0.00 0.00 0.00 2.83
3507 3595 6.685527 TGCACTAAATCAAAAGTACACACA 57.314 33.333 0.00 0.00 0.00 3.72
3534 3623 9.433153 TGCAGATACAAATTCAAAATTTATGCA 57.567 25.926 0.00 0.00 0.00 3.96
3535 3624 9.693157 GTGCAGATACAAATTCAAAATTTATGC 57.307 29.630 0.00 0.00 0.00 3.14
3540 3629 9.643693 CCTAAGTGCAGATACAAATTCAAAATT 57.356 29.630 0.00 0.00 0.00 1.82
3541 3630 8.253113 CCCTAAGTGCAGATACAAATTCAAAAT 58.747 33.333 0.00 0.00 0.00 1.82
3542 3631 7.601856 CCCTAAGTGCAGATACAAATTCAAAA 58.398 34.615 0.00 0.00 0.00 2.44
3543 3632 6.350110 GCCCTAAGTGCAGATACAAATTCAAA 60.350 38.462 0.00 0.00 0.00 2.69
3544 3633 5.125417 GCCCTAAGTGCAGATACAAATTCAA 59.875 40.000 0.00 0.00 0.00 2.69
3545 3634 4.640201 GCCCTAAGTGCAGATACAAATTCA 59.360 41.667 0.00 0.00 0.00 2.57
3546 3635 4.036852 GGCCCTAAGTGCAGATACAAATTC 59.963 45.833 0.00 0.00 0.00 2.17
3553 3642 1.879575 ACAGGCCCTAAGTGCAGATA 58.120 50.000 0.00 0.00 0.00 1.98
3612 3701 9.995003 TCAAATTTTATGCAAATTGGACTACTT 57.005 25.926 0.00 0.00 43.20 2.24
3646 3735 1.203052 CAAACAGGCCCTAAGTGCATG 59.797 52.381 0.00 0.00 45.38 4.06
3723 3812 4.179579 GCAGCCATCGAAACGCCC 62.180 66.667 0.00 0.00 0.00 6.13
3762 3851 2.988684 GTTTGGATGCCGCCCACA 60.989 61.111 0.00 0.00 32.58 4.17
3868 3957 1.412343 GAACCACAAGCCCACAACAAT 59.588 47.619 0.00 0.00 0.00 2.71
3958 4048 3.139397 TGGAGACTTAAGCTTCCCCAAAA 59.861 43.478 18.32 0.00 0.00 2.44


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

AutoCloner maintained by Alex Coulton.