Multiple sequence alignment - TraesCS4B01G126800

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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 TraesCS4B01G126800 chr4B 100.000 3584 0 0 1 3584 165299815 165296232 0.000000e+00 6619.0
1 TraesCS4B01G126800 chr4B 91.473 129 11 0 705 833 659336495 659336623 1.020000e-40 178.0
2 TraesCS4B01G126800 chr4A 97.262 1863 45 3 951 2808 430181718 430179857 0.000000e+00 3153.0
3 TraesCS4B01G126800 chr4A 85.299 653 80 11 1 645 24982442 24981798 0.000000e+00 660.0
4 TraesCS4B01G126800 chr4A 100.000 31 0 0 852 882 430181747 430181717 1.390000e-04 58.4
5 TraesCS4B01G126800 chr4D 97.535 1785 38 4 945 2723 132202580 132204364 0.000000e+00 3048.0
6 TraesCS4B01G126800 chr5B 99.615 780 3 0 2805 3584 325075238 325076017 0.000000e+00 1424.0
7 TraesCS4B01G126800 chr5B 97.436 780 17 2 2805 3584 208434988 208434212 0.000000e+00 1327.0
8 TraesCS4B01G126800 chr6B 99.487 780 4 0 2805 3584 415884970 415884191 0.000000e+00 1419.0
9 TraesCS4B01G126800 chr6B 90.551 127 12 0 706 832 672460465 672460591 6.150000e-38 169.0
10 TraesCS4B01G126800 chr6B 88.806 134 10 2 704 832 706902180 706902313 3.700000e-35 159.0
11 TraesCS4B01G126800 chr1B 99.233 782 6 0 2803 3584 539555868 539556649 0.000000e+00 1411.0
12 TraesCS4B01G126800 chr1B 86.068 323 34 5 331 644 59922337 59922017 1.590000e-88 337.0
13 TraesCS4B01G126800 chr7A 98.982 786 8 0 2799 3584 217761797 217762582 0.000000e+00 1408.0
14 TraesCS4B01G126800 chr7A 97.821 780 16 1 2805 3584 1415834 1415056 0.000000e+00 1345.0
15 TraesCS4B01G126800 chr7A 84.082 534 75 9 1 529 419793985 419793457 1.150000e-139 507.0
16 TraesCS4B01G126800 chr2A 98.595 783 11 0 2802 3584 672090966 672091748 0.000000e+00 1386.0
17 TraesCS4B01G126800 chr2B 98.333 780 13 0 2805 3584 315782757 315781978 0.000000e+00 1369.0
18 TraesCS4B01G126800 chr2B 90.698 129 12 0 704 832 63782987 63782859 4.760000e-39 172.0
19 TraesCS4B01G126800 chr6A 96.538 780 24 3 2805 3584 6604007 6603231 0.000000e+00 1288.0
20 TraesCS4B01G126800 chr6A 74.537 648 147 15 1 643 101519384 101520018 2.120000e-67 267.0
21 TraesCS4B01G126800 chr7B 95.023 663 31 1 5 665 168065718 168066380 0.000000e+00 1040.0
22 TraesCS4B01G126800 chr7B 89.630 135 13 1 705 838 401553907 401554041 1.710000e-38 171.0
23 TraesCS4B01G126800 chr3D 76.434 645 125 20 1 637 46615358 46615983 1.240000e-84 324.0
24 TraesCS4B01G126800 chr3D 75.915 656 130 20 1 646 560778360 560777723 9.660000e-81 311.0
25 TraesCS4B01G126800 chr3D 90.698 129 12 0 706 834 225859589 225859717 4.760000e-39 172.0
26 TraesCS4B01G126800 chr3D 88.550 131 14 1 702 832 104086993 104087122 1.330000e-34 158.0
27 TraesCS4B01G126800 chr7D 75.038 657 132 24 1 646 169813366 169812731 3.520000e-70 276.0
28 TraesCS4B01G126800 chr7D 89.062 128 14 0 706 833 125836546 125836419 3.700000e-35 159.0
29 TraesCS4B01G126800 chr5A 83.165 297 50 0 1 297 490636772 490636476 4.560000e-69 272.0
30 TraesCS4B01G126800 chr5A 89.062 128 14 0 706 833 476756634 476756761 3.700000e-35 159.0
31 TraesCS4B01G126800 chr5A 84.337 83 12 1 584 665 598535506 598535424 2.970000e-11 80.5
32 TraesCS4B01G126800 chr5D 76.730 318 62 11 59 371 272134138 272134448 2.210000e-37 167.0


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 TraesCS4B01G126800 chr4B 165296232 165299815 3583 True 6619.0 6619 100.000 1 3584 1 chr4B.!!$R1 3583
1 TraesCS4B01G126800 chr4A 430179857 430181747 1890 True 1605.7 3153 98.631 852 2808 2 chr4A.!!$R2 1956
2 TraesCS4B01G126800 chr4A 24981798 24982442 644 True 660.0 660 85.299 1 645 1 chr4A.!!$R1 644
3 TraesCS4B01G126800 chr4D 132202580 132204364 1784 False 3048.0 3048 97.535 945 2723 1 chr4D.!!$F1 1778
4 TraesCS4B01G126800 chr5B 325075238 325076017 779 False 1424.0 1424 99.615 2805 3584 1 chr5B.!!$F1 779
5 TraesCS4B01G126800 chr5B 208434212 208434988 776 True 1327.0 1327 97.436 2805 3584 1 chr5B.!!$R1 779
6 TraesCS4B01G126800 chr6B 415884191 415884970 779 True 1419.0 1419 99.487 2805 3584 1 chr6B.!!$R1 779
7 TraesCS4B01G126800 chr1B 539555868 539556649 781 False 1411.0 1411 99.233 2803 3584 1 chr1B.!!$F1 781
8 TraesCS4B01G126800 chr7A 217761797 217762582 785 False 1408.0 1408 98.982 2799 3584 1 chr7A.!!$F1 785
9 TraesCS4B01G126800 chr7A 1415056 1415834 778 True 1345.0 1345 97.821 2805 3584 1 chr7A.!!$R1 779
10 TraesCS4B01G126800 chr7A 419793457 419793985 528 True 507.0 507 84.082 1 529 1 chr7A.!!$R2 528
11 TraesCS4B01G126800 chr2A 672090966 672091748 782 False 1386.0 1386 98.595 2802 3584 1 chr2A.!!$F1 782
12 TraesCS4B01G126800 chr2B 315781978 315782757 779 True 1369.0 1369 98.333 2805 3584 1 chr2B.!!$R2 779
13 TraesCS4B01G126800 chr6A 6603231 6604007 776 True 1288.0 1288 96.538 2805 3584 1 chr6A.!!$R1 779
14 TraesCS4B01G126800 chr6A 101519384 101520018 634 False 267.0 267 74.537 1 643 1 chr6A.!!$F1 642
15 TraesCS4B01G126800 chr7B 168065718 168066380 662 False 1040.0 1040 95.023 5 665 1 chr7B.!!$F1 660
16 TraesCS4B01G126800 chr3D 46615358 46615983 625 False 324.0 324 76.434 1 637 1 chr3D.!!$F1 636
17 TraesCS4B01G126800 chr3D 560777723 560778360 637 True 311.0 311 75.915 1 646 1 chr3D.!!$R1 645
18 TraesCS4B01G126800 chr7D 169812731 169813366 635 True 276.0 276 75.038 1 646 1 chr7D.!!$R2 645

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
704 712 0.034896 AGAGGTGGTGCACTAAACCG 59.965 55.0 17.98 0.0 40.86 4.44 F
904 912 0.101939 GCCTGCCTGATTTAGCTTGC 59.898 55.0 0.00 0.0 0.00 4.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2293 2312 0.679002 ATCAGCGCATGTGCCTCTTT 60.679 50.000 26.95 5.83 37.91 2.52 R
2641 2660 4.802876 GCATAGTCCACTTTGCAGTATC 57.197 45.455 14.94 0.00 45.89 2.24 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
39 40 7.531857 AATATCGAGTGTATCCAGATTGACT 57.468 36.000 0.00 0.00 0.00 3.41
113 114 5.103686 CCCTAAAATTCCATGGTCCTTCCTA 60.104 44.000 12.58 0.00 37.07 2.94
125 126 4.081862 TGGTCCTTCCTACATAACTCGTTG 60.082 45.833 0.00 0.00 37.07 4.10
166 167 8.024285 AGAAGAACTGCAGCGTATATAGATTAC 58.976 37.037 15.27 0.00 0.00 1.89
174 175 6.331061 CAGCGTATATAGATTACCCTCCAAC 58.669 44.000 0.00 0.00 0.00 3.77
342 343 2.875933 GACGTCATCGAGATCTTCCTCT 59.124 50.000 11.55 0.00 40.62 3.69
450 451 4.523173 GCTAAAAACCTTGAAACCTAGCCT 59.477 41.667 0.00 0.00 0.00 4.58
497 500 2.779506 AGCAAACCCTAAAACTCTCCG 58.220 47.619 0.00 0.00 0.00 4.63
570 578 1.078143 GCCTGAACCAGATCGCCTT 60.078 57.895 0.00 0.00 32.44 4.35
571 579 0.678048 GCCTGAACCAGATCGCCTTT 60.678 55.000 0.00 0.00 32.44 3.11
594 602 1.900545 CGGTTGGAGGAGGGAAGGTC 61.901 65.000 0.00 0.00 0.00 3.85
626 634 2.342648 GGCGACGATATCACCCCC 59.657 66.667 0.00 0.00 0.00 5.40
627 635 2.049433 GCGACGATATCACCCCCG 60.049 66.667 0.00 0.00 0.00 5.73
628 636 2.649034 CGACGATATCACCCCCGG 59.351 66.667 3.12 0.00 0.00 5.73
629 637 2.927580 CGACGATATCACCCCCGGG 61.928 68.421 15.80 15.80 42.03 5.73
630 638 1.532316 GACGATATCACCCCCGGGA 60.532 63.158 26.32 0.42 38.96 5.14
631 639 1.533273 ACGATATCACCCCCGGGAG 60.533 63.158 26.32 12.97 38.96 4.30
645 653 2.873094 CGGGAGGAAAAACCCTAACT 57.127 50.000 0.00 0.00 43.57 2.24
646 654 2.708051 CGGGAGGAAAAACCCTAACTC 58.292 52.381 0.00 0.00 43.57 3.01
647 655 2.708051 GGGAGGAAAAACCCTAACTCG 58.292 52.381 0.00 0.00 42.56 4.18
648 656 2.082231 GGAGGAAAAACCCTAACTCGC 58.918 52.381 0.00 0.00 40.05 5.03
649 657 1.730612 GAGGAAAAACCCTAACTCGCG 59.269 52.381 0.00 0.00 40.05 5.87
650 658 1.345415 AGGAAAAACCCTAACTCGCGA 59.655 47.619 9.26 9.26 40.05 5.87
651 659 1.730612 GGAAAAACCCTAACTCGCGAG 59.269 52.381 33.45 33.45 0.00 5.03
652 660 1.128136 GAAAAACCCTAACTCGCGAGC 59.872 52.381 34.83 10.97 0.00 5.03
672 680 2.486982 GCGAGAAGGAAAAACCCTAACC 59.513 50.000 0.00 0.00 40.05 2.85
673 681 3.809678 GCGAGAAGGAAAAACCCTAACCT 60.810 47.826 0.00 0.00 40.05 3.50
674 682 4.395625 CGAGAAGGAAAAACCCTAACCTT 58.604 43.478 0.00 0.00 42.57 3.50
677 685 4.476297 GAAGGAAAAACCCTAACCTTCCA 58.524 43.478 0.00 0.00 46.03 3.53
678 686 4.546224 AGGAAAAACCCTAACCTTCCAA 57.454 40.909 2.28 0.00 38.42 3.53
679 687 4.220724 AGGAAAAACCCTAACCTTCCAAC 58.779 43.478 2.28 0.00 38.42 3.77
680 688 3.005050 GGAAAAACCCTAACCTTCCAACG 59.995 47.826 0.00 0.00 36.39 4.10
681 689 3.581265 AAAACCCTAACCTTCCAACGA 57.419 42.857 0.00 0.00 0.00 3.85
682 690 2.853235 AACCCTAACCTTCCAACGAG 57.147 50.000 0.00 0.00 0.00 4.18
683 691 2.019807 ACCCTAACCTTCCAACGAGA 57.980 50.000 0.00 0.00 0.00 4.04
684 692 1.900486 ACCCTAACCTTCCAACGAGAG 59.100 52.381 0.00 0.00 0.00 3.20
685 693 2.176889 CCCTAACCTTCCAACGAGAGA 58.823 52.381 0.00 0.00 0.00 3.10
686 694 2.166664 CCCTAACCTTCCAACGAGAGAG 59.833 54.545 0.00 0.00 0.00 3.20
687 695 3.090037 CCTAACCTTCCAACGAGAGAGA 58.910 50.000 0.00 0.00 0.00 3.10
688 696 3.129638 CCTAACCTTCCAACGAGAGAGAG 59.870 52.174 0.00 0.00 0.00 3.20
689 697 1.551452 ACCTTCCAACGAGAGAGAGG 58.449 55.000 0.00 0.00 0.00 3.69
690 698 1.203075 ACCTTCCAACGAGAGAGAGGT 60.203 52.381 0.00 0.00 0.00 3.85
691 699 1.203523 CCTTCCAACGAGAGAGAGGTG 59.796 57.143 0.00 0.00 0.00 4.00
692 700 1.203523 CTTCCAACGAGAGAGAGGTGG 59.796 57.143 0.00 0.00 0.00 4.61
693 701 0.112606 TCCAACGAGAGAGAGGTGGT 59.887 55.000 0.00 0.00 0.00 4.16
694 702 0.244994 CCAACGAGAGAGAGGTGGTG 59.755 60.000 0.00 0.00 0.00 4.17
695 703 0.389166 CAACGAGAGAGAGGTGGTGC 60.389 60.000 0.00 0.00 0.00 5.01
696 704 0.827925 AACGAGAGAGAGGTGGTGCA 60.828 55.000 0.00 0.00 0.00 4.57
697 705 1.214062 CGAGAGAGAGGTGGTGCAC 59.786 63.158 8.80 8.80 0.00 4.57
698 706 1.247419 CGAGAGAGAGGTGGTGCACT 61.247 60.000 17.98 0.00 34.40 4.40
699 707 1.840737 GAGAGAGAGGTGGTGCACTA 58.159 55.000 17.98 8.10 34.40 2.74
700 708 2.171840 GAGAGAGAGGTGGTGCACTAA 58.828 52.381 17.98 2.36 34.40 2.24
701 709 2.563179 GAGAGAGAGGTGGTGCACTAAA 59.437 50.000 17.98 0.00 34.40 1.85
702 710 2.300437 AGAGAGAGGTGGTGCACTAAAC 59.700 50.000 17.98 12.50 34.40 2.01
703 711 1.348036 AGAGAGGTGGTGCACTAAACC 59.652 52.381 21.81 21.81 38.26 3.27
704 712 0.034896 AGAGGTGGTGCACTAAACCG 59.965 55.000 17.98 0.00 40.86 4.44
705 713 0.250166 GAGGTGGTGCACTAAACCGT 60.250 55.000 17.98 11.43 40.86 4.83
706 714 1.001181 GAGGTGGTGCACTAAACCGTA 59.999 52.381 17.98 0.00 40.86 4.02
707 715 1.150827 GGTGGTGCACTAAACCGTAC 58.849 55.000 17.98 0.00 40.86 3.67
708 716 1.270465 GGTGGTGCACTAAACCGTACT 60.270 52.381 17.98 0.00 40.86 2.73
709 717 2.064014 GTGGTGCACTAAACCGTACTC 58.936 52.381 17.98 0.00 40.86 2.59
710 718 1.001181 TGGTGCACTAAACCGTACTCC 59.999 52.381 17.98 0.00 40.86 3.85
711 719 1.673923 GGTGCACTAAACCGTACTCCC 60.674 57.143 17.98 0.00 0.00 4.30
712 720 1.274447 GTGCACTAAACCGTACTCCCT 59.726 52.381 10.32 0.00 0.00 4.20
713 721 1.547372 TGCACTAAACCGTACTCCCTC 59.453 52.381 0.00 0.00 0.00 4.30
714 722 1.823610 GCACTAAACCGTACTCCCTCT 59.176 52.381 0.00 0.00 0.00 3.69
715 723 2.416972 GCACTAAACCGTACTCCCTCTG 60.417 54.545 0.00 0.00 0.00 3.35
716 724 2.824341 CACTAAACCGTACTCCCTCTGT 59.176 50.000 0.00 0.00 0.00 3.41
717 725 3.087781 ACTAAACCGTACTCCCTCTGTC 58.912 50.000 0.00 0.00 0.00 3.51
718 726 1.264295 AAACCGTACTCCCTCTGTCC 58.736 55.000 0.00 0.00 0.00 4.02
719 727 0.614134 AACCGTACTCCCTCTGTCCC 60.614 60.000 0.00 0.00 0.00 4.46
720 728 2.119655 CCGTACTCCCTCTGTCCCG 61.120 68.421 0.00 0.00 0.00 5.14
721 729 1.077930 CGTACTCCCTCTGTCCCGA 60.078 63.158 0.00 0.00 0.00 5.14
722 730 0.679002 CGTACTCCCTCTGTCCCGAA 60.679 60.000 0.00 0.00 0.00 4.30
723 731 1.777941 GTACTCCCTCTGTCCCGAAT 58.222 55.000 0.00 0.00 0.00 3.34
724 732 2.108970 GTACTCCCTCTGTCCCGAATT 58.891 52.381 0.00 0.00 0.00 2.17
725 733 2.544844 ACTCCCTCTGTCCCGAATTA 57.455 50.000 0.00 0.00 0.00 1.40
726 734 2.389715 ACTCCCTCTGTCCCGAATTAG 58.610 52.381 0.00 0.00 0.00 1.73
727 735 1.069358 CTCCCTCTGTCCCGAATTAGC 59.931 57.143 0.00 0.00 0.00 3.09
728 736 0.106894 CCCTCTGTCCCGAATTAGCC 59.893 60.000 0.00 0.00 0.00 3.93
729 737 0.249489 CCTCTGTCCCGAATTAGCCG 60.249 60.000 0.00 0.00 0.00 5.52
730 738 0.744874 CTCTGTCCCGAATTAGCCGA 59.255 55.000 0.00 0.00 0.00 5.54
731 739 0.458669 TCTGTCCCGAATTAGCCGAC 59.541 55.000 0.00 0.00 0.00 4.79
732 740 0.460311 CTGTCCCGAATTAGCCGACT 59.540 55.000 0.00 0.00 0.00 4.18
733 741 0.458669 TGTCCCGAATTAGCCGACTC 59.541 55.000 0.00 0.00 0.00 3.36
734 742 0.458669 GTCCCGAATTAGCCGACTCA 59.541 55.000 0.00 0.00 0.00 3.41
735 743 0.744874 TCCCGAATTAGCCGACTCAG 59.255 55.000 0.00 0.00 0.00 3.35
736 744 0.744874 CCCGAATTAGCCGACTCAGA 59.255 55.000 0.00 0.00 0.00 3.27
737 745 1.341531 CCCGAATTAGCCGACTCAGAT 59.658 52.381 0.00 0.00 0.00 2.90
738 746 2.224066 CCCGAATTAGCCGACTCAGATT 60.224 50.000 0.00 0.00 0.00 2.40
739 747 3.458189 CCGAATTAGCCGACTCAGATTT 58.542 45.455 0.00 0.00 0.00 2.17
740 748 3.246226 CCGAATTAGCCGACTCAGATTTG 59.754 47.826 0.00 0.00 0.00 2.32
741 749 3.865745 CGAATTAGCCGACTCAGATTTGT 59.134 43.478 0.00 0.00 0.00 2.83
742 750 4.026475 CGAATTAGCCGACTCAGATTTGTC 60.026 45.833 0.00 0.00 0.00 3.18
743 751 4.744795 ATTAGCCGACTCAGATTTGTCT 57.255 40.909 0.00 0.00 0.00 3.41
744 752 5.854010 ATTAGCCGACTCAGATTTGTCTA 57.146 39.130 0.00 0.00 0.00 2.59
745 753 3.791973 AGCCGACTCAGATTTGTCTAG 57.208 47.619 0.00 0.00 0.00 2.43
746 754 3.357203 AGCCGACTCAGATTTGTCTAGA 58.643 45.455 0.00 0.00 0.00 2.43
747 755 3.957497 AGCCGACTCAGATTTGTCTAGAT 59.043 43.478 0.00 0.00 0.00 1.98
748 756 5.133941 AGCCGACTCAGATTTGTCTAGATA 58.866 41.667 0.00 0.00 0.00 1.98
749 757 5.009210 AGCCGACTCAGATTTGTCTAGATAC 59.991 44.000 0.00 0.00 0.00 2.24
750 758 5.444983 CCGACTCAGATTTGTCTAGATACG 58.555 45.833 0.00 0.00 0.00 3.06
751 759 5.444983 CGACTCAGATTTGTCTAGATACGG 58.555 45.833 0.00 0.00 0.00 4.02
752 760 5.236695 CGACTCAGATTTGTCTAGATACGGA 59.763 44.000 0.00 0.00 0.00 4.69
753 761 6.072948 CGACTCAGATTTGTCTAGATACGGAT 60.073 42.308 0.00 0.00 0.00 4.18
754 762 7.117956 CGACTCAGATTTGTCTAGATACGGATA 59.882 40.741 0.00 0.00 0.00 2.59
755 763 8.871629 ACTCAGATTTGTCTAGATACGGATAT 57.128 34.615 0.00 0.00 0.00 1.63
756 764 9.961264 ACTCAGATTTGTCTAGATACGGATATA 57.039 33.333 0.00 0.00 0.00 0.86
769 777 8.789825 AGATACGGATATATCTAGACACGTTT 57.210 34.615 14.69 9.16 39.63 3.60
770 778 9.228949 AGATACGGATATATCTAGACACGTTTT 57.771 33.333 14.69 6.38 39.63 2.43
773 781 8.388484 ACGGATATATCTAGACACGTTTTAGT 57.612 34.615 12.42 0.00 0.00 2.24
774 782 9.494271 ACGGATATATCTAGACACGTTTTAGTA 57.506 33.333 12.42 0.00 0.00 1.82
775 783 9.752274 CGGATATATCTAGACACGTTTTAGTAC 57.248 37.037 12.42 0.00 0.00 2.73
783 791 9.875691 TCTAGACACGTTTTAGTACTAGATACA 57.124 33.333 2.23 0.00 35.99 2.29
786 794 8.619546 AGACACGTTTTAGTACTAGATACATCC 58.380 37.037 2.23 0.00 36.09 3.51
787 795 7.412853 ACACGTTTTAGTACTAGATACATCCG 58.587 38.462 2.23 1.97 36.09 4.18
788 796 7.066284 ACACGTTTTAGTACTAGATACATCCGT 59.934 37.037 2.23 2.52 36.09 4.69
789 797 8.551205 CACGTTTTAGTACTAGATACATCCGTA 58.449 37.037 2.23 0.00 36.09 4.02
790 798 9.277783 ACGTTTTAGTACTAGATACATCCGTAT 57.722 33.333 2.23 0.00 41.16 3.06
806 814 8.840200 ACATCCGTATATAGATAAATCCAGGT 57.160 34.615 0.00 0.00 0.00 4.00
807 815 8.915036 ACATCCGTATATAGATAAATCCAGGTC 58.085 37.037 0.00 0.00 0.00 3.85
808 816 8.914011 CATCCGTATATAGATAAATCCAGGTCA 58.086 37.037 0.00 0.00 0.00 4.02
809 817 8.888836 TCCGTATATAGATAAATCCAGGTCAA 57.111 34.615 0.00 0.00 0.00 3.18
810 818 9.488762 TCCGTATATAGATAAATCCAGGTCAAT 57.511 33.333 0.00 0.00 0.00 2.57
819 827 9.713684 AGATAAATCCAGGTCAATTAATTTGGA 57.286 29.630 17.58 17.58 38.90 3.53
822 830 5.637006 TCCAGGTCAATTAATTTGGAACG 57.363 39.130 14.32 3.82 35.92 3.95
823 831 4.461081 TCCAGGTCAATTAATTTGGAACGG 59.539 41.667 14.32 10.53 35.92 4.44
824 832 4.461081 CCAGGTCAATTAATTTGGAACGGA 59.539 41.667 10.04 0.00 35.92 4.69
825 833 5.393027 CCAGGTCAATTAATTTGGAACGGAG 60.393 44.000 10.04 0.84 35.92 4.63
826 834 4.705023 AGGTCAATTAATTTGGAACGGAGG 59.295 41.667 0.00 0.00 35.92 4.30
827 835 4.142249 GGTCAATTAATTTGGAACGGAGGG 60.142 45.833 0.00 0.00 35.92 4.30
828 836 4.703093 GTCAATTAATTTGGAACGGAGGGA 59.297 41.667 0.00 0.00 35.92 4.20
829 837 4.947388 TCAATTAATTTGGAACGGAGGGAG 59.053 41.667 0.00 0.00 35.92 4.30
830 838 4.586306 ATTAATTTGGAACGGAGGGAGT 57.414 40.909 0.00 0.00 0.00 3.85
831 839 5.703730 ATTAATTTGGAACGGAGGGAGTA 57.296 39.130 0.00 0.00 0.00 2.59
832 840 5.703730 TTAATTTGGAACGGAGGGAGTAT 57.296 39.130 0.00 0.00 0.00 2.12
833 841 4.586306 AATTTGGAACGGAGGGAGTATT 57.414 40.909 0.00 0.00 0.00 1.89
834 842 4.586306 ATTTGGAACGGAGGGAGTATTT 57.414 40.909 0.00 0.00 0.00 1.40
835 843 4.376225 TTTGGAACGGAGGGAGTATTTT 57.624 40.909 0.00 0.00 0.00 1.82
836 844 3.622166 TGGAACGGAGGGAGTATTTTC 57.378 47.619 0.00 0.00 0.00 2.29
837 845 3.178865 TGGAACGGAGGGAGTATTTTCT 58.821 45.455 0.00 0.00 0.00 2.52
838 846 4.355549 TGGAACGGAGGGAGTATTTTCTA 58.644 43.478 0.00 0.00 0.00 2.10
839 847 4.778958 TGGAACGGAGGGAGTATTTTCTAA 59.221 41.667 0.00 0.00 0.00 2.10
840 848 5.427481 TGGAACGGAGGGAGTATTTTCTAAT 59.573 40.000 0.00 0.00 0.00 1.73
841 849 5.990386 GGAACGGAGGGAGTATTTTCTAATC 59.010 44.000 0.00 0.00 0.00 1.75
842 850 5.548181 ACGGAGGGAGTATTTTCTAATCC 57.452 43.478 0.00 0.00 0.00 3.01
843 851 5.217400 ACGGAGGGAGTATTTTCTAATCCT 58.783 41.667 0.00 0.00 32.72 3.24
844 852 5.070580 ACGGAGGGAGTATTTTCTAATCCTG 59.929 44.000 0.00 0.00 32.72 3.86
845 853 5.309638 GGAGGGAGTATTTTCTAATCCTGC 58.690 45.833 0.00 0.00 32.72 4.85
846 854 5.163195 GGAGGGAGTATTTTCTAATCCTGCA 60.163 44.000 0.00 0.00 32.72 4.41
847 855 6.466470 GGAGGGAGTATTTTCTAATCCTGCAT 60.466 42.308 0.00 0.00 32.72 3.96
848 856 6.302269 AGGGAGTATTTTCTAATCCTGCATG 58.698 40.000 0.00 0.00 32.72 4.06
849 857 5.048434 GGGAGTATTTTCTAATCCTGCATGC 60.048 44.000 11.82 11.82 32.72 4.06
850 858 5.532406 GGAGTATTTTCTAATCCTGCATGCA 59.468 40.000 21.29 21.29 0.00 3.96
880 888 1.001378 GCACGGCCCATTTCATATCAC 60.001 52.381 0.00 0.00 0.00 3.06
881 889 1.608590 CACGGCCCATTTCATATCACC 59.391 52.381 0.00 0.00 0.00 4.02
882 890 1.214175 ACGGCCCATTTCATATCACCA 59.786 47.619 0.00 0.00 0.00 4.17
883 891 1.881973 CGGCCCATTTCATATCACCAG 59.118 52.381 0.00 0.00 0.00 4.00
884 892 2.487086 CGGCCCATTTCATATCACCAGA 60.487 50.000 0.00 0.00 0.00 3.86
885 893 3.152341 GGCCCATTTCATATCACCAGAG 58.848 50.000 0.00 0.00 0.00 3.35
886 894 2.555757 GCCCATTTCATATCACCAGAGC 59.444 50.000 0.00 0.00 0.00 4.09
887 895 3.152341 CCCATTTCATATCACCAGAGCC 58.848 50.000 0.00 0.00 0.00 4.70
888 896 3.181436 CCCATTTCATATCACCAGAGCCT 60.181 47.826 0.00 0.00 0.00 4.58
889 897 3.819337 CCATTTCATATCACCAGAGCCTG 59.181 47.826 0.00 0.00 0.00 4.85
890 898 2.627515 TTCATATCACCAGAGCCTGC 57.372 50.000 0.00 0.00 0.00 4.85
891 899 0.761187 TCATATCACCAGAGCCTGCC 59.239 55.000 0.00 0.00 0.00 4.85
892 900 0.763652 CATATCACCAGAGCCTGCCT 59.236 55.000 0.00 0.00 0.00 4.75
893 901 0.763652 ATATCACCAGAGCCTGCCTG 59.236 55.000 0.00 0.00 0.00 4.85
894 902 0.325577 TATCACCAGAGCCTGCCTGA 60.326 55.000 8.57 0.00 33.65 3.86
895 903 0.987081 ATCACCAGAGCCTGCCTGAT 60.987 55.000 8.57 0.00 33.65 2.90
896 904 1.203441 TCACCAGAGCCTGCCTGATT 61.203 55.000 8.57 0.00 33.65 2.57
897 905 0.323178 CACCAGAGCCTGCCTGATTT 60.323 55.000 8.57 0.00 33.65 2.17
898 906 1.065199 CACCAGAGCCTGCCTGATTTA 60.065 52.381 8.57 0.00 33.65 1.40
899 907 1.211457 ACCAGAGCCTGCCTGATTTAG 59.789 52.381 8.57 0.00 33.65 1.85
900 908 1.307097 CAGAGCCTGCCTGATTTAGC 58.693 55.000 2.61 0.00 33.65 3.09
901 909 1.134159 CAGAGCCTGCCTGATTTAGCT 60.134 52.381 0.00 0.00 33.65 3.32
902 910 1.563410 AGAGCCTGCCTGATTTAGCTT 59.437 47.619 0.00 0.00 0.00 3.74
903 911 1.674962 GAGCCTGCCTGATTTAGCTTG 59.325 52.381 0.00 0.00 0.00 4.01
904 912 0.101939 GCCTGCCTGATTTAGCTTGC 59.898 55.000 0.00 0.00 0.00 4.01
905 913 0.379669 CCTGCCTGATTTAGCTTGCG 59.620 55.000 0.00 0.00 0.00 4.85
906 914 0.248377 CTGCCTGATTTAGCTTGCGC 60.248 55.000 0.00 0.00 0.00 6.09
907 915 0.959867 TGCCTGATTTAGCTTGCGCA 60.960 50.000 5.66 5.66 39.10 6.09
908 916 0.524180 GCCTGATTTAGCTTGCGCAC 60.524 55.000 11.12 0.00 39.10 5.34
909 917 0.804364 CCTGATTTAGCTTGCGCACA 59.196 50.000 11.12 0.19 39.10 4.57
910 918 1.466360 CCTGATTTAGCTTGCGCACAC 60.466 52.381 11.12 4.84 39.10 3.82
911 919 0.165727 TGATTTAGCTTGCGCACACG 59.834 50.000 11.12 2.25 44.07 4.49
912 920 0.521242 GATTTAGCTTGCGCACACGG 60.521 55.000 11.12 1.53 40.57 4.94
913 921 2.527547 ATTTAGCTTGCGCACACGGC 62.528 55.000 11.12 12.73 40.57 5.68
920 928 4.776647 GCGCACACGGCCCATTTC 62.777 66.667 0.30 0.00 40.31 2.17
921 929 4.459331 CGCACACGGCCCATTTCG 62.459 66.667 0.00 0.00 40.31 3.46
922 930 3.361977 GCACACGGCCCATTTCGT 61.362 61.111 0.00 0.00 40.49 3.85
923 931 2.036006 GCACACGGCCCATTTCGTA 61.036 57.895 0.00 0.00 37.88 3.43
924 932 1.373590 GCACACGGCCCATTTCGTAT 61.374 55.000 0.00 0.00 37.88 3.06
925 933 0.655733 CACACGGCCCATTTCGTATC 59.344 55.000 0.00 0.00 37.88 2.24
926 934 0.250793 ACACGGCCCATTTCGTATCA 59.749 50.000 0.00 0.00 37.88 2.15
927 935 0.655733 CACGGCCCATTTCGTATCAC 59.344 55.000 0.00 0.00 37.88 3.06
928 936 0.463116 ACGGCCCATTTCGTATCACC 60.463 55.000 0.00 0.00 37.88 4.02
929 937 1.164041 CGGCCCATTTCGTATCACCC 61.164 60.000 0.00 0.00 0.00 4.61
930 938 0.182775 GGCCCATTTCGTATCACCCT 59.817 55.000 0.00 0.00 0.00 4.34
931 939 1.594331 GCCCATTTCGTATCACCCTC 58.406 55.000 0.00 0.00 0.00 4.30
932 940 1.134220 GCCCATTTCGTATCACCCTCA 60.134 52.381 0.00 0.00 0.00 3.86
933 941 2.487265 GCCCATTTCGTATCACCCTCAT 60.487 50.000 0.00 0.00 0.00 2.90
934 942 3.403038 CCCATTTCGTATCACCCTCATC 58.597 50.000 0.00 0.00 0.00 2.92
935 943 3.059884 CCATTTCGTATCACCCTCATCG 58.940 50.000 0.00 0.00 0.00 3.84
936 944 3.492656 CCATTTCGTATCACCCTCATCGT 60.493 47.826 0.00 0.00 0.00 3.73
937 945 3.880047 TTTCGTATCACCCTCATCGTT 57.120 42.857 0.00 0.00 0.00 3.85
938 946 3.431922 TTCGTATCACCCTCATCGTTC 57.568 47.619 0.00 0.00 0.00 3.95
939 947 2.371306 TCGTATCACCCTCATCGTTCA 58.629 47.619 0.00 0.00 0.00 3.18
940 948 2.357952 TCGTATCACCCTCATCGTTCAG 59.642 50.000 0.00 0.00 0.00 3.02
941 949 2.543861 CGTATCACCCTCATCGTTCAGG 60.544 54.545 0.00 0.00 0.00 3.86
942 950 0.179000 ATCACCCTCATCGTTCAGGC 59.821 55.000 0.00 0.00 0.00 4.85
943 951 1.811266 CACCCTCATCGTTCAGGCG 60.811 63.158 0.00 0.00 0.00 5.52
1143 1162 3.916544 CGCCGCCTGCTCCATCTA 61.917 66.667 0.00 0.00 38.05 1.98
1231 1250 4.431524 ATTCCTCCCCGCCCTCCA 62.432 66.667 0.00 0.00 0.00 3.86
1598 1617 0.673644 CTGTTCGACGAAATGCCCCT 60.674 55.000 12.67 0.00 0.00 4.79
1723 1742 0.387202 GCGCTCTAGGAGAAGCATGA 59.613 55.000 0.00 0.00 35.86 3.07
1818 1837 1.615424 GGTGAGGGAGGGCAAGGTA 60.615 63.158 0.00 0.00 0.00 3.08
2059 2078 3.937706 CTGGAACACAATGATCTCTGGAC 59.062 47.826 0.00 0.00 0.00 4.02
2094 2113 3.629796 GGCAAGGGATTAAGGGGATTGAA 60.630 47.826 0.00 0.00 0.00 2.69
2152 2171 1.518367 TTCAGTGACTTTCCTGGGGT 58.482 50.000 0.00 0.00 0.00 4.95
2531 2550 3.454082 AGGAAACTGATGAGGAGGATGAC 59.546 47.826 0.00 0.00 41.13 3.06
2641 2660 1.273324 ACTCCTACAACAGAGAGGGGG 60.273 57.143 0.00 0.00 34.88 5.40
2643 2662 1.651770 TCCTACAACAGAGAGGGGGAT 59.348 52.381 0.00 0.00 0.00 3.85
3170 3189 6.575083 TTCTCTTTAATGAAGAAGCGATCG 57.425 37.500 11.69 11.69 43.56 3.69
3343 3362 9.319060 TCCTTGAGATAATGCTCTATATTCAGT 57.681 33.333 0.00 0.00 35.91 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
39 40 0.608035 GAATCACCAAGCCCACGGAA 60.608 55.000 0.00 0.00 0.00 4.30
113 114 2.365582 GGGATTGGCAACGAGTTATGT 58.634 47.619 0.00 0.00 42.51 2.29
125 126 2.119495 TCTTCTGTCTAGGGGATTGGC 58.881 52.381 0.00 0.00 0.00 4.52
174 175 2.434359 GAGGTGAAGTTCCGCCCG 60.434 66.667 0.00 0.00 37.42 6.13
253 254 3.076258 TAGCGAGGGTGCACATCGG 62.076 63.158 31.87 19.87 36.96 4.18
304 305 2.296471 ACGTCGTCTTTGATGAGAAGGT 59.704 45.455 0.00 0.00 0.00 3.50
415 416 2.956333 GGTTTTTAGCGGCTATGGGATT 59.044 45.455 11.04 0.00 0.00 3.01
450 451 2.738643 GCCCGATCGATCTGTTTTCTCA 60.739 50.000 22.43 0.00 0.00 3.27
570 578 3.702048 CCTCCTCCAACCGCGGAA 61.702 66.667 35.90 13.11 33.65 4.30
578 586 1.362224 CTTGACCTTCCCTCCTCCAA 58.638 55.000 0.00 0.00 0.00 3.53
579 587 0.193574 ACTTGACCTTCCCTCCTCCA 59.806 55.000 0.00 0.00 0.00 3.86
611 619 2.649034 CCGGGGGTGATATCGTCG 59.351 66.667 0.00 0.00 0.00 5.12
613 621 1.533273 CTCCCGGGGGTGATATCGT 60.533 63.158 23.50 0.00 36.47 3.73
614 622 2.283529 CCTCCCGGGGGTGATATCG 61.284 68.421 21.97 0.00 36.47 2.92
615 623 0.473117 TTCCTCCCGGGGGTGATATC 60.473 60.000 21.97 0.00 36.47 1.63
616 624 0.029474 TTTCCTCCCGGGGGTGATAT 60.029 55.000 21.97 0.00 36.47 1.63
617 625 0.253254 TTTTCCTCCCGGGGGTGATA 60.253 55.000 21.97 8.75 36.47 2.15
618 626 1.143970 TTTTTCCTCCCGGGGGTGAT 61.144 55.000 21.97 0.00 36.47 3.06
619 627 1.775046 TTTTTCCTCCCGGGGGTGA 60.775 57.895 21.97 13.91 36.47 4.02
621 629 2.848784 GTTTTTCCTCCCGGGGGT 59.151 61.111 21.97 0.00 36.47 4.95
627 635 2.708051 CGAGTTAGGGTTTTTCCTCCC 58.292 52.381 0.00 0.00 43.71 4.30
628 636 2.082231 GCGAGTTAGGGTTTTTCCTCC 58.918 52.381 0.00 0.00 38.30 4.30
629 637 1.730612 CGCGAGTTAGGGTTTTTCCTC 59.269 52.381 0.00 0.00 38.30 3.71
630 638 1.345415 TCGCGAGTTAGGGTTTTTCCT 59.655 47.619 3.71 0.00 40.79 3.36
631 639 1.730612 CTCGCGAGTTAGGGTTTTTCC 59.269 52.381 27.79 0.00 0.00 3.13
632 640 1.128136 GCTCGCGAGTTAGGGTTTTTC 59.872 52.381 34.46 11.71 0.00 2.29
633 641 1.154197 GCTCGCGAGTTAGGGTTTTT 58.846 50.000 34.46 0.00 0.00 1.94
634 642 1.012486 CGCTCGCGAGTTAGGGTTTT 61.012 55.000 34.46 0.00 42.83 2.43
635 643 1.445582 CGCTCGCGAGTTAGGGTTT 60.446 57.895 34.46 0.00 42.83 3.27
636 644 2.181021 CGCTCGCGAGTTAGGGTT 59.819 61.111 34.46 0.00 42.83 4.11
637 645 2.749044 TCGCTCGCGAGTTAGGGT 60.749 61.111 34.46 0.00 44.01 4.34
645 653 0.319211 TTTTTCCTTCTCGCTCGCGA 60.319 50.000 9.26 9.26 46.87 5.87
646 654 0.179248 GTTTTTCCTTCTCGCTCGCG 60.179 55.000 0.00 0.00 41.35 5.87
647 655 0.166161 GGTTTTTCCTTCTCGCTCGC 59.834 55.000 0.00 0.00 0.00 5.03
648 656 0.796927 GGGTTTTTCCTTCTCGCTCG 59.203 55.000 0.00 0.00 36.25 5.03
649 657 2.186532 AGGGTTTTTCCTTCTCGCTC 57.813 50.000 0.00 0.00 32.13 5.03
650 658 3.409570 GTTAGGGTTTTTCCTTCTCGCT 58.590 45.455 0.00 0.00 38.30 4.93
651 659 2.486982 GGTTAGGGTTTTTCCTTCTCGC 59.513 50.000 0.00 0.00 38.30 5.03
652 660 4.017177 AGGTTAGGGTTTTTCCTTCTCG 57.983 45.455 0.00 0.00 38.30 4.04
659 667 3.884693 TCGTTGGAAGGTTAGGGTTTTTC 59.115 43.478 0.00 0.00 0.00 2.29
672 680 1.203523 CCACCTCTCTCTCGTTGGAAG 59.796 57.143 0.00 0.00 0.00 3.46
673 681 1.257743 CCACCTCTCTCTCGTTGGAA 58.742 55.000 0.00 0.00 0.00 3.53
674 682 0.112606 ACCACCTCTCTCTCGTTGGA 59.887 55.000 0.00 0.00 0.00 3.53
675 683 0.244994 CACCACCTCTCTCTCGTTGG 59.755 60.000 0.00 0.00 0.00 3.77
676 684 0.389166 GCACCACCTCTCTCTCGTTG 60.389 60.000 0.00 0.00 0.00 4.10
677 685 0.827925 TGCACCACCTCTCTCTCGTT 60.828 55.000 0.00 0.00 0.00 3.85
678 686 1.228583 TGCACCACCTCTCTCTCGT 60.229 57.895 0.00 0.00 0.00 4.18
679 687 1.214062 GTGCACCACCTCTCTCTCG 59.786 63.158 5.22 0.00 0.00 4.04
680 688 1.840737 TAGTGCACCACCTCTCTCTC 58.159 55.000 14.63 0.00 34.49 3.20
681 689 2.300437 GTTTAGTGCACCACCTCTCTCT 59.700 50.000 14.63 0.00 34.49 3.10
682 690 2.613223 GGTTTAGTGCACCACCTCTCTC 60.613 54.545 14.63 0.00 34.49 3.20
683 691 1.348036 GGTTTAGTGCACCACCTCTCT 59.652 52.381 14.63 0.00 34.49 3.10
684 692 1.809684 GGTTTAGTGCACCACCTCTC 58.190 55.000 14.63 0.00 34.49 3.20
685 693 0.034896 CGGTTTAGTGCACCACCTCT 59.965 55.000 21.91 4.39 34.49 3.69
686 694 0.250166 ACGGTTTAGTGCACCACCTC 60.250 55.000 21.91 7.67 34.49 3.85
687 695 1.050204 TACGGTTTAGTGCACCACCT 58.950 50.000 21.91 14.16 34.49 4.00
688 696 1.150827 GTACGGTTTAGTGCACCACC 58.849 55.000 14.63 16.08 34.49 4.61
689 697 2.064014 GAGTACGGTTTAGTGCACCAC 58.936 52.381 14.63 8.07 33.36 4.16
690 698 1.001181 GGAGTACGGTTTAGTGCACCA 59.999 52.381 14.63 0.00 37.41 4.17
691 699 1.673923 GGGAGTACGGTTTAGTGCACC 60.674 57.143 14.63 0.00 36.92 5.01
692 700 1.274447 AGGGAGTACGGTTTAGTGCAC 59.726 52.381 9.40 9.40 0.00 4.57
693 701 1.547372 GAGGGAGTACGGTTTAGTGCA 59.453 52.381 0.00 0.00 0.00 4.57
694 702 1.823610 AGAGGGAGTACGGTTTAGTGC 59.176 52.381 0.00 0.00 0.00 4.40
695 703 2.824341 ACAGAGGGAGTACGGTTTAGTG 59.176 50.000 0.00 0.00 0.00 2.74
696 704 3.087781 GACAGAGGGAGTACGGTTTAGT 58.912 50.000 0.00 0.00 0.00 2.24
697 705 2.426381 GGACAGAGGGAGTACGGTTTAG 59.574 54.545 0.00 0.00 0.00 1.85
698 706 2.450476 GGACAGAGGGAGTACGGTTTA 58.550 52.381 0.00 0.00 0.00 2.01
699 707 1.264295 GGACAGAGGGAGTACGGTTT 58.736 55.000 0.00 0.00 0.00 3.27
700 708 0.614134 GGGACAGAGGGAGTACGGTT 60.614 60.000 0.00 0.00 0.00 4.44
701 709 1.000107 GGGACAGAGGGAGTACGGT 60.000 63.158 0.00 0.00 0.00 4.83
702 710 2.119655 CGGGACAGAGGGAGTACGG 61.120 68.421 0.00 0.00 0.00 4.02
703 711 0.679002 TTCGGGACAGAGGGAGTACG 60.679 60.000 0.00 0.00 0.00 3.67
704 712 1.777941 ATTCGGGACAGAGGGAGTAC 58.222 55.000 0.00 0.00 0.00 2.73
705 713 2.544844 AATTCGGGACAGAGGGAGTA 57.455 50.000 0.00 0.00 0.00 2.59
706 714 2.389715 CTAATTCGGGACAGAGGGAGT 58.610 52.381 0.00 0.00 0.00 3.85
707 715 1.069358 GCTAATTCGGGACAGAGGGAG 59.931 57.143 0.00 0.00 0.00 4.30
708 716 1.120530 GCTAATTCGGGACAGAGGGA 58.879 55.000 0.00 0.00 0.00 4.20
709 717 0.106894 GGCTAATTCGGGACAGAGGG 59.893 60.000 0.00 0.00 0.00 4.30
710 718 0.249489 CGGCTAATTCGGGACAGAGG 60.249 60.000 0.00 0.00 0.00 3.69
711 719 0.744874 TCGGCTAATTCGGGACAGAG 59.255 55.000 0.00 0.00 0.00 3.35
712 720 0.458669 GTCGGCTAATTCGGGACAGA 59.541 55.000 0.00 0.00 0.00 3.41
713 721 0.460311 AGTCGGCTAATTCGGGACAG 59.540 55.000 0.00 0.00 0.00 3.51
714 722 0.458669 GAGTCGGCTAATTCGGGACA 59.541 55.000 0.00 0.00 0.00 4.02
715 723 0.458669 TGAGTCGGCTAATTCGGGAC 59.541 55.000 0.00 0.00 0.00 4.46
716 724 0.744874 CTGAGTCGGCTAATTCGGGA 59.255 55.000 0.00 0.00 0.00 5.14
717 725 0.744874 TCTGAGTCGGCTAATTCGGG 59.255 55.000 0.00 0.00 0.00 5.14
718 726 2.802787 ATCTGAGTCGGCTAATTCGG 57.197 50.000 0.00 0.00 0.00 4.30
719 727 3.865745 ACAAATCTGAGTCGGCTAATTCG 59.134 43.478 0.00 0.00 0.00 3.34
720 728 5.112686 AGACAAATCTGAGTCGGCTAATTC 58.887 41.667 0.00 0.00 39.67 2.17
721 729 5.091261 AGACAAATCTGAGTCGGCTAATT 57.909 39.130 0.00 0.00 39.67 1.40
722 730 4.744795 AGACAAATCTGAGTCGGCTAAT 57.255 40.909 0.00 0.00 39.67 1.73
723 731 4.948004 TCTAGACAAATCTGAGTCGGCTAA 59.052 41.667 0.00 0.00 39.67 3.09
724 732 4.524053 TCTAGACAAATCTGAGTCGGCTA 58.476 43.478 0.00 0.00 39.67 3.93
725 733 3.357203 TCTAGACAAATCTGAGTCGGCT 58.643 45.455 0.00 0.00 39.67 5.52
726 734 3.784701 TCTAGACAAATCTGAGTCGGC 57.215 47.619 0.00 0.00 39.67 5.54
727 735 5.444983 CGTATCTAGACAAATCTGAGTCGG 58.555 45.833 0.00 0.00 39.67 4.79
728 736 5.236695 TCCGTATCTAGACAAATCTGAGTCG 59.763 44.000 0.00 0.00 39.67 4.18
729 737 6.621316 TCCGTATCTAGACAAATCTGAGTC 57.379 41.667 0.00 0.00 36.29 3.36
730 738 8.871629 ATATCCGTATCTAGACAAATCTGAGT 57.128 34.615 0.00 0.00 36.29 3.41
743 751 9.881649 AAACGTGTCTAGATATATCCGTATCTA 57.118 33.333 9.18 4.21 40.79 1.98
744 752 8.789825 AAACGTGTCTAGATATATCCGTATCT 57.210 34.615 9.18 2.43 42.50 1.98
747 755 9.494271 ACTAAAACGTGTCTAGATATATCCGTA 57.506 33.333 9.18 0.00 0.00 4.02
748 756 8.388484 ACTAAAACGTGTCTAGATATATCCGT 57.612 34.615 9.18 7.72 0.00 4.69
749 757 9.752274 GTACTAAAACGTGTCTAGATATATCCG 57.248 37.037 9.18 7.11 0.00 4.18
757 765 9.875691 TGTATCTAGTACTAAAACGTGTCTAGA 57.124 33.333 3.76 4.17 36.84 2.43
760 768 8.619546 GGATGTATCTAGTACTAAAACGTGTCT 58.380 37.037 3.76 0.00 34.27 3.41
761 769 7.585573 CGGATGTATCTAGTACTAAAACGTGTC 59.414 40.741 3.76 3.31 34.27 3.67
762 770 7.066284 ACGGATGTATCTAGTACTAAAACGTGT 59.934 37.037 3.76 0.00 34.27 4.49
763 771 7.412853 ACGGATGTATCTAGTACTAAAACGTG 58.587 38.462 3.76 0.00 34.27 4.49
764 772 7.559590 ACGGATGTATCTAGTACTAAAACGT 57.440 36.000 3.76 4.05 34.27 3.99
780 788 9.931698 ACCTGGATTTATCTATATACGGATGTA 57.068 33.333 0.00 0.00 34.45 2.29
781 789 8.840200 ACCTGGATTTATCTATATACGGATGT 57.160 34.615 0.00 0.00 0.00 3.06
782 790 8.914011 TGACCTGGATTTATCTATATACGGATG 58.086 37.037 0.00 0.00 0.00 3.51
783 791 9.488762 TTGACCTGGATTTATCTATATACGGAT 57.511 33.333 0.00 0.00 0.00 4.18
784 792 8.888836 TTGACCTGGATTTATCTATATACGGA 57.111 34.615 0.00 0.00 0.00 4.69
793 801 9.713684 TCCAAATTAATTGACCTGGATTTATCT 57.286 29.630 13.14 0.00 41.85 1.98
796 804 8.247562 CGTTCCAAATTAATTGACCTGGATTTA 58.752 33.333 16.47 3.74 41.85 1.40
797 805 7.096551 CGTTCCAAATTAATTGACCTGGATTT 58.903 34.615 16.47 0.00 41.85 2.17
798 806 6.350949 CCGTTCCAAATTAATTGACCTGGATT 60.351 38.462 16.47 0.00 41.85 3.01
799 807 5.127031 CCGTTCCAAATTAATTGACCTGGAT 59.873 40.000 16.47 0.00 41.85 3.41
800 808 4.461081 CCGTTCCAAATTAATTGACCTGGA 59.539 41.667 13.14 13.14 41.85 3.86
801 809 4.461081 TCCGTTCCAAATTAATTGACCTGG 59.539 41.667 9.50 9.50 41.85 4.45
802 810 5.393027 CCTCCGTTCCAAATTAATTGACCTG 60.393 44.000 0.39 0.00 41.85 4.00
803 811 4.705023 CCTCCGTTCCAAATTAATTGACCT 59.295 41.667 0.39 0.00 41.85 3.85
804 812 4.142249 CCCTCCGTTCCAAATTAATTGACC 60.142 45.833 0.39 0.00 41.85 4.02
805 813 4.703093 TCCCTCCGTTCCAAATTAATTGAC 59.297 41.667 0.39 0.00 41.85 3.18
806 814 4.924625 TCCCTCCGTTCCAAATTAATTGA 58.075 39.130 0.39 0.00 41.85 2.57
807 815 4.705023 ACTCCCTCCGTTCCAAATTAATTG 59.295 41.667 0.39 0.00 38.84 2.32
808 816 4.930696 ACTCCCTCCGTTCCAAATTAATT 58.069 39.130 0.00 0.00 0.00 1.40
809 817 4.586306 ACTCCCTCCGTTCCAAATTAAT 57.414 40.909 0.00 0.00 0.00 1.40
810 818 5.703730 ATACTCCCTCCGTTCCAAATTAA 57.296 39.130 0.00 0.00 0.00 1.40
811 819 5.703730 AATACTCCCTCCGTTCCAAATTA 57.296 39.130 0.00 0.00 0.00 1.40
812 820 4.586306 AATACTCCCTCCGTTCCAAATT 57.414 40.909 0.00 0.00 0.00 1.82
813 821 4.586306 AAATACTCCCTCCGTTCCAAAT 57.414 40.909 0.00 0.00 0.00 2.32
814 822 4.042435 AGAAAATACTCCCTCCGTTCCAAA 59.958 41.667 0.00 0.00 0.00 3.28
815 823 3.585732 AGAAAATACTCCCTCCGTTCCAA 59.414 43.478 0.00 0.00 0.00 3.53
816 824 3.178865 AGAAAATACTCCCTCCGTTCCA 58.821 45.455 0.00 0.00 0.00 3.53
817 825 3.908643 AGAAAATACTCCCTCCGTTCC 57.091 47.619 0.00 0.00 0.00 3.62
818 826 5.990386 GGATTAGAAAATACTCCCTCCGTTC 59.010 44.000 0.00 0.00 0.00 3.95
819 827 5.666265 AGGATTAGAAAATACTCCCTCCGTT 59.334 40.000 0.00 0.00 29.55 4.44
820 828 5.070580 CAGGATTAGAAAATACTCCCTCCGT 59.929 44.000 0.00 0.00 33.69 4.69
821 829 5.542779 CAGGATTAGAAAATACTCCCTCCG 58.457 45.833 0.00 0.00 33.69 4.63
822 830 5.163195 TGCAGGATTAGAAAATACTCCCTCC 60.163 44.000 0.00 0.00 33.69 4.30
823 831 5.930135 TGCAGGATTAGAAAATACTCCCTC 58.070 41.667 0.00 0.00 33.69 4.30
824 832 5.975988 TGCAGGATTAGAAAATACTCCCT 57.024 39.130 0.00 0.00 33.69 4.20
825 833 5.048434 GCATGCAGGATTAGAAAATACTCCC 60.048 44.000 14.21 0.00 33.69 4.30
826 834 5.532406 TGCATGCAGGATTAGAAAATACTCC 59.468 40.000 18.46 0.00 33.69 3.85
827 835 6.624352 TGCATGCAGGATTAGAAAATACTC 57.376 37.500 18.46 0.00 33.69 2.59
828 836 6.460676 GCTTGCATGCAGGATTAGAAAATACT 60.461 38.462 31.67 0.00 36.65 2.12
829 837 5.689068 GCTTGCATGCAGGATTAGAAAATAC 59.311 40.000 31.67 6.92 0.00 1.89
830 838 5.595542 AGCTTGCATGCAGGATTAGAAAATA 59.404 36.000 31.67 6.84 34.99 1.40
831 839 4.404715 AGCTTGCATGCAGGATTAGAAAAT 59.595 37.500 31.67 6.07 34.99 1.82
832 840 3.765511 AGCTTGCATGCAGGATTAGAAAA 59.234 39.130 31.67 7.59 34.99 2.29
833 841 3.359033 AGCTTGCATGCAGGATTAGAAA 58.641 40.909 31.67 8.35 34.99 2.52
834 842 3.008835 AGCTTGCATGCAGGATTAGAA 57.991 42.857 31.67 9.11 34.99 2.10
835 843 2.686405 CAAGCTTGCATGCAGGATTAGA 59.314 45.455 29.35 9.29 30.70 2.10
836 844 3.079960 CAAGCTTGCATGCAGGATTAG 57.920 47.619 29.35 20.31 30.70 1.73
880 888 1.964552 CTAAATCAGGCAGGCTCTGG 58.035 55.000 0.00 0.00 33.36 3.86
881 889 1.134159 AGCTAAATCAGGCAGGCTCTG 60.134 52.381 0.00 0.00 34.12 3.35
882 890 1.211456 AGCTAAATCAGGCAGGCTCT 58.789 50.000 0.00 0.00 0.00 4.09
883 891 1.674962 CAAGCTAAATCAGGCAGGCTC 59.325 52.381 0.00 0.00 0.00 4.70
884 892 1.760192 CAAGCTAAATCAGGCAGGCT 58.240 50.000 0.00 0.00 0.00 4.58
885 893 0.101939 GCAAGCTAAATCAGGCAGGC 59.898 55.000 0.00 0.00 0.00 4.85
886 894 0.379669 CGCAAGCTAAATCAGGCAGG 59.620 55.000 0.00 0.00 0.00 4.85
887 895 3.911989 CGCAAGCTAAATCAGGCAG 57.088 52.632 0.00 0.00 0.00 4.85
904 912 4.459331 CGAAATGGGCCGTGTGCG 62.459 66.667 0.00 0.00 42.61 5.34
905 913 1.373590 ATACGAAATGGGCCGTGTGC 61.374 55.000 0.00 0.00 39.54 4.57
906 914 0.655733 GATACGAAATGGGCCGTGTG 59.344 55.000 0.00 0.00 39.54 3.82
907 915 0.250793 TGATACGAAATGGGCCGTGT 59.749 50.000 0.00 0.00 39.54 4.49
908 916 0.655733 GTGATACGAAATGGGCCGTG 59.344 55.000 0.00 0.00 39.54 4.94
909 917 0.463116 GGTGATACGAAATGGGCCGT 60.463 55.000 0.00 0.00 42.15 5.68
910 918 1.164041 GGGTGATACGAAATGGGCCG 61.164 60.000 0.00 0.00 0.00 6.13
911 919 0.182775 AGGGTGATACGAAATGGGCC 59.817 55.000 0.00 0.00 0.00 5.80
912 920 1.134220 TGAGGGTGATACGAAATGGGC 60.134 52.381 0.00 0.00 0.00 5.36
913 921 3.403038 GATGAGGGTGATACGAAATGGG 58.597 50.000 0.00 0.00 0.00 4.00
914 922 3.059884 CGATGAGGGTGATACGAAATGG 58.940 50.000 0.00 0.00 0.00 3.16
915 923 3.717707 ACGATGAGGGTGATACGAAATG 58.282 45.455 0.00 0.00 0.00 2.32
916 924 4.142026 TGAACGATGAGGGTGATACGAAAT 60.142 41.667 0.00 0.00 0.00 2.17
917 925 3.193903 TGAACGATGAGGGTGATACGAAA 59.806 43.478 0.00 0.00 0.00 3.46
918 926 2.756207 TGAACGATGAGGGTGATACGAA 59.244 45.455 0.00 0.00 0.00 3.85
919 927 2.357952 CTGAACGATGAGGGTGATACGA 59.642 50.000 0.00 0.00 0.00 3.43
920 928 2.543861 CCTGAACGATGAGGGTGATACG 60.544 54.545 0.00 0.00 0.00 3.06
921 929 2.803492 GCCTGAACGATGAGGGTGATAC 60.803 54.545 0.00 0.00 0.00 2.24
922 930 1.412710 GCCTGAACGATGAGGGTGATA 59.587 52.381 0.00 0.00 0.00 2.15
923 931 0.179000 GCCTGAACGATGAGGGTGAT 59.821 55.000 0.00 0.00 0.00 3.06
924 932 1.596934 GCCTGAACGATGAGGGTGA 59.403 57.895 0.00 0.00 0.00 4.02
925 933 1.811266 CGCCTGAACGATGAGGGTG 60.811 63.158 0.00 0.00 34.06 4.61
926 934 2.579201 CGCCTGAACGATGAGGGT 59.421 61.111 0.00 0.00 34.06 4.34
927 935 2.032860 ATCCGCCTGAACGATGAGGG 62.033 60.000 0.00 0.00 34.06 4.30
928 936 0.877649 CATCCGCCTGAACGATGAGG 60.878 60.000 0.00 0.00 34.06 3.86
929 937 1.493950 GCATCCGCCTGAACGATGAG 61.494 60.000 0.00 0.00 34.06 2.90
930 938 1.521457 GCATCCGCCTGAACGATGA 60.521 57.895 0.00 0.00 34.06 2.92
931 939 2.874694 CGCATCCGCCTGAACGATG 61.875 63.158 0.00 0.00 34.06 3.84
932 940 2.586079 CGCATCCGCCTGAACGAT 60.586 61.111 0.00 0.00 34.06 3.73
957 965 6.194796 TGGTTTCGATTGGATTTGAGAATC 57.805 37.500 0.00 0.00 40.78 2.52
994 1013 0.603065 GGCCTCGGTTGCATCTTTTT 59.397 50.000 0.00 0.00 0.00 1.94
1010 1029 4.223964 GCGCGAGACAATTCGGCC 62.224 66.667 12.10 0.00 40.79 6.13
1143 1162 3.314331 CGGGAGGAGTGGTGCAGT 61.314 66.667 0.00 0.00 0.00 4.40
1231 1250 2.031163 GAGGAAGTGGTGCTGCGT 59.969 61.111 0.00 0.00 0.00 5.24
1387 1406 1.608046 GGGAGGATAGGAGGCGGAG 60.608 68.421 0.00 0.00 0.00 4.63
1549 1568 2.524204 GGGGCAGAGGATAGGGCTG 61.524 68.421 0.00 0.00 0.00 4.85
1550 1569 2.122189 GGGGCAGAGGATAGGGCT 60.122 66.667 0.00 0.00 0.00 5.19
1598 1617 1.527034 GATGGTGCACTTTCTCTGCA 58.473 50.000 17.98 3.54 42.42 4.41
1688 1707 1.793581 CGCTTGAACCGCTGCATTA 59.206 52.632 0.00 0.00 0.00 1.90
1710 1729 4.040047 TCCAGGAAATCATGCTTCTCCTA 58.960 43.478 10.63 0.00 34.69 2.94
1723 1742 3.755378 GCGATCATAGCATTCCAGGAAAT 59.245 43.478 5.81 0.00 34.19 2.17
1818 1837 2.507944 GTCCCATCATCTGGCGCT 59.492 61.111 7.64 0.00 44.46 5.92
2059 2078 2.833338 TCCCTTGCCCATTCAATGAAAG 59.167 45.455 0.00 0.00 0.00 2.62
2094 2113 1.003355 CACCATCTGCCGGAACAGT 60.003 57.895 5.05 0.00 38.84 3.55
2152 2171 2.795110 GGGCACAGCAACCAAGCAA 61.795 57.895 0.00 0.00 36.85 3.91
2293 2312 0.679002 ATCAGCGCATGTGCCTCTTT 60.679 50.000 26.95 5.83 37.91 2.52
2641 2660 4.802876 GCATAGTCCACTTTGCAGTATC 57.197 45.455 14.94 0.00 45.89 2.24
2790 2809 6.183360 CCCGATTCAACAAATTCCATATTGGA 60.183 38.462 0.00 0.00 46.61 3.53
3170 3189 2.359900 AGGACGAAGCATGTGGAAATC 58.640 47.619 0.00 0.00 0.00 2.17
3343 3362 5.213891 TGTGTCTAGATCAACAGCAGAAA 57.786 39.130 0.00 0.00 0.00 2.52


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

AutoCloner maintained by Alex Coulton.