Multiple sequence alignment - TraesCS3B01G244100

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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 TraesCS3B01G244100 chr3B 100.000 2483 0 0 1 2483 386062725 386060243 0.000000e+00 4586.0
1 TraesCS3B01G244100 chr3B 95.181 581 27 1 1 580 556713108 556713688 0.000000e+00 917.0
2 TraesCS3B01G244100 chr3B 99.640 278 1 0 646 923 825589609 825589332 2.200000e-140 508.0
3 TraesCS3B01G244100 chr3B 89.266 354 29 2 1264 1609 62025296 62025648 3.790000e-118 435.0
4 TraesCS3B01G244100 chr3A 95.878 1577 46 5 923 2483 387842827 387844400 0.000000e+00 2534.0
5 TraesCS3B01G244100 chr3A 91.406 128 8 2 1676 1800 108899522 108899649 3.280000e-39 172.0
6 TraesCS3B01G244100 chr3A 93.827 81 5 0 1529 1609 108899448 108899528 3.350000e-24 122.0
7 TraesCS3B01G244100 chr3A 94.872 78 3 1 575 651 387842753 387842830 1.210000e-23 121.0
8 TraesCS3B01G244100 chr3D 97.332 787 19 2 1697 2483 292883774 292884558 0.000000e+00 1336.0
9 TraesCS3B01G244100 chr3D 95.311 789 20 7 923 1702 292882834 292883614 0.000000e+00 1236.0
10 TraesCS3B01G244100 chr3D 90.625 128 9 1 1676 1800 46545926 46546053 1.530000e-37 167.0
11 TraesCS3B01G244100 chr3D 93.671 79 3 1 575 651 292882759 292882837 1.560000e-22 117.0
12 TraesCS3B01G244100 chr4B 96.041 581 21 2 1 580 402971828 402972407 0.000000e+00 944.0
13 TraesCS3B01G244100 chr4B 93.151 584 39 1 1 584 387901918 387901336 0.000000e+00 856.0
14 TraesCS3B01G244100 chr4B 94.224 277 16 0 650 926 641425407 641425131 8.210000e-115 424.0
15 TraesCS3B01G244100 chr7B 95.869 581 23 1 1 580 113067481 113068061 0.000000e+00 939.0
16 TraesCS3B01G244100 chr6D 95.525 581 25 1 1 580 345780018 345780598 0.000000e+00 928.0
17 TraesCS3B01G244100 chr6D 93.750 128 5 2 1676 1800 199697895 199697768 3.260000e-44 189.0
18 TraesCS3B01G244100 chr6D 92.188 128 7 2 1676 1800 80086210 80086337 7.060000e-41 178.0
19 TraesCS3B01G244100 chr6D 93.103 87 6 0 1529 1615 199697969 199697883 7.210000e-26 128.0
20 TraesCS3B01G244100 chr5B 94.483 580 32 0 1 580 507645615 507645036 0.000000e+00 894.0
21 TraesCS3B01G244100 chr5B 97.872 282 4 1 642 923 6391553 6391274 1.030000e-133 486.0
22 TraesCS3B01G244100 chr1A 94.158 582 32 2 1 581 374957532 374958112 0.000000e+00 885.0
23 TraesCS3B01G244100 chr1A 90.805 87 8 0 1529 1615 61346518 61346432 1.560000e-22 117.0
24 TraesCS3B01G244100 chr1B 93.966 580 35 0 1 580 196648713 196649292 0.000000e+00 878.0
25 TraesCS3B01G244100 chr1B 93.621 580 37 0 1 580 196628388 196628967 0.000000e+00 867.0
26 TraesCS3B01G244100 chrUn 87.955 440 36 4 1816 2248 112463035 112462606 1.030000e-138 503.0
27 TraesCS3B01G244100 chrUn 92.143 140 8 2 1676 1812 112463333 112463194 7.010000e-46 195.0
28 TraesCS3B01G244100 chr7A 98.264 288 4 1 648 934 66411163 66411450 1.030000e-138 503.0
29 TraesCS3B01G244100 chr7A 91.406 128 8 1 1676 1800 692716381 692716254 3.280000e-39 172.0
30 TraesCS3B01G244100 chr7A 93.103 87 6 0 1529 1615 692716455 692716369 7.210000e-26 128.0
31 TraesCS3B01G244100 chr7A 97.872 47 1 0 1628 1674 721221300 721221346 5.690000e-12 82.4
32 TraesCS3B01G244100 chr6B 87.810 443 37 4 1813 2248 78458931 78459363 1.030000e-138 503.0
33 TraesCS3B01G244100 chr6B 92.857 140 7 2 1676 1812 78458637 78458776 1.510000e-47 200.0
34 TraesCS3B01G244100 chr2B 99.635 274 1 0 650 923 53663160 53662887 3.690000e-138 501.0
35 TraesCS3B01G244100 chr2B 92.157 51 4 0 1631 1681 762385029 762384979 3.430000e-09 73.1
36 TraesCS3B01G244100 chr2A 95.620 274 12 0 650 923 39930259 39930532 8.150000e-120 440.0
37 TraesCS3B01G244100 chr4A 93.380 287 19 0 643 929 593498019 593497733 2.280000e-115 425.0
38 TraesCS3B01G244100 chr4A 94.526 274 15 0 650 923 731500590 731500317 8.210000e-115 424.0
39 TraesCS3B01G244100 chr7D 93.127 291 17 3 635 923 282878095 282878384 8.210000e-115 424.0
40 TraesCS3B01G244100 chr5A 93.827 81 5 0 1529 1609 412519349 412519429 3.350000e-24 122.0


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 TraesCS3B01G244100 chr3B 386060243 386062725 2482 True 4586.000000 4586 100.0000 1 2483 1 chr3B.!!$R1 2482
1 TraesCS3B01G244100 chr3B 556713108 556713688 580 False 917.000000 917 95.1810 1 580 1 chr3B.!!$F2 579
2 TraesCS3B01G244100 chr3A 387842753 387844400 1647 False 1327.500000 2534 95.3750 575 2483 2 chr3A.!!$F2 1908
3 TraesCS3B01G244100 chr3D 292882759 292884558 1799 False 896.333333 1336 95.4380 575 2483 3 chr3D.!!$F2 1908
4 TraesCS3B01G244100 chr4B 402971828 402972407 579 False 944.000000 944 96.0410 1 580 1 chr4B.!!$F1 579
5 TraesCS3B01G244100 chr4B 387901336 387901918 582 True 856.000000 856 93.1510 1 584 1 chr4B.!!$R1 583
6 TraesCS3B01G244100 chr7B 113067481 113068061 580 False 939.000000 939 95.8690 1 580 1 chr7B.!!$F1 579
7 TraesCS3B01G244100 chr6D 345780018 345780598 580 False 928.000000 928 95.5250 1 580 1 chr6D.!!$F2 579
8 TraesCS3B01G244100 chr5B 507645036 507645615 579 True 894.000000 894 94.4830 1 580 1 chr5B.!!$R2 579
9 TraesCS3B01G244100 chr1A 374957532 374958112 580 False 885.000000 885 94.1580 1 581 1 chr1A.!!$F1 580
10 TraesCS3B01G244100 chr1B 196648713 196649292 579 False 878.000000 878 93.9660 1 580 1 chr1B.!!$F2 579
11 TraesCS3B01G244100 chr1B 196628388 196628967 579 False 867.000000 867 93.6210 1 580 1 chr1B.!!$F1 579
12 TraesCS3B01G244100 chrUn 112462606 112463333 727 True 349.000000 503 90.0490 1676 2248 2 chrUn.!!$R1 572
13 TraesCS3B01G244100 chr6B 78458637 78459363 726 False 351.500000 503 90.3335 1676 2248 2 chr6B.!!$F1 572

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
312 313 1.140312 ACACGGGAGGGCATATCAAT 58.860 50.000 0.0 0.0 35.95 2.57 F
620 623 1.302752 GGCTGTGTGCATGAGGACA 60.303 57.895 0.0 0.0 44.30 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1219 1223 2.659610 GCAGCTGGAGTCGAGGTT 59.340 61.111 17.12 0.0 0.0 3.50 R
2417 2771 3.123621 GTGAACGCATTAGTGAACCTGAG 59.876 47.826 0.00 0.0 0.0 3.35 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
69 70 6.664816 TCTTCACTTGGCTTATCATCCAAAAT 59.335 34.615 0.00 0.00 41.35 1.82
85 86 2.529780 AAATCGTGTGTGGACGGTAA 57.470 45.000 0.00 0.00 39.88 2.85
312 313 1.140312 ACACGGGAGGGCATATCAAT 58.860 50.000 0.00 0.00 35.95 2.57
430 431 3.777106 TCACTGCCAAGATCAAAGAGT 57.223 42.857 0.00 0.00 0.00 3.24
506 507 5.834135 CGCGAGAGTAGTATTTTATTTTGCG 59.166 40.000 0.00 0.00 0.00 4.85
619 622 2.393768 CGGCTGTGTGCATGAGGAC 61.394 63.158 0.00 0.00 45.15 3.85
620 623 1.302752 GGCTGTGTGCATGAGGACA 60.303 57.895 0.00 0.00 44.30 4.02
651 655 2.347452 CGCGTGTTGGTTAACTATGAGG 59.653 50.000 5.42 0.00 37.68 3.86
652 656 2.676342 GCGTGTTGGTTAACTATGAGGG 59.324 50.000 5.42 0.00 37.68 4.30
653 657 2.676342 CGTGTTGGTTAACTATGAGGGC 59.324 50.000 5.42 0.00 37.68 5.19
654 658 3.681593 GTGTTGGTTAACTATGAGGGCA 58.318 45.455 5.42 0.00 37.68 5.36
655 659 4.270008 GTGTTGGTTAACTATGAGGGCAT 58.730 43.478 5.42 0.00 37.68 4.40
656 660 4.096382 GTGTTGGTTAACTATGAGGGCATG 59.904 45.833 5.42 0.00 37.68 4.06
657 661 4.263727 TGTTGGTTAACTATGAGGGCATGT 60.264 41.667 5.42 0.00 37.68 3.21
658 662 5.045505 TGTTGGTTAACTATGAGGGCATGTA 60.046 40.000 5.42 0.00 37.68 2.29
659 663 5.031066 TGGTTAACTATGAGGGCATGTAC 57.969 43.478 5.42 0.00 35.94 2.90
660 664 4.471747 TGGTTAACTATGAGGGCATGTACA 59.528 41.667 5.42 0.00 35.94 2.90
661 665 5.045505 TGGTTAACTATGAGGGCATGTACAA 60.046 40.000 0.00 0.00 35.94 2.41
662 666 6.062095 GGTTAACTATGAGGGCATGTACAAT 58.938 40.000 0.00 0.00 35.94 2.71
663 667 6.017109 GGTTAACTATGAGGGCATGTACAATG 60.017 42.308 0.00 0.12 35.94 2.82
664 668 4.090761 ACTATGAGGGCATGTACAATGG 57.909 45.455 0.00 0.00 35.94 3.16
665 669 3.459598 ACTATGAGGGCATGTACAATGGT 59.540 43.478 0.00 0.00 35.94 3.55
666 670 2.897271 TGAGGGCATGTACAATGGTT 57.103 45.000 0.00 0.00 0.00 3.67
667 671 2.722094 TGAGGGCATGTACAATGGTTC 58.278 47.619 0.00 0.00 0.00 3.62
668 672 2.308570 TGAGGGCATGTACAATGGTTCT 59.691 45.455 0.00 0.00 0.00 3.01
669 673 3.521531 TGAGGGCATGTACAATGGTTCTA 59.478 43.478 0.00 0.00 0.00 2.10
670 674 4.165950 TGAGGGCATGTACAATGGTTCTAT 59.834 41.667 0.00 0.00 0.00 1.98
671 675 4.718961 AGGGCATGTACAATGGTTCTATC 58.281 43.478 0.00 0.00 0.00 2.08
672 676 4.413520 AGGGCATGTACAATGGTTCTATCT 59.586 41.667 0.00 0.00 0.00 1.98
673 677 5.103940 AGGGCATGTACAATGGTTCTATCTT 60.104 40.000 0.00 0.00 0.00 2.40
674 678 6.101150 AGGGCATGTACAATGGTTCTATCTTA 59.899 38.462 0.00 0.00 0.00 2.10
675 679 6.428159 GGGCATGTACAATGGTTCTATCTTAG 59.572 42.308 0.00 0.00 0.00 2.18
676 680 6.073003 GGCATGTACAATGGTTCTATCTTAGC 60.073 42.308 0.00 0.00 0.00 3.09
677 681 6.483307 GCATGTACAATGGTTCTATCTTAGCA 59.517 38.462 0.00 0.00 0.00 3.49
678 682 7.012327 GCATGTACAATGGTTCTATCTTAGCAA 59.988 37.037 0.00 0.00 0.00 3.91
679 683 9.060347 CATGTACAATGGTTCTATCTTAGCAAT 57.940 33.333 0.00 0.00 0.00 3.56
680 684 8.437360 TGTACAATGGTTCTATCTTAGCAATG 57.563 34.615 0.00 0.00 0.00 2.82
681 685 6.382869 ACAATGGTTCTATCTTAGCAATGC 57.617 37.500 0.00 0.00 0.00 3.56
682 686 5.300286 ACAATGGTTCTATCTTAGCAATGCC 59.700 40.000 0.00 0.00 0.00 4.40
683 687 4.502105 TGGTTCTATCTTAGCAATGCCA 57.498 40.909 0.00 0.00 0.00 4.92
684 688 4.199310 TGGTTCTATCTTAGCAATGCCAC 58.801 43.478 0.00 0.00 0.00 5.01
685 689 3.248602 GGTTCTATCTTAGCAATGCCACG 59.751 47.826 0.00 0.00 0.00 4.94
686 690 3.819564 TCTATCTTAGCAATGCCACGT 57.180 42.857 0.00 0.00 0.00 4.49
687 691 4.929819 TCTATCTTAGCAATGCCACGTA 57.070 40.909 0.00 0.00 0.00 3.57
688 692 4.871513 TCTATCTTAGCAATGCCACGTAG 58.128 43.478 0.00 0.00 0.00 3.51
689 693 2.309528 TCTTAGCAATGCCACGTAGG 57.690 50.000 0.00 0.00 41.84 3.18
690 694 1.828595 TCTTAGCAATGCCACGTAGGA 59.171 47.619 0.00 0.00 41.22 2.94
691 695 2.434336 TCTTAGCAATGCCACGTAGGAT 59.566 45.455 0.00 0.00 41.22 3.24
692 696 3.639561 TCTTAGCAATGCCACGTAGGATA 59.360 43.478 0.00 0.00 41.22 2.59
693 697 4.100344 TCTTAGCAATGCCACGTAGGATAA 59.900 41.667 0.00 0.00 41.22 1.75
694 698 3.275617 AGCAATGCCACGTAGGATAAA 57.724 42.857 0.00 0.00 41.22 1.40
695 699 3.820557 AGCAATGCCACGTAGGATAAAT 58.179 40.909 0.00 0.00 41.22 1.40
696 700 3.565482 AGCAATGCCACGTAGGATAAATG 59.435 43.478 0.00 0.00 41.22 2.32
697 701 3.563808 GCAATGCCACGTAGGATAAATGA 59.436 43.478 8.04 0.00 41.22 2.57
698 702 4.216257 GCAATGCCACGTAGGATAAATGAT 59.784 41.667 8.04 0.00 41.22 2.45
699 703 5.692814 CAATGCCACGTAGGATAAATGATG 58.307 41.667 8.04 0.00 41.22 3.07
700 704 4.681074 TGCCACGTAGGATAAATGATGA 57.319 40.909 8.04 0.00 41.22 2.92
701 705 4.631131 TGCCACGTAGGATAAATGATGAG 58.369 43.478 8.04 0.00 41.22 2.90
702 706 3.997021 GCCACGTAGGATAAATGATGAGG 59.003 47.826 8.04 0.00 41.22 3.86
703 707 4.503296 GCCACGTAGGATAAATGATGAGGT 60.503 45.833 8.04 0.00 41.22 3.85
704 708 4.991056 CCACGTAGGATAAATGATGAGGTG 59.009 45.833 0.00 0.00 41.22 4.00
705 709 4.991056 CACGTAGGATAAATGATGAGGTGG 59.009 45.833 0.00 0.00 0.00 4.61
706 710 4.899457 ACGTAGGATAAATGATGAGGTGGA 59.101 41.667 0.00 0.00 0.00 4.02
707 711 5.011125 ACGTAGGATAAATGATGAGGTGGAG 59.989 44.000 0.00 0.00 0.00 3.86
708 712 4.989875 AGGATAAATGATGAGGTGGAGG 57.010 45.455 0.00 0.00 0.00 4.30
709 713 4.570926 AGGATAAATGATGAGGTGGAGGA 58.429 43.478 0.00 0.00 0.00 3.71
710 714 4.596643 AGGATAAATGATGAGGTGGAGGAG 59.403 45.833 0.00 0.00 0.00 3.69
711 715 4.594920 GGATAAATGATGAGGTGGAGGAGA 59.405 45.833 0.00 0.00 0.00 3.71
712 716 5.279910 GGATAAATGATGAGGTGGAGGAGAG 60.280 48.000 0.00 0.00 0.00 3.20
713 717 3.411454 AATGATGAGGTGGAGGAGAGA 57.589 47.619 0.00 0.00 0.00 3.10
714 718 2.450867 TGATGAGGTGGAGGAGAGAG 57.549 55.000 0.00 0.00 0.00 3.20
715 719 1.925959 TGATGAGGTGGAGGAGAGAGA 59.074 52.381 0.00 0.00 0.00 3.10
716 720 2.313041 TGATGAGGTGGAGGAGAGAGAA 59.687 50.000 0.00 0.00 0.00 2.87
717 721 3.245766 TGATGAGGTGGAGGAGAGAGAAA 60.246 47.826 0.00 0.00 0.00 2.52
718 722 3.481559 TGAGGTGGAGGAGAGAGAAAT 57.518 47.619 0.00 0.00 0.00 2.17
719 723 3.370104 TGAGGTGGAGGAGAGAGAAATC 58.630 50.000 0.00 0.00 0.00 2.17
720 724 3.245766 TGAGGTGGAGGAGAGAGAAATCA 60.246 47.826 0.00 0.00 0.00 2.57
721 725 3.966665 GAGGTGGAGGAGAGAGAAATCAT 59.033 47.826 0.00 0.00 0.00 2.45
722 726 5.144100 GAGGTGGAGGAGAGAGAAATCATA 58.856 45.833 0.00 0.00 0.00 2.15
723 727 5.533112 AGGTGGAGGAGAGAGAAATCATAA 58.467 41.667 0.00 0.00 0.00 1.90
724 728 5.602145 AGGTGGAGGAGAGAGAAATCATAAG 59.398 44.000 0.00 0.00 0.00 1.73
725 729 5.600484 GGTGGAGGAGAGAGAAATCATAAGA 59.400 44.000 0.00 0.00 0.00 2.10
726 730 6.098982 GGTGGAGGAGAGAGAAATCATAAGAA 59.901 42.308 0.00 0.00 0.00 2.52
727 731 7.365117 GGTGGAGGAGAGAGAAATCATAAGAAA 60.365 40.741 0.00 0.00 0.00 2.52
728 732 7.710475 GTGGAGGAGAGAGAAATCATAAGAAAG 59.290 40.741 0.00 0.00 0.00 2.62
729 733 7.147585 TGGAGGAGAGAGAAATCATAAGAAAGG 60.148 40.741 0.00 0.00 0.00 3.11
730 734 7.135591 AGGAGAGAGAAATCATAAGAAAGGG 57.864 40.000 0.00 0.00 0.00 3.95
731 735 5.762711 GGAGAGAGAAATCATAAGAAAGGGC 59.237 44.000 0.00 0.00 0.00 5.19
732 736 6.409120 GGAGAGAGAAATCATAAGAAAGGGCT 60.409 42.308 0.00 0.00 0.00 5.19
733 737 6.967897 AGAGAGAAATCATAAGAAAGGGCTT 58.032 36.000 0.00 0.00 0.00 4.35
734 738 6.827762 AGAGAGAAATCATAAGAAAGGGCTTG 59.172 38.462 0.00 0.00 0.00 4.01
735 739 6.488715 AGAGAAATCATAAGAAAGGGCTTGT 58.511 36.000 0.00 0.00 0.00 3.16
736 740 6.601217 AGAGAAATCATAAGAAAGGGCTTGTC 59.399 38.462 0.00 0.00 0.00 3.18
737 741 6.488715 AGAAATCATAAGAAAGGGCTTGTCT 58.511 36.000 0.00 0.00 0.00 3.41
738 742 6.950619 AGAAATCATAAGAAAGGGCTTGTCTT 59.049 34.615 7.27 7.27 35.77 3.01
739 743 6.765915 AATCATAAGAAAGGGCTTGTCTTC 57.234 37.500 5.17 0.00 33.70 2.87
740 744 5.505181 TCATAAGAAAGGGCTTGTCTTCT 57.495 39.130 5.17 0.00 33.70 2.85
741 745 5.491982 TCATAAGAAAGGGCTTGTCTTCTC 58.508 41.667 5.17 0.00 33.70 2.87
742 746 5.249393 TCATAAGAAAGGGCTTGTCTTCTCT 59.751 40.000 5.17 0.00 33.70 3.10
743 747 4.445557 AAGAAAGGGCTTGTCTTCTCTT 57.554 40.909 0.00 0.00 0.00 2.85
744 748 5.568620 AAGAAAGGGCTTGTCTTCTCTTA 57.431 39.130 0.00 0.00 0.00 2.10
745 749 5.770685 AGAAAGGGCTTGTCTTCTCTTAT 57.229 39.130 0.00 0.00 0.00 1.73
746 750 6.133253 AGAAAGGGCTTGTCTTCTCTTATT 57.867 37.500 0.00 0.00 0.00 1.40
747 751 6.547402 AGAAAGGGCTTGTCTTCTCTTATTT 58.453 36.000 0.00 0.00 0.00 1.40
748 752 7.690256 AGAAAGGGCTTGTCTTCTCTTATTTA 58.310 34.615 0.00 0.00 0.00 1.40
749 753 8.164070 AGAAAGGGCTTGTCTTCTCTTATTTAA 58.836 33.333 0.00 0.00 0.00 1.52
750 754 7.929941 AAGGGCTTGTCTTCTCTTATTTAAG 57.070 36.000 0.00 0.00 34.65 1.85
751 755 7.259088 AGGGCTTGTCTTCTCTTATTTAAGA 57.741 36.000 0.44 0.44 39.82 2.10
752 756 7.690256 AGGGCTTGTCTTCTCTTATTTAAGAA 58.310 34.615 1.97 0.00 41.37 2.52
753 757 8.164070 AGGGCTTGTCTTCTCTTATTTAAGAAA 58.836 33.333 1.97 0.31 41.37 2.52
754 758 8.793592 GGGCTTGTCTTCTCTTATTTAAGAAAA 58.206 33.333 1.97 0.00 41.37 2.29
755 759 9.833182 GGCTTGTCTTCTCTTATTTAAGAAAAG 57.167 33.333 6.96 6.96 43.17 2.27
785 789 8.925161 GAGGTGATCTCTTAGCATAATATGTC 57.075 38.462 1.92 0.00 39.38 3.06
786 790 8.663209 AGGTGATCTCTTAGCATAATATGTCT 57.337 34.615 1.92 2.85 0.00 3.41
787 791 8.748412 AGGTGATCTCTTAGCATAATATGTCTC 58.252 37.037 1.92 0.00 0.00 3.36
788 792 8.526978 GGTGATCTCTTAGCATAATATGTCTCA 58.473 37.037 1.92 0.00 0.00 3.27
789 793 9.352784 GTGATCTCTTAGCATAATATGTCTCAC 57.647 37.037 1.92 0.00 0.00 3.51
790 794 8.526978 TGATCTCTTAGCATAATATGTCTCACC 58.473 37.037 1.92 0.00 0.00 4.02
791 795 7.839680 TCTCTTAGCATAATATGTCTCACCA 57.160 36.000 1.92 0.00 0.00 4.17
792 796 7.661968 TCTCTTAGCATAATATGTCTCACCAC 58.338 38.462 1.92 0.00 0.00 4.16
793 797 6.447162 TCTTAGCATAATATGTCTCACCACG 58.553 40.000 1.92 0.00 0.00 4.94
794 798 4.672587 AGCATAATATGTCTCACCACGT 57.327 40.909 1.92 0.00 0.00 4.49
795 799 5.023533 AGCATAATATGTCTCACCACGTT 57.976 39.130 1.92 0.00 0.00 3.99
796 800 5.428253 AGCATAATATGTCTCACCACGTTT 58.572 37.500 1.92 0.00 0.00 3.60
797 801 5.880332 AGCATAATATGTCTCACCACGTTTT 59.120 36.000 1.92 0.00 0.00 2.43
798 802 6.374333 AGCATAATATGTCTCACCACGTTTTT 59.626 34.615 1.92 0.00 0.00 1.94
799 803 7.551262 AGCATAATATGTCTCACCACGTTTTTA 59.449 33.333 1.92 0.00 0.00 1.52
800 804 7.850982 GCATAATATGTCTCACCACGTTTTTAG 59.149 37.037 1.92 0.00 0.00 1.85
801 805 6.737254 AATATGTCTCACCACGTTTTTAGG 57.263 37.500 0.00 0.00 0.00 2.69
802 806 3.823281 TGTCTCACCACGTTTTTAGGA 57.177 42.857 0.00 0.00 0.00 2.94
803 807 4.139859 TGTCTCACCACGTTTTTAGGAA 57.860 40.909 0.00 0.00 0.00 3.36
804 808 4.710324 TGTCTCACCACGTTTTTAGGAAT 58.290 39.130 0.00 0.00 0.00 3.01
805 809 5.856156 TGTCTCACCACGTTTTTAGGAATA 58.144 37.500 0.00 0.00 0.00 1.75
806 810 6.289834 TGTCTCACCACGTTTTTAGGAATAA 58.710 36.000 0.00 0.00 0.00 1.40
807 811 6.203338 TGTCTCACCACGTTTTTAGGAATAAC 59.797 38.462 0.00 0.00 0.00 1.89
808 812 6.426025 GTCTCACCACGTTTTTAGGAATAACT 59.574 38.462 0.00 0.00 0.00 2.24
809 813 7.599998 GTCTCACCACGTTTTTAGGAATAACTA 59.400 37.037 0.00 0.00 0.00 2.24
810 814 8.149647 TCTCACCACGTTTTTAGGAATAACTAA 58.850 33.333 0.00 0.00 0.00 2.24
811 815 8.851541 TCACCACGTTTTTAGGAATAACTAAT 57.148 30.769 0.00 0.00 33.31 1.73
812 816 9.287373 TCACCACGTTTTTAGGAATAACTAATT 57.713 29.630 0.00 0.00 33.31 1.40
837 841 9.823647 TTATTGAAGATAAGACCAAGAGATGAC 57.176 33.333 0.00 0.00 0.00 3.06
838 842 6.227298 TGAAGATAAGACCAAGAGATGACC 57.773 41.667 0.00 0.00 0.00 4.02
839 843 5.129485 TGAAGATAAGACCAAGAGATGACCC 59.871 44.000 0.00 0.00 0.00 4.46
840 844 4.624913 AGATAAGACCAAGAGATGACCCA 58.375 43.478 0.00 0.00 0.00 4.51
841 845 5.222870 AGATAAGACCAAGAGATGACCCAT 58.777 41.667 0.00 0.00 0.00 4.00
842 846 5.669447 AGATAAGACCAAGAGATGACCCATT 59.331 40.000 0.00 0.00 0.00 3.16
843 847 3.641434 AGACCAAGAGATGACCCATTG 57.359 47.619 0.00 0.00 0.00 2.82
844 848 2.915604 AGACCAAGAGATGACCCATTGT 59.084 45.455 0.00 0.00 0.00 2.71
845 849 4.104086 AGACCAAGAGATGACCCATTGTA 58.896 43.478 0.00 0.00 0.00 2.41
846 850 4.163078 AGACCAAGAGATGACCCATTGTAG 59.837 45.833 0.00 0.00 0.00 2.74
847 851 4.104086 ACCAAGAGATGACCCATTGTAGA 58.896 43.478 0.00 0.00 0.00 2.59
848 852 4.080863 ACCAAGAGATGACCCATTGTAGAC 60.081 45.833 0.00 0.00 0.00 2.59
849 853 4.080919 CCAAGAGATGACCCATTGTAGACA 60.081 45.833 0.00 0.00 0.00 3.41
850 854 5.397221 CCAAGAGATGACCCATTGTAGACAT 60.397 44.000 0.00 0.00 0.00 3.06
851 855 5.543507 AGAGATGACCCATTGTAGACATC 57.456 43.478 0.00 0.00 35.74 3.06
852 856 5.215069 AGAGATGACCCATTGTAGACATCT 58.785 41.667 14.26 14.26 44.24 2.90
853 857 5.664908 AGAGATGACCCATTGTAGACATCTT 59.335 40.000 15.00 7.30 42.51 2.40
854 858 6.157645 AGAGATGACCCATTGTAGACATCTTT 59.842 38.462 15.00 9.93 42.51 2.52
855 859 6.725364 AGATGACCCATTGTAGACATCTTTT 58.275 36.000 0.00 0.00 40.59 2.27
856 860 7.177878 AGATGACCCATTGTAGACATCTTTTT 58.822 34.615 0.00 0.00 40.59 1.94
884 888 9.890629 TGTTATCTCTAAATTACATGCAAGACT 57.109 29.630 0.00 0.00 0.00 3.24
899 903 9.757227 ACATGCAAGACTTAAGATAAGACTATC 57.243 33.333 10.09 0.00 35.10 2.08
900 904 9.979578 CATGCAAGACTTAAGATAAGACTATCT 57.020 33.333 10.09 0.00 45.21 1.98
918 922 9.770097 AGACTATCTTATCAACCATTGTACATG 57.230 33.333 0.00 0.00 0.00 3.21
919 923 8.383318 ACTATCTTATCAACCATTGTACATGC 57.617 34.615 0.00 0.00 0.00 4.06
920 924 6.639632 ATCTTATCAACCATTGTACATGCC 57.360 37.500 0.00 0.00 0.00 4.40
921 925 4.887071 TCTTATCAACCATTGTACATGCCC 59.113 41.667 0.00 0.00 0.00 5.36
922 926 2.897271 TCAACCATTGTACATGCCCT 57.103 45.000 0.00 0.00 0.00 5.19
923 927 2.445427 TCAACCATTGTACATGCCCTG 58.555 47.619 0.00 0.00 0.00 4.45
924 928 2.040947 TCAACCATTGTACATGCCCTGA 59.959 45.455 0.00 0.00 0.00 3.86
925 929 2.424601 CAACCATTGTACATGCCCTGAG 59.575 50.000 0.00 0.00 0.00 3.35
955 959 1.509004 GGCACGACTCCAGACTCTC 59.491 63.158 0.00 0.00 0.00 3.20
1020 1024 2.112815 GGCGAAACCCTCCCAATCG 61.113 63.158 0.00 0.00 36.64 3.34
1431 1435 2.943978 CGTCTCCGCCAAGTTCCCT 61.944 63.158 0.00 0.00 0.00 4.20
1525 1539 5.758790 AGTGCTGATATATCATGCCTCTT 57.241 39.130 23.06 11.08 36.02 2.85
1526 1540 6.124316 AGTGCTGATATATCATGCCTCTTT 57.876 37.500 23.06 9.96 36.02 2.52
1527 1541 6.171921 AGTGCTGATATATCATGCCTCTTTC 58.828 40.000 23.06 12.74 36.02 2.62
1580 1594 2.860735 CAGAGCCTCTACGTTGTAATGC 59.139 50.000 0.00 0.00 0.00 3.56
1586 1600 4.113354 CCTCTACGTTGTAATGCTTCCTC 58.887 47.826 0.00 0.00 0.00 3.71
1761 1952 3.367910 CGTTGGTGGTAATTTGGATTGGG 60.368 47.826 0.00 0.00 0.00 4.12
1774 1965 2.645297 TGGATTGGGTTAGTGCCAACTA 59.355 45.455 0.00 0.00 37.88 2.24
1862 2208 4.170723 GCGCTATATCTGGACGCC 57.829 61.111 0.00 0.00 43.58 5.68
1873 2219 2.266055 GGACGCCTAACTGCTGCT 59.734 61.111 0.00 0.00 0.00 4.24
2024 2378 9.539139 CATTAATTAATATCTCAGCTGCTTTCG 57.461 33.333 9.47 0.00 0.00 3.46
2135 2489 1.132817 ACCTTGGACAGTAGGACAGGT 60.133 52.381 0.00 0.00 35.45 4.00
2196 2550 6.491745 TGCCATGGAAGAAGTACAAAAATGTA 59.508 34.615 18.40 0.00 0.00 2.29
2276 2630 5.880887 ACTGAAAGGCTACTATTTTACTGCC 59.119 40.000 0.00 0.00 39.30 4.85
2442 2796 2.063266 GTTCACTAATGCGTTCACGGA 58.937 47.619 0.00 0.00 45.29 4.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
69 70 1.666599 CGATTTACCGTCCACACACGA 60.667 52.381 0.00 0.00 42.69 4.35
85 86 0.738412 CCTCGCCGTTGTAACCGATT 60.738 55.000 0.00 0.00 0.00 3.34
372 373 1.533129 GCCGTGTTGCGAAAAACTCTT 60.533 47.619 0.00 0.00 44.77 2.85
461 462 4.581493 CGACATAATTGCACTCATGTGTC 58.419 43.478 10.16 8.37 45.44 3.67
506 507 0.596082 TAGACAAAAGCCGCAAAGCC 59.404 50.000 0.00 0.00 0.00 4.35
619 622 1.961277 AACACGCGGGCTTCTTCTG 60.961 57.895 9.12 0.00 0.00 3.02
620 623 1.961277 CAACACGCGGGCTTCTTCT 60.961 57.895 9.12 0.00 0.00 2.85
651 655 6.073003 GCTAAGATAGAACCATTGTACATGCC 60.073 42.308 0.00 0.00 0.00 4.40
652 656 6.483307 TGCTAAGATAGAACCATTGTACATGC 59.517 38.462 0.00 0.00 0.00 4.06
653 657 8.437360 TTGCTAAGATAGAACCATTGTACATG 57.563 34.615 0.00 0.00 0.00 3.21
654 658 9.060347 CATTGCTAAGATAGAACCATTGTACAT 57.940 33.333 0.00 0.00 0.00 2.29
655 659 7.012327 GCATTGCTAAGATAGAACCATTGTACA 59.988 37.037 0.16 0.00 0.00 2.90
656 660 7.355778 GCATTGCTAAGATAGAACCATTGTAC 58.644 38.462 0.16 0.00 0.00 2.90
657 661 6.486657 GGCATTGCTAAGATAGAACCATTGTA 59.513 38.462 8.82 0.00 0.00 2.41
658 662 5.300286 GGCATTGCTAAGATAGAACCATTGT 59.700 40.000 8.82 0.00 0.00 2.71
659 663 5.300034 TGGCATTGCTAAGATAGAACCATTG 59.700 40.000 8.82 0.00 0.00 2.82
660 664 5.300286 GTGGCATTGCTAAGATAGAACCATT 59.700 40.000 8.82 0.00 0.00 3.16
661 665 4.823989 GTGGCATTGCTAAGATAGAACCAT 59.176 41.667 8.82 0.00 0.00 3.55
662 666 4.199310 GTGGCATTGCTAAGATAGAACCA 58.801 43.478 8.82 0.00 0.00 3.67
663 667 3.248602 CGTGGCATTGCTAAGATAGAACC 59.751 47.826 8.82 0.00 0.00 3.62
664 668 3.871594 ACGTGGCATTGCTAAGATAGAAC 59.128 43.478 14.29 0.00 0.00 3.01
665 669 4.137116 ACGTGGCATTGCTAAGATAGAA 57.863 40.909 14.29 0.00 0.00 2.10
666 670 3.819564 ACGTGGCATTGCTAAGATAGA 57.180 42.857 14.29 0.00 0.00 1.98
667 671 3.990469 CCTACGTGGCATTGCTAAGATAG 59.010 47.826 14.29 11.05 0.00 2.08
668 672 3.639561 TCCTACGTGGCATTGCTAAGATA 59.360 43.478 14.29 3.37 35.26 1.98
669 673 2.434336 TCCTACGTGGCATTGCTAAGAT 59.566 45.455 14.29 2.45 35.26 2.40
670 674 1.828595 TCCTACGTGGCATTGCTAAGA 59.171 47.619 14.29 0.00 35.26 2.10
671 675 2.309528 TCCTACGTGGCATTGCTAAG 57.690 50.000 8.82 7.52 35.26 2.18
672 676 4.409718 TTATCCTACGTGGCATTGCTAA 57.590 40.909 8.82 0.00 35.26 3.09
673 677 4.409718 TTTATCCTACGTGGCATTGCTA 57.590 40.909 8.82 0.00 35.26 3.49
674 678 3.275617 TTTATCCTACGTGGCATTGCT 57.724 42.857 8.82 0.00 35.26 3.91
675 679 3.563808 TCATTTATCCTACGTGGCATTGC 59.436 43.478 0.00 0.00 35.26 3.56
676 680 5.469760 TCATCATTTATCCTACGTGGCATTG 59.530 40.000 0.00 0.00 35.26 2.82
677 681 5.620206 TCATCATTTATCCTACGTGGCATT 58.380 37.500 0.00 0.00 35.26 3.56
678 682 5.227569 TCATCATTTATCCTACGTGGCAT 57.772 39.130 0.00 0.00 35.26 4.40
679 683 4.503123 CCTCATCATTTATCCTACGTGGCA 60.503 45.833 0.00 0.00 35.26 4.92
680 684 3.997021 CCTCATCATTTATCCTACGTGGC 59.003 47.826 0.00 0.00 35.26 5.01
681 685 4.991056 CACCTCATCATTTATCCTACGTGG 59.009 45.833 0.00 0.00 37.10 4.94
682 686 4.991056 CCACCTCATCATTTATCCTACGTG 59.009 45.833 0.00 0.00 0.00 4.49
683 687 4.899457 TCCACCTCATCATTTATCCTACGT 59.101 41.667 0.00 0.00 0.00 3.57
684 688 5.468540 TCCACCTCATCATTTATCCTACG 57.531 43.478 0.00 0.00 0.00 3.51
685 689 5.544176 TCCTCCACCTCATCATTTATCCTAC 59.456 44.000 0.00 0.00 0.00 3.18
686 690 5.726560 TCCTCCACCTCATCATTTATCCTA 58.273 41.667 0.00 0.00 0.00 2.94
687 691 4.570926 TCCTCCACCTCATCATTTATCCT 58.429 43.478 0.00 0.00 0.00 3.24
688 692 4.594920 TCTCCTCCACCTCATCATTTATCC 59.405 45.833 0.00 0.00 0.00 2.59
689 693 5.541868 TCTCTCCTCCACCTCATCATTTATC 59.458 44.000 0.00 0.00 0.00 1.75
690 694 5.471424 TCTCTCCTCCACCTCATCATTTAT 58.529 41.667 0.00 0.00 0.00 1.40
691 695 4.883759 TCTCTCCTCCACCTCATCATTTA 58.116 43.478 0.00 0.00 0.00 1.40
692 696 3.710677 CTCTCTCCTCCACCTCATCATTT 59.289 47.826 0.00 0.00 0.00 2.32
693 697 3.052262 TCTCTCTCCTCCACCTCATCATT 60.052 47.826 0.00 0.00 0.00 2.57
694 698 2.517553 TCTCTCTCCTCCACCTCATCAT 59.482 50.000 0.00 0.00 0.00 2.45
695 699 1.925959 TCTCTCTCCTCCACCTCATCA 59.074 52.381 0.00 0.00 0.00 3.07
696 700 2.746279 TCTCTCTCCTCCACCTCATC 57.254 55.000 0.00 0.00 0.00 2.92
697 701 3.481559 TTTCTCTCTCCTCCACCTCAT 57.518 47.619 0.00 0.00 0.00 2.90
698 702 3.245766 TGATTTCTCTCTCCTCCACCTCA 60.246 47.826 0.00 0.00 0.00 3.86
699 703 3.370104 TGATTTCTCTCTCCTCCACCTC 58.630 50.000 0.00 0.00 0.00 3.85
700 704 3.481559 TGATTTCTCTCTCCTCCACCT 57.518 47.619 0.00 0.00 0.00 4.00
701 705 5.600484 TCTTATGATTTCTCTCTCCTCCACC 59.400 44.000 0.00 0.00 0.00 4.61
702 706 6.723298 TCTTATGATTTCTCTCTCCTCCAC 57.277 41.667 0.00 0.00 0.00 4.02
703 707 7.147585 CCTTTCTTATGATTTCTCTCTCCTCCA 60.148 40.741 0.00 0.00 0.00 3.86
704 708 7.216494 CCTTTCTTATGATTTCTCTCTCCTCC 58.784 42.308 0.00 0.00 0.00 4.30
705 709 7.216494 CCCTTTCTTATGATTTCTCTCTCCTC 58.784 42.308 0.00 0.00 0.00 3.71
706 710 6.409120 GCCCTTTCTTATGATTTCTCTCTCCT 60.409 42.308 0.00 0.00 0.00 3.69
707 711 5.762711 GCCCTTTCTTATGATTTCTCTCTCC 59.237 44.000 0.00 0.00 0.00 3.71
708 712 6.591001 AGCCCTTTCTTATGATTTCTCTCTC 58.409 40.000 0.00 0.00 0.00 3.20
709 713 6.573712 AGCCCTTTCTTATGATTTCTCTCT 57.426 37.500 0.00 0.00 0.00 3.10
710 714 6.601217 ACAAGCCCTTTCTTATGATTTCTCTC 59.399 38.462 0.00 0.00 0.00 3.20
711 715 6.488715 ACAAGCCCTTTCTTATGATTTCTCT 58.511 36.000 0.00 0.00 0.00 3.10
712 716 6.601217 AGACAAGCCCTTTCTTATGATTTCTC 59.399 38.462 0.00 0.00 0.00 2.87
713 717 6.488715 AGACAAGCCCTTTCTTATGATTTCT 58.511 36.000 0.00 0.00 0.00 2.52
714 718 6.765915 AGACAAGCCCTTTCTTATGATTTC 57.234 37.500 0.00 0.00 0.00 2.17
715 719 6.950619 AGAAGACAAGCCCTTTCTTATGATTT 59.049 34.615 5.86 0.00 29.54 2.17
716 720 6.488715 AGAAGACAAGCCCTTTCTTATGATT 58.511 36.000 5.86 0.00 29.54 2.57
717 721 6.069731 AGAGAAGACAAGCCCTTTCTTATGAT 60.070 38.462 5.47 0.00 29.54 2.45
718 722 5.249393 AGAGAAGACAAGCCCTTTCTTATGA 59.751 40.000 5.47 0.00 29.54 2.15
719 723 5.495640 AGAGAAGACAAGCCCTTTCTTATG 58.504 41.667 5.47 0.00 29.54 1.90
720 724 5.770685 AGAGAAGACAAGCCCTTTCTTAT 57.229 39.130 5.86 4.03 29.54 1.73
721 725 5.568620 AAGAGAAGACAAGCCCTTTCTTA 57.431 39.130 0.00 0.00 29.54 2.10
722 726 4.445557 AAGAGAAGACAAGCCCTTTCTT 57.554 40.909 5.66 5.66 32.14 2.52
723 727 5.770685 ATAAGAGAAGACAAGCCCTTTCT 57.229 39.130 0.00 0.00 0.00 2.52
724 728 6.825944 AAATAAGAGAAGACAAGCCCTTTC 57.174 37.500 0.00 0.00 0.00 2.62
725 729 8.164070 TCTTAAATAAGAGAAGACAAGCCCTTT 58.836 33.333 0.00 0.00 37.40 3.11
726 730 7.690256 TCTTAAATAAGAGAAGACAAGCCCTT 58.310 34.615 0.00 0.00 37.40 3.95
727 731 7.259088 TCTTAAATAAGAGAAGACAAGCCCT 57.741 36.000 0.00 0.00 37.40 5.19
728 732 7.923414 TTCTTAAATAAGAGAAGACAAGCCC 57.077 36.000 3.34 0.00 42.66 5.19
760 764 8.748412 AGACATATTATGCTAAGAGATCACCTC 58.252 37.037 3.52 0.00 42.28 3.85
761 765 8.663209 AGACATATTATGCTAAGAGATCACCT 57.337 34.615 3.52 0.00 0.00 4.00
762 766 8.526978 TGAGACATATTATGCTAAGAGATCACC 58.473 37.037 3.52 0.00 0.00 4.02
763 767 9.352784 GTGAGACATATTATGCTAAGAGATCAC 57.647 37.037 3.52 0.00 0.00 3.06
764 768 8.526978 GGTGAGACATATTATGCTAAGAGATCA 58.473 37.037 3.52 0.00 0.00 2.92
765 769 8.526978 TGGTGAGACATATTATGCTAAGAGATC 58.473 37.037 3.52 0.00 0.00 2.75
766 770 8.310382 GTGGTGAGACATATTATGCTAAGAGAT 58.690 37.037 3.52 0.00 0.00 2.75
767 771 7.522236 CGTGGTGAGACATATTATGCTAAGAGA 60.522 40.741 3.52 0.00 0.00 3.10
768 772 6.584184 CGTGGTGAGACATATTATGCTAAGAG 59.416 42.308 3.52 0.00 0.00 2.85
769 773 6.040504 ACGTGGTGAGACATATTATGCTAAGA 59.959 38.462 3.52 0.00 0.00 2.10
770 774 6.216569 ACGTGGTGAGACATATTATGCTAAG 58.783 40.000 3.52 0.00 0.00 2.18
771 775 6.156748 ACGTGGTGAGACATATTATGCTAA 57.843 37.500 3.52 0.00 0.00 3.09
772 776 5.784578 ACGTGGTGAGACATATTATGCTA 57.215 39.130 3.52 0.00 0.00 3.49
773 777 4.672587 ACGTGGTGAGACATATTATGCT 57.327 40.909 3.52 2.51 0.00 3.79
774 778 5.734855 AAACGTGGTGAGACATATTATGC 57.265 39.130 3.52 0.00 0.00 3.14
775 779 8.335356 CCTAAAAACGTGGTGAGACATATTATG 58.665 37.037 2.03 2.03 0.00 1.90
776 780 8.262227 TCCTAAAAACGTGGTGAGACATATTAT 58.738 33.333 0.00 0.00 0.00 1.28
777 781 7.613585 TCCTAAAAACGTGGTGAGACATATTA 58.386 34.615 0.00 0.00 0.00 0.98
778 782 6.469410 TCCTAAAAACGTGGTGAGACATATT 58.531 36.000 0.00 0.00 0.00 1.28
779 783 6.045072 TCCTAAAAACGTGGTGAGACATAT 57.955 37.500 0.00 0.00 0.00 1.78
780 784 5.471556 TCCTAAAAACGTGGTGAGACATA 57.528 39.130 0.00 0.00 0.00 2.29
781 785 4.345859 TCCTAAAAACGTGGTGAGACAT 57.654 40.909 0.00 0.00 0.00 3.06
782 786 3.823281 TCCTAAAAACGTGGTGAGACA 57.177 42.857 0.00 0.00 0.00 3.41
783 787 6.426025 AGTTATTCCTAAAAACGTGGTGAGAC 59.574 38.462 0.00 0.00 0.00 3.36
784 788 6.527423 AGTTATTCCTAAAAACGTGGTGAGA 58.473 36.000 0.00 0.00 0.00 3.27
785 789 6.796705 AGTTATTCCTAAAAACGTGGTGAG 57.203 37.500 0.00 0.00 0.00 3.51
786 790 8.851541 ATTAGTTATTCCTAAAAACGTGGTGA 57.148 30.769 0.00 0.00 31.09 4.02
811 815 9.823647 GTCATCTCTTGGTCTTATCTTCAATAA 57.176 33.333 0.00 0.00 0.00 1.40
812 816 8.424918 GGTCATCTCTTGGTCTTATCTTCAATA 58.575 37.037 0.00 0.00 0.00 1.90
813 817 7.278875 GGTCATCTCTTGGTCTTATCTTCAAT 58.721 38.462 0.00 0.00 0.00 2.57
814 818 6.352222 GGGTCATCTCTTGGTCTTATCTTCAA 60.352 42.308 0.00 0.00 0.00 2.69
815 819 5.129485 GGGTCATCTCTTGGTCTTATCTTCA 59.871 44.000 0.00 0.00 0.00 3.02
816 820 5.129485 TGGGTCATCTCTTGGTCTTATCTTC 59.871 44.000 0.00 0.00 0.00 2.87
817 821 5.032846 TGGGTCATCTCTTGGTCTTATCTT 58.967 41.667 0.00 0.00 0.00 2.40
818 822 4.624913 TGGGTCATCTCTTGGTCTTATCT 58.375 43.478 0.00 0.00 0.00 1.98
819 823 5.559148 ATGGGTCATCTCTTGGTCTTATC 57.441 43.478 0.00 0.00 0.00 1.75
820 824 5.192522 ACAATGGGTCATCTCTTGGTCTTAT 59.807 40.000 0.00 0.00 0.00 1.73
821 825 4.536090 ACAATGGGTCATCTCTTGGTCTTA 59.464 41.667 0.00 0.00 0.00 2.10
822 826 3.331889 ACAATGGGTCATCTCTTGGTCTT 59.668 43.478 0.00 0.00 0.00 3.01
823 827 2.915604 ACAATGGGTCATCTCTTGGTCT 59.084 45.455 0.00 0.00 0.00 3.85
824 828 3.356529 ACAATGGGTCATCTCTTGGTC 57.643 47.619 0.00 0.00 0.00 4.02
825 829 4.080863 GTCTACAATGGGTCATCTCTTGGT 60.081 45.833 0.00 0.00 0.00 3.67
826 830 4.080919 TGTCTACAATGGGTCATCTCTTGG 60.081 45.833 0.00 0.00 0.00 3.61
827 831 5.089970 TGTCTACAATGGGTCATCTCTTG 57.910 43.478 0.00 0.00 0.00 3.02
828 832 5.664908 AGATGTCTACAATGGGTCATCTCTT 59.335 40.000 10.32 0.00 37.91 2.85
829 833 5.215069 AGATGTCTACAATGGGTCATCTCT 58.785 41.667 10.32 0.00 37.91 3.10
830 834 5.543507 AGATGTCTACAATGGGTCATCTC 57.456 43.478 10.32 0.00 37.91 2.75
831 835 5.965033 AAGATGTCTACAATGGGTCATCT 57.035 39.130 10.32 10.32 42.10 2.90
832 836 7.396540 AAAAAGATGTCTACAATGGGTCATC 57.603 36.000 0.00 0.00 34.00 2.92
858 862 9.890629 AGTCTTGCATGTAATTTAGAGATAACA 57.109 29.630 0.00 0.00 0.00 2.41
873 877 9.757227 GATAGTCTTATCTTAAGTCTTGCATGT 57.243 33.333 1.63 0.00 34.16 3.21
874 878 9.979578 AGATAGTCTTATCTTAAGTCTTGCATG 57.020 33.333 1.63 0.00 42.67 4.06
892 896 9.770097 CATGTACAATGGTTGATAAGATAGTCT 57.230 33.333 0.00 0.00 0.00 3.24
893 897 8.499162 GCATGTACAATGGTTGATAAGATAGTC 58.501 37.037 0.00 0.00 0.00 2.59
894 898 7.445402 GGCATGTACAATGGTTGATAAGATAGT 59.555 37.037 0.00 0.00 0.00 2.12
895 899 7.094634 GGGCATGTACAATGGTTGATAAGATAG 60.095 40.741 0.00 0.00 0.00 2.08
896 900 6.714810 GGGCATGTACAATGGTTGATAAGATA 59.285 38.462 0.00 0.00 0.00 1.98
897 901 5.536161 GGGCATGTACAATGGTTGATAAGAT 59.464 40.000 0.00 0.00 0.00 2.40
898 902 4.887071 GGGCATGTACAATGGTTGATAAGA 59.113 41.667 0.00 0.00 0.00 2.10
899 903 4.889409 AGGGCATGTACAATGGTTGATAAG 59.111 41.667 0.00 0.00 0.00 1.73
900 904 4.644234 CAGGGCATGTACAATGGTTGATAA 59.356 41.667 0.00 0.00 0.00 1.75
901 905 4.080072 TCAGGGCATGTACAATGGTTGATA 60.080 41.667 0.00 0.00 0.00 2.15
902 906 3.025978 CAGGGCATGTACAATGGTTGAT 58.974 45.455 0.00 0.00 0.00 2.57
903 907 2.040947 TCAGGGCATGTACAATGGTTGA 59.959 45.455 0.00 0.00 0.00 3.18
904 908 2.424601 CTCAGGGCATGTACAATGGTTG 59.575 50.000 0.00 0.00 0.00 3.77
905 909 2.726821 CTCAGGGCATGTACAATGGTT 58.273 47.619 0.00 0.00 0.00 3.67
906 910 1.683011 GCTCAGGGCATGTACAATGGT 60.683 52.381 0.00 0.00 41.35 3.55
907 911 1.027357 GCTCAGGGCATGTACAATGG 58.973 55.000 0.00 0.00 41.35 3.16
908 912 1.027357 GGCTCAGGGCATGTACAATG 58.973 55.000 0.00 0.12 44.01 2.82
909 913 0.625316 TGGCTCAGGGCATGTACAAT 59.375 50.000 0.00 0.00 43.20 2.71
910 914 2.074099 TGGCTCAGGGCATGTACAA 58.926 52.632 0.00 0.00 43.20 2.41
911 915 3.818965 TGGCTCAGGGCATGTACA 58.181 55.556 0.00 0.00 43.20 2.90
940 944 0.609681 GTGGGAGAGTCTGGAGTCGT 60.610 60.000 0.00 0.00 35.94 4.34
955 959 1.004918 GGAGACGTGGAACTGTGGG 60.005 63.158 0.00 0.00 31.75 4.61
1020 1024 3.418744 GAAGACGAGGAGGAGGCGC 62.419 68.421 0.00 0.00 0.00 6.53
1060 1064 2.364317 CGGGAGGAGGAAGGCAGA 60.364 66.667 0.00 0.00 0.00 4.26
1062 1066 4.722535 AGCGGGAGGAGGAAGGCA 62.723 66.667 0.00 0.00 0.00 4.75
1167 1171 3.993584 TACCCGCGAACGTTGGCT 61.994 61.111 28.66 15.56 37.70 4.75
1219 1223 2.659610 GCAGCTGGAGTCGAGGTT 59.340 61.111 17.12 0.00 0.00 3.50
1525 1539 5.183140 GGTACAAGCAAGCAATAGGAAAGAA 59.817 40.000 0.00 0.00 0.00 2.52
1526 1540 4.700213 GGTACAAGCAAGCAATAGGAAAGA 59.300 41.667 0.00 0.00 0.00 2.52
1527 1541 4.702131 AGGTACAAGCAAGCAATAGGAAAG 59.298 41.667 0.00 0.00 0.00 2.62
1580 1594 6.246420 ACTGTGAATTGAAAATCGAGGAAG 57.754 37.500 0.00 0.00 0.00 3.46
1586 1600 8.018677 AGTGTACTACTGTGAATTGAAAATCG 57.981 34.615 0.00 0.00 38.49 3.34
1761 1952 7.806014 TCAAAATTCGAAATAGTTGGCACTAAC 59.194 33.333 0.00 0.00 39.05 2.34
1774 1965 7.440523 ACTGAAGCTAGTCAAAATTCGAAAT 57.559 32.000 0.00 0.00 0.00 2.17
1826 2172 3.371168 CGCACTGCAATTGTAAACAAGT 58.629 40.909 7.40 0.00 39.47 3.16
1975 2329 8.780846 ATGACCGCAATACCGAAAATTATATA 57.219 30.769 0.00 0.00 0.00 0.86
1986 2340 8.879759 AGATATTAATTAATGACCGCAATACCG 58.120 33.333 18.98 0.00 0.00 4.02
2024 2378 6.985188 TGACTTGATTCCAATGCTAGTAAC 57.015 37.500 0.00 0.00 0.00 2.50
2276 2630 4.093998 AGCTCATAATTCTTGAGTTGTGCG 59.906 41.667 15.82 0.00 42.12 5.34
2417 2771 3.123621 GTGAACGCATTAGTGAACCTGAG 59.876 47.826 0.00 0.00 0.00 3.35


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

AutoCloner maintained by Alex Coulton.