Multiple sequence alignment - TraesCS6A01G050000

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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 TraesCS6A01G050000 chr6A 100.000 3341 0 0 1 3341 25635102 25638442 0.000000e+00 6170
1 TraesCS6A01G050000 chrUn 92.149 2522 101 44 853 3341 94822453 94824910 0.000000e+00 3470
2 TraesCS6A01G050000 chrUn 90.316 506 20 12 1 504 94821724 94822202 1.310000e-178 636
3 TraesCS6A01G050000 chr6B 90.146 1776 93 37 864 2581 44104671 44106422 0.000000e+00 2235
4 TraesCS6A01G050000 chr6B 94.714 700 30 6 2646 3339 44106519 44107217 0.000000e+00 1081
5 TraesCS6A01G050000 chr6B 86.184 456 37 12 1 437 44103886 44104334 1.400000e-128 470
6 TraesCS6A01G050000 chr6D 94.444 162 9 0 581 742 406391368 406391529 1.990000e-62 250
7 TraesCS6A01G050000 chr5B 92.442 172 11 2 581 752 427931357 427931188 9.260000e-61 244
8 TraesCS6A01G050000 chr5B 95.050 101 3 2 2570 2669 665560022 665559923 1.240000e-34 158
9 TraesCS6A01G050000 chr5B 94.565 92 5 0 2564 2655 317294234 317294325 3.470000e-30 143
10 TraesCS6A01G050000 chr5B 92.000 100 8 0 2556 2655 677876077 677875978 1.250000e-29 141
11 TraesCS6A01G050000 chr3D 92.899 169 10 2 581 748 187598467 187598300 9.260000e-61 244
12 TraesCS6A01G050000 chr3D 93.684 95 3 3 2561 2654 82246956 82247048 4.490000e-29 139
13 TraesCS6A01G050000 chr2D 92.857 168 12 0 581 748 396613954 396613787 9.260000e-61 244
14 TraesCS6A01G050000 chr2D 91.061 179 12 3 568 743 29162382 29162559 4.310000e-59 239
15 TraesCS6A01G050000 chr7D 92.353 170 11 2 581 748 45837505 45837336 1.200000e-59 241
16 TraesCS6A01G050000 chr1B 91.477 176 13 2 577 751 402233267 402233441 1.200000e-59 241
17 TraesCS6A01G050000 chr4B 89.674 184 18 1 577 760 168553391 168553573 2.000000e-57 233
18 TraesCS6A01G050000 chr4A 93.082 159 11 0 581 739 582530132 582529974 2.000000e-57 233
19 TraesCS6A01G050000 chr4A 95.745 94 3 1 2563 2655 646776745 646776652 2.080000e-32 150
20 TraesCS6A01G050000 chr4A 97.701 87 2 0 2569 2655 743141123 743141209 2.080000e-32 150
21 TraesCS6A01G050000 chr1D 94.898 98 5 0 2567 2664 80020140 80020043 1.610000e-33 154
22 TraesCS6A01G050000 chr5A 93.069 101 5 2 2565 2664 362781599 362781698 2.690000e-31 147


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 TraesCS6A01G050000 chr6A 25635102 25638442 3340 False 6170 6170 100.0000 1 3341 1 chr6A.!!$F1 3340
1 TraesCS6A01G050000 chrUn 94821724 94824910 3186 False 2053 3470 91.2325 1 3341 2 chrUn.!!$F1 3340
2 TraesCS6A01G050000 chr6B 44103886 44107217 3331 False 1262 2235 90.3480 1 3339 3 chr6B.!!$F1 3338

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
159 163 0.116342 TCAGAGGCTGTGTAGGGGAA 59.884 55.0 11.78 0.0 32.61 3.97 F
504 528 0.961019 GCAGGTTCACAAGGCAATGA 59.039 50.0 0.00 0.0 0.00 2.57 F
1317 1458 0.887933 TCAGATTTCCGCCCAAAAGC 59.112 50.0 0.00 0.0 0.00 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1317 1458 0.035056 ATCAGTCGGAAAGGGCCAAG 60.035 55.000 6.18 0.00 0.00 3.61 R
2269 2441 0.381089 CTAGCATCAGCCTGCAAAGC 59.619 55.000 6.33 0.04 44.77 3.51 R
2895 3109 3.018856 TGCTAGCACCATCCATCTTTTG 58.981 45.455 14.93 0.00 0.00 2.44 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
37 38 6.534634 AGAAGGCTAGTTCTTGTGTACAAAT 58.465 36.000 0.00 0.00 32.59 2.32
88 90 0.676466 TTCGACCCGAGGTACGCTAA 60.676 55.000 0.00 0.00 41.07 3.09
99 101 1.406539 GGTACGCTAATCTTCGGGTCA 59.593 52.381 0.00 0.00 0.00 4.02
159 163 0.116342 TCAGAGGCTGTGTAGGGGAA 59.884 55.000 11.78 0.00 32.61 3.97
256 267 2.880890 GGAATGTGTTTGTCTGAGTGCT 59.119 45.455 0.00 0.00 0.00 4.40
367 387 7.862372 GTGAAATTGCACAGATTTGAACTTCTA 59.138 33.333 11.98 0.00 38.63 2.10
504 528 0.961019 GCAGGTTCACAAGGCAATGA 59.039 50.000 0.00 0.00 0.00 2.57
516 562 4.885907 ACAAGGCAATGATCCAGAACTATG 59.114 41.667 0.00 0.00 0.00 2.23
529 585 4.272018 CCAGAACTATGACATGTAGCTTGC 59.728 45.833 0.00 0.00 0.00 4.01
535 591 2.703416 TGACATGTAGCTTGCCTTGAG 58.297 47.619 0.00 0.00 0.00 3.02
570 630 5.973651 TTCTTATCGCAAATAGCACTCTG 57.026 39.130 0.00 0.00 46.13 3.35
572 632 6.144078 TCTTATCGCAAATAGCACTCTGTA 57.856 37.500 0.00 0.00 46.13 2.74
573 633 6.749139 TCTTATCGCAAATAGCACTCTGTAT 58.251 36.000 0.00 0.00 46.13 2.29
574 634 7.210174 TCTTATCGCAAATAGCACTCTGTATT 58.790 34.615 0.00 0.00 46.13 1.89
575 635 8.357402 TCTTATCGCAAATAGCACTCTGTATTA 58.643 33.333 0.00 0.00 46.13 0.98
576 636 6.771188 ATCGCAAATAGCACTCTGTATTAC 57.229 37.500 0.00 0.00 46.13 1.89
577 637 5.047847 TCGCAAATAGCACTCTGTATTACC 58.952 41.667 0.00 0.00 46.13 2.85
578 638 4.211374 CGCAAATAGCACTCTGTATTACCC 59.789 45.833 0.00 0.00 46.13 3.69
579 639 5.123227 GCAAATAGCACTCTGTATTACCCA 58.877 41.667 0.00 0.00 44.79 4.51
580 640 5.007724 GCAAATAGCACTCTGTATTACCCAC 59.992 44.000 0.00 0.00 44.79 4.61
581 641 2.961526 AGCACTCTGTATTACCCACG 57.038 50.000 0.00 0.00 0.00 4.94
582 642 2.176889 AGCACTCTGTATTACCCACGT 58.823 47.619 0.00 0.00 0.00 4.49
583 643 2.565834 AGCACTCTGTATTACCCACGTT 59.434 45.455 0.00 0.00 0.00 3.99
584 644 2.928116 GCACTCTGTATTACCCACGTTC 59.072 50.000 0.00 0.00 0.00 3.95
585 645 3.518590 CACTCTGTATTACCCACGTTCC 58.481 50.000 0.00 0.00 0.00 3.62
586 646 3.194968 CACTCTGTATTACCCACGTTCCT 59.805 47.826 0.00 0.00 0.00 3.36
587 647 4.400251 CACTCTGTATTACCCACGTTCCTA 59.600 45.833 0.00 0.00 0.00 2.94
588 648 5.018809 ACTCTGTATTACCCACGTTCCTAA 58.981 41.667 0.00 0.00 0.00 2.69
589 649 5.481473 ACTCTGTATTACCCACGTTCCTAAA 59.519 40.000 0.00 0.00 0.00 1.85
590 650 6.155737 ACTCTGTATTACCCACGTTCCTAAAT 59.844 38.462 0.00 0.00 0.00 1.40
591 651 7.342799 ACTCTGTATTACCCACGTTCCTAAATA 59.657 37.037 0.00 0.00 0.00 1.40
592 652 8.253867 TCTGTATTACCCACGTTCCTAAATAT 57.746 34.615 0.00 0.00 0.00 1.28
593 653 8.707449 TCTGTATTACCCACGTTCCTAAATATT 58.293 33.333 0.00 0.00 0.00 1.28
594 654 9.333724 CTGTATTACCCACGTTCCTAAATATTT 57.666 33.333 5.89 5.89 0.00 1.40
595 655 9.111613 TGTATTACCCACGTTCCTAAATATTTG 57.888 33.333 11.05 1.40 0.00 2.32
596 656 9.112725 GTATTACCCACGTTCCTAAATATTTGT 57.887 33.333 11.05 0.00 0.00 2.83
597 657 7.614124 TTACCCACGTTCCTAAATATTTGTC 57.386 36.000 11.05 0.00 0.00 3.18
598 658 5.812286 ACCCACGTTCCTAAATATTTGTCT 58.188 37.500 11.05 0.00 0.00 3.41
599 659 6.243148 ACCCACGTTCCTAAATATTTGTCTT 58.757 36.000 11.05 0.00 0.00 3.01
600 660 6.717997 ACCCACGTTCCTAAATATTTGTCTTT 59.282 34.615 11.05 0.00 0.00 2.52
601 661 7.094506 ACCCACGTTCCTAAATATTTGTCTTTC 60.095 37.037 11.05 0.00 0.00 2.62
602 662 7.120726 CCCACGTTCCTAAATATTTGTCTTTCT 59.879 37.037 11.05 0.00 0.00 2.52
603 663 9.158233 CCACGTTCCTAAATATTTGTCTTTCTA 57.842 33.333 11.05 0.00 0.00 2.10
604 664 9.968743 CACGTTCCTAAATATTTGTCTTTCTAC 57.031 33.333 11.05 0.00 0.00 2.59
605 665 9.715121 ACGTTCCTAAATATTTGTCTTTCTACA 57.285 29.630 11.05 0.00 0.00 2.74
620 680 9.554395 TGTCTTTCTACAGATTACAACAAATGA 57.446 29.630 0.00 0.00 0.00 2.57
621 681 9.813080 GTCTTTCTACAGATTACAACAAATGAC 57.187 33.333 0.00 0.00 0.00 3.06
622 682 9.778741 TCTTTCTACAGATTACAACAAATGACT 57.221 29.630 0.00 0.00 0.00 3.41
625 685 9.990360 TTCTACAGATTACAACAAATGACTACA 57.010 29.630 0.00 0.00 0.00 2.74
629 689 9.719355 ACAGATTACAACAAATGACTACATACA 57.281 29.630 0.00 0.00 35.50 2.29
633 693 6.727824 ACAACAAATGACTACATACAGAGC 57.272 37.500 0.00 0.00 35.50 4.09
634 694 6.230472 ACAACAAATGACTACATACAGAGCA 58.770 36.000 0.00 0.00 35.50 4.26
635 695 6.710295 ACAACAAATGACTACATACAGAGCAA 59.290 34.615 0.00 0.00 35.50 3.91
636 696 7.228507 ACAACAAATGACTACATACAGAGCAAA 59.771 33.333 0.00 0.00 35.50 3.68
637 697 7.744087 ACAAATGACTACATACAGAGCAAAA 57.256 32.000 0.00 0.00 35.50 2.44
638 698 8.340618 ACAAATGACTACATACAGAGCAAAAT 57.659 30.769 0.00 0.00 35.50 1.82
639 699 8.239314 ACAAATGACTACATACAGAGCAAAATG 58.761 33.333 0.00 0.00 35.50 2.32
640 700 8.453320 CAAATGACTACATACAGAGCAAAATGA 58.547 33.333 0.00 0.00 35.50 2.57
641 701 7.783090 ATGACTACATACAGAGCAAAATGAG 57.217 36.000 0.00 0.00 34.71 2.90
642 702 6.701340 TGACTACATACAGAGCAAAATGAGT 58.299 36.000 0.00 0.00 0.00 3.41
643 703 6.591448 TGACTACATACAGAGCAAAATGAGTG 59.409 38.462 0.00 0.00 0.00 3.51
644 704 6.701340 ACTACATACAGAGCAAAATGAGTGA 58.299 36.000 0.00 0.00 0.00 3.41
645 705 7.161404 ACTACATACAGAGCAAAATGAGTGAA 58.839 34.615 0.00 0.00 0.00 3.18
646 706 7.826252 ACTACATACAGAGCAAAATGAGTGAAT 59.174 33.333 0.00 0.00 0.00 2.57
647 707 7.081526 ACATACAGAGCAAAATGAGTGAATC 57.918 36.000 0.00 0.00 0.00 2.52
648 708 6.883217 ACATACAGAGCAAAATGAGTGAATCT 59.117 34.615 0.00 0.00 0.00 2.40
649 709 8.043113 ACATACAGAGCAAAATGAGTGAATCTA 58.957 33.333 0.00 0.00 0.00 1.98
650 710 6.734104 ACAGAGCAAAATGAGTGAATCTAC 57.266 37.500 0.00 0.00 0.00 2.59
651 711 6.233434 ACAGAGCAAAATGAGTGAATCTACA 58.767 36.000 0.00 0.00 0.00 2.74
652 712 6.148480 ACAGAGCAAAATGAGTGAATCTACAC 59.852 38.462 0.00 0.00 40.60 2.90
690 750 9.826574 TCTATTTACATAAACATGTGGTAGTCC 57.173 33.333 0.00 0.00 36.08 3.85
691 751 9.607988 CTATTTACATAAACATGTGGTAGTCCA 57.392 33.333 0.00 0.00 42.05 4.02
693 753 8.871629 TTTACATAAACATGTGGTAGTCCATT 57.128 30.769 0.00 0.00 46.20 3.16
694 754 8.871629 TTACATAAACATGTGGTAGTCCATTT 57.128 30.769 0.00 0.00 46.20 2.32
695 755 7.156876 ACATAAACATGTGGTAGTCCATTTG 57.843 36.000 0.00 0.00 46.20 2.32
696 756 6.945435 ACATAAACATGTGGTAGTCCATTTGA 59.055 34.615 0.00 0.00 46.20 2.69
697 757 7.450014 ACATAAACATGTGGTAGTCCATTTGAA 59.550 33.333 0.00 0.00 46.20 2.69
698 758 6.723298 AAACATGTGGTAGTCCATTTGAAA 57.277 33.333 0.00 0.00 46.20 2.69
699 759 6.916360 AACATGTGGTAGTCCATTTGAAAT 57.084 33.333 0.00 0.00 46.20 2.17
700 760 6.515272 ACATGTGGTAGTCCATTTGAAATC 57.485 37.500 0.00 0.00 46.20 2.17
701 761 6.248433 ACATGTGGTAGTCCATTTGAAATCT 58.752 36.000 0.00 0.00 46.20 2.40
702 762 6.375455 ACATGTGGTAGTCCATTTGAAATCTC 59.625 38.462 0.00 0.00 46.20 2.75
703 763 6.126863 TGTGGTAGTCCATTTGAAATCTCT 57.873 37.500 0.00 0.00 46.20 3.10
704 764 7.252612 TGTGGTAGTCCATTTGAAATCTCTA 57.747 36.000 0.00 0.00 46.20 2.43
705 765 7.685481 TGTGGTAGTCCATTTGAAATCTCTAA 58.315 34.615 0.00 0.00 46.20 2.10
706 766 8.160765 TGTGGTAGTCCATTTGAAATCTCTAAA 58.839 33.333 0.00 0.00 46.20 1.85
707 767 9.010029 GTGGTAGTCCATTTGAAATCTCTAAAA 57.990 33.333 0.00 0.00 46.20 1.52
708 768 9.581289 TGGTAGTCCATTTGAAATCTCTAAAAA 57.419 29.630 0.00 0.00 39.03 1.94
712 772 9.354673 AGTCCATTTGAAATCTCTAAAAAGACA 57.645 29.630 0.00 0.00 0.00 3.41
713 773 9.965824 GTCCATTTGAAATCTCTAAAAAGACAA 57.034 29.630 0.00 0.00 0.00 3.18
730 790 7.625828 AAAGACAAATATTTAGGAACGGAGG 57.374 36.000 0.00 0.00 0.00 4.30
731 791 5.681639 AGACAAATATTTAGGAACGGAGGG 58.318 41.667 0.00 0.00 0.00 4.30
732 792 5.427481 AGACAAATATTTAGGAACGGAGGGA 59.573 40.000 0.00 0.00 0.00 4.20
733 793 5.681639 ACAAATATTTAGGAACGGAGGGAG 58.318 41.667 0.00 0.00 0.00 4.30
734 794 5.191124 ACAAATATTTAGGAACGGAGGGAGT 59.809 40.000 0.00 0.00 0.00 3.85
735 795 6.384886 ACAAATATTTAGGAACGGAGGGAGTA 59.615 38.462 0.00 0.00 0.00 2.59
736 796 6.416631 AATATTTAGGAACGGAGGGAGTAC 57.583 41.667 0.00 0.00 0.00 2.73
743 803 4.161754 AGGAACGGAGGGAGTACTATTTTG 59.838 45.833 0.00 0.00 0.00 2.44
748 808 7.191593 ACGGAGGGAGTACTATTTTGTAAAT 57.808 36.000 0.00 0.00 0.00 1.40
822 882 7.784470 AGAGTACTAAATAGGAAGCCATAGG 57.216 40.000 0.00 0.00 0.00 2.57
826 886 5.727630 ACTAAATAGGAAGCCATAGGAGGA 58.272 41.667 0.00 0.00 0.00 3.71
835 895 6.333970 AGGAAGCCATAGGAGGAGAAATAAAT 59.666 38.462 0.00 0.00 0.00 1.40
838 898 9.746457 GAAGCCATAGGAGGAGAAATAAATTAT 57.254 33.333 0.00 0.00 0.00 1.28
840 900 8.112183 AGCCATAGGAGGAGAAATAAATTATGG 58.888 37.037 0.00 0.00 38.54 2.74
841 901 7.340487 GCCATAGGAGGAGAAATAAATTATGGG 59.660 40.741 8.33 0.00 36.90 4.00
842 902 7.836183 CCATAGGAGGAGAAATAAATTATGGGG 59.164 40.741 0.00 0.00 34.21 4.96
843 903 8.614814 CATAGGAGGAGAAATAAATTATGGGGA 58.385 37.037 0.00 0.00 0.00 4.81
844 904 7.480222 AGGAGGAGAAATAAATTATGGGGAA 57.520 36.000 0.00 0.00 0.00 3.97
845 905 7.893482 AGGAGGAGAAATAAATTATGGGGAAA 58.107 34.615 0.00 0.00 0.00 3.13
846 906 7.785028 AGGAGGAGAAATAAATTATGGGGAAAC 59.215 37.037 0.00 0.00 0.00 2.78
847 907 7.563556 GGAGGAGAAATAAATTATGGGGAAACA 59.436 37.037 0.00 0.00 0.00 2.83
907 1026 6.752285 AATGGGGAAAATGGAATATTCTGG 57.248 37.500 14.95 0.00 0.00 3.86
1080 1215 2.124996 CACCCTCTTCCCTCCCCA 59.875 66.667 0.00 0.00 0.00 4.96
1083 1218 2.285668 CCTCTTCCCTCCCCAGCA 60.286 66.667 0.00 0.00 0.00 4.41
1098 1233 4.423209 GCACCCCCTCCTCCTCCT 62.423 72.222 0.00 0.00 0.00 3.69
1099 1234 2.041405 CACCCCCTCCTCCTCCTC 60.041 72.222 0.00 0.00 0.00 3.71
1100 1235 3.369388 ACCCCCTCCTCCTCCTCC 61.369 72.222 0.00 0.00 0.00 4.30
1101 1236 4.179599 CCCCCTCCTCCTCCTCCC 62.180 77.778 0.00 0.00 0.00 4.30
1102 1237 3.039526 CCCCTCCTCCTCCTCCCT 61.040 72.222 0.00 0.00 0.00 4.20
1103 1238 2.612251 CCCTCCTCCTCCTCCCTC 59.388 72.222 0.00 0.00 0.00 4.30
1113 1251 4.753662 CCTCCCTCGACCGTCCCA 62.754 72.222 0.00 0.00 0.00 4.37
1182 1320 3.827898 CTCCTCACCGCCGTCTCC 61.828 72.222 0.00 0.00 0.00 3.71
1189 1327 4.824515 CCGCCGTCTCCTCCTCCT 62.825 72.222 0.00 0.00 0.00 3.69
1191 1329 2.835895 GCCGTCTCCTCCTCCTCC 60.836 72.222 0.00 0.00 0.00 4.30
1317 1458 0.887933 TCAGATTTCCGCCCAAAAGC 59.112 50.000 0.00 0.00 0.00 3.51
1396 1556 9.070179 TGTCAATTGATCCATGTGATATTAAGG 57.930 33.333 12.12 0.00 32.41 2.69
1419 1583 9.941325 AAGGATTGCAAATTATGTTTACAATCA 57.059 25.926 20.93 0.00 42.18 2.57
1420 1584 9.941325 AGGATTGCAAATTATGTTTACAATCAA 57.059 25.926 20.93 0.00 42.18 2.57
1433 1597 8.149973 TGTTTACAATCAAAGTTACAGTCTCC 57.850 34.615 0.00 0.00 0.00 3.71
1483 1647 8.920509 ATTACATTGGTTAAATTAAACTCCGC 57.079 30.769 2.26 0.00 0.00 5.54
1484 1648 6.584185 ACATTGGTTAAATTAAACTCCGCT 57.416 33.333 2.26 0.00 0.00 5.52
1485 1649 6.988522 ACATTGGTTAAATTAAACTCCGCTT 58.011 32.000 2.26 0.00 0.00 4.68
1486 1650 7.088272 ACATTGGTTAAATTAAACTCCGCTTC 58.912 34.615 2.26 0.00 0.00 3.86
1487 1651 6.636562 TTGGTTAAATTAAACTCCGCTTCA 57.363 33.333 2.26 0.00 0.00 3.02
1488 1652 6.827586 TGGTTAAATTAAACTCCGCTTCAT 57.172 33.333 2.26 0.00 0.00 2.57
1489 1653 6.848451 TGGTTAAATTAAACTCCGCTTCATC 58.152 36.000 2.26 0.00 0.00 2.92
1490 1654 5.963586 GGTTAAATTAAACTCCGCTTCATCG 59.036 40.000 0.00 0.00 0.00 3.84
1491 1655 3.675467 AATTAAACTCCGCTTCATCGC 57.325 42.857 0.00 0.00 0.00 4.58
1512 1676 3.121194 GCGATGTTCGAGTAATCTGATGC 60.121 47.826 0.32 0.00 43.74 3.91
1513 1677 3.426859 CGATGTTCGAGTAATCTGATGCC 59.573 47.826 0.00 0.00 43.74 4.40
1547 1711 1.476471 GCAGCTGATGGCCTGAAGTAT 60.476 52.381 20.43 0.00 43.05 2.12
1625 1790 4.640771 AATCAGTTCAACCCTGCTCTTA 57.359 40.909 0.00 0.00 0.00 2.10
1634 1799 6.121776 TCAACCCTGCTCTTAATTCTTGTA 57.878 37.500 0.00 0.00 0.00 2.41
1639 1804 6.173339 CCCTGCTCTTAATTCTTGTACTCAA 58.827 40.000 0.00 0.00 0.00 3.02
1640 1805 6.655003 CCCTGCTCTTAATTCTTGTACTCAAA 59.345 38.462 0.00 0.00 32.87 2.69
1641 1806 7.361286 CCCTGCTCTTAATTCTTGTACTCAAAC 60.361 40.741 0.00 0.00 32.87 2.93
1642 1807 7.389053 CCTGCTCTTAATTCTTGTACTCAAACT 59.611 37.037 0.00 0.00 32.87 2.66
1643 1808 8.087982 TGCTCTTAATTCTTGTACTCAAACTG 57.912 34.615 0.00 0.00 32.87 3.16
1648 1813 6.793492 AATTCTTGTACTCAAACTGCTCTC 57.207 37.500 0.00 0.00 32.87 3.20
1672 1837 4.392940 AGTCTCCAACTGAAACTGATTGG 58.607 43.478 0.00 0.00 42.55 3.16
2045 2211 2.325484 TGGACAAGGAGAACTAGCACA 58.675 47.619 0.00 0.00 0.00 4.57
2046 2212 2.906389 TGGACAAGGAGAACTAGCACAT 59.094 45.455 0.00 0.00 0.00 3.21
2053 2219 2.675348 GGAGAACTAGCACATGTGAAGC 59.325 50.000 29.80 14.29 0.00 3.86
2054 2220 2.675348 GAGAACTAGCACATGTGAAGCC 59.325 50.000 29.80 18.00 0.00 4.35
2055 2221 2.038952 AGAACTAGCACATGTGAAGCCA 59.961 45.455 29.80 2.11 0.00 4.75
2056 2222 2.105006 ACTAGCACATGTGAAGCCAG 57.895 50.000 29.80 14.55 0.00 4.85
2059 2225 3.452264 ACTAGCACATGTGAAGCCAGATA 59.548 43.478 29.80 2.44 0.00 1.98
2060 2226 3.354948 AGCACATGTGAAGCCAGATAA 57.645 42.857 29.80 0.00 0.00 1.75
2061 2227 3.894759 AGCACATGTGAAGCCAGATAAT 58.105 40.909 29.80 0.00 0.00 1.28
2062 2228 3.881688 AGCACATGTGAAGCCAGATAATC 59.118 43.478 29.80 6.59 0.00 1.75
2063 2229 3.004106 GCACATGTGAAGCCAGATAATCC 59.996 47.826 29.80 2.30 0.00 3.01
2065 2231 2.620251 TGTGAAGCCAGATAATCCGG 57.380 50.000 0.00 0.00 0.00 5.14
2066 2232 1.837439 TGTGAAGCCAGATAATCCGGT 59.163 47.619 0.00 0.00 0.00 5.28
2067 2233 2.213499 GTGAAGCCAGATAATCCGGTG 58.787 52.381 0.00 0.00 0.00 4.94
2072 2238 3.279434 AGCCAGATAATCCGGTGTTTTC 58.721 45.455 0.00 3.16 0.00 2.29
2100 2267 6.123045 TCGGTATGATACTGACCTGATCTA 57.877 41.667 9.97 0.00 39.06 1.98
2454 2636 5.899120 TCTTATCAACGAGAGCTGTAACT 57.101 39.130 0.00 0.00 0.00 2.24
2593 2775 3.386063 TCCCTCCGTCCCATAATGTAAA 58.614 45.455 0.00 0.00 0.00 2.01
2810 3024 7.624360 AGTAAAATCGATCTGCCATTGTAAA 57.376 32.000 0.00 0.00 0.00 2.01
2922 3136 1.559219 TGGATGGTGCTAGCAGCTTAA 59.441 47.619 38.12 24.21 42.97 1.85
2935 3149 4.835678 AGCAGCTTAATTTTTGATTGGGG 58.164 39.130 0.00 0.00 0.00 4.96
2940 3156 6.993902 CAGCTTAATTTTTGATTGGGGCATAT 59.006 34.615 0.00 0.00 0.00 1.78
2941 3157 6.993902 AGCTTAATTTTTGATTGGGGCATATG 59.006 34.615 0.00 0.00 0.00 1.78
2995 3212 9.308000 TGTTACCCAGAAACTAAATGATGAAAT 57.692 29.630 0.00 0.00 0.00 2.17
3254 3474 4.139038 GTCACCTTGCCCTACAAAAGTTA 58.861 43.478 0.00 0.00 37.96 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
57 59 2.227626 TCGGGTCGAAAACGTGTGTATA 59.772 45.455 0.00 0.00 31.06 1.47
58 60 1.000385 TCGGGTCGAAAACGTGTGTAT 60.000 47.619 0.00 0.00 31.06 2.29
59 61 0.383590 TCGGGTCGAAAACGTGTGTA 59.616 50.000 0.00 0.00 31.06 2.90
60 62 0.872881 CTCGGGTCGAAAACGTGTGT 60.873 55.000 0.00 0.00 34.74 3.72
61 63 1.554042 CCTCGGGTCGAAAACGTGTG 61.554 60.000 0.00 0.00 34.74 3.82
62 64 1.300388 CCTCGGGTCGAAAACGTGT 60.300 57.895 0.00 0.00 34.74 4.49
99 101 2.368875 CCTCCATTACATCGGGTAAGCT 59.631 50.000 6.71 0.00 44.74 3.74
111 113 6.044404 TCTGAATCTATTTCCCCCTCCATTAC 59.956 42.308 0.00 0.00 33.04 1.89
159 163 5.450818 TGCCAGGAACCTACAGAATAATT 57.549 39.130 0.00 0.00 0.00 1.40
338 358 6.477688 AGTTCAAATCTGTGCAATTTCACAAG 59.522 34.615 12.01 6.81 45.22 3.16
367 387 9.039165 AGAACATCAAATAAAAATCTGGGATGT 57.961 29.630 0.00 0.00 44.11 3.06
448 468 2.427095 GCAGTGAAGGTGGTGTCTTTTT 59.573 45.455 0.00 0.00 0.00 1.94
449 469 2.024414 GCAGTGAAGGTGGTGTCTTTT 58.976 47.619 0.00 0.00 0.00 2.27
450 470 1.212935 AGCAGTGAAGGTGGTGTCTTT 59.787 47.619 0.00 0.00 0.00 2.52
451 471 0.839946 AGCAGTGAAGGTGGTGTCTT 59.160 50.000 0.00 0.00 0.00 3.01
452 472 0.839946 AAGCAGTGAAGGTGGTGTCT 59.160 50.000 0.00 0.00 0.00 3.41
453 473 0.947244 CAAGCAGTGAAGGTGGTGTC 59.053 55.000 0.00 0.00 0.00 3.67
454 474 0.255890 ACAAGCAGTGAAGGTGGTGT 59.744 50.000 0.00 0.00 0.00 4.16
504 528 6.286758 CAAGCTACATGTCATAGTTCTGGAT 58.713 40.000 0.00 0.00 0.00 3.41
516 562 1.399791 GCTCAAGGCAAGCTACATGTC 59.600 52.381 0.00 0.00 41.35 3.06
552 608 6.866770 GGTAATACAGAGTGCTATTTGCGATA 59.133 38.462 0.00 0.00 46.63 2.92
556 616 5.007724 GTGGGTAATACAGAGTGCTATTTGC 59.992 44.000 0.00 0.00 43.25 3.68
563 623 2.667473 ACGTGGGTAATACAGAGTGC 57.333 50.000 0.00 0.00 0.00 4.40
567 627 5.999205 TTTAGGAACGTGGGTAATACAGA 57.001 39.130 0.00 0.00 0.00 3.41
568 628 8.897872 AATATTTAGGAACGTGGGTAATACAG 57.102 34.615 0.00 0.00 0.00 2.74
570 630 9.112725 ACAAATATTTAGGAACGTGGGTAATAC 57.887 33.333 0.00 0.00 0.00 1.89
572 632 8.050930 AGACAAATATTTAGGAACGTGGGTAAT 58.949 33.333 0.00 0.00 0.00 1.89
573 633 7.396418 AGACAAATATTTAGGAACGTGGGTAA 58.604 34.615 0.00 0.00 0.00 2.85
574 634 6.949715 AGACAAATATTTAGGAACGTGGGTA 58.050 36.000 0.00 0.00 0.00 3.69
575 635 5.812286 AGACAAATATTTAGGAACGTGGGT 58.188 37.500 0.00 0.00 0.00 4.51
576 636 6.753107 AAGACAAATATTTAGGAACGTGGG 57.247 37.500 0.00 0.00 0.00 4.61
577 637 8.040716 AGAAAGACAAATATTTAGGAACGTGG 57.959 34.615 0.00 0.00 0.00 4.94
578 638 9.968743 GTAGAAAGACAAATATTTAGGAACGTG 57.031 33.333 0.00 0.00 0.00 4.49
579 639 9.715121 TGTAGAAAGACAAATATTTAGGAACGT 57.285 29.630 0.00 0.00 0.00 3.99
594 654 9.554395 TCATTTGTTGTAATCTGTAGAAAGACA 57.446 29.630 0.00 0.00 0.00 3.41
595 655 9.813080 GTCATTTGTTGTAATCTGTAGAAAGAC 57.187 33.333 0.00 0.00 0.00 3.01
596 656 9.778741 AGTCATTTGTTGTAATCTGTAGAAAGA 57.221 29.630 0.00 0.00 0.00 2.52
599 659 9.990360 TGTAGTCATTTGTTGTAATCTGTAGAA 57.010 29.630 0.00 0.00 0.00 2.10
603 663 9.719355 TGTATGTAGTCATTTGTTGTAATCTGT 57.281 29.630 0.00 0.00 35.70 3.41
607 667 8.883731 GCTCTGTATGTAGTCATTTGTTGTAAT 58.116 33.333 0.00 0.00 35.70 1.89
608 668 7.875554 TGCTCTGTATGTAGTCATTTGTTGTAA 59.124 33.333 0.00 0.00 35.70 2.41
609 669 7.382898 TGCTCTGTATGTAGTCATTTGTTGTA 58.617 34.615 0.00 0.00 35.70 2.41
610 670 6.230472 TGCTCTGTATGTAGTCATTTGTTGT 58.770 36.000 0.00 0.00 35.70 3.32
611 671 6.726258 TGCTCTGTATGTAGTCATTTGTTG 57.274 37.500 0.00 0.00 35.70 3.33
612 672 7.744087 TTTGCTCTGTATGTAGTCATTTGTT 57.256 32.000 0.00 0.00 35.70 2.83
613 673 7.744087 TTTTGCTCTGTATGTAGTCATTTGT 57.256 32.000 0.00 0.00 35.70 2.83
614 674 8.453320 TCATTTTGCTCTGTATGTAGTCATTTG 58.547 33.333 0.00 0.00 35.70 2.32
615 675 8.565896 TCATTTTGCTCTGTATGTAGTCATTT 57.434 30.769 0.00 0.00 35.70 2.32
616 676 7.826252 ACTCATTTTGCTCTGTATGTAGTCATT 59.174 33.333 0.00 0.00 35.70 2.57
617 677 7.279536 CACTCATTTTGCTCTGTATGTAGTCAT 59.720 37.037 0.00 0.00 38.00 3.06
618 678 6.591448 CACTCATTTTGCTCTGTATGTAGTCA 59.409 38.462 0.00 0.00 0.00 3.41
619 679 6.813649 TCACTCATTTTGCTCTGTATGTAGTC 59.186 38.462 0.00 0.00 0.00 2.59
620 680 6.701340 TCACTCATTTTGCTCTGTATGTAGT 58.299 36.000 0.00 0.00 0.00 2.73
621 681 7.601073 TTCACTCATTTTGCTCTGTATGTAG 57.399 36.000 0.00 0.00 0.00 2.74
622 682 8.043113 AGATTCACTCATTTTGCTCTGTATGTA 58.957 33.333 0.00 0.00 0.00 2.29
623 683 6.883217 AGATTCACTCATTTTGCTCTGTATGT 59.117 34.615 0.00 0.00 0.00 2.29
624 684 7.317842 AGATTCACTCATTTTGCTCTGTATG 57.682 36.000 0.00 0.00 0.00 2.39
625 685 8.043113 TGTAGATTCACTCATTTTGCTCTGTAT 58.957 33.333 0.00 0.00 0.00 2.29
626 686 7.331934 GTGTAGATTCACTCATTTTGCTCTGTA 59.668 37.037 0.00 0.00 35.68 2.74
627 687 6.148480 GTGTAGATTCACTCATTTTGCTCTGT 59.852 38.462 0.00 0.00 35.68 3.41
628 688 6.370994 AGTGTAGATTCACTCATTTTGCTCTG 59.629 38.462 0.00 0.00 44.07 3.35
629 689 6.471146 AGTGTAGATTCACTCATTTTGCTCT 58.529 36.000 0.00 0.00 44.07 4.09
630 690 6.734104 AGTGTAGATTCACTCATTTTGCTC 57.266 37.500 0.00 0.00 44.07 4.26
664 724 9.826574 GGACTACCACATGTTTATGTAAATAGA 57.173 33.333 0.00 0.00 45.53 1.98
665 725 9.607988 TGGACTACCACATGTTTATGTAAATAG 57.392 33.333 0.00 0.00 45.53 1.73
686 746 9.354673 TGTCTTTTTAGAGATTTCAAATGGACT 57.645 29.630 0.00 0.00 0.00 3.85
687 747 9.965824 TTGTCTTTTTAGAGATTTCAAATGGAC 57.034 29.630 0.00 0.00 0.00 4.02
704 764 8.520351 CCTCCGTTCCTAAATATTTGTCTTTTT 58.480 33.333 11.05 0.00 0.00 1.94
705 765 7.122204 CCCTCCGTTCCTAAATATTTGTCTTTT 59.878 37.037 11.05 0.00 0.00 2.27
706 766 6.602009 CCCTCCGTTCCTAAATATTTGTCTTT 59.398 38.462 11.05 0.00 0.00 2.52
707 767 6.069847 TCCCTCCGTTCCTAAATATTTGTCTT 60.070 38.462 11.05 0.00 0.00 3.01
708 768 5.427481 TCCCTCCGTTCCTAAATATTTGTCT 59.573 40.000 11.05 0.00 0.00 3.41
709 769 5.677567 TCCCTCCGTTCCTAAATATTTGTC 58.322 41.667 11.05 0.00 0.00 3.18
710 770 5.191124 ACTCCCTCCGTTCCTAAATATTTGT 59.809 40.000 11.05 0.00 0.00 2.83
711 771 5.681639 ACTCCCTCCGTTCCTAAATATTTG 58.318 41.667 11.05 1.40 0.00 2.32
712 772 5.970501 ACTCCCTCCGTTCCTAAATATTT 57.029 39.130 5.89 5.89 0.00 1.40
713 773 6.141790 AGTACTCCCTCCGTTCCTAAATATT 58.858 40.000 0.00 0.00 0.00 1.28
714 774 5.713807 AGTACTCCCTCCGTTCCTAAATAT 58.286 41.667 0.00 0.00 0.00 1.28
715 775 5.134725 AGTACTCCCTCCGTTCCTAAATA 57.865 43.478 0.00 0.00 0.00 1.40
716 776 3.991683 AGTACTCCCTCCGTTCCTAAAT 58.008 45.455 0.00 0.00 0.00 1.40
717 777 3.463048 AGTACTCCCTCCGTTCCTAAA 57.537 47.619 0.00 0.00 0.00 1.85
718 778 4.803329 ATAGTACTCCCTCCGTTCCTAA 57.197 45.455 0.00 0.00 0.00 2.69
719 779 4.803329 AATAGTACTCCCTCCGTTCCTA 57.197 45.455 0.00 0.00 0.00 2.94
720 780 3.684408 AATAGTACTCCCTCCGTTCCT 57.316 47.619 0.00 0.00 0.00 3.36
721 781 4.081254 ACAAAATAGTACTCCCTCCGTTCC 60.081 45.833 0.00 0.00 0.00 3.62
722 782 5.082251 ACAAAATAGTACTCCCTCCGTTC 57.918 43.478 0.00 0.00 0.00 3.95
723 783 6.610075 TTACAAAATAGTACTCCCTCCGTT 57.390 37.500 0.00 0.00 0.00 4.44
724 784 6.610075 TTTACAAAATAGTACTCCCTCCGT 57.390 37.500 0.00 0.00 0.00 4.69
725 785 9.774413 AATATTTACAAAATAGTACTCCCTCCG 57.226 33.333 0.00 0.00 0.00 4.63
799 859 7.093684 CCTCCTATGGCTTCCTATTTAGTACTC 60.094 44.444 0.00 0.00 0.00 2.59
800 860 6.726764 CCTCCTATGGCTTCCTATTTAGTACT 59.273 42.308 0.00 0.00 0.00 2.73
801 861 6.724905 TCCTCCTATGGCTTCCTATTTAGTAC 59.275 42.308 0.00 0.00 0.00 2.73
802 862 6.871035 TCCTCCTATGGCTTCCTATTTAGTA 58.129 40.000 0.00 0.00 0.00 1.82
804 864 6.019748 TCTCCTCCTATGGCTTCCTATTTAG 58.980 44.000 0.00 0.00 0.00 1.85
811 871 5.568620 TTATTTCTCCTCCTATGGCTTCC 57.431 43.478 0.00 0.00 0.00 3.46
815 875 7.340487 CCCATAATTTATTTCTCCTCCTATGGC 59.660 40.741 0.00 0.00 34.46 4.40
816 876 7.836183 CCCCATAATTTATTTCTCCTCCTATGG 59.164 40.741 0.00 0.00 35.21 2.74
821 881 7.563556 TGTTTCCCCATAATTTATTTCTCCTCC 59.436 37.037 0.00 0.00 0.00 4.30
822 882 8.414003 GTGTTTCCCCATAATTTATTTCTCCTC 58.586 37.037 0.00 0.00 0.00 3.71
872 991 8.923270 TCCATTTTCCCCATTTTATACTTCATC 58.077 33.333 0.00 0.00 0.00 2.92
907 1026 1.601166 ACGGTAGGGTGCAGAAAAAC 58.399 50.000 0.00 0.00 0.00 2.43
1080 1215 4.423209 GGAGGAGGAGGGGGTGCT 62.423 72.222 0.00 0.00 0.00 4.40
1083 1218 3.369388 GGAGGAGGAGGAGGGGGT 61.369 72.222 0.00 0.00 0.00 4.95
1098 1233 2.758327 CATGGGACGGTCGAGGGA 60.758 66.667 1.43 0.00 0.00 4.20
1099 1234 4.530857 GCATGGGACGGTCGAGGG 62.531 72.222 1.43 0.00 0.00 4.30
1100 1235 3.461773 AGCATGGGACGGTCGAGG 61.462 66.667 1.43 0.00 0.00 4.63
1101 1236 2.202797 CAGCATGGGACGGTCGAG 60.203 66.667 1.43 0.00 0.00 4.04
1102 1237 4.451150 GCAGCATGGGACGGTCGA 62.451 66.667 1.43 0.00 35.86 4.20
1170 1308 3.827898 GAGGAGGAGACGGCGGTG 61.828 72.222 13.24 0.00 0.00 4.94
1317 1458 0.035056 ATCAGTCGGAAAGGGCCAAG 60.035 55.000 6.18 0.00 0.00 3.61
1418 1582 2.833631 ACGGGGAGACTGTAACTTTG 57.166 50.000 0.00 0.00 36.76 2.77
1419 1583 2.038164 GGAACGGGGAGACTGTAACTTT 59.962 50.000 0.00 0.00 37.84 2.66
1420 1584 1.622312 GGAACGGGGAGACTGTAACTT 59.378 52.381 0.00 0.00 37.84 2.66
1433 1597 2.923121 AGTGATGATTCATGGAACGGG 58.077 47.619 3.32 0.00 33.56 5.28
1483 1647 1.550065 ACTCGAACATCGCGATGAAG 58.450 50.000 45.64 34.86 41.20 3.02
1484 1648 2.836479 TACTCGAACATCGCGATGAA 57.164 45.000 45.64 28.38 41.20 2.57
1485 1649 2.836479 TTACTCGAACATCGCGATGA 57.164 45.000 45.64 27.44 41.20 2.92
1486 1650 3.118645 CAGATTACTCGAACATCGCGATG 59.881 47.826 39.76 39.76 44.15 3.84
1487 1651 3.003378 TCAGATTACTCGAACATCGCGAT 59.997 43.478 17.62 17.62 40.21 4.58
1488 1652 2.353579 TCAGATTACTCGAACATCGCGA 59.646 45.455 13.09 13.09 40.21 5.87
1489 1653 2.716398 TCAGATTACTCGAACATCGCG 58.284 47.619 0.00 0.00 40.21 5.87
1490 1654 3.121194 GCATCAGATTACTCGAACATCGC 60.121 47.826 0.00 0.00 40.21 4.58
1491 1655 3.426859 GGCATCAGATTACTCGAACATCG 59.573 47.826 0.00 0.00 42.10 3.84
1492 1656 4.371786 TGGCATCAGATTACTCGAACATC 58.628 43.478 0.00 0.00 0.00 3.06
1493 1657 4.100035 TCTGGCATCAGATTACTCGAACAT 59.900 41.667 0.00 0.00 44.39 2.71
1512 1676 1.098050 GCTGCCACCAATAGTTCTGG 58.902 55.000 0.00 0.00 40.05 3.86
1513 1677 1.741706 CAGCTGCCACCAATAGTTCTG 59.258 52.381 0.00 0.00 0.00 3.02
1519 1683 0.752743 GCCATCAGCTGCCACCAATA 60.753 55.000 9.47 0.00 38.99 1.90
1547 1711 4.141711 CCCTTCCCTTCAATGAGATCGTAA 60.142 45.833 0.00 0.00 0.00 3.18
1625 1790 5.703130 GGAGAGCAGTTTGAGTACAAGAATT 59.297 40.000 0.00 0.00 37.32 2.17
1634 1799 2.298729 GAGACTGGAGAGCAGTTTGAGT 59.701 50.000 0.00 0.00 32.33 3.41
1639 1804 1.346068 GTTGGAGACTGGAGAGCAGTT 59.654 52.381 0.00 0.00 32.33 3.16
1640 1805 0.972883 GTTGGAGACTGGAGAGCAGT 59.027 55.000 0.00 0.00 35.30 4.40
1641 1806 1.265236 AGTTGGAGACTGGAGAGCAG 58.735 55.000 0.00 0.00 37.17 4.24
1642 1807 3.464878 AGTTGGAGACTGGAGAGCA 57.535 52.632 0.00 0.00 37.17 4.26
1656 1821 3.635331 CAGTGCCAATCAGTTTCAGTTG 58.365 45.455 0.00 0.00 0.00 3.16
1672 1837 2.099756 ACCTTCAGAAAAACAGCAGTGC 59.900 45.455 7.13 7.13 0.00 4.40
2045 2211 3.131709 CCGGATTATCTGGCTTCACAT 57.868 47.619 7.19 0.00 35.89 3.21
2046 2212 2.620251 CCGGATTATCTGGCTTCACA 57.380 50.000 7.19 0.00 35.89 3.58
2054 2220 4.181578 AGACGAAAACACCGGATTATCTG 58.818 43.478 9.46 0.00 0.00 2.90
2055 2221 4.467198 AGACGAAAACACCGGATTATCT 57.533 40.909 9.46 2.16 0.00 1.98
2056 2222 4.259690 CGAAGACGAAAACACCGGATTATC 60.260 45.833 9.46 0.00 42.66 1.75
2059 2225 1.796459 CGAAGACGAAAACACCGGATT 59.204 47.619 9.46 0.00 42.66 3.01
2060 2226 1.425412 CGAAGACGAAAACACCGGAT 58.575 50.000 9.46 0.00 42.66 4.18
2061 2227 0.598158 CCGAAGACGAAAACACCGGA 60.598 55.000 9.46 0.00 42.66 5.14
2062 2228 0.877213 ACCGAAGACGAAAACACCGG 60.877 55.000 0.00 0.00 42.66 5.28
2063 2229 1.769733 TACCGAAGACGAAAACACCG 58.230 50.000 0.00 0.00 42.66 4.94
2065 2231 5.803967 AGTATCATACCGAAGACGAAAACAC 59.196 40.000 0.00 0.00 42.66 3.32
2066 2232 5.803461 CAGTATCATACCGAAGACGAAAACA 59.197 40.000 0.00 0.00 42.66 2.83
2067 2233 6.020837 GTCAGTATCATACCGAAGACGAAAAC 60.021 42.308 0.00 0.00 42.66 2.43
2072 2238 3.564644 AGGTCAGTATCATACCGAAGACG 59.435 47.826 0.00 0.00 38.37 4.18
2100 2267 3.153919 ACCAACACACAAACAGAACAGT 58.846 40.909 0.00 0.00 0.00 3.55
2269 2441 0.381089 CTAGCATCAGCCTGCAAAGC 59.619 55.000 6.33 0.04 44.77 3.51
2429 2606 4.521130 ACAGCTCTCGTTGATAAGAACA 57.479 40.909 0.00 0.00 0.00 3.18
2480 2662 5.286438 CCAACGTTTCGATATATGTCCAGA 58.714 41.667 0.00 0.00 0.00 3.86
2626 2808 4.501571 CCCTCTGTCCCATAATGTAAGACG 60.502 50.000 0.00 0.00 0.00 4.18
2633 2815 5.630415 TTTACTCCCTCTGTCCCATAATG 57.370 43.478 0.00 0.00 0.00 1.90
2794 3008 3.242543 GCTGACTTTACAATGGCAGATCG 60.243 47.826 13.37 0.00 40.60 3.69
2808 3022 3.844577 GCATCAGAACATGCTGACTTT 57.155 42.857 5.31 0.00 46.72 2.66
2895 3109 3.018856 TGCTAGCACCATCCATCTTTTG 58.981 45.455 14.93 0.00 0.00 2.44
2922 3136 6.101442 TCCATTCATATGCCCCAATCAAAAAT 59.899 34.615 0.00 0.00 0.00 1.82
2935 3149 7.392673 ACCTTATTGAGATGTCCATTCATATGC 59.607 37.037 0.00 0.00 0.00 3.14
2940 3156 9.177608 CTAAAACCTTATTGAGATGTCCATTCA 57.822 33.333 0.00 0.00 0.00 2.57
2941 3157 9.178758 ACTAAAACCTTATTGAGATGTCCATTC 57.821 33.333 0.00 0.00 0.00 2.67


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

AutoCloner maintained by Alex Coulton.