Multiple sequence alignment - TraesCS2A01G089800

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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 TraesCS2A01G089800 chr2A 100.000 2192 0 0 1 2192 42774813 42772622 0.000000e+00 4048.0
1 TraesCS2A01G089800 chr2A 97.494 399 8 1 1755 2151 276442769 276442371 0.000000e+00 680.0
2 TraesCS2A01G089800 chr1A 96.017 954 35 2 1 954 78315882 78316832 0.000000e+00 1548.0
3 TraesCS2A01G089800 chr1A 95.283 954 36 4 1 954 536801620 536802564 0.000000e+00 1504.0
4 TraesCS2A01G089800 chr1A 97.744 399 6 2 1755 2151 256027849 256027452 0.000000e+00 684.0
5 TraesCS2A01G089800 chr1A 100.000 42 0 0 2151 2192 78316861 78316902 6.490000e-11 78.7
6 TraesCS2A01G089800 chr1A 100.000 42 0 0 2151 2192 536802593 536802634 6.490000e-11 78.7
7 TraesCS2A01G089800 chr4A 94.316 950 47 5 7 953 467891776 467890831 0.000000e+00 1448.0
8 TraesCS2A01G089800 chr6A 95.906 855 28 6 1 853 88364589 88365438 0.000000e+00 1378.0
9 TraesCS2A01G089800 chr6A 95.679 162 7 0 793 954 88365431 88365592 6.000000e-66 261.0
10 TraesCS2A01G089800 chr6A 83.333 186 23 6 741 925 571532442 571532620 4.840000e-37 165.0
11 TraesCS2A01G089800 chr6A 87.805 123 15 0 535 657 571214578 571214700 6.310000e-31 145.0
12 TraesCS2A01G089800 chr6A 100.000 42 0 0 2151 2192 88365621 88365662 6.490000e-11 78.7
13 TraesCS2A01G089800 chr5D 97.352 793 12 2 972 1755 240133282 240134074 0.000000e+00 1339.0
14 TraesCS2A01G089800 chr5D 96.985 796 15 2 972 1758 449153575 449152780 0.000000e+00 1328.0
15 TraesCS2A01G089800 chr5D 97.243 399 9 1 1755 2151 6209370 6208972 0.000000e+00 675.0
16 TraesCS2A01G089800 chr3D 97.352 793 12 2 972 1755 21899667 21900459 0.000000e+00 1339.0
17 TraesCS2A01G089800 chr3D 97.243 399 9 1 1755 2151 21895871 21896269 0.000000e+00 675.0
18 TraesCS2A01G089800 chr1D 97.352 793 11 3 972 1755 254491791 254492582 0.000000e+00 1339.0
19 TraesCS2A01G089800 chr1D 97.236 796 13 2 972 1758 483919026 483918231 0.000000e+00 1339.0
20 TraesCS2A01G089800 chr1D 96.949 721 13 2 972 1683 483920829 483920109 0.000000e+00 1201.0
21 TraesCS2A01G089800 chr1D 97.187 711 11 2 1054 1755 254493672 254494382 0.000000e+00 1194.0
22 TraesCS2A01G089800 chr1D 96.350 548 12 1 1219 1758 254493682 254493135 0.000000e+00 894.0
23 TraesCS2A01G089800 chr1D 98.125 480 7 2 972 1449 483919618 483920097 0.000000e+00 835.0
24 TraesCS2A01G089800 chr1D 97.744 399 7 1 1755 2151 254488011 254488409 0.000000e+00 686.0
25 TraesCS2A01G089800 chr4D 96.056 786 23 5 972 1755 19912089 19912868 0.000000e+00 1273.0
26 TraesCS2A01G089800 chr7B 94.380 694 30 4 267 954 652673948 652674638 0.000000e+00 1057.0
27 TraesCS2A01G089800 chr7B 89.262 149 16 0 1 149 652673802 652673950 1.030000e-43 187.0
28 TraesCS2A01G089800 chrUn 97.079 582 8 2 972 1544 317471057 317470476 0.000000e+00 972.0
29 TraesCS2A01G089800 chrUn 97.053 543 7 2 972 1505 412877412 412877954 0.000000e+00 905.0
30 TraesCS2A01G089800 chrUn 97.243 399 9 1 1755 2151 465624439 465624041 0.000000e+00 675.0
31 TraesCS2A01G089800 chr2D 97.995 399 6 1 1755 2151 628283987 628284385 0.000000e+00 691.0
32 TraesCS2A01G089800 chr2D 97.744 399 7 1 1755 2151 628287241 628287639 0.000000e+00 686.0
33 TraesCS2A01G089800 chr6D 97.744 399 7 1 1755 2151 431398340 431398738 0.000000e+00 686.0
34 TraesCS2A01G089800 chr6D 86.688 631 61 13 1136 1755 162124133 162124751 0.000000e+00 678.0
35 TraesCS2A01G089800 chr6D 83.333 186 24 6 741 925 426845416 426845595 4.840000e-37 165.0
36 TraesCS2A01G089800 chr6D 80.645 186 28 7 741 925 426777251 426777429 1.060000e-28 137.0
37 TraesCS2A01G089800 chr1B 89.214 547 35 8 436 970 572899587 572900121 0.000000e+00 662.0
38 TraesCS2A01G089800 chr6B 82.123 179 25 6 741 918 642227134 642227306 1.750000e-31 147.0
39 TraesCS2A01G089800 chr6B 85.600 125 17 1 538 661 642224463 642224587 1.770000e-26 130.0
40 TraesCS2A01G089800 chr5B 90.099 101 9 1 855 954 538269639 538269739 1.770000e-26 130.0
41 TraesCS2A01G089800 chr5B 88.889 99 10 1 855 952 43559843 43559745 1.060000e-23 121.0


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 TraesCS2A01G089800 chr2A 42772622 42774813 2191 True 4048.000000 4048 100.000000 1 2192 1 chr2A.!!$R1 2191
1 TraesCS2A01G089800 chr1A 78315882 78316902 1020 False 813.350000 1548 98.008500 1 2192 2 chr1A.!!$F1 2191
2 TraesCS2A01G089800 chr1A 536801620 536802634 1014 False 791.350000 1504 97.641500 1 2192 2 chr1A.!!$F2 2191
3 TraesCS2A01G089800 chr4A 467890831 467891776 945 True 1448.000000 1448 94.316000 7 953 1 chr4A.!!$R1 946
4 TraesCS2A01G089800 chr6A 88364589 88365662 1073 False 572.566667 1378 97.195000 1 2192 3 chr6A.!!$F3 2191
5 TraesCS2A01G089800 chr5D 240133282 240134074 792 False 1339.000000 1339 97.352000 972 1755 1 chr5D.!!$F1 783
6 TraesCS2A01G089800 chr5D 449152780 449153575 795 True 1328.000000 1328 96.985000 972 1758 1 chr5D.!!$R2 786
7 TraesCS2A01G089800 chr3D 21895871 21900459 4588 False 1007.000000 1339 97.297500 972 2151 2 chr3D.!!$F1 1179
8 TraesCS2A01G089800 chr1D 483918231 483920829 2598 True 1270.000000 1339 97.092500 972 1758 2 chr1D.!!$R2 786
9 TraesCS2A01G089800 chr1D 254488011 254494382 6371 False 1073.000000 1339 97.427667 972 2151 3 chr1D.!!$F2 1179
10 TraesCS2A01G089800 chr1D 254493135 254493682 547 True 894.000000 894 96.350000 1219 1758 1 chr1D.!!$R1 539
11 TraesCS2A01G089800 chr4D 19912089 19912868 779 False 1273.000000 1273 96.056000 972 1755 1 chr4D.!!$F1 783
12 TraesCS2A01G089800 chr7B 652673802 652674638 836 False 622.000000 1057 91.821000 1 954 2 chr7B.!!$F1 953
13 TraesCS2A01G089800 chrUn 317470476 317471057 581 True 972.000000 972 97.079000 972 1544 1 chrUn.!!$R1 572
14 TraesCS2A01G089800 chrUn 412877412 412877954 542 False 905.000000 905 97.053000 972 1505 1 chrUn.!!$F1 533
15 TraesCS2A01G089800 chr2D 628283987 628287639 3652 False 688.500000 691 97.869500 1755 2151 2 chr2D.!!$F1 396
16 TraesCS2A01G089800 chr6D 162124133 162124751 618 False 678.000000 678 86.688000 1136 1755 1 chr6D.!!$F1 619
17 TraesCS2A01G089800 chr1B 572899587 572900121 534 False 662.000000 662 89.214000 436 970 1 chr1B.!!$F1 534

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
589 600 0.033504 ACGATCTGTGGCGTTGAAGT 59.966 50.0 0.0 0.0 37.48 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2061 8517 0.474184 AGGGGAAATGGCCGATACTG 59.526 55.0 0.0 0.0 0.0 2.74 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 2.287427 ACGTATCTAATCTGCCCGTTCG 60.287 50.000 0.00 0.00 0.00 3.95
92 99 1.209019 AGCTGAATCCAAGCATCGACT 59.791 47.619 0.00 0.00 0.00 4.18
102 109 0.534877 AGCATCGACTGTGTTGCCAA 60.535 50.000 2.92 0.00 35.71 4.52
156 163 1.234821 CTGACTGCGCCCTTTAAACA 58.765 50.000 4.18 0.00 0.00 2.83
157 164 1.606668 CTGACTGCGCCCTTTAAACAA 59.393 47.619 4.18 0.00 0.00 2.83
265 274 3.550233 CGACGATCTGGTTATCCGTTCAT 60.550 47.826 0.00 0.00 36.30 2.57
378 388 1.651240 GCAGTACCTCTACGACGGCA 61.651 60.000 0.00 0.00 0.00 5.69
483 494 5.356190 TCATTTGATTGTTCCTGCTCTGATC 59.644 40.000 0.00 0.00 0.00 2.92
516 527 4.098807 GTGGAATTGTAGTGGTTTTGTGGT 59.901 41.667 0.00 0.00 0.00 4.16
565 576 1.521423 GTGAAGAGTTGGTCGTTCGTG 59.479 52.381 0.00 0.00 0.00 4.35
566 577 1.135527 TGAAGAGTTGGTCGTTCGTGT 59.864 47.619 0.00 0.00 0.00 4.49
569 580 1.340248 AGAGTTGGTCGTTCGTGTGAT 59.660 47.619 0.00 0.00 0.00 3.06
570 581 2.555325 AGAGTTGGTCGTTCGTGTGATA 59.445 45.455 0.00 0.00 0.00 2.15
571 582 2.660236 GAGTTGGTCGTTCGTGTGATAC 59.340 50.000 0.00 0.00 0.00 2.24
582 593 1.200483 GTGTGATACGATCTGTGGCG 58.800 55.000 0.00 0.00 0.00 5.69
584 595 1.203758 TGTGATACGATCTGTGGCGTT 59.796 47.619 0.00 0.00 41.49 4.84
587 598 2.094442 TGATACGATCTGTGGCGTTGAA 60.094 45.455 0.00 0.00 41.49 2.69
589 600 0.033504 ACGATCTGTGGCGTTGAAGT 59.966 50.000 0.00 0.00 37.48 3.01
591 602 1.920574 CGATCTGTGGCGTTGAAGTAG 59.079 52.381 0.00 0.00 0.00 2.57
593 604 2.433868 TCTGTGGCGTTGAAGTAGTC 57.566 50.000 0.00 0.00 0.00 2.59
594 605 1.961394 TCTGTGGCGTTGAAGTAGTCT 59.039 47.619 0.00 0.00 0.00 3.24
598 609 5.416639 TCTGTGGCGTTGAAGTAGTCTATTA 59.583 40.000 0.00 0.00 0.00 0.98
599 610 6.096423 TCTGTGGCGTTGAAGTAGTCTATTAT 59.904 38.462 0.00 0.00 0.00 1.28
602 613 6.018994 GTGGCGTTGAAGTAGTCTATTATTGG 60.019 42.308 0.00 0.00 0.00 3.16
603 614 6.127281 TGGCGTTGAAGTAGTCTATTATTGGA 60.127 38.462 0.00 0.00 0.00 3.53
625 636 6.606796 TGGAATTATGTGATACAGTTTGGCAT 59.393 34.615 0.00 0.00 0.00 4.40
626 637 7.777440 TGGAATTATGTGATACAGTTTGGCATA 59.223 33.333 0.00 0.00 0.00 3.14
627 638 8.796475 GGAATTATGTGATACAGTTTGGCATAT 58.204 33.333 0.00 0.00 0.00 1.78
630 641 9.791801 ATTATGTGATACAGTTTGGCATATACA 57.208 29.630 0.00 0.00 0.00 2.29
633 644 7.109501 TGTGATACAGTTTGGCATATACAACT 58.890 34.615 0.00 0.00 0.00 3.16
634 645 7.609918 TGTGATACAGTTTGGCATATACAACTT 59.390 33.333 0.00 0.00 0.00 2.66
635 646 8.458843 GTGATACAGTTTGGCATATACAACTTT 58.541 33.333 0.00 0.00 0.00 2.66
636 647 8.673711 TGATACAGTTTGGCATATACAACTTTC 58.326 33.333 0.00 0.00 0.00 2.62
639 650 6.071952 ACAGTTTGGCATATACAACTTTCAGG 60.072 38.462 0.00 0.00 0.00 3.86
640 651 6.150976 CAGTTTGGCATATACAACTTTCAGGA 59.849 38.462 0.00 0.00 0.00 3.86
642 653 5.435686 TGGCATATACAACTTTCAGGACT 57.564 39.130 0.00 0.00 0.00 3.85
644 655 6.245408 TGGCATATACAACTTTCAGGACTTT 58.755 36.000 0.00 0.00 0.00 2.66
645 656 6.150976 TGGCATATACAACTTTCAGGACTTTG 59.849 38.462 0.00 0.00 0.00 2.77
646 657 6.404734 GGCATATACAACTTTCAGGACTTTGG 60.405 42.308 0.00 0.00 0.00 3.28
647 658 6.374333 GCATATACAACTTTCAGGACTTTGGA 59.626 38.462 0.00 0.00 0.00 3.53
648 659 7.067494 GCATATACAACTTTCAGGACTTTGGAT 59.933 37.037 0.00 0.00 0.00 3.41
650 661 4.536765 ACAACTTTCAGGACTTTGGATGT 58.463 39.130 0.00 0.00 0.00 3.06
651 662 5.690865 ACAACTTTCAGGACTTTGGATGTA 58.309 37.500 0.00 0.00 0.00 2.29
652 663 5.765182 ACAACTTTCAGGACTTTGGATGTAG 59.235 40.000 0.00 0.00 0.00 2.74
653 664 5.825593 ACTTTCAGGACTTTGGATGTAGA 57.174 39.130 0.00 0.00 0.00 2.59
654 665 6.187727 ACTTTCAGGACTTTGGATGTAGAA 57.812 37.500 0.00 0.00 0.00 2.10
655 666 6.784031 ACTTTCAGGACTTTGGATGTAGAAT 58.216 36.000 0.00 0.00 0.00 2.40
656 667 7.234355 ACTTTCAGGACTTTGGATGTAGAATT 58.766 34.615 0.00 0.00 0.00 2.17
657 668 8.383175 ACTTTCAGGACTTTGGATGTAGAATTA 58.617 33.333 0.00 0.00 0.00 1.40
658 669 9.401058 CTTTCAGGACTTTGGATGTAGAATTAT 57.599 33.333 0.00 0.00 0.00 1.28
660 671 7.282585 TCAGGACTTTGGATGTAGAATTATGG 58.717 38.462 0.00 0.00 0.00 2.74
662 673 7.941238 CAGGACTTTGGATGTAGAATTATGGAT 59.059 37.037 0.00 0.00 0.00 3.41
663 674 7.941238 AGGACTTTGGATGTAGAATTATGGATG 59.059 37.037 0.00 0.00 0.00 3.51
664 675 7.721399 GGACTTTGGATGTAGAATTATGGATGT 59.279 37.037 0.00 0.00 0.00 3.06
665 676 9.778741 GACTTTGGATGTAGAATTATGGATGTA 57.221 33.333 0.00 0.00 0.00 2.29
666 677 9.561069 ACTTTGGATGTAGAATTATGGATGTAC 57.439 33.333 0.00 0.00 0.00 2.90
667 678 8.918202 TTTGGATGTAGAATTATGGATGTACC 57.082 34.615 0.00 0.00 39.54 3.34
668 679 6.697395 TGGATGTAGAATTATGGATGTACCG 58.303 40.000 0.00 0.00 42.61 4.02
671 682 7.331193 GGATGTAGAATTATGGATGTACCGAAC 59.669 40.741 0.00 0.00 42.61 3.95
673 684 7.557724 TGTAGAATTATGGATGTACCGAACAA 58.442 34.615 0.00 0.00 42.70 2.83
674 685 8.208224 TGTAGAATTATGGATGTACCGAACAAT 58.792 33.333 0.00 0.00 42.70 2.71
675 686 7.496529 AGAATTATGGATGTACCGAACAATG 57.503 36.000 0.00 0.00 42.70 2.82
677 688 7.556275 AGAATTATGGATGTACCGAACAATGTT 59.444 33.333 0.00 0.00 42.70 2.71
678 689 6.671614 TTATGGATGTACCGAACAATGTTC 57.328 37.500 15.62 15.62 42.70 3.18
679 690 4.009370 TGGATGTACCGAACAATGTTCA 57.991 40.909 23.72 6.89 42.70 3.18
682 693 5.475220 TGGATGTACCGAACAATGTTCATTT 59.525 36.000 23.72 10.75 42.70 2.32
685 696 5.753744 TGTACCGAACAATGTTCATTTGAC 58.246 37.500 23.72 14.19 34.29 3.18
686 697 3.884169 ACCGAACAATGTTCATTTGACG 58.116 40.909 23.72 9.98 0.00 4.35
688 699 4.201970 ACCGAACAATGTTCATTTGACGTT 60.202 37.500 23.72 0.00 0.00 3.99
690 701 5.910166 CCGAACAATGTTCATTTGACGTTTA 59.090 36.000 23.72 0.00 0.00 2.01
691 702 6.580791 CCGAACAATGTTCATTTGACGTTTAT 59.419 34.615 23.72 0.00 0.00 1.40
692 703 7.409238 CCGAACAATGTTCATTTGACGTTTATG 60.409 37.037 23.72 4.34 0.00 1.90
693 704 7.112844 CGAACAATGTTCATTTGACGTTTATGT 59.887 33.333 23.72 0.00 0.00 2.29
695 706 8.722342 ACAATGTTCATTTGACGTTTATGTAC 57.278 30.769 0.00 0.00 0.00 2.90
696 707 8.346300 ACAATGTTCATTTGACGTTTATGTACA 58.654 29.630 15.03 15.03 35.19 2.90
698 709 7.485418 TGTTCATTTGACGTTTATGTACAGT 57.515 32.000 0.33 0.00 29.84 3.55
699 710 7.921787 TGTTCATTTGACGTTTATGTACAGTT 58.078 30.769 0.33 0.00 29.84 3.16
701 712 7.485418 TCATTTGACGTTTATGTACAGTTGT 57.515 32.000 0.33 0.00 0.00 3.32
702 713 7.921787 TCATTTGACGTTTATGTACAGTTGTT 58.078 30.769 0.33 0.00 0.00 2.83
703 714 8.399425 TCATTTGACGTTTATGTACAGTTGTTT 58.601 29.630 0.33 0.00 0.00 2.83
704 715 9.653067 CATTTGACGTTTATGTACAGTTGTTTA 57.347 29.630 0.33 0.00 0.00 2.01
705 716 9.872757 ATTTGACGTTTATGTACAGTTGTTTAG 57.127 29.630 0.33 0.00 0.00 1.85
708 719 7.225145 TGACGTTTATGTACAGTTGTTTAGCTT 59.775 33.333 0.33 0.00 0.00 3.74
711 722 9.525007 CGTTTATGTACAGTTGTTTAGCTTAAG 57.475 33.333 0.33 0.00 0.00 1.85
716 727 9.991906 ATGTACAGTTGTTTAGCTTAAGTAGAA 57.008 29.630 0.33 0.00 0.00 2.10
717 728 9.820725 TGTACAGTTGTTTAGCTTAAGTAGAAA 57.179 29.630 4.02 0.00 0.00 2.52
721 732 9.118236 CAGTTGTTTAGCTTAAGTAGAAAATGC 57.882 33.333 4.02 0.00 0.00 3.56
722 733 8.015658 AGTTGTTTAGCTTAAGTAGAAAATGCG 58.984 33.333 4.02 0.00 0.00 4.73
724 735 7.515643 TGTTTAGCTTAAGTAGAAAATGCGAC 58.484 34.615 4.02 0.00 0.00 5.19
726 737 5.786401 AGCTTAAGTAGAAAATGCGACTG 57.214 39.130 4.02 0.00 0.00 3.51
727 738 5.238583 AGCTTAAGTAGAAAATGCGACTGT 58.761 37.500 4.02 0.00 0.00 3.55
728 739 5.120830 AGCTTAAGTAGAAAATGCGACTGTG 59.879 40.000 4.02 0.00 0.00 3.66
729 740 5.671329 GCTTAAGTAGAAAATGCGACTGTGG 60.671 44.000 4.02 0.00 0.00 4.17
731 742 2.038557 AGTAGAAAATGCGACTGTGGGT 59.961 45.455 0.00 0.00 0.00 4.51
732 743 2.851263 AGAAAATGCGACTGTGGGTA 57.149 45.000 0.00 0.00 0.00 3.69
733 744 2.423577 AGAAAATGCGACTGTGGGTAC 58.576 47.619 0.00 0.00 0.00 3.34
788 799 6.702716 TTTTTCATGGGATTAATCGGGTAC 57.297 37.500 9.32 0.00 0.00 3.34
790 801 5.640158 TTCATGGGATTAATCGGGTACTT 57.360 39.130 9.32 0.00 0.00 2.24
791 802 5.223449 TCATGGGATTAATCGGGTACTTC 57.777 43.478 9.32 0.00 0.00 3.01
793 804 4.682778 TGGGATTAATCGGGTACTTCTG 57.317 45.455 9.32 0.00 0.00 3.02
794 805 4.291792 TGGGATTAATCGGGTACTTCTGA 58.708 43.478 9.32 0.00 0.00 3.27
795 806 4.905456 TGGGATTAATCGGGTACTTCTGAT 59.095 41.667 9.32 0.00 34.46 2.90
796 807 5.368523 TGGGATTAATCGGGTACTTCTGATT 59.631 40.000 9.32 10.04 43.08 2.57
797 808 5.932883 GGGATTAATCGGGTACTTCTGATTC 59.067 44.000 9.32 0.00 40.67 2.52
798 809 6.463897 GGGATTAATCGGGTACTTCTGATTCA 60.464 42.308 9.32 1.25 40.67 2.57
799 810 6.990349 GGATTAATCGGGTACTTCTGATTCAA 59.010 38.462 9.32 4.74 40.67 2.69
800 811 7.041984 GGATTAATCGGGTACTTCTGATTCAAC 60.042 40.741 9.32 0.30 40.67 3.18
801 812 4.819105 ATCGGGTACTTCTGATTCAACA 57.181 40.909 0.00 0.00 29.01 3.33
803 814 5.160607 TCGGGTACTTCTGATTCAACATT 57.839 39.130 0.00 0.00 0.00 2.71
804 815 6.288941 TCGGGTACTTCTGATTCAACATTA 57.711 37.500 0.00 0.00 0.00 1.90
805 816 6.884832 TCGGGTACTTCTGATTCAACATTAT 58.115 36.000 0.00 0.00 0.00 1.28
806 817 7.335627 TCGGGTACTTCTGATTCAACATTATT 58.664 34.615 0.00 0.00 0.00 1.40
807 818 7.279981 TCGGGTACTTCTGATTCAACATTATTG 59.720 37.037 0.00 0.00 0.00 1.90
808 819 7.467267 CGGGTACTTCTGATTCAACATTATTGG 60.467 40.741 0.00 0.00 0.00 3.16
809 820 7.339466 GGGTACTTCTGATTCAACATTATTGGT 59.661 37.037 0.00 0.00 0.00 3.67
810 821 8.739972 GGTACTTCTGATTCAACATTATTGGTT 58.260 33.333 0.00 0.00 0.00 3.67
811 822 9.774742 GTACTTCTGATTCAACATTATTGGTTC 57.225 33.333 0.00 0.00 0.00 3.62
812 823 8.641498 ACTTCTGATTCAACATTATTGGTTCT 57.359 30.769 0.00 0.00 0.00 3.01
822 833 9.747898 TCAACATTATTGGTTCTTAATGGTAGT 57.252 29.630 7.38 0.00 39.19 2.73
829 840 8.823220 ATTGGTTCTTAATGGTAGTATTTGCT 57.177 30.769 0.00 0.00 0.00 3.91
830 841 7.859325 TGGTTCTTAATGGTAGTATTTGCTC 57.141 36.000 0.00 0.00 0.00 4.26
831 842 7.630082 TGGTTCTTAATGGTAGTATTTGCTCT 58.370 34.615 0.00 0.00 0.00 4.09
833 844 8.398665 GGTTCTTAATGGTAGTATTTGCTCTTG 58.601 37.037 0.00 0.00 0.00 3.02
835 846 8.718102 TCTTAATGGTAGTATTTGCTCTTGAC 57.282 34.615 0.00 0.00 0.00 3.18
836 847 8.318412 TCTTAATGGTAGTATTTGCTCTTGACA 58.682 33.333 0.00 0.00 0.00 3.58
837 848 6.992063 AATGGTAGTATTTGCTCTTGACAG 57.008 37.500 0.00 0.00 0.00 3.51
838 849 4.832248 TGGTAGTATTTGCTCTTGACAGG 58.168 43.478 0.00 0.00 0.00 4.00
839 850 4.286032 TGGTAGTATTTGCTCTTGACAGGT 59.714 41.667 0.00 0.00 0.00 4.00
841 852 5.705905 GGTAGTATTTGCTCTTGACAGGTTT 59.294 40.000 0.00 0.00 0.00 3.27
842 853 6.206829 GGTAGTATTTGCTCTTGACAGGTTTT 59.793 38.462 0.00 0.00 0.00 2.43
843 854 6.076981 AGTATTTGCTCTTGACAGGTTTTG 57.923 37.500 0.00 0.00 0.00 2.44
845 856 2.435372 TGCTCTTGACAGGTTTTGGT 57.565 45.000 0.00 0.00 0.00 3.67
846 857 2.023673 TGCTCTTGACAGGTTTTGGTG 58.976 47.619 0.00 0.00 0.00 4.17
847 858 1.338020 GCTCTTGACAGGTTTTGGTGG 59.662 52.381 0.00 0.00 0.00 4.61
849 860 3.490348 CTCTTGACAGGTTTTGGTGGAT 58.510 45.455 0.00 0.00 0.00 3.41
850 861 3.486383 TCTTGACAGGTTTTGGTGGATC 58.514 45.455 0.00 0.00 0.00 3.36
852 863 2.862541 TGACAGGTTTTGGTGGATCAG 58.137 47.619 0.00 0.00 0.00 2.90
853 864 2.174639 TGACAGGTTTTGGTGGATCAGT 59.825 45.455 0.00 0.00 0.00 3.41
854 865 2.554032 GACAGGTTTTGGTGGATCAGTG 59.446 50.000 0.00 0.00 0.00 3.66
855 866 1.888512 CAGGTTTTGGTGGATCAGTGG 59.111 52.381 0.00 0.00 0.00 4.00
858 869 1.535462 GTTTTGGTGGATCAGTGGACG 59.465 52.381 0.00 0.00 0.00 4.79
859 870 0.762418 TTTGGTGGATCAGTGGACGT 59.238 50.000 0.00 0.00 0.00 4.34
860 871 1.634960 TTGGTGGATCAGTGGACGTA 58.365 50.000 0.00 0.00 0.00 3.57
861 872 1.182667 TGGTGGATCAGTGGACGTAG 58.817 55.000 0.00 0.00 0.00 3.51
880 891 6.343703 ACGTAGTAGGTGTGTTTTCTTTCTT 58.656 36.000 0.00 0.00 41.94 2.52
882 893 6.292703 CGTAGTAGGTGTGTTTTCTTTCTTGG 60.293 42.308 0.00 0.00 0.00 3.61
884 895 6.365520 AGTAGGTGTGTTTTCTTTCTTGGAT 58.634 36.000 0.00 0.00 0.00 3.41
886 897 6.149129 AGGTGTGTTTTCTTTCTTGGATTC 57.851 37.500 0.00 0.00 0.00 2.52
887 898 5.656416 AGGTGTGTTTTCTTTCTTGGATTCA 59.344 36.000 0.00 0.00 0.00 2.57
890 901 8.141268 GGTGTGTTTTCTTTCTTGGATTCATAA 58.859 33.333 0.00 0.00 0.00 1.90
891 902 9.696917 GTGTGTTTTCTTTCTTGGATTCATAAT 57.303 29.630 0.00 0.00 0.00 1.28
900 911 9.815936 CTTTCTTGGATTCATAATTTTGTTTGC 57.184 29.630 0.00 0.00 0.00 3.68
901 912 9.558396 TTTCTTGGATTCATAATTTTGTTTGCT 57.442 25.926 0.00 0.00 0.00 3.91
903 914 8.991026 TCTTGGATTCATAATTTTGTTTGCTTG 58.009 29.630 0.00 0.00 0.00 4.01
904 915 8.899427 TTGGATTCATAATTTTGTTTGCTTGA 57.101 26.923 0.00 0.00 0.00 3.02
906 917 8.149647 TGGATTCATAATTTTGTTTGCTTGACT 58.850 29.630 0.00 0.00 0.00 3.41
907 918 8.437742 GGATTCATAATTTTGTTTGCTTGACTG 58.562 33.333 0.00 0.00 0.00 3.51
909 920 8.939201 TTCATAATTTTGTTTGCTTGACTGAA 57.061 26.923 0.00 0.00 0.00 3.02
910 921 9.545105 TTCATAATTTTGTTTGCTTGACTGAAT 57.455 25.926 0.00 0.00 0.00 2.57
921 932 8.721478 GTTTGCTTGACTGAATCTATCAAGTAA 58.279 33.333 18.53 18.53 46.50 2.24
923 934 8.939929 TTGCTTGACTGAATCTATCAAGTAAAG 58.060 33.333 19.44 8.45 45.76 1.85
926 937 9.645059 CTTGACTGAATCTATCAAGTAAAGTGA 57.355 33.333 14.70 0.00 42.82 3.41
928 939 9.591792 TGACTGAATCTATCAAGTAAAGTGATG 57.408 33.333 0.00 0.00 37.67 3.07
939 950 9.624373 ATCAAGTAAAGTGATGAATATGCTCTT 57.376 29.630 0.00 0.00 34.40 2.85
943 954 9.678260 AGTAAAGTGATGAATATGCTCTTTTCT 57.322 29.630 0.00 0.00 0.00 2.52
948 959 9.453572 AGTGATGAATATGCTCTTTTCTAAACA 57.546 29.630 0.00 0.00 0.00 2.83
949 960 9.713740 GTGATGAATATGCTCTTTTCTAAACAG 57.286 33.333 0.00 0.00 0.00 3.16
950 961 9.453572 TGATGAATATGCTCTTTTCTAAACAGT 57.546 29.630 0.00 0.00 0.00 3.55
954 965 8.773404 AATATGCTCTTTTCTAAACAGTACGT 57.227 30.769 0.00 0.00 0.00 3.57
955 966 5.900339 TGCTCTTTTCTAAACAGTACGTG 57.100 39.130 0.00 0.00 0.00 4.49
956 967 4.210537 TGCTCTTTTCTAAACAGTACGTGC 59.789 41.667 0.00 0.00 0.00 5.34
957 968 4.210537 GCTCTTTTCTAAACAGTACGTGCA 59.789 41.667 6.38 0.00 0.00 4.57
958 969 5.107065 GCTCTTTTCTAAACAGTACGTGCAT 60.107 40.000 6.38 0.00 0.00 3.96
959 970 6.565999 GCTCTTTTCTAAACAGTACGTGCATT 60.566 38.462 6.38 0.61 0.00 3.56
960 971 6.655062 TCTTTTCTAAACAGTACGTGCATTG 58.345 36.000 6.38 0.00 0.00 2.82
961 972 4.398549 TTCTAAACAGTACGTGCATTGC 57.601 40.909 6.38 0.46 0.00 3.56
962 973 2.739913 TCTAAACAGTACGTGCATTGCC 59.260 45.455 6.38 0.00 0.00 4.52
963 974 1.604604 AAACAGTACGTGCATTGCCT 58.395 45.000 6.38 0.00 0.00 4.75
964 975 0.874390 AACAGTACGTGCATTGCCTG 59.126 50.000 6.38 8.12 0.00 4.85
965 976 0.034756 ACAGTACGTGCATTGCCTGA 59.965 50.000 15.76 0.00 0.00 3.86
967 978 0.034756 AGTACGTGCATTGCCTGACA 59.965 50.000 6.38 0.00 0.00 3.58
969 980 0.034756 TACGTGCATTGCCTGACACT 59.965 50.000 6.12 0.00 32.85 3.55
1124 7566 6.823689 AGTACTCAAAAGAATCGCCACAATAT 59.176 34.615 0.00 0.00 0.00 1.28
1232 7676 5.106118 TGTGTTCGATCTTTCCAAACAACAA 60.106 36.000 0.00 0.00 32.17 2.83
1554 8008 2.619646 TCCAAGCAACCCTTTCGTAAAC 59.380 45.455 0.00 0.00 0.00 2.01
1882 8338 1.134491 CGGGTCCTTTCCGCTCTAATT 60.134 52.381 0.00 0.00 41.07 1.40
2041 8497 3.567397 ACCAGCTACAGTACCTATCAGG 58.433 50.000 0.00 0.00 42.49 3.86
2058 8514 4.647564 TCAGGCAAAGAGGAATTCTTCT 57.352 40.909 13.98 13.98 45.41 2.85
2061 8517 4.335037 CAGGCAAAGAGGAATTCTTCTAGC 59.665 45.833 24.69 24.69 45.41 3.42
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
156 163 4.142038 GGTCCCACAAGTGTTCTTACATT 58.858 43.478 0.00 0.00 36.50 2.71
157 164 3.751518 GGTCCCACAAGTGTTCTTACAT 58.248 45.455 0.00 0.00 36.50 2.29
265 274 1.628846 GTAGAAGAAGGCCAAGTGGGA 59.371 52.381 5.01 0.00 40.01 4.37
378 388 2.363795 TGGGGCGAAGAGGACGAT 60.364 61.111 0.00 0.00 0.00 3.73
483 494 4.333649 CACTACAATTCCACATAGCCACAG 59.666 45.833 0.00 0.00 0.00 3.66
516 527 7.721842 AGAGTTCCGATCTATCAACTGAATCTA 59.278 37.037 1.61 0.00 0.00 1.98
565 576 1.588404 CAACGCCACAGATCGTATCAC 59.412 52.381 0.00 0.00 38.03 3.06
566 577 1.474879 TCAACGCCACAGATCGTATCA 59.525 47.619 0.00 0.00 38.03 2.15
569 580 1.271379 ACTTCAACGCCACAGATCGTA 59.729 47.619 0.00 0.00 38.03 3.43
570 581 0.033504 ACTTCAACGCCACAGATCGT 59.966 50.000 0.00 0.00 41.06 3.73
571 582 1.920574 CTACTTCAACGCCACAGATCG 59.079 52.381 0.00 0.00 0.00 3.69
572 583 2.924290 GACTACTTCAACGCCACAGATC 59.076 50.000 0.00 0.00 0.00 2.75
573 584 2.563179 AGACTACTTCAACGCCACAGAT 59.437 45.455 0.00 0.00 0.00 2.90
575 586 2.440539 AGACTACTTCAACGCCACAG 57.559 50.000 0.00 0.00 0.00 3.66
577 588 6.018994 CCAATAATAGACTACTTCAACGCCAC 60.019 42.308 0.00 0.00 0.00 5.01
578 589 6.046593 CCAATAATAGACTACTTCAACGCCA 58.953 40.000 0.00 0.00 0.00 5.69
579 590 6.278363 TCCAATAATAGACTACTTCAACGCC 58.722 40.000 0.00 0.00 0.00 5.68
580 591 7.766219 TTCCAATAATAGACTACTTCAACGC 57.234 36.000 0.00 0.00 0.00 4.84
598 609 7.123997 TGCCAAACTGTATCACATAATTCCAAT 59.876 33.333 0.00 0.00 0.00 3.16
599 610 6.435591 TGCCAAACTGTATCACATAATTCCAA 59.564 34.615 0.00 0.00 0.00 3.53
607 618 7.775093 AGTTGTATATGCCAAACTGTATCACAT 59.225 33.333 0.00 0.00 0.00 3.21
608 619 7.109501 AGTTGTATATGCCAAACTGTATCACA 58.890 34.615 0.00 0.00 0.00 3.58
609 620 7.553881 AGTTGTATATGCCAAACTGTATCAC 57.446 36.000 0.00 0.00 0.00 3.06
610 621 8.574251 AAAGTTGTATATGCCAAACTGTATCA 57.426 30.769 0.00 0.00 0.00 2.15
611 622 8.673711 TGAAAGTTGTATATGCCAAACTGTATC 58.326 33.333 0.00 0.31 0.00 2.24
612 623 8.574251 TGAAAGTTGTATATGCCAAACTGTAT 57.426 30.769 0.00 0.00 0.00 2.29
613 624 7.120579 CCTGAAAGTTGTATATGCCAAACTGTA 59.879 37.037 0.00 0.00 0.00 2.74
615 626 6.150976 TCCTGAAAGTTGTATATGCCAAACTG 59.849 38.462 0.00 0.00 0.00 3.16
617 628 6.151144 AGTCCTGAAAGTTGTATATGCCAAAC 59.849 38.462 0.00 0.00 0.00 2.93
618 629 6.245408 AGTCCTGAAAGTTGTATATGCCAAA 58.755 36.000 0.00 0.00 0.00 3.28
619 630 5.815581 AGTCCTGAAAGTTGTATATGCCAA 58.184 37.500 0.00 0.00 0.00 4.52
620 631 5.435686 AGTCCTGAAAGTTGTATATGCCA 57.564 39.130 0.00 0.00 0.00 4.92
621 632 6.404734 CCAAAGTCCTGAAAGTTGTATATGCC 60.405 42.308 0.00 0.00 0.00 4.40
622 633 6.374333 TCCAAAGTCCTGAAAGTTGTATATGC 59.626 38.462 0.00 0.00 0.00 3.14
625 636 7.458397 ACATCCAAAGTCCTGAAAGTTGTATA 58.542 34.615 0.00 0.00 0.00 1.47
626 637 6.306987 ACATCCAAAGTCCTGAAAGTTGTAT 58.693 36.000 0.00 0.00 0.00 2.29
627 638 5.690865 ACATCCAAAGTCCTGAAAGTTGTA 58.309 37.500 0.00 0.00 0.00 2.41
628 639 4.536765 ACATCCAAAGTCCTGAAAGTTGT 58.463 39.130 0.00 0.00 0.00 3.32
629 640 5.997746 TCTACATCCAAAGTCCTGAAAGTTG 59.002 40.000 0.00 0.00 0.00 3.16
630 641 6.187727 TCTACATCCAAAGTCCTGAAAGTT 57.812 37.500 0.00 0.00 0.00 2.66
633 644 9.177608 CATAATTCTACATCCAAAGTCCTGAAA 57.822 33.333 0.00 0.00 0.00 2.69
634 645 7.775093 CCATAATTCTACATCCAAAGTCCTGAA 59.225 37.037 0.00 0.00 0.00 3.02
635 646 7.127186 TCCATAATTCTACATCCAAAGTCCTGA 59.873 37.037 0.00 0.00 0.00 3.86
636 647 7.282585 TCCATAATTCTACATCCAAAGTCCTG 58.717 38.462 0.00 0.00 0.00 3.86
639 650 8.682936 ACATCCATAATTCTACATCCAAAGTC 57.317 34.615 0.00 0.00 0.00 3.01
640 651 9.561069 GTACATCCATAATTCTACATCCAAAGT 57.439 33.333 0.00 0.00 0.00 2.66
642 653 7.659799 CGGTACATCCATAATTCTACATCCAAA 59.340 37.037 0.00 0.00 35.57 3.28
644 655 6.495526 TCGGTACATCCATAATTCTACATCCA 59.504 38.462 0.00 0.00 35.57 3.41
645 656 6.931838 TCGGTACATCCATAATTCTACATCC 58.068 40.000 0.00 0.00 35.57 3.51
646 657 7.870954 TGTTCGGTACATCCATAATTCTACATC 59.129 37.037 0.00 0.00 35.57 3.06
647 658 7.732025 TGTTCGGTACATCCATAATTCTACAT 58.268 34.615 0.00 0.00 35.57 2.29
648 659 7.114866 TGTTCGGTACATCCATAATTCTACA 57.885 36.000 0.00 0.00 35.57 2.74
650 661 8.208224 ACATTGTTCGGTACATCCATAATTCTA 58.792 33.333 0.00 0.00 36.44 2.10
651 662 7.054124 ACATTGTTCGGTACATCCATAATTCT 58.946 34.615 0.00 0.00 36.44 2.40
652 663 7.259290 ACATTGTTCGGTACATCCATAATTC 57.741 36.000 0.00 0.00 36.44 2.17
653 664 7.338196 TGAACATTGTTCGGTACATCCATAATT 59.662 33.333 21.27 0.00 36.44 1.40
654 665 6.826231 TGAACATTGTTCGGTACATCCATAAT 59.174 34.615 21.27 0.00 36.44 1.28
655 666 6.174049 TGAACATTGTTCGGTACATCCATAA 58.826 36.000 21.27 0.19 36.44 1.90
656 667 5.735766 TGAACATTGTTCGGTACATCCATA 58.264 37.500 21.27 0.37 36.44 2.74
657 668 4.584874 TGAACATTGTTCGGTACATCCAT 58.415 39.130 21.27 0.00 36.44 3.41
658 669 4.009370 TGAACATTGTTCGGTACATCCA 57.991 40.909 21.27 2.08 36.44 3.41
660 671 6.523201 GTCAAATGAACATTGTTCGGTACATC 59.477 38.462 21.27 8.22 36.44 3.06
662 673 5.559225 CGTCAAATGAACATTGTTCGGTACA 60.559 40.000 21.27 7.52 34.12 2.90
663 674 4.843984 CGTCAAATGAACATTGTTCGGTAC 59.156 41.667 21.27 14.25 0.00 3.34
664 675 4.512198 ACGTCAAATGAACATTGTTCGGTA 59.488 37.500 21.27 7.61 0.00 4.02
665 676 3.314080 ACGTCAAATGAACATTGTTCGGT 59.686 39.130 21.27 11.89 0.00 4.69
666 677 3.884169 ACGTCAAATGAACATTGTTCGG 58.116 40.909 21.27 12.47 0.00 4.30
667 678 5.864830 AAACGTCAAATGAACATTGTTCG 57.135 34.783 21.27 12.43 0.00 3.95
668 679 8.280909 ACATAAACGTCAAATGAACATTGTTC 57.719 30.769 20.27 20.27 0.00 3.18
671 682 8.720909 TGTACATAAACGTCAAATGAACATTG 57.279 30.769 10.61 0.00 0.00 2.82
673 684 8.094798 ACTGTACATAAACGTCAAATGAACAT 57.905 30.769 10.61 0.00 0.00 2.71
674 685 7.485418 ACTGTACATAAACGTCAAATGAACA 57.515 32.000 10.61 0.91 0.00 3.18
675 686 7.853929 ACAACTGTACATAAACGTCAAATGAAC 59.146 33.333 10.61 0.00 0.00 3.18
677 688 7.485418 ACAACTGTACATAAACGTCAAATGA 57.515 32.000 10.61 0.00 0.00 2.57
678 689 8.555166 AAACAACTGTACATAAACGTCAAATG 57.445 30.769 0.00 0.00 0.00 2.32
679 690 9.872757 CTAAACAACTGTACATAAACGTCAAAT 57.127 29.630 0.00 0.00 0.00 2.32
682 693 6.702723 AGCTAAACAACTGTACATAAACGTCA 59.297 34.615 0.00 0.00 0.00 4.35
685 696 9.525007 CTTAAGCTAAACAACTGTACATAAACG 57.475 33.333 0.00 0.00 0.00 3.60
690 701 9.991906 TTCTACTTAAGCTAAACAACTGTACAT 57.008 29.630 1.29 0.00 0.00 2.29
691 702 9.820725 TTTCTACTTAAGCTAAACAACTGTACA 57.179 29.630 1.29 0.00 0.00 2.90
695 706 9.118236 GCATTTTCTACTTAAGCTAAACAACTG 57.882 33.333 1.29 0.00 0.00 3.16
696 707 8.015658 CGCATTTTCTACTTAAGCTAAACAACT 58.984 33.333 1.29 0.00 0.00 3.16
698 709 8.013378 GTCGCATTTTCTACTTAAGCTAAACAA 58.987 33.333 1.29 0.00 0.00 2.83
699 710 7.386848 AGTCGCATTTTCTACTTAAGCTAAACA 59.613 33.333 1.29 0.00 0.00 2.83
701 712 7.386848 ACAGTCGCATTTTCTACTTAAGCTAAA 59.613 33.333 1.29 0.00 0.00 1.85
702 713 6.872020 ACAGTCGCATTTTCTACTTAAGCTAA 59.128 34.615 1.29 0.00 0.00 3.09
703 714 6.310467 CACAGTCGCATTTTCTACTTAAGCTA 59.690 38.462 1.29 0.00 0.00 3.32
704 715 5.120830 CACAGTCGCATTTTCTACTTAAGCT 59.879 40.000 1.29 0.00 0.00 3.74
705 716 5.316770 CACAGTCGCATTTTCTACTTAAGC 58.683 41.667 1.29 0.00 0.00 3.09
708 719 4.250464 CCCACAGTCGCATTTTCTACTTA 58.750 43.478 0.00 0.00 0.00 2.24
711 722 2.423577 ACCCACAGTCGCATTTTCTAC 58.576 47.619 0.00 0.00 0.00 2.59
712 723 2.851263 ACCCACAGTCGCATTTTCTA 57.149 45.000 0.00 0.00 0.00 2.10
713 724 2.423577 GTACCCACAGTCGCATTTTCT 58.576 47.619 0.00 0.00 0.00 2.52
714 725 1.467342 GGTACCCACAGTCGCATTTTC 59.533 52.381 0.00 0.00 0.00 2.29
715 726 1.202830 TGGTACCCACAGTCGCATTTT 60.203 47.619 10.07 0.00 0.00 1.82
716 727 0.398696 TGGTACCCACAGTCGCATTT 59.601 50.000 10.07 0.00 0.00 2.32
717 728 0.398696 TTGGTACCCACAGTCGCATT 59.601 50.000 10.07 0.00 30.78 3.56
719 730 0.398696 AATTGGTACCCACAGTCGCA 59.601 50.000 10.07 0.00 30.78 5.10
720 731 0.802494 CAATTGGTACCCACAGTCGC 59.198 55.000 10.07 0.00 30.78 5.19
721 732 2.178912 ACAATTGGTACCCACAGTCG 57.821 50.000 10.07 0.00 30.78 4.18
722 733 3.219281 ACAACAATTGGTACCCACAGTC 58.781 45.455 10.07 0.00 30.78 3.51
724 735 3.218453 TGACAACAATTGGTACCCACAG 58.782 45.455 10.07 0.00 30.78 3.66
726 737 4.864704 ATTGACAACAATTGGTACCCAC 57.135 40.909 10.07 0.00 43.17 4.61
765 776 6.428295 AGTACCCGATTAATCCCATGAAAAA 58.572 36.000 9.87 0.00 0.00 1.94
766 777 6.008696 AGTACCCGATTAATCCCATGAAAA 57.991 37.500 9.87 0.00 0.00 2.29
767 778 5.640158 AGTACCCGATTAATCCCATGAAA 57.360 39.130 9.87 0.00 0.00 2.69
768 779 5.368523 AGAAGTACCCGATTAATCCCATGAA 59.631 40.000 9.87 0.00 0.00 2.57
769 780 4.905456 AGAAGTACCCGATTAATCCCATGA 59.095 41.667 9.87 0.00 0.00 3.07
770 781 4.997395 CAGAAGTACCCGATTAATCCCATG 59.003 45.833 9.87 0.00 0.00 3.66
771 782 4.905456 TCAGAAGTACCCGATTAATCCCAT 59.095 41.667 9.87 0.00 0.00 4.00
773 784 4.950205 TCAGAAGTACCCGATTAATCCC 57.050 45.455 9.87 0.00 0.00 3.85
774 785 6.522054 TGAATCAGAAGTACCCGATTAATCC 58.478 40.000 9.87 0.00 0.00 3.01
775 786 7.494625 TGTTGAATCAGAAGTACCCGATTAATC 59.505 37.037 5.30 5.30 0.00 1.75
776 787 7.335627 TGTTGAATCAGAAGTACCCGATTAAT 58.664 34.615 0.00 0.00 0.00 1.40
777 788 6.703319 TGTTGAATCAGAAGTACCCGATTAA 58.297 36.000 0.00 0.00 0.00 1.40
779 790 5.160607 TGTTGAATCAGAAGTACCCGATT 57.839 39.130 0.00 0.00 0.00 3.34
780 791 4.819105 TGTTGAATCAGAAGTACCCGAT 57.181 40.909 0.00 0.00 0.00 4.18
781 792 4.819105 ATGTTGAATCAGAAGTACCCGA 57.181 40.909 0.00 0.00 0.00 5.14
783 794 7.339466 ACCAATAATGTTGAATCAGAAGTACCC 59.661 37.037 0.00 0.00 0.00 3.69
784 795 8.281212 ACCAATAATGTTGAATCAGAAGTACC 57.719 34.615 0.00 0.00 0.00 3.34
785 796 9.774742 GAACCAATAATGTTGAATCAGAAGTAC 57.225 33.333 0.00 0.00 0.00 2.73
786 797 9.739276 AGAACCAATAATGTTGAATCAGAAGTA 57.261 29.630 0.00 0.00 0.00 2.24
787 798 8.641498 AGAACCAATAATGTTGAATCAGAAGT 57.359 30.769 0.00 0.00 0.00 3.01
796 807 9.747898 ACTACCATTAAGAACCAATAATGTTGA 57.252 29.630 0.00 0.00 37.66 3.18
803 814 9.914834 AGCAAATACTACCATTAAGAACCAATA 57.085 29.630 0.00 0.00 0.00 1.90
804 815 8.823220 AGCAAATACTACCATTAAGAACCAAT 57.177 30.769 0.00 0.00 0.00 3.16
805 816 8.107095 AGAGCAAATACTACCATTAAGAACCAA 58.893 33.333 0.00 0.00 0.00 3.67
806 817 7.630082 AGAGCAAATACTACCATTAAGAACCA 58.370 34.615 0.00 0.00 0.00 3.67
807 818 8.398665 CAAGAGCAAATACTACCATTAAGAACC 58.601 37.037 0.00 0.00 0.00 3.62
808 819 9.162764 TCAAGAGCAAATACTACCATTAAGAAC 57.837 33.333 0.00 0.00 0.00 3.01
809 820 9.162764 GTCAAGAGCAAATACTACCATTAAGAA 57.837 33.333 0.00 0.00 0.00 2.52
810 821 8.318412 TGTCAAGAGCAAATACTACCATTAAGA 58.682 33.333 0.00 0.00 0.00 2.10
811 822 8.492673 TGTCAAGAGCAAATACTACCATTAAG 57.507 34.615 0.00 0.00 0.00 1.85
812 823 7.552687 CCTGTCAAGAGCAAATACTACCATTAA 59.447 37.037 0.00 0.00 0.00 1.40
814 825 5.882557 CCTGTCAAGAGCAAATACTACCATT 59.117 40.000 0.00 0.00 0.00 3.16
815 826 5.045578 ACCTGTCAAGAGCAAATACTACCAT 60.046 40.000 0.00 0.00 0.00 3.55
816 827 4.286032 ACCTGTCAAGAGCAAATACTACCA 59.714 41.667 0.00 0.00 0.00 3.25
817 828 4.833390 ACCTGTCAAGAGCAAATACTACC 58.167 43.478 0.00 0.00 0.00 3.18
818 829 6.803154 AAACCTGTCAAGAGCAAATACTAC 57.197 37.500 0.00 0.00 0.00 2.73
819 830 6.206634 CCAAAACCTGTCAAGAGCAAATACTA 59.793 38.462 0.00 0.00 0.00 1.82
820 831 5.010012 CCAAAACCTGTCAAGAGCAAATACT 59.990 40.000 0.00 0.00 0.00 2.12
821 832 5.221244 ACCAAAACCTGTCAAGAGCAAATAC 60.221 40.000 0.00 0.00 0.00 1.89
822 833 4.892934 ACCAAAACCTGTCAAGAGCAAATA 59.107 37.500 0.00 0.00 0.00 1.40
823 834 3.706086 ACCAAAACCTGTCAAGAGCAAAT 59.294 39.130 0.00 0.00 0.00 2.32
825 836 2.426738 CACCAAAACCTGTCAAGAGCAA 59.573 45.455 0.00 0.00 0.00 3.91
826 837 2.023673 CACCAAAACCTGTCAAGAGCA 58.976 47.619 0.00 0.00 0.00 4.26
827 838 1.338020 CCACCAAAACCTGTCAAGAGC 59.662 52.381 0.00 0.00 0.00 4.09
828 839 2.930950 TCCACCAAAACCTGTCAAGAG 58.069 47.619 0.00 0.00 0.00 2.85
829 840 3.117701 TGATCCACCAAAACCTGTCAAGA 60.118 43.478 0.00 0.00 0.00 3.02
830 841 3.221771 TGATCCACCAAAACCTGTCAAG 58.778 45.455 0.00 0.00 0.00 3.02
831 842 3.221771 CTGATCCACCAAAACCTGTCAA 58.778 45.455 0.00 0.00 0.00 3.18
833 844 2.554032 CACTGATCCACCAAAACCTGTC 59.446 50.000 0.00 0.00 0.00 3.51
835 846 1.888512 CCACTGATCCACCAAAACCTG 59.111 52.381 0.00 0.00 0.00 4.00
836 847 1.780309 TCCACTGATCCACCAAAACCT 59.220 47.619 0.00 0.00 0.00 3.50
837 848 1.886542 GTCCACTGATCCACCAAAACC 59.113 52.381 0.00 0.00 0.00 3.27
838 849 1.535462 CGTCCACTGATCCACCAAAAC 59.465 52.381 0.00 0.00 0.00 2.43
839 850 1.142060 ACGTCCACTGATCCACCAAAA 59.858 47.619 0.00 0.00 0.00 2.44
841 852 1.548719 CTACGTCCACTGATCCACCAA 59.451 52.381 0.00 0.00 0.00 3.67
842 853 1.182667 CTACGTCCACTGATCCACCA 58.817 55.000 0.00 0.00 0.00 4.17
843 854 1.183549 ACTACGTCCACTGATCCACC 58.816 55.000 0.00 0.00 0.00 4.61
845 856 2.025605 ACCTACTACGTCCACTGATCCA 60.026 50.000 0.00 0.00 0.00 3.41
846 857 2.358267 CACCTACTACGTCCACTGATCC 59.642 54.545 0.00 0.00 0.00 3.36
847 858 3.015327 ACACCTACTACGTCCACTGATC 58.985 50.000 0.00 0.00 0.00 2.92
849 860 2.156917 CACACCTACTACGTCCACTGA 58.843 52.381 0.00 0.00 0.00 3.41
850 861 1.884579 ACACACCTACTACGTCCACTG 59.115 52.381 0.00 0.00 0.00 3.66
852 863 3.375782 AAACACACCTACTACGTCCAC 57.624 47.619 0.00 0.00 0.00 4.02
853 864 3.638160 AGAAAACACACCTACTACGTCCA 59.362 43.478 0.00 0.00 0.00 4.02
854 865 4.248691 AGAAAACACACCTACTACGTCC 57.751 45.455 0.00 0.00 0.00 4.79
855 866 5.981915 AGAAAGAAAACACACCTACTACGTC 59.018 40.000 0.00 0.00 0.00 4.34
858 869 6.764560 TCCAAGAAAGAAAACACACCTACTAC 59.235 38.462 0.00 0.00 0.00 2.73
859 870 6.891388 TCCAAGAAAGAAAACACACCTACTA 58.109 36.000 0.00 0.00 0.00 1.82
860 871 5.751586 TCCAAGAAAGAAAACACACCTACT 58.248 37.500 0.00 0.00 0.00 2.57
861 872 6.635030 ATCCAAGAAAGAAAACACACCTAC 57.365 37.500 0.00 0.00 0.00 3.18
862 873 6.831353 TGAATCCAAGAAAGAAAACACACCTA 59.169 34.615 0.00 0.00 0.00 3.08
864 875 5.901552 TGAATCCAAGAAAGAAAACACACC 58.098 37.500 0.00 0.00 0.00 4.16
874 885 9.815936 GCAAACAAAATTATGAATCCAAGAAAG 57.184 29.630 0.00 0.00 0.00 2.62
875 886 9.558396 AGCAAACAAAATTATGAATCCAAGAAA 57.442 25.926 0.00 0.00 0.00 2.52
876 887 9.558396 AAGCAAACAAAATTATGAATCCAAGAA 57.442 25.926 0.00 0.00 0.00 2.52
878 889 8.991026 TCAAGCAAACAAAATTATGAATCCAAG 58.009 29.630 0.00 0.00 0.00 3.61
880 891 8.149647 AGTCAAGCAAACAAAATTATGAATCCA 58.850 29.630 0.00 0.00 0.00 3.41
882 893 9.195411 TCAGTCAAGCAAACAAAATTATGAATC 57.805 29.630 0.00 0.00 0.00 2.52
884 895 8.939201 TTCAGTCAAGCAAACAAAATTATGAA 57.061 26.923 0.00 0.00 0.00 2.57
886 897 9.199982 AGATTCAGTCAAGCAAACAAAATTATG 57.800 29.630 0.00 0.00 0.00 1.90
890 901 8.579006 TGATAGATTCAGTCAAGCAAACAAAAT 58.421 29.630 0.00 0.00 0.00 1.82
891 902 7.939782 TGATAGATTCAGTCAAGCAAACAAAA 58.060 30.769 0.00 0.00 0.00 2.44
892 903 7.509141 TGATAGATTCAGTCAAGCAAACAAA 57.491 32.000 0.00 0.00 0.00 2.83
893 904 7.509141 TTGATAGATTCAGTCAAGCAAACAA 57.491 32.000 0.00 0.00 35.27 2.83
903 914 9.809096 TCATCACTTTACTTGATAGATTCAGTC 57.191 33.333 0.00 0.00 35.27 3.51
913 924 9.624373 AAGAGCATATTCATCACTTTACTTGAT 57.376 29.630 0.00 0.00 33.81 2.57
914 925 9.453572 AAAGAGCATATTCATCACTTTACTTGA 57.546 29.630 0.00 0.00 0.00 3.02
923 934 9.713740 CTGTTTAGAAAAGAGCATATTCATCAC 57.286 33.333 0.00 0.00 0.00 3.06
924 935 9.453572 ACTGTTTAGAAAAGAGCATATTCATCA 57.546 29.630 0.00 0.00 0.00 3.07
927 938 8.869897 CGTACTGTTTAGAAAAGAGCATATTCA 58.130 33.333 0.00 0.00 0.00 2.57
928 939 8.870879 ACGTACTGTTTAGAAAAGAGCATATTC 58.129 33.333 0.00 0.00 0.00 1.75
931 942 6.090358 GCACGTACTGTTTAGAAAAGAGCATA 59.910 38.462 0.00 0.00 0.00 3.14
932 943 5.107065 GCACGTACTGTTTAGAAAAGAGCAT 60.107 40.000 0.00 0.00 0.00 3.79
933 944 4.210537 GCACGTACTGTTTAGAAAAGAGCA 59.789 41.667 0.00 0.00 0.00 4.26
934 945 4.210537 TGCACGTACTGTTTAGAAAAGAGC 59.789 41.667 0.00 0.00 0.00 4.09
936 947 6.655062 CAATGCACGTACTGTTTAGAAAAGA 58.345 36.000 0.00 0.00 0.00 2.52
937 948 5.339611 GCAATGCACGTACTGTTTAGAAAAG 59.660 40.000 0.00 0.00 0.00 2.27
939 950 4.319911 GGCAATGCACGTACTGTTTAGAAA 60.320 41.667 7.79 0.00 0.00 2.52
941 952 2.739913 GGCAATGCACGTACTGTTTAGA 59.260 45.455 7.79 0.00 0.00 2.10
943 954 2.482336 CAGGCAATGCACGTACTGTTTA 59.518 45.455 7.79 0.00 0.00 2.01
944 955 1.266718 CAGGCAATGCACGTACTGTTT 59.733 47.619 7.79 0.00 0.00 2.83
945 956 0.874390 CAGGCAATGCACGTACTGTT 59.126 50.000 7.79 0.00 0.00 3.16
946 957 0.034756 TCAGGCAATGCACGTACTGT 59.965 50.000 7.79 0.00 0.00 3.55
948 959 0.034756 TGTCAGGCAATGCACGTACT 59.965 50.000 7.79 0.00 0.00 2.73
949 960 0.165944 GTGTCAGGCAATGCACGTAC 59.834 55.000 7.79 0.00 0.00 3.67
950 961 0.034756 AGTGTCAGGCAATGCACGTA 59.965 50.000 7.79 0.00 39.46 3.57
951 962 0.034756 TAGTGTCAGGCAATGCACGT 59.965 50.000 7.79 0.00 39.46 4.49
952 963 1.372582 ATAGTGTCAGGCAATGCACG 58.627 50.000 7.79 0.00 39.46 5.34
954 965 4.191544 GACTTATAGTGTCAGGCAATGCA 58.808 43.478 7.79 0.00 34.80 3.96
955 966 4.191544 TGACTTATAGTGTCAGGCAATGC 58.808 43.478 0.00 0.00 39.23 3.56
956 967 6.017605 GGATTGACTTATAGTGTCAGGCAATG 60.018 42.308 6.86 0.00 44.75 2.82
957 968 6.058183 GGATTGACTTATAGTGTCAGGCAAT 58.942 40.000 2.04 2.04 46.93 3.56
958 969 5.045942 TGGATTGACTTATAGTGTCAGGCAA 60.046 40.000 9.54 0.00 43.98 4.52
959 970 4.469586 TGGATTGACTTATAGTGTCAGGCA 59.530 41.667 9.54 0.00 43.98 4.75
960 971 5.023533 TGGATTGACTTATAGTGTCAGGC 57.976 43.478 9.54 6.97 43.98 4.85
961 972 7.921786 TTTTGGATTGACTTATAGTGTCAGG 57.078 36.000 9.54 0.00 43.98 3.86
962 973 9.219603 TCTTTTTGGATTGACTTATAGTGTCAG 57.780 33.333 9.54 0.00 43.98 3.51
963 974 9.567776 TTCTTTTTGGATTGACTTATAGTGTCA 57.432 29.630 6.57 6.57 41.94 3.58
1124 7566 7.762588 TTTTTGAATTCTAATTGTCCGGGTA 57.237 32.000 0.00 0.00 0.00 3.69
1554 8008 5.751028 TGAATTTACGAAAAGTTTGCTTGGG 59.249 36.000 0.00 0.00 34.71 4.12
1763 8217 6.496911 TCGAGGATCCAATATCTTATTCCACA 59.503 38.462 15.82 0.00 0.00 4.17
1906 8362 9.344772 TGTAAACATGAAAAAGTAGGAGCTTAA 57.655 29.630 0.00 0.00 0.00 1.85
2058 8514 1.071699 GGGAAATGGCCGATACTGCTA 59.928 52.381 0.00 0.00 0.00 3.49
2061 8517 0.474184 AGGGGAAATGGCCGATACTG 59.526 55.000 0.00 0.00 0.00 2.74


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

AutoCloner maintained by Alex Coulton.