Multiple sequence alignment - TraesCS5A01G446700

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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 TraesCS5A01G446700 chr5A 100.000 2469 0 0 1 2469 626273810 626276278 0.000000e+00 4560.0
1 TraesCS5A01G446700 chr5A 77.544 285 48 7 2055 2338 612155224 612155493 9.140000e-35 158.0
2 TraesCS5A01G446700 chr5D 91.950 1826 90 28 676 2469 501033402 501031602 0.000000e+00 2505.0
3 TraesCS5A01G446700 chr5D 92.248 516 8 9 1 508 501033894 501033403 0.000000e+00 702.0
4 TraesCS5A01G446700 chr5D 85.161 155 13 7 301 447 490457390 490457542 1.530000e-32 150.0
5 TraesCS5A01G446700 chr5D 84.472 161 13 6 301 451 441592296 441592454 5.500000e-32 148.0
6 TraesCS5A01G446700 chr5D 83.041 171 16 3 2176 2346 490466449 490466606 2.560000e-30 143.0
7 TraesCS5A01G446700 chr5B 91.789 682 42 3 1788 2469 622552286 622551619 0.000000e+00 937.0
8 TraesCS5A01G446700 chr5B 78.205 312 45 8 2055 2365 604881682 604881971 7.020000e-41 178.0
9 TraesCS5A01G446700 chr7B 82.524 618 70 11 880 1488 53254064 53253476 2.190000e-140 508.0
10 TraesCS5A01G446700 chr7B 90.000 50 3 2 795 842 53254244 53254293 2.050000e-06 63.9
11 TraesCS5A01G446700 chr1D 83.887 391 53 10 415 798 46308448 46308061 5.020000e-97 364.0
12 TraesCS5A01G446700 chr7A 92.000 50 2 2 795 842 100713995 100713946 4.410000e-08 69.4


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 TraesCS5A01G446700 chr5A 626273810 626276278 2468 False 4560.0 4560 100.000 1 2469 1 chr5A.!!$F2 2468
1 TraesCS5A01G446700 chr5D 501031602 501033894 2292 True 1603.5 2505 92.099 1 2469 2 chr5D.!!$R1 2468
2 TraesCS5A01G446700 chr5B 622551619 622552286 667 True 937.0 937 91.789 1788 2469 1 chr5B.!!$R1 681
3 TraesCS5A01G446700 chr7B 53253476 53254064 588 True 508.0 508 82.524 880 1488 1 chr7B.!!$R1 608

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
673 682 0.174845 TTGCTCCGTTCCTGGATACG 59.825 55.0 18.31 18.31 37.41 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1581 1641 0.474184 CCAGGAACACAGGGACAAGT 59.526 55.0 0.0 0.0 0.0 3.16 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
194 203 5.902681 ACATGGATGAATCAAATTCTGCAG 58.097 37.500 7.63 7.63 39.96 4.41
219 228 8.636213 AGCTGATTGGATAGGTTGATAAAATTG 58.364 33.333 0.00 0.00 0.00 2.32
220 229 8.416329 GCTGATTGGATAGGTTGATAAAATTGT 58.584 33.333 0.00 0.00 0.00 2.71
221 230 9.740239 CTGATTGGATAGGTTGATAAAATTGTG 57.260 33.333 0.00 0.00 0.00 3.33
224 233 9.874205 ATTGGATAGGTTGATAAAATTGTGTTG 57.126 29.630 0.00 0.00 0.00 3.33
225 234 8.415950 TGGATAGGTTGATAAAATTGTGTTGT 57.584 30.769 0.00 0.00 0.00 3.32
226 235 8.865090 TGGATAGGTTGATAAAATTGTGTTGTT 58.135 29.630 0.00 0.00 0.00 2.83
227 236 9.139174 GGATAGGTTGATAAAATTGTGTTGTTG 57.861 33.333 0.00 0.00 0.00 3.33
228 237 9.691362 GATAGGTTGATAAAATTGTGTTGTTGT 57.309 29.630 0.00 0.00 0.00 3.32
229 238 7.769272 AGGTTGATAAAATTGTGTTGTTGTG 57.231 32.000 0.00 0.00 0.00 3.33
230 239 7.327214 AGGTTGATAAAATTGTGTTGTTGTGT 58.673 30.769 0.00 0.00 0.00 3.72
231 240 8.470805 AGGTTGATAAAATTGTGTTGTTGTGTA 58.529 29.630 0.00 0.00 0.00 2.90
232 241 9.255304 GGTTGATAAAATTGTGTTGTTGTGTAT 57.745 29.630 0.00 0.00 0.00 2.29
234 243 9.469807 TTGATAAAATTGTGTTGTTGTGTATCC 57.530 29.630 0.00 0.00 0.00 2.59
235 244 8.633561 TGATAAAATTGTGTTGTTGTGTATCCA 58.366 29.630 0.00 0.00 0.00 3.41
236 245 9.128107 GATAAAATTGTGTTGTTGTGTATCCAG 57.872 33.333 0.00 0.00 0.00 3.86
237 246 6.463995 AAATTGTGTTGTTGTGTATCCAGT 57.536 33.333 0.00 0.00 0.00 4.00
238 247 6.463995 AATTGTGTTGTTGTGTATCCAGTT 57.536 33.333 0.00 0.00 0.00 3.16
239 248 4.891627 TGTGTTGTTGTGTATCCAGTTG 57.108 40.909 0.00 0.00 0.00 3.16
240 249 4.518249 TGTGTTGTTGTGTATCCAGTTGA 58.482 39.130 0.00 0.00 0.00 3.18
241 250 4.574421 TGTGTTGTTGTGTATCCAGTTGAG 59.426 41.667 0.00 0.00 0.00 3.02
242 251 4.574828 GTGTTGTTGTGTATCCAGTTGAGT 59.425 41.667 0.00 0.00 0.00 3.41
243 252 5.756347 GTGTTGTTGTGTATCCAGTTGAGTA 59.244 40.000 0.00 0.00 0.00 2.59
244 253 5.756347 TGTTGTTGTGTATCCAGTTGAGTAC 59.244 40.000 0.00 0.00 0.00 2.73
245 254 5.801531 TGTTGTGTATCCAGTTGAGTACT 57.198 39.130 0.00 0.00 37.68 2.73
246 255 6.904463 TGTTGTGTATCCAGTTGAGTACTA 57.096 37.500 0.00 0.00 34.56 1.82
393 402 6.704937 TCTCATAAATGATGAAGCTGCTACAG 59.295 38.462 0.90 0.00 44.14 2.74
479 488 7.646884 AGGGATTAGAAAGGATTCACATTCTT 58.353 34.615 0.00 0.00 38.06 2.52
543 552 4.316025 TGGGAGAACTTAATTCCTTGGG 57.684 45.455 0.00 0.00 38.16 4.12
544 553 3.660669 TGGGAGAACTTAATTCCTTGGGT 59.339 43.478 0.00 0.00 38.16 4.51
545 554 4.263771 TGGGAGAACTTAATTCCTTGGGTC 60.264 45.833 0.00 0.00 38.16 4.46
546 555 4.263771 GGGAGAACTTAATTCCTTGGGTCA 60.264 45.833 0.00 0.00 38.16 4.02
547 556 5.321927 GGAGAACTTAATTCCTTGGGTCAA 58.678 41.667 0.00 0.00 38.16 3.18
548 557 5.416013 GGAGAACTTAATTCCTTGGGTCAAG 59.584 44.000 1.00 1.00 40.75 3.02
557 566 2.706339 CTTGGGTCAAGGGATGAGAG 57.294 55.000 0.05 0.00 39.19 3.20
558 567 0.620556 TTGGGTCAAGGGATGAGAGC 59.379 55.000 0.00 0.00 39.19 4.09
559 568 0.547471 TGGGTCAAGGGATGAGAGCA 60.547 55.000 0.00 0.00 39.19 4.26
560 569 0.842635 GGGTCAAGGGATGAGAGCAT 59.157 55.000 0.00 0.00 39.19 3.79
573 582 5.769484 ATGAGAGCATCAATTTAGCTTGG 57.231 39.130 0.00 0.00 42.53 3.61
574 583 4.847198 TGAGAGCATCAATTTAGCTTGGA 58.153 39.130 0.00 0.00 39.02 3.53
575 584 5.255687 TGAGAGCATCAATTTAGCTTGGAA 58.744 37.500 0.00 0.00 39.02 3.53
576 585 5.124457 TGAGAGCATCAATTTAGCTTGGAAC 59.876 40.000 0.00 0.00 39.02 3.62
577 586 5.012239 AGAGCATCAATTTAGCTTGGAACA 58.988 37.500 0.00 0.00 39.02 3.18
578 587 5.477984 AGAGCATCAATTTAGCTTGGAACAA 59.522 36.000 0.00 0.00 41.16 2.83
579 588 6.015180 AGAGCATCAATTTAGCTTGGAACAAA 60.015 34.615 0.00 0.00 41.16 2.83
580 589 6.815142 GAGCATCAATTTAGCTTGGAACAAAT 59.185 34.615 0.00 0.00 38.56 2.32
581 590 7.009907 GAGCATCAATTTAGCTTGGAACAAATC 59.990 37.037 0.00 0.00 38.56 2.17
595 604 6.442952 TGGAACAAATCATTTCTGGTAAACG 58.557 36.000 0.00 0.00 31.92 3.60
596 605 6.263392 TGGAACAAATCATTTCTGGTAAACGA 59.737 34.615 0.00 0.00 31.92 3.85
597 606 7.142680 GGAACAAATCATTTCTGGTAAACGAA 58.857 34.615 0.00 0.00 0.00 3.85
598 607 7.812669 GGAACAAATCATTTCTGGTAAACGAAT 59.187 33.333 0.00 0.00 0.00 3.34
599 608 9.191995 GAACAAATCATTTCTGGTAAACGAATT 57.808 29.630 0.00 0.00 0.00 2.17
600 609 8.519492 ACAAATCATTTCTGGTAAACGAATTG 57.481 30.769 0.00 0.00 0.00 2.32
601 610 8.356657 ACAAATCATTTCTGGTAAACGAATTGA 58.643 29.630 0.00 0.00 35.38 2.57
602 611 8.638565 CAAATCATTTCTGGTAAACGAATTGAC 58.361 33.333 0.00 0.00 34.40 3.18
603 612 6.869315 TCATTTCTGGTAAACGAATTGACA 57.131 33.333 0.00 0.00 29.61 3.58
604 613 7.447374 TCATTTCTGGTAAACGAATTGACAT 57.553 32.000 0.00 0.00 29.61 3.06
605 614 8.554835 TCATTTCTGGTAAACGAATTGACATA 57.445 30.769 0.00 0.00 29.61 2.29
606 615 8.447833 TCATTTCTGGTAAACGAATTGACATAC 58.552 33.333 0.00 0.00 29.61 2.39
607 616 7.972832 TTTCTGGTAAACGAATTGACATACT 57.027 32.000 0.00 0.00 0.00 2.12
608 617 7.972832 TTCTGGTAAACGAATTGACATACTT 57.027 32.000 0.00 0.00 0.00 2.24
609 618 7.972832 TCTGGTAAACGAATTGACATACTTT 57.027 32.000 0.00 0.00 0.00 2.66
610 619 9.491675 TTCTGGTAAACGAATTGACATACTTTA 57.508 29.630 0.00 0.00 0.00 1.85
611 620 9.661563 TCTGGTAAACGAATTGACATACTTTAT 57.338 29.630 0.00 0.00 0.00 1.40
616 625 8.460831 AAACGAATTGACATACTTTATTTGCC 57.539 30.769 0.00 0.00 0.00 4.52
617 626 7.151999 ACGAATTGACATACTTTATTTGCCA 57.848 32.000 0.00 0.00 0.00 4.92
618 627 7.250569 ACGAATTGACATACTTTATTTGCCAG 58.749 34.615 0.00 0.00 0.00 4.85
619 628 7.120579 ACGAATTGACATACTTTATTTGCCAGA 59.879 33.333 0.00 0.00 0.00 3.86
620 629 7.641411 CGAATTGACATACTTTATTTGCCAGAG 59.359 37.037 0.00 0.00 0.00 3.35
621 630 8.579850 AATTGACATACTTTATTTGCCAGAGA 57.420 30.769 0.00 0.00 0.00 3.10
622 631 7.615582 TTGACATACTTTATTTGCCAGAGAG 57.384 36.000 0.00 0.00 0.00 3.20
623 632 6.711277 TGACATACTTTATTTGCCAGAGAGT 58.289 36.000 0.00 0.00 0.00 3.24
624 633 7.847096 TGACATACTTTATTTGCCAGAGAGTA 58.153 34.615 0.00 0.00 0.00 2.59
625 634 8.318412 TGACATACTTTATTTGCCAGAGAGTAA 58.682 33.333 0.00 0.00 0.00 2.24
626 635 9.162764 GACATACTTTATTTGCCAGAGAGTAAA 57.837 33.333 0.00 0.00 0.00 2.01
627 636 9.167311 ACATACTTTATTTGCCAGAGAGTAAAG 57.833 33.333 0.00 0.00 36.03 1.85
628 637 8.616076 CATACTTTATTTGCCAGAGAGTAAAGG 58.384 37.037 0.00 0.00 34.89 3.11
629 638 6.779860 ACTTTATTTGCCAGAGAGTAAAGGA 58.220 36.000 0.00 0.00 34.89 3.36
630 639 6.881602 ACTTTATTTGCCAGAGAGTAAAGGAG 59.118 38.462 0.00 0.00 34.89 3.69
631 640 6.620877 TTATTTGCCAGAGAGTAAAGGAGA 57.379 37.500 0.00 0.00 0.00 3.71
632 641 4.974645 TTTGCCAGAGAGTAAAGGAGAA 57.025 40.909 0.00 0.00 0.00 2.87
633 642 4.974645 TTGCCAGAGAGTAAAGGAGAAA 57.025 40.909 0.00 0.00 0.00 2.52
634 643 5.505181 TTGCCAGAGAGTAAAGGAGAAAT 57.495 39.130 0.00 0.00 0.00 2.17
635 644 6.620877 TTGCCAGAGAGTAAAGGAGAAATA 57.379 37.500 0.00 0.00 0.00 1.40
636 645 6.620877 TGCCAGAGAGTAAAGGAGAAATAA 57.379 37.500 0.00 0.00 0.00 1.40
637 646 7.016153 TGCCAGAGAGTAAAGGAGAAATAAA 57.984 36.000 0.00 0.00 0.00 1.40
638 647 6.879458 TGCCAGAGAGTAAAGGAGAAATAAAC 59.121 38.462 0.00 0.00 0.00 2.01
639 648 7.106890 GCCAGAGAGTAAAGGAGAAATAAACT 58.893 38.462 0.00 0.00 0.00 2.66
640 649 7.279090 GCCAGAGAGTAAAGGAGAAATAAACTC 59.721 40.741 0.00 0.00 33.67 3.01
641 650 8.314751 CCAGAGAGTAAAGGAGAAATAAACTCA 58.685 37.037 0.00 0.00 35.46 3.41
642 651 9.364989 CAGAGAGTAAAGGAGAAATAAACTCAG 57.635 37.037 0.00 0.00 35.46 3.35
643 652 9.315363 AGAGAGTAAAGGAGAAATAAACTCAGA 57.685 33.333 0.00 0.00 35.46 3.27
644 653 9.930693 GAGAGTAAAGGAGAAATAAACTCAGAA 57.069 33.333 0.00 0.00 35.46 3.02
645 654 9.713713 AGAGTAAAGGAGAAATAAACTCAGAAC 57.286 33.333 0.00 0.00 35.46 3.01
646 655 9.490379 GAGTAAAGGAGAAATAAACTCAGAACA 57.510 33.333 0.00 0.00 36.26 3.18
651 660 9.442047 AAGGAGAAATAAACTCAGAACATAGTG 57.558 33.333 0.00 0.00 36.26 2.74
652 661 7.550906 AGGAGAAATAAACTCAGAACATAGTGC 59.449 37.037 0.00 0.00 36.26 4.40
653 662 7.550906 GGAGAAATAAACTCAGAACATAGTGCT 59.449 37.037 0.00 0.00 36.26 4.40
654 663 8.854614 AGAAATAAACTCAGAACATAGTGCTT 57.145 30.769 0.00 0.00 0.00 3.91
655 664 9.289782 AGAAATAAACTCAGAACATAGTGCTTT 57.710 29.630 0.00 0.00 0.00 3.51
656 665 9.334693 GAAATAAACTCAGAACATAGTGCTTTG 57.665 33.333 0.00 0.00 0.00 2.77
657 666 4.756084 AACTCAGAACATAGTGCTTTGC 57.244 40.909 0.00 0.00 0.00 3.68
658 667 4.013267 ACTCAGAACATAGTGCTTTGCT 57.987 40.909 0.00 0.00 0.00 3.91
659 668 3.999663 ACTCAGAACATAGTGCTTTGCTC 59.000 43.478 0.00 0.00 0.00 4.26
660 669 3.338249 TCAGAACATAGTGCTTTGCTCC 58.662 45.455 0.00 0.00 0.00 4.70
661 670 2.094894 CAGAACATAGTGCTTTGCTCCG 59.905 50.000 0.00 0.00 0.00 4.63
662 671 2.076863 GAACATAGTGCTTTGCTCCGT 58.923 47.619 0.00 0.00 0.00 4.69
663 672 2.185004 ACATAGTGCTTTGCTCCGTT 57.815 45.000 0.00 0.00 0.00 4.44
664 673 2.076863 ACATAGTGCTTTGCTCCGTTC 58.923 47.619 0.00 0.00 0.00 3.95
665 674 1.398390 CATAGTGCTTTGCTCCGTTCC 59.602 52.381 0.00 0.00 0.00 3.62
666 675 0.685097 TAGTGCTTTGCTCCGTTCCT 59.315 50.000 0.00 0.00 0.00 3.36
667 676 0.886490 AGTGCTTTGCTCCGTTCCTG 60.886 55.000 0.00 0.00 0.00 3.86
668 677 1.600636 TGCTTTGCTCCGTTCCTGG 60.601 57.895 0.00 0.00 0.00 4.45
669 678 1.302511 GCTTTGCTCCGTTCCTGGA 60.303 57.895 0.00 0.00 36.37 3.86
670 679 0.678048 GCTTTGCTCCGTTCCTGGAT 60.678 55.000 0.00 0.00 37.41 3.41
671 680 1.406887 GCTTTGCTCCGTTCCTGGATA 60.407 52.381 0.00 0.00 37.41 2.59
672 681 2.280628 CTTTGCTCCGTTCCTGGATAC 58.719 52.381 0.00 0.00 37.41 2.24
673 682 0.174845 TTGCTCCGTTCCTGGATACG 59.825 55.000 18.31 18.31 37.41 3.06
679 688 0.527817 CGTTCCTGGATACGGCAGTC 60.528 60.000 17.80 0.00 43.74 3.51
718 728 9.082313 GAGGGGTATTTTCATCATTTCATGTAT 57.918 33.333 0.00 0.00 0.00 2.29
719 729 9.438163 AGGGGTATTTTCATCATTTCATGTATT 57.562 29.630 0.00 0.00 0.00 1.89
726 736 7.595819 TTCATCATTTCATGTATTTACCCCC 57.404 36.000 0.00 0.00 0.00 5.40
804 814 9.869844 CTTCTTGTCACATTTCTTTTAGTACAG 57.130 33.333 0.00 0.00 0.00 2.74
883 924 9.061435 AGGTTTTGCTCTATTGCTTATATTCTC 57.939 33.333 0.00 0.00 0.00 2.87
1050 1091 3.326006 TGAAGAATGCAGACTGGAAGACT 59.674 43.478 0.00 0.00 40.27 3.24
1122 1166 6.294010 GCCTTCCGAAGAAAATAAGACAAGTT 60.294 38.462 9.87 0.00 0.00 2.66
1140 1184 6.049790 ACAAGTTCCTGAGTGTTACTTTCTC 58.950 40.000 0.00 0.00 0.00 2.87
1218 1262 0.895100 TTGGTGCAGGGATGTTGCTC 60.895 55.000 0.00 0.00 42.02 4.26
1272 1317 1.694150 TCCTATCTTTCATGGCCGGAG 59.306 52.381 5.05 0.00 0.00 4.63
1356 1401 4.027572 ACCACGGAAATCATTAATTGCG 57.972 40.909 0.00 0.00 44.48 4.85
1538 1586 8.558700 AGCATGTTTTTGTTGTTTTGGAATATC 58.441 29.630 0.00 0.00 0.00 1.63
1577 1625 3.457610 AGCAAACAATGTTTCCCAGTG 57.542 42.857 8.59 0.00 44.56 3.66
1611 1671 3.283751 TGTGTTCCTGGTTTGGTTGTAG 58.716 45.455 0.00 0.00 0.00 2.74
1619 1679 3.626930 TGGTTTGGTTGTAGAAGCTGTT 58.373 40.909 3.31 0.00 0.00 3.16
1722 1782 6.838198 TTATCTGAATATGTGTAACCGTGC 57.162 37.500 0.00 0.00 34.36 5.34
1747 1807 2.166459 GCTGGAAGGGCCTTTGATTTAC 59.834 50.000 21.92 5.21 37.63 2.01
1749 1809 2.381961 TGGAAGGGCCTTTGATTTACCT 59.618 45.455 21.92 0.00 37.63 3.08
1766 1826 1.202710 ACCTTGGTTACACATGCGTGA 60.203 47.619 14.17 0.00 46.80 4.35
1923 1983 3.801594 CACTTGGTGTACAAAAATGTGCC 59.198 43.478 0.00 0.00 38.91 5.01
2009 2069 1.333636 AAGGGCTCATGAGGACGAGG 61.334 60.000 23.89 0.00 0.00 4.63
2045 2107 7.661040 ACAAAAACAGAGGATAAGGAACATTG 58.339 34.615 0.00 0.00 0.00 2.82
2047 2109 7.839680 AAAACAGAGGATAAGGAACATTGTT 57.160 32.000 0.63 0.63 0.00 2.83
2051 2113 7.861629 ACAGAGGATAAGGAACATTGTTGATA 58.138 34.615 6.80 0.00 0.00 2.15
2099 2161 6.829298 AGAATTCAGACACTAGAGGATCGTTA 59.171 38.462 8.44 0.00 42.67 3.18
2103 2165 5.104859 TCAGACACTAGAGGATCGTTACTCT 60.105 44.000 12.80 12.80 45.45 3.24
2163 2225 3.802685 GCTTGAAGAACGTGTAGAACAGT 59.197 43.478 0.00 0.00 0.00 3.55
2166 2228 6.145696 GCTTGAAGAACGTGTAGAACAGTATT 59.854 38.462 0.00 0.00 0.00 1.89
2172 2234 3.119245 ACGTGTAGAACAGTATTGCCGAT 60.119 43.478 0.00 0.00 0.00 4.18
2229 2291 0.318120 AAACTGCAATGGGGAAAGCG 59.682 50.000 0.00 0.00 0.00 4.68
2253 2315 6.313411 CGTACACCGGAAAATCTTGGTAAATA 59.687 38.462 9.46 0.00 32.29 1.40
2254 2316 6.505044 ACACCGGAAAATCTTGGTAAATAC 57.495 37.500 9.46 0.00 32.29 1.89
2255 2317 6.243148 ACACCGGAAAATCTTGGTAAATACT 58.757 36.000 9.46 0.00 32.29 2.12
2256 2318 6.717997 ACACCGGAAAATCTTGGTAAATACTT 59.282 34.615 9.46 0.00 32.29 2.24
2257 2319 7.231925 ACACCGGAAAATCTTGGTAAATACTTT 59.768 33.333 9.46 0.00 32.29 2.66
2258 2320 8.732531 CACCGGAAAATCTTGGTAAATACTTTA 58.267 33.333 9.46 0.00 32.29 1.85
2259 2321 9.470399 ACCGGAAAATCTTGGTAAATACTTTAT 57.530 29.630 9.46 0.00 31.60 1.40
2260 2322 9.946165 CCGGAAAATCTTGGTAAATACTTTATC 57.054 33.333 0.00 0.00 0.00 1.75
2261 2323 9.946165 CGGAAAATCTTGGTAAATACTTTATCC 57.054 33.333 0.00 0.00 0.00 2.59
2306 2368 0.028505 CGCCATCTACAGCAACATGC 59.971 55.000 0.00 0.00 45.46 4.06
2327 2389 3.384789 GCATGTATGTACCTCTCCAGTCA 59.615 47.826 0.00 0.00 0.00 3.41
2338 2400 1.821061 CTCCAGTCAGCAGGGACGTT 61.821 60.000 0.00 0.00 42.62 3.99
2348 2410 0.242825 CAGGGACGTTGAGCTTCGTA 59.757 55.000 11.30 0.00 40.39 3.43
2366 2428 2.808202 CGTAATCTCTGCTCCCCATTGG 60.808 54.545 0.00 0.00 0.00 3.16
2378 2440 1.077501 CCATTGGTGCGAGGTGGAT 60.078 57.895 0.00 0.00 31.59 3.41
2396 2458 4.398988 GTGGATATCACAATCCTGCAACAA 59.601 41.667 4.83 0.00 44.98 2.83
2453 2515 2.430465 CTTGGACCATCAACCAGTGAG 58.570 52.381 0.00 0.00 40.43 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 2.555325 TGTCCTTGCAAATCTCAAGCAG 59.445 45.455 0.00 0.00 39.54 4.24
194 203 8.416329 ACAATTTTATCAACCTATCCAATCAGC 58.584 33.333 0.00 0.00 0.00 4.26
219 228 4.574828 ACTCAACTGGATACACAACAACAC 59.425 41.667 0.00 0.00 46.17 3.32
220 229 4.776349 ACTCAACTGGATACACAACAACA 58.224 39.130 0.00 0.00 46.17 3.33
221 230 5.989777 AGTACTCAACTGGATACACAACAAC 59.010 40.000 0.00 0.00 46.17 3.32
224 233 7.321153 ACATAGTACTCAACTGGATACACAAC 58.679 38.462 0.00 0.00 46.17 3.32
225 234 7.476540 ACATAGTACTCAACTGGATACACAA 57.523 36.000 0.00 0.00 46.17 3.33
226 235 7.039293 ACAACATAGTACTCAACTGGATACACA 60.039 37.037 0.00 0.00 46.17 3.72
227 236 7.275779 CACAACATAGTACTCAACTGGATACAC 59.724 40.741 0.00 0.00 46.17 2.90
229 238 7.275779 CACACAACATAGTACTCAACTGGATAC 59.724 40.741 0.00 0.00 39.39 2.24
230 239 7.039293 ACACACAACATAGTACTCAACTGGATA 60.039 37.037 0.00 0.00 39.39 2.59
231 240 6.166279 CACACAACATAGTACTCAACTGGAT 58.834 40.000 0.00 0.00 39.39 3.41
232 241 5.069914 ACACACAACATAGTACTCAACTGGA 59.930 40.000 0.00 0.00 39.39 3.86
233 242 5.297547 ACACACAACATAGTACTCAACTGG 58.702 41.667 0.00 0.00 39.39 4.00
234 243 6.649436 CAACACACAACATAGTACTCAACTG 58.351 40.000 0.00 0.00 39.39 3.16
235 244 5.236478 GCAACACACAACATAGTACTCAACT 59.764 40.000 0.00 0.00 42.62 3.16
236 245 5.236478 AGCAACACACAACATAGTACTCAAC 59.764 40.000 0.00 0.00 0.00 3.18
237 246 5.364778 AGCAACACACAACATAGTACTCAA 58.635 37.500 0.00 0.00 0.00 3.02
238 247 4.956085 AGCAACACACAACATAGTACTCA 58.044 39.130 0.00 0.00 0.00 3.41
239 248 5.924475 AAGCAACACACAACATAGTACTC 57.076 39.130 0.00 0.00 0.00 2.59
240 249 6.055588 AGAAAGCAACACACAACATAGTACT 58.944 36.000 0.00 0.00 0.00 2.73
241 250 6.300354 AGAAAGCAACACACAACATAGTAC 57.700 37.500 0.00 0.00 0.00 2.73
242 251 7.438564 TCTAGAAAGCAACACACAACATAGTA 58.561 34.615 0.00 0.00 0.00 1.82
243 252 6.288294 TCTAGAAAGCAACACACAACATAGT 58.712 36.000 0.00 0.00 0.00 2.12
244 253 6.785488 TCTAGAAAGCAACACACAACATAG 57.215 37.500 0.00 0.00 0.00 2.23
245 254 7.744087 AATCTAGAAAGCAACACACAACATA 57.256 32.000 0.00 0.00 0.00 2.29
246 255 6.639632 AATCTAGAAAGCAACACACAACAT 57.360 33.333 0.00 0.00 0.00 2.71
393 402 7.253883 GCTTCAAGCATAATACAGCATTTGAAC 60.254 37.037 3.89 0.00 41.89 3.18
517 526 8.394040 CCCAAGGAATTAAGTTCTCCCATATAT 58.606 37.037 0.00 0.00 37.01 0.86
518 527 7.352522 ACCCAAGGAATTAAGTTCTCCCATATA 59.647 37.037 0.00 0.00 37.01 0.86
519 528 6.162241 ACCCAAGGAATTAAGTTCTCCCATAT 59.838 38.462 0.00 0.00 37.01 1.78
520 529 5.494706 ACCCAAGGAATTAAGTTCTCCCATA 59.505 40.000 0.00 0.00 37.01 2.74
521 530 4.294970 ACCCAAGGAATTAAGTTCTCCCAT 59.705 41.667 0.00 0.00 37.01 4.00
522 531 3.660669 ACCCAAGGAATTAAGTTCTCCCA 59.339 43.478 0.00 0.00 37.01 4.37
523 532 4.263771 TGACCCAAGGAATTAAGTTCTCCC 60.264 45.833 0.00 0.00 37.01 4.30
524 533 4.918588 TGACCCAAGGAATTAAGTTCTCC 58.081 43.478 0.00 0.00 37.01 3.71
525 534 6.502136 CTTGACCCAAGGAATTAAGTTCTC 57.498 41.667 0.00 0.00 37.77 2.87
538 547 1.407989 GCTCTCATCCCTTGACCCAAG 60.408 57.143 0.00 0.00 40.75 3.61
539 548 0.620556 GCTCTCATCCCTTGACCCAA 59.379 55.000 0.00 0.00 0.00 4.12
540 549 0.547471 TGCTCTCATCCCTTGACCCA 60.547 55.000 0.00 0.00 0.00 4.51
541 550 0.842635 ATGCTCTCATCCCTTGACCC 59.157 55.000 0.00 0.00 0.00 4.46
542 551 1.487976 TGATGCTCTCATCCCTTGACC 59.512 52.381 3.19 0.00 46.60 4.02
543 552 2.996249 TGATGCTCTCATCCCTTGAC 57.004 50.000 3.19 0.00 46.60 3.18
544 553 4.515028 AATTGATGCTCTCATCCCTTGA 57.485 40.909 3.19 0.00 46.60 3.02
545 554 5.278364 GCTAAATTGATGCTCTCATCCCTTG 60.278 44.000 3.19 0.00 46.60 3.61
546 555 4.826183 GCTAAATTGATGCTCTCATCCCTT 59.174 41.667 3.19 0.00 46.60 3.95
547 556 4.104420 AGCTAAATTGATGCTCTCATCCCT 59.896 41.667 3.19 0.00 46.60 4.20
548 557 4.396522 AGCTAAATTGATGCTCTCATCCC 58.603 43.478 3.19 0.00 46.60 3.85
549 558 5.278364 CCAAGCTAAATTGATGCTCTCATCC 60.278 44.000 0.00 0.00 46.60 3.51
551 560 5.443283 TCCAAGCTAAATTGATGCTCTCAT 58.557 37.500 0.00 0.00 35.85 2.90
552 561 4.847198 TCCAAGCTAAATTGATGCTCTCA 58.153 39.130 0.00 0.00 35.85 3.27
553 562 5.124457 TGTTCCAAGCTAAATTGATGCTCTC 59.876 40.000 0.00 0.00 35.85 3.20
554 563 5.012239 TGTTCCAAGCTAAATTGATGCTCT 58.988 37.500 0.00 0.00 35.85 4.09
555 564 5.314923 TGTTCCAAGCTAAATTGATGCTC 57.685 39.130 0.00 0.00 35.85 4.26
556 565 5.726980 TTGTTCCAAGCTAAATTGATGCT 57.273 34.783 0.00 0.00 38.87 3.79
557 566 6.591062 TGATTTGTTCCAAGCTAAATTGATGC 59.409 34.615 0.00 0.00 31.55 3.91
558 567 8.712285 ATGATTTGTTCCAAGCTAAATTGATG 57.288 30.769 0.00 0.00 31.55 3.07
559 568 9.729281 AAATGATTTGTTCCAAGCTAAATTGAT 57.271 25.926 0.00 0.00 31.55 2.57
560 569 9.206870 GAAATGATTTGTTCCAAGCTAAATTGA 57.793 29.630 0.00 0.00 31.55 2.57
561 570 9.211485 AGAAATGATTTGTTCCAAGCTAAATTG 57.789 29.630 0.00 0.00 0.00 2.32
562 571 9.211485 CAGAAATGATTTGTTCCAAGCTAAATT 57.789 29.630 0.00 0.00 0.00 1.82
563 572 7.820872 CCAGAAATGATTTGTTCCAAGCTAAAT 59.179 33.333 0.00 0.00 0.00 1.40
564 573 7.153985 CCAGAAATGATTTGTTCCAAGCTAAA 58.846 34.615 0.00 0.00 0.00 1.85
565 574 6.267471 ACCAGAAATGATTTGTTCCAAGCTAA 59.733 34.615 0.00 0.00 0.00 3.09
566 575 5.774690 ACCAGAAATGATTTGTTCCAAGCTA 59.225 36.000 0.00 0.00 0.00 3.32
567 576 4.590222 ACCAGAAATGATTTGTTCCAAGCT 59.410 37.500 0.00 0.00 0.00 3.74
568 577 4.886579 ACCAGAAATGATTTGTTCCAAGC 58.113 39.130 0.00 0.00 0.00 4.01
569 578 7.114811 CGTTTACCAGAAATGATTTGTTCCAAG 59.885 37.037 0.00 0.00 0.00 3.61
570 579 6.920758 CGTTTACCAGAAATGATTTGTTCCAA 59.079 34.615 0.00 0.00 0.00 3.53
571 580 6.263392 TCGTTTACCAGAAATGATTTGTTCCA 59.737 34.615 0.00 0.00 0.00 3.53
572 581 6.674066 TCGTTTACCAGAAATGATTTGTTCC 58.326 36.000 0.00 0.00 0.00 3.62
573 582 8.742554 ATTCGTTTACCAGAAATGATTTGTTC 57.257 30.769 0.00 0.00 0.00 3.18
574 583 8.977505 CAATTCGTTTACCAGAAATGATTTGTT 58.022 29.630 0.00 0.00 34.79 2.83
575 584 8.356657 TCAATTCGTTTACCAGAAATGATTTGT 58.643 29.630 17.64 0.00 37.55 2.83
576 585 8.638565 GTCAATTCGTTTACCAGAAATGATTTG 58.361 33.333 14.72 14.72 38.19 2.32
577 586 8.356657 TGTCAATTCGTTTACCAGAAATGATTT 58.643 29.630 0.00 0.00 38.19 2.17
578 587 7.881142 TGTCAATTCGTTTACCAGAAATGATT 58.119 30.769 0.27 0.00 38.19 2.57
579 588 7.447374 TGTCAATTCGTTTACCAGAAATGAT 57.553 32.000 0.27 0.00 38.19 2.45
580 589 6.869315 TGTCAATTCGTTTACCAGAAATGA 57.131 33.333 0.00 0.00 34.90 2.57
581 590 8.450964 AGTATGTCAATTCGTTTACCAGAAATG 58.549 33.333 0.00 0.00 0.00 2.32
582 591 8.561738 AGTATGTCAATTCGTTTACCAGAAAT 57.438 30.769 0.00 0.00 0.00 2.17
583 592 7.972832 AGTATGTCAATTCGTTTACCAGAAA 57.027 32.000 0.00 0.00 0.00 2.52
584 593 7.972832 AAGTATGTCAATTCGTTTACCAGAA 57.027 32.000 0.00 0.00 0.00 3.02
585 594 7.972832 AAAGTATGTCAATTCGTTTACCAGA 57.027 32.000 0.00 0.00 0.00 3.86
590 599 9.562583 GGCAAATAAAGTATGTCAATTCGTTTA 57.437 29.630 0.00 0.00 0.00 2.01
591 600 8.085296 TGGCAAATAAAGTATGTCAATTCGTTT 58.915 29.630 0.00 0.00 0.00 3.60
592 601 7.598278 TGGCAAATAAAGTATGTCAATTCGTT 58.402 30.769 0.00 0.00 0.00 3.85
593 602 7.120579 TCTGGCAAATAAAGTATGTCAATTCGT 59.879 33.333 0.00 0.00 0.00 3.85
594 603 7.471721 TCTGGCAAATAAAGTATGTCAATTCG 58.528 34.615 0.00 0.00 0.00 3.34
595 604 8.677300 TCTCTGGCAAATAAAGTATGTCAATTC 58.323 33.333 0.00 0.00 0.00 2.17
596 605 8.579850 TCTCTGGCAAATAAAGTATGTCAATT 57.420 30.769 0.00 0.00 0.00 2.32
597 606 7.831193 ACTCTCTGGCAAATAAAGTATGTCAAT 59.169 33.333 0.00 0.00 0.00 2.57
598 607 7.168219 ACTCTCTGGCAAATAAAGTATGTCAA 58.832 34.615 0.00 0.00 0.00 3.18
599 608 6.711277 ACTCTCTGGCAAATAAAGTATGTCA 58.289 36.000 0.00 0.00 0.00 3.58
600 609 8.718102 TTACTCTCTGGCAAATAAAGTATGTC 57.282 34.615 0.00 0.00 0.00 3.06
601 610 9.167311 CTTTACTCTCTGGCAAATAAAGTATGT 57.833 33.333 0.00 0.00 0.00 2.29
602 611 8.616076 CCTTTACTCTCTGGCAAATAAAGTATG 58.384 37.037 11.45 0.00 30.91 2.39
603 612 8.548877 TCCTTTACTCTCTGGCAAATAAAGTAT 58.451 33.333 11.45 0.00 30.91 2.12
604 613 7.913789 TCCTTTACTCTCTGGCAAATAAAGTA 58.086 34.615 11.45 4.07 30.91 2.24
605 614 6.779860 TCCTTTACTCTCTGGCAAATAAAGT 58.220 36.000 11.45 4.77 30.91 2.66
606 615 7.106239 TCTCCTTTACTCTCTGGCAAATAAAG 58.894 38.462 0.00 0.00 32.09 1.85
607 616 7.016153 TCTCCTTTACTCTCTGGCAAATAAA 57.984 36.000 0.00 0.00 0.00 1.40
608 617 6.620877 TCTCCTTTACTCTCTGGCAAATAA 57.379 37.500 0.00 0.00 0.00 1.40
609 618 6.620877 TTCTCCTTTACTCTCTGGCAAATA 57.379 37.500 0.00 0.00 0.00 1.40
610 619 5.505181 TTCTCCTTTACTCTCTGGCAAAT 57.495 39.130 0.00 0.00 0.00 2.32
611 620 4.974645 TTCTCCTTTACTCTCTGGCAAA 57.025 40.909 0.00 0.00 0.00 3.68
612 621 4.974645 TTTCTCCTTTACTCTCTGGCAA 57.025 40.909 0.00 0.00 0.00 4.52
613 622 6.620877 TTATTTCTCCTTTACTCTCTGGCA 57.379 37.500 0.00 0.00 0.00 4.92
614 623 7.106890 AGTTTATTTCTCCTTTACTCTCTGGC 58.893 38.462 0.00 0.00 0.00 4.85
615 624 8.314751 TGAGTTTATTTCTCCTTTACTCTCTGG 58.685 37.037 0.00 0.00 33.50 3.86
616 625 9.364989 CTGAGTTTATTTCTCCTTTACTCTCTG 57.635 37.037 0.00 0.00 33.50 3.35
617 626 9.315363 TCTGAGTTTATTTCTCCTTTACTCTCT 57.685 33.333 0.00 0.00 33.50 3.10
618 627 9.930693 TTCTGAGTTTATTTCTCCTTTACTCTC 57.069 33.333 0.00 0.00 33.50 3.20
619 628 9.713713 GTTCTGAGTTTATTTCTCCTTTACTCT 57.286 33.333 0.00 0.00 33.50 3.24
620 629 9.490379 TGTTCTGAGTTTATTTCTCCTTTACTC 57.510 33.333 0.00 0.00 0.00 2.59
625 634 9.442047 CACTATGTTCTGAGTTTATTTCTCCTT 57.558 33.333 0.00 0.00 0.00 3.36
626 635 7.550906 GCACTATGTTCTGAGTTTATTTCTCCT 59.449 37.037 0.00 0.00 0.00 3.69
627 636 7.550906 AGCACTATGTTCTGAGTTTATTTCTCC 59.449 37.037 0.00 0.00 0.00 3.71
628 637 8.485976 AGCACTATGTTCTGAGTTTATTTCTC 57.514 34.615 0.00 0.00 0.00 2.87
629 638 8.854614 AAGCACTATGTTCTGAGTTTATTTCT 57.145 30.769 0.00 0.00 0.00 2.52
630 639 9.334693 CAAAGCACTATGTTCTGAGTTTATTTC 57.665 33.333 0.00 0.00 0.00 2.17
631 640 7.809806 GCAAAGCACTATGTTCTGAGTTTATTT 59.190 33.333 0.00 0.00 0.00 1.40
632 641 7.175641 AGCAAAGCACTATGTTCTGAGTTTATT 59.824 33.333 0.00 0.00 0.00 1.40
633 642 6.656693 AGCAAAGCACTATGTTCTGAGTTTAT 59.343 34.615 0.00 0.00 0.00 1.40
634 643 5.997746 AGCAAAGCACTATGTTCTGAGTTTA 59.002 36.000 0.00 0.00 0.00 2.01
635 644 4.823989 AGCAAAGCACTATGTTCTGAGTTT 59.176 37.500 0.00 0.00 0.00 2.66
636 645 4.392940 AGCAAAGCACTATGTTCTGAGTT 58.607 39.130 0.00 0.00 0.00 3.01
637 646 3.999663 GAGCAAAGCACTATGTTCTGAGT 59.000 43.478 0.00 0.00 0.00 3.41
638 647 3.373439 GGAGCAAAGCACTATGTTCTGAG 59.627 47.826 0.00 0.00 0.00 3.35
639 648 3.338249 GGAGCAAAGCACTATGTTCTGA 58.662 45.455 0.00 0.00 0.00 3.27
640 649 2.094894 CGGAGCAAAGCACTATGTTCTG 59.905 50.000 0.00 0.00 0.00 3.02
641 650 2.289694 ACGGAGCAAAGCACTATGTTCT 60.290 45.455 0.00 0.00 0.00 3.01
642 651 2.076863 ACGGAGCAAAGCACTATGTTC 58.923 47.619 0.00 0.00 0.00 3.18
643 652 2.185004 ACGGAGCAAAGCACTATGTT 57.815 45.000 0.00 0.00 0.00 2.71
644 653 2.076863 GAACGGAGCAAAGCACTATGT 58.923 47.619 0.00 0.00 0.00 2.29
645 654 1.398390 GGAACGGAGCAAAGCACTATG 59.602 52.381 0.00 0.00 0.00 2.23
646 655 1.279271 AGGAACGGAGCAAAGCACTAT 59.721 47.619 0.00 0.00 0.00 2.12
647 656 0.685097 AGGAACGGAGCAAAGCACTA 59.315 50.000 0.00 0.00 0.00 2.74
648 657 0.886490 CAGGAACGGAGCAAAGCACT 60.886 55.000 0.00 0.00 0.00 4.40
649 658 1.576421 CAGGAACGGAGCAAAGCAC 59.424 57.895 0.00 0.00 0.00 4.40
650 659 1.600636 CCAGGAACGGAGCAAAGCA 60.601 57.895 0.00 0.00 0.00 3.91
651 660 0.678048 ATCCAGGAACGGAGCAAAGC 60.678 55.000 0.00 0.00 38.83 3.51
652 661 2.280628 GTATCCAGGAACGGAGCAAAG 58.719 52.381 0.00 0.00 38.83 2.77
653 662 1.404986 CGTATCCAGGAACGGAGCAAA 60.405 52.381 13.45 0.00 38.83 3.68
654 663 0.174845 CGTATCCAGGAACGGAGCAA 59.825 55.000 13.45 0.00 38.83 3.91
655 664 1.813859 CGTATCCAGGAACGGAGCA 59.186 57.895 13.45 0.00 38.83 4.26
656 665 4.732106 CGTATCCAGGAACGGAGC 57.268 61.111 13.45 0.00 38.83 4.70
660 669 0.527817 GACTGCCGTATCCAGGAACG 60.528 60.000 14.04 14.04 38.80 3.95
661 670 0.527817 CGACTGCCGTATCCAGGAAC 60.528 60.000 0.00 0.00 34.65 3.62
662 671 1.813859 CGACTGCCGTATCCAGGAA 59.186 57.895 0.00 0.00 34.65 3.36
663 672 3.521605 CGACTGCCGTATCCAGGA 58.478 61.111 0.00 0.00 34.65 3.86
672 681 0.450583 TACTCTAAGCACGACTGCCG 59.549 55.000 0.00 0.00 45.53 5.69
673 682 1.743958 TCTACTCTAAGCACGACTGCC 59.256 52.381 0.00 0.00 45.53 4.85
674 683 2.223386 CCTCTACTCTAAGCACGACTGC 60.223 54.545 0.00 0.00 44.63 4.40
679 688 1.765230 ACCCCTCTACTCTAAGCACG 58.235 55.000 0.00 0.00 0.00 5.34
726 736 6.187727 ACATACACCATTTATCCTACCCAG 57.812 41.667 0.00 0.00 0.00 4.45
730 740 9.490379 CTTTAGGACATACACCATTTATCCTAC 57.510 37.037 0.00 0.00 37.14 3.18
762 772 5.126067 ACAAGAAGTACAAGACACATGCTT 58.874 37.500 0.00 0.00 0.00 3.91
763 773 4.708177 ACAAGAAGTACAAGACACATGCT 58.292 39.130 0.00 0.00 0.00 3.79
764 774 4.511454 TGACAAGAAGTACAAGACACATGC 59.489 41.667 0.00 0.00 0.00 4.06
765 775 5.523552 TGTGACAAGAAGTACAAGACACATG 59.476 40.000 0.00 0.00 32.23 3.21
766 776 5.670485 TGTGACAAGAAGTACAAGACACAT 58.330 37.500 0.00 0.00 32.23 3.21
767 777 5.079689 TGTGACAAGAAGTACAAGACACA 57.920 39.130 0.00 0.00 34.24 3.72
768 778 6.604735 AATGTGACAAGAAGTACAAGACAC 57.395 37.500 0.00 0.00 0.00 3.67
769 779 7.047891 AGAAATGTGACAAGAAGTACAAGACA 58.952 34.615 0.00 0.00 0.00 3.41
770 780 7.484035 AGAAATGTGACAAGAAGTACAAGAC 57.516 36.000 0.00 0.00 0.00 3.01
771 781 8.506168 AAAGAAATGTGACAAGAAGTACAAGA 57.494 30.769 0.00 0.00 0.00 3.02
774 784 9.391006 ACTAAAAGAAATGTGACAAGAAGTACA 57.609 29.630 0.00 0.00 0.00 2.90
777 787 9.391006 TGTACTAAAAGAAATGTGACAAGAAGT 57.609 29.630 0.00 0.00 0.00 3.01
778 788 9.869844 CTGTACTAAAAGAAATGTGACAAGAAG 57.130 33.333 0.00 0.00 0.00 2.85
779 789 9.391006 ACTGTACTAAAAGAAATGTGACAAGAA 57.609 29.630 0.00 0.00 0.00 2.52
804 814 8.617809 ACATACCGATACAACCAAATTATCAAC 58.382 33.333 0.00 0.00 0.00 3.18
855 896 8.986929 AATATAAGCAATAGAGCAAAACCTCT 57.013 30.769 0.00 0.00 44.12 3.69
883 924 6.379386 CATGCTGCTACATTTAGATTCATGG 58.621 40.000 0.00 0.00 30.76 3.66
997 1038 3.474798 AGAGTCTTCAGTACCCATCCA 57.525 47.619 0.00 0.00 0.00 3.41
1050 1091 1.760029 TCAGTAACTGCACCACTCACA 59.240 47.619 0.00 0.00 0.00 3.58
1122 1166 3.833070 GAGGGAGAAAGTAACACTCAGGA 59.167 47.826 0.00 0.00 33.00 3.86
1140 1184 0.108138 AAGGCAAAGATCGTCGAGGG 60.108 55.000 5.12 0.00 0.00 4.30
1218 1262 5.181690 TCTTTTTGTTGATCCAAACCTCG 57.818 39.130 0.00 0.00 34.23 4.63
1256 1301 4.567318 GCTCCGGCCATGAAAGAT 57.433 55.556 2.24 0.00 0.00 2.40
1339 1384 6.127498 GCATAACGCAATTAATGATTTCCG 57.873 37.500 0.00 0.00 41.79 4.30
1356 1401 9.270576 CGATGAAGCAAAATAGATATGCATAAC 57.729 33.333 11.13 8.30 42.45 1.89
1562 1610 5.420739 ACAAGTTTACACTGGGAAACATTGT 59.579 36.000 5.43 8.97 44.15 2.71
1577 1625 3.564225 CAGGAACACAGGGACAAGTTTAC 59.436 47.826 0.00 0.00 0.00 2.01
1581 1641 0.474184 CCAGGAACACAGGGACAAGT 59.526 55.000 0.00 0.00 0.00 3.16
1619 1679 8.518430 TGCCTAATATAAAGTTGAAGCATCAA 57.482 30.769 0.00 0.00 43.18 2.57
1722 1782 1.004745 TCAAAGGCCCTTCCAGCTTAG 59.995 52.381 0.00 0.00 37.29 2.18
1747 1807 1.518325 TCACGCATGTGTAACCAAGG 58.482 50.000 12.39 0.00 46.49 3.61
1749 1809 1.261885 CGTTCACGCATGTGTAACCAA 59.738 47.619 12.39 0.09 46.49 3.67
1794 1854 3.814283 GGCAATTCCACAAAATCAGCAAA 59.186 39.130 0.00 0.00 34.01 3.68
1829 1889 6.098679 TGTGACTTCATTTCCACACAAAAAG 58.901 36.000 0.00 0.00 35.77 2.27
1830 1890 6.030548 TGTGACTTCATTTCCACACAAAAA 57.969 33.333 0.00 0.00 35.77 1.94
1835 1895 5.499139 TCTTTGTGACTTCATTTCCACAC 57.501 39.130 0.00 0.00 38.99 3.82
1943 2003 7.933728 TGTGTCTGAAATGATCATTGTTTTG 57.066 32.000 21.39 10.35 37.44 2.44
1989 2049 0.539051 CTCGTCCTCATGAGCCCTTT 59.461 55.000 17.76 0.00 0.00 3.11
2009 2069 4.268405 CCTCTGTTTTTGTTGACACAATGC 59.732 41.667 0.00 0.00 42.66 3.56
2045 2107 5.858381 TCAGAGTCCATGCCTAATATCAAC 58.142 41.667 0.00 0.00 0.00 3.18
2047 2109 5.781818 TGATCAGAGTCCATGCCTAATATCA 59.218 40.000 0.00 0.00 0.00 2.15
2051 2113 4.596212 TGATGATCAGAGTCCATGCCTAAT 59.404 41.667 0.09 0.00 0.00 1.73
2099 2161 3.614092 CATAGGGTGCACATTTCAGAGT 58.386 45.455 20.43 0.00 0.00 3.24
2103 2165 2.142356 CCCATAGGGTGCACATTTCA 57.858 50.000 20.43 0.00 38.25 2.69
2163 2225 2.481276 CCTCTTCGTGACATCGGCAATA 60.481 50.000 0.00 0.00 0.00 1.90
2166 2228 1.215382 CCTCTTCGTGACATCGGCA 59.785 57.895 0.00 0.00 0.00 5.69
2172 2234 1.328279 TCTTGAGCCTCTTCGTGACA 58.672 50.000 0.00 0.00 0.00 3.58
2221 2283 0.603439 TTTCCGGTGTACGCTTTCCC 60.603 55.000 6.35 0.00 42.52 3.97
2229 2291 5.945466 TTTACCAAGATTTTCCGGTGTAC 57.055 39.130 0.00 0.00 32.81 2.90
2253 2315 8.574251 TGTTGCACATAAGTATTGGATAAAGT 57.426 30.769 0.00 0.00 0.00 2.66
2256 2318 9.620259 TGTATGTTGCACATAAGTATTGGATAA 57.380 29.630 9.59 0.00 42.15 1.75
2257 2319 9.620259 TTGTATGTTGCACATAAGTATTGGATA 57.380 29.630 9.59 0.00 42.15 2.59
2258 2320 8.518430 TTGTATGTTGCACATAAGTATTGGAT 57.482 30.769 9.59 0.00 42.15 3.41
2259 2321 7.826744 TCTTGTATGTTGCACATAAGTATTGGA 59.173 33.333 9.59 2.40 42.15 3.53
2260 2322 7.984391 TCTTGTATGTTGCACATAAGTATTGG 58.016 34.615 9.59 0.00 42.15 3.16
2261 2323 9.277565 GTTCTTGTATGTTGCACATAAGTATTG 57.722 33.333 9.59 0.00 42.15 1.90
2262 2324 8.175069 CGTTCTTGTATGTTGCACATAAGTATT 58.825 33.333 9.59 0.00 42.15 1.89
2263 2325 7.676338 GCGTTCTTGTATGTTGCACATAAGTAT 60.676 37.037 9.59 0.00 42.15 2.12
2264 2326 6.401688 GCGTTCTTGTATGTTGCACATAAGTA 60.402 38.462 9.59 1.15 42.15 2.24
2306 2368 4.500545 GCTGACTGGAGAGGTACATACATG 60.501 50.000 0.00 0.00 0.00 3.21
2327 2389 1.004440 GAAGCTCAACGTCCCTGCT 60.004 57.895 0.00 0.00 35.30 4.24
2338 2400 2.099921 GGAGCAGAGATTACGAAGCTCA 59.900 50.000 13.36 0.00 46.04 4.26
2348 2410 1.064166 CACCAATGGGGAGCAGAGATT 60.064 52.381 3.55 0.00 41.15 2.40
2366 2428 2.309528 TTGTGATATCCACCTCGCAC 57.690 50.000 0.00 0.00 45.09 5.34
2378 2440 3.191162 GCTGTTGTTGCAGGATTGTGATA 59.809 43.478 0.00 0.00 37.00 2.15
2396 2458 1.615392 GAATGGCCTCTTGTTTGCTGT 59.385 47.619 3.32 0.00 0.00 4.40


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

AutoCloner maintained by Alex Coulton.