Multiple sequence alignment - TraesCS5D01G400500

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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 TraesCS5D01G400500 chr5D 100.000 2794 0 0 1 2794 465709609 465712402 0.000000e+00 5160.0
1 TraesCS5D01G400500 chr5D 89.855 552 24 4 1 547 435149357 435148833 0.000000e+00 680.0
2 TraesCS5D01G400500 chr5D 84.000 100 15 1 452 551 399618663 399618565 8.240000e-16 95.3
3 TraesCS5D01G400500 chr5A 93.995 2015 91 15 789 2794 586140819 586142812 0.000000e+00 3024.0
4 TraesCS5D01G400500 chr5B 94.529 1718 53 16 1091 2794 572943054 572944744 0.000000e+00 2614.0
5 TraesCS5D01G400500 chr5B 89.149 470 36 7 1 467 187622778 187623235 3.120000e-159 571.0
6 TraesCS5D01G400500 chr5B 93.939 198 8 2 796 989 572942422 572942619 2.100000e-76 296.0
7 TraesCS5D01G400500 chr4B 89.362 470 35 8 1 467 37176907 37176450 6.710000e-161 577.0
8 TraesCS5D01G400500 chr4B 88.511 470 39 8 1 467 151776110 151775653 3.140000e-154 555.0
9 TraesCS5D01G400500 chr1B 86.978 407 41 7 1 403 347191686 347192084 5.490000e-122 448.0
10 TraesCS5D01G400500 chr1B 79.070 258 36 8 546 785 194905344 194905087 8.010000e-36 161.0
11 TraesCS5D01G400500 chr3B 85.223 291 30 7 1 291 749736093 749735816 1.270000e-73 287.0
12 TraesCS5D01G400500 chr3B 76.652 227 32 8 546 754 256779165 256779388 3.810000e-19 106.0
13 TraesCS5D01G400500 chr1A 80.077 261 28 15 546 785 143261075 143261332 3.700000e-39 172.0
14 TraesCS5D01G400500 chr1A 86.441 118 15 1 650 767 251347898 251347782 8.120000e-26 128.0
15 TraesCS5D01G400500 chr1A 94.286 70 4 0 478 547 61703336 61703267 1.060000e-19 108.0
16 TraesCS5D01G400500 chr2B 84.768 151 20 2 397 547 43276007 43275860 6.240000e-32 148.0
17 TraesCS5D01G400500 chr2B 93.243 74 4 1 478 551 710765029 710765101 1.060000e-19 108.0
18 TraesCS5D01G400500 chr1D 78.378 259 35 10 546 785 146214043 146213787 6.240000e-32 148.0
19 TraesCS5D01G400500 chr7B 84.000 150 21 2 399 548 506395555 506395409 1.040000e-29 141.0
20 TraesCS5D01G400500 chr7A 83.453 139 19 3 397 535 321627613 321627747 2.920000e-25 126.0
21 TraesCS5D01G400500 chr4A 95.714 70 3 0 478 547 335704173 335704104 2.270000e-21 113.0
22 TraesCS5D01G400500 chr4A 94.595 74 3 1 478 551 618907628 618907700 2.270000e-21 113.0
23 TraesCS5D01G400500 chr6D 84.545 110 11 6 544 650 11193429 11193323 1.370000e-18 104.0
24 TraesCS5D01G400500 chr6B 83.019 106 14 4 546 649 21095215 21095112 2.960000e-15 93.5
25 TraesCS5D01G400500 chr6B 83.019 106 14 4 546 649 21097742 21097639 2.960000e-15 93.5
26 TraesCS5D01G400500 chr6B 83.019 106 14 4 546 649 21101571 21101468 2.960000e-15 93.5
27 TraesCS5D01G400500 chr2D 85.106 94 9 4 548 639 170818892 170818982 1.070000e-14 91.6


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 TraesCS5D01G400500 chr5D 465709609 465712402 2793 False 5160 5160 100.000 1 2794 1 chr5D.!!$F1 2793
1 TraesCS5D01G400500 chr5D 435148833 435149357 524 True 680 680 89.855 1 547 1 chr5D.!!$R2 546
2 TraesCS5D01G400500 chr5A 586140819 586142812 1993 False 3024 3024 93.995 789 2794 1 chr5A.!!$F1 2005
3 TraesCS5D01G400500 chr5B 572942422 572944744 2322 False 1455 2614 94.234 796 2794 2 chr5B.!!$F2 1998

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
637 643 0.107606 TGCGGTTGTACAGTGGTTGT 60.108 50.0 0.0 0.0 43.96 3.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2051 2423 1.13428 AGAGCCAAGATCCCGTGATTG 60.134 52.381 0.0 0.0 0.0 2.67 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
30 31 4.148825 ACCAGCCGCCGATCTGAC 62.149 66.667 7.69 0.00 32.26 3.51
33 34 2.441164 AGCCGCCGATCTGACTCT 60.441 61.111 0.00 0.00 0.00 3.24
43 44 0.534412 ATCTGACTCTGCTGGAACCG 59.466 55.000 0.00 0.00 0.00 4.44
67 68 1.526917 CATCGACCTCCCCAATGGC 60.527 63.158 0.00 0.00 0.00 4.40
95 96 2.625737 CTACCTAGTCACGACGGAGAA 58.374 52.381 0.00 0.00 36.20 2.87
163 164 0.601057 GGAGATTCCTAGAGAGCCGC 59.399 60.000 0.00 0.00 32.53 6.53
201 202 1.067000 CCCTGATGCAGAGATCGGATC 60.067 57.143 10.02 10.02 32.44 3.36
203 204 0.600057 TGATGCAGAGATCGGATCGG 59.400 55.000 12.08 7.50 0.00 4.18
205 206 1.184322 ATGCAGAGATCGGATCGGCT 61.184 55.000 22.99 17.06 0.00 5.52
206 207 1.080839 GCAGAGATCGGATCGGCTC 60.081 63.158 18.54 10.08 0.00 4.70
207 208 1.583986 CAGAGATCGGATCGGCTCC 59.416 63.158 12.08 1.81 41.07 4.70
208 209 1.605165 AGAGATCGGATCGGCTCCC 60.605 63.158 12.08 0.26 41.49 4.30
209 210 1.903890 GAGATCGGATCGGCTCCCA 60.904 63.158 12.08 0.00 41.49 4.37
310 316 4.375272 CAATGAAGAGATATGTCCGTGCT 58.625 43.478 0.00 0.00 0.00 4.40
343 349 3.217626 AGTGGAAACAAAGAGAAGGCAG 58.782 45.455 0.00 0.00 46.06 4.85
349 355 4.373156 AACAAAGAGAAGGCAGGTGTAT 57.627 40.909 0.00 0.00 0.00 2.29
378 384 2.315901 GCTGGTAATGAAACGTTGCAC 58.684 47.619 12.19 0.00 0.00 4.57
393 399 4.824301 CGTTGCACGTTAAGAGTTACAAA 58.176 39.130 0.00 0.00 36.74 2.83
394 400 5.437263 CGTTGCACGTTAAGAGTTACAAAT 58.563 37.500 0.00 0.00 36.74 2.32
395 401 6.583160 CGTTGCACGTTAAGAGTTACAAATA 58.417 36.000 0.00 0.00 36.74 1.40
396 402 6.513991 CGTTGCACGTTAAGAGTTACAAATAC 59.486 38.462 0.00 0.00 36.74 1.89
397 403 6.143349 TGCACGTTAAGAGTTACAAATACG 57.857 37.500 0.00 0.00 0.00 3.06
398 404 5.691305 TGCACGTTAAGAGTTACAAATACGT 59.309 36.000 0.00 0.00 41.08 3.57
400 406 6.005289 CACGTTAAGAGTTACAAATACGTGC 58.995 40.000 10.79 0.00 46.88 5.34
401 407 5.119125 ACGTTAAGAGTTACAAATACGTGCC 59.881 40.000 0.00 0.00 39.23 5.01
402 408 5.118971 CGTTAAGAGTTACAAATACGTGCCA 59.881 40.000 0.00 0.00 0.00 4.92
403 409 6.183360 CGTTAAGAGTTACAAATACGTGCCAT 60.183 38.462 0.00 0.00 0.00 4.40
404 410 5.545658 AAGAGTTACAAATACGTGCCATG 57.454 39.130 0.00 0.00 0.00 3.66
405 411 4.575885 AGAGTTACAAATACGTGCCATGT 58.424 39.130 0.00 0.00 0.00 3.21
406 412 5.726397 AGAGTTACAAATACGTGCCATGTA 58.274 37.500 0.00 0.00 0.00 2.29
407 413 5.810587 AGAGTTACAAATACGTGCCATGTAG 59.189 40.000 0.00 0.00 0.00 2.74
408 414 4.331717 AGTTACAAATACGTGCCATGTAGC 59.668 41.667 0.00 4.99 0.00 3.58
409 415 2.705730 ACAAATACGTGCCATGTAGCA 58.294 42.857 0.00 0.00 41.46 3.49
410 416 3.278574 ACAAATACGTGCCATGTAGCAT 58.721 40.909 0.00 0.00 46.24 3.79
411 417 3.694072 ACAAATACGTGCCATGTAGCATT 59.306 39.130 0.00 0.00 46.24 3.56
412 418 3.969117 AATACGTGCCATGTAGCATTG 57.031 42.857 0.00 0.00 46.24 2.82
413 419 2.394930 TACGTGCCATGTAGCATTGT 57.605 45.000 0.00 5.30 46.24 2.71
414 420 1.533625 ACGTGCCATGTAGCATTGTT 58.466 45.000 0.00 0.00 46.24 2.83
415 421 1.199789 ACGTGCCATGTAGCATTGTTG 59.800 47.619 0.00 0.00 46.24 3.33
416 422 1.199789 CGTGCCATGTAGCATTGTTGT 59.800 47.619 0.00 0.00 46.24 3.32
417 423 2.418280 CGTGCCATGTAGCATTGTTGTA 59.582 45.455 0.00 0.00 46.24 2.41
418 424 3.485711 CGTGCCATGTAGCATTGTTGTAG 60.486 47.826 0.00 0.00 46.24 2.74
481 487 6.857437 TCTATATGTGGGACCTACATGATG 57.143 41.667 28.51 18.49 39.03 3.07
495 501 4.082665 ACATGATGACTTGGATAGCCTG 57.917 45.455 0.00 0.00 34.31 4.85
521 527 9.555727 GCATGTTTAGATAAATAGGTTAGTGGA 57.444 33.333 0.00 0.00 0.00 4.02
581 587 9.947433 AATTTGATATTGTGGACATGTGAAAAT 57.053 25.926 1.15 0.00 0.00 1.82
582 588 9.947433 ATTTGATATTGTGGACATGTGAAAATT 57.053 25.926 1.15 0.00 0.00 1.82
583 589 9.775854 TTTGATATTGTGGACATGTGAAAATTT 57.224 25.926 1.15 0.00 0.00 1.82
589 595 9.612066 ATTGTGGACATGTGAAAATTTAAAGTT 57.388 25.926 1.15 0.00 0.00 2.66
590 596 8.641499 TGTGGACATGTGAAAATTTAAAGTTC 57.359 30.769 1.15 4.65 0.00 3.01
591 597 7.433719 TGTGGACATGTGAAAATTTAAAGTTCG 59.566 33.333 1.15 0.00 0.00 3.95
592 598 7.646130 GTGGACATGTGAAAATTTAAAGTTCGA 59.354 33.333 1.15 0.00 0.00 3.71
593 599 7.646130 TGGACATGTGAAAATTTAAAGTTCGAC 59.354 33.333 1.15 2.65 0.00 4.20
594 600 7.860872 GGACATGTGAAAATTTAAAGTTCGACT 59.139 33.333 1.15 0.00 0.00 4.18
595 601 8.782533 ACATGTGAAAATTTAAAGTTCGACTC 57.217 30.769 0.00 0.00 0.00 3.36
596 602 7.586300 ACATGTGAAAATTTAAAGTTCGACTCG 59.414 33.333 0.00 0.00 0.00 4.18
597 603 6.423862 TGTGAAAATTTAAAGTTCGACTCGG 58.576 36.000 0.75 0.00 0.00 4.63
598 604 6.037391 TGTGAAAATTTAAAGTTCGACTCGGT 59.963 34.615 0.75 0.00 0.00 4.69
599 605 7.224362 TGTGAAAATTTAAAGTTCGACTCGGTA 59.776 33.333 0.75 0.00 0.00 4.02
600 606 8.225777 GTGAAAATTTAAAGTTCGACTCGGTAT 58.774 33.333 0.75 0.00 0.00 2.73
601 607 8.225107 TGAAAATTTAAAGTTCGACTCGGTATG 58.775 33.333 0.75 0.00 0.00 2.39
602 608 7.662604 AAATTTAAAGTTCGACTCGGTATGT 57.337 32.000 0.00 0.00 0.00 2.29
603 609 7.662604 AATTTAAAGTTCGACTCGGTATGTT 57.337 32.000 0.00 0.00 0.00 2.71
604 610 7.662604 ATTTAAAGTTCGACTCGGTATGTTT 57.337 32.000 0.00 0.00 0.00 2.83
605 611 7.481275 TTTAAAGTTCGACTCGGTATGTTTT 57.519 32.000 0.00 0.00 0.00 2.43
606 612 5.587033 AAAGTTCGACTCGGTATGTTTTC 57.413 39.130 0.00 0.00 0.00 2.29
607 613 4.247267 AGTTCGACTCGGTATGTTTTCA 57.753 40.909 0.00 0.00 0.00 2.69
608 614 4.817517 AGTTCGACTCGGTATGTTTTCAT 58.182 39.130 0.00 0.00 43.60 2.57
609 615 5.235516 AGTTCGACTCGGTATGTTTTCATT 58.764 37.500 0.00 0.00 41.25 2.57
610 616 5.699458 AGTTCGACTCGGTATGTTTTCATTT 59.301 36.000 0.00 0.00 41.25 2.32
611 617 6.204108 AGTTCGACTCGGTATGTTTTCATTTT 59.796 34.615 0.00 0.00 41.25 1.82
612 618 7.385752 AGTTCGACTCGGTATGTTTTCATTTTA 59.614 33.333 0.00 0.00 41.25 1.52
613 619 7.655236 TCGACTCGGTATGTTTTCATTTTAA 57.345 32.000 0.00 0.00 41.25 1.52
614 620 8.259049 TCGACTCGGTATGTTTTCATTTTAAT 57.741 30.769 0.00 0.00 41.25 1.40
615 621 8.723311 TCGACTCGGTATGTTTTCATTTTAATT 58.277 29.630 0.00 0.00 41.25 1.40
616 622 9.337091 CGACTCGGTATGTTTTCATTTTAATTT 57.663 29.630 0.00 0.00 41.25 1.82
621 627 9.828220 CGGTATGTTTTCATTTTAATTTATGCG 57.172 29.630 0.00 0.00 41.25 4.73
626 632 9.046296 TGTTTTCATTTTAATTTATGCGGTTGT 57.954 25.926 0.00 0.00 0.00 3.32
629 635 9.692749 TTTCATTTTAATTTATGCGGTTGTACA 57.307 25.926 0.00 0.00 0.00 2.90
630 636 8.903570 TCATTTTAATTTATGCGGTTGTACAG 57.096 30.769 0.00 0.00 0.00 2.74
631 637 8.516234 TCATTTTAATTTATGCGGTTGTACAGT 58.484 29.630 0.00 0.00 0.00 3.55
632 638 8.582930 CATTTTAATTTATGCGGTTGTACAGTG 58.417 33.333 0.00 0.00 0.00 3.66
633 639 4.695217 AATTTATGCGGTTGTACAGTGG 57.305 40.909 0.00 0.00 0.00 4.00
634 640 2.843401 TTATGCGGTTGTACAGTGGT 57.157 45.000 0.00 0.00 0.00 4.16
635 641 2.843401 TATGCGGTTGTACAGTGGTT 57.157 45.000 0.00 0.00 0.00 3.67
636 642 1.234821 ATGCGGTTGTACAGTGGTTG 58.765 50.000 0.00 0.00 0.00 3.77
637 643 0.107606 TGCGGTTGTACAGTGGTTGT 60.108 50.000 0.00 0.00 43.96 3.32
638 644 1.138464 TGCGGTTGTACAGTGGTTGTA 59.862 47.619 0.00 0.00 41.29 2.41
645 651 2.536761 TACAGTGGTTGTACACAGCC 57.463 50.000 8.19 8.19 45.98 4.85
649 655 2.663852 GGTTGTACACAGCCGCGT 60.664 61.111 4.92 0.00 37.49 6.01
650 656 2.248835 GGTTGTACACAGCCGCGTT 61.249 57.895 4.92 0.00 37.49 4.84
651 657 1.644913 GTTGTACACAGCCGCGTTT 59.355 52.632 4.92 0.00 0.00 3.60
652 658 0.860533 GTTGTACACAGCCGCGTTTA 59.139 50.000 4.92 0.00 0.00 2.01
653 659 0.860533 TTGTACACAGCCGCGTTTAC 59.139 50.000 4.92 0.00 0.00 2.01
654 660 0.249363 TGTACACAGCCGCGTTTACA 60.249 50.000 4.92 9.02 31.38 2.41
655 661 1.073177 GTACACAGCCGCGTTTACAT 58.927 50.000 4.92 0.00 0.00 2.29
656 662 1.060122 GTACACAGCCGCGTTTACATC 59.940 52.381 4.92 0.00 0.00 3.06
657 663 0.320421 ACACAGCCGCGTTTACATCT 60.320 50.000 4.92 0.00 0.00 2.90
658 664 0.796312 CACAGCCGCGTTTACATCTT 59.204 50.000 4.92 0.00 0.00 2.40
659 665 1.196808 CACAGCCGCGTTTACATCTTT 59.803 47.619 4.92 0.00 0.00 2.52
660 666 2.413796 CACAGCCGCGTTTACATCTTTA 59.586 45.455 4.92 0.00 0.00 1.85
661 667 3.063452 CACAGCCGCGTTTACATCTTTAT 59.937 43.478 4.92 0.00 0.00 1.40
662 668 3.687698 ACAGCCGCGTTTACATCTTTATT 59.312 39.130 4.92 0.00 0.00 1.40
663 669 4.155280 ACAGCCGCGTTTACATCTTTATTT 59.845 37.500 4.92 0.00 0.00 1.40
664 670 5.092781 CAGCCGCGTTTACATCTTTATTTT 58.907 37.500 4.92 0.00 0.00 1.82
665 671 5.227184 CAGCCGCGTTTACATCTTTATTTTC 59.773 40.000 4.92 0.00 0.00 2.29
666 672 5.090083 GCCGCGTTTACATCTTTATTTTCA 58.910 37.500 4.92 0.00 0.00 2.69
667 673 5.741982 GCCGCGTTTACATCTTTATTTTCAT 59.258 36.000 4.92 0.00 0.00 2.57
668 674 6.075572 GCCGCGTTTACATCTTTATTTTCATC 60.076 38.462 4.92 0.00 0.00 2.92
669 675 6.964370 CCGCGTTTACATCTTTATTTTCATCA 59.036 34.615 4.92 0.00 0.00 3.07
670 676 7.643764 CCGCGTTTACATCTTTATTTTCATCAT 59.356 33.333 4.92 0.00 0.00 2.45
671 677 8.673275 CGCGTTTACATCTTTATTTTCATCATC 58.327 33.333 0.00 0.00 0.00 2.92
672 678 9.722056 GCGTTTACATCTTTATTTTCATCATCT 57.278 29.630 0.00 0.00 0.00 2.90
686 692 9.690913 ATTTTCATCATCTATTGGAGTTGAAGA 57.309 29.630 0.00 0.00 37.42 2.87
687 693 8.498054 TTTCATCATCTATTGGAGTTGAAGAC 57.502 34.615 0.00 0.00 37.42 3.01
688 694 7.429374 TCATCATCTATTGGAGTTGAAGACT 57.571 36.000 0.00 0.00 42.70 3.24
689 695 7.855375 TCATCATCTATTGGAGTTGAAGACTT 58.145 34.615 0.00 0.00 39.19 3.01
690 696 8.981659 TCATCATCTATTGGAGTTGAAGACTTA 58.018 33.333 0.00 0.00 39.19 2.24
691 697 9.039870 CATCATCTATTGGAGTTGAAGACTTAC 57.960 37.037 0.00 0.00 39.19 2.34
692 698 8.134202 TCATCTATTGGAGTTGAAGACTTACA 57.866 34.615 0.00 0.00 39.19 2.41
693 699 8.762645 TCATCTATTGGAGTTGAAGACTTACAT 58.237 33.333 0.00 0.00 39.19 2.29
694 700 9.039870 CATCTATTGGAGTTGAAGACTTACATC 57.960 37.037 0.00 0.00 39.19 3.06
695 701 8.134202 TCTATTGGAGTTGAAGACTTACATCA 57.866 34.615 0.00 0.00 39.19 3.07
696 702 8.035394 TCTATTGGAGTTGAAGACTTACATCAC 58.965 37.037 0.00 0.00 39.19 3.06
697 703 4.894784 TGGAGTTGAAGACTTACATCACC 58.105 43.478 0.00 0.00 39.19 4.02
698 704 4.346709 TGGAGTTGAAGACTTACATCACCA 59.653 41.667 0.00 0.38 39.19 4.17
699 705 5.163248 TGGAGTTGAAGACTTACATCACCAA 60.163 40.000 9.91 0.00 39.19 3.67
700 706 5.940470 GGAGTTGAAGACTTACATCACCAAT 59.060 40.000 0.00 0.00 39.19 3.16
701 707 7.103641 GGAGTTGAAGACTTACATCACCAATA 58.896 38.462 0.00 0.00 39.19 1.90
702 708 7.770897 GGAGTTGAAGACTTACATCACCAATAT 59.229 37.037 0.00 0.00 39.19 1.28
703 709 9.817809 GAGTTGAAGACTTACATCACCAATATA 57.182 33.333 0.00 0.00 39.19 0.86
716 722 9.676861 ACATCACCAATATATATCATCTGTTGG 57.323 33.333 7.26 7.26 40.23 3.77
717 723 9.895138 CATCACCAATATATATCATCTGTTGGA 57.105 33.333 13.49 0.56 38.33 3.53
719 725 9.104713 TCACCAATATATATCATCTGTTGGAGT 57.895 33.333 13.49 0.00 38.33 3.85
720 726 9.730705 CACCAATATATATCATCTGTTGGAGTT 57.269 33.333 13.49 0.00 38.33 3.01
721 727 9.730705 ACCAATATATATCATCTGTTGGAGTTG 57.269 33.333 13.49 0.00 38.33 3.16
722 728 9.948964 CCAATATATATCATCTGTTGGAGTTGA 57.051 33.333 3.80 0.00 37.42 3.18
726 732 6.805016 ATATCATCTGTTGGAGTTGACTCT 57.195 37.500 10.68 0.00 42.48 3.24
727 733 4.963318 TCATCTGTTGGAGTTGACTCTT 57.037 40.909 10.68 0.00 42.48 2.85
728 734 5.296151 TCATCTGTTGGAGTTGACTCTTT 57.704 39.130 10.68 0.00 42.48 2.52
729 735 5.684704 TCATCTGTTGGAGTTGACTCTTTT 58.315 37.500 10.68 0.00 42.48 2.27
730 736 6.826668 TCATCTGTTGGAGTTGACTCTTTTA 58.173 36.000 10.68 0.00 42.48 1.52
731 737 7.453393 TCATCTGTTGGAGTTGACTCTTTTAT 58.547 34.615 10.68 0.00 42.48 1.40
732 738 8.593679 TCATCTGTTGGAGTTGACTCTTTTATA 58.406 33.333 10.68 0.00 42.48 0.98
733 739 9.219603 CATCTGTTGGAGTTGACTCTTTTATAA 57.780 33.333 10.68 0.00 42.48 0.98
734 740 9.793259 ATCTGTTGGAGTTGACTCTTTTATAAA 57.207 29.630 10.68 0.00 42.48 1.40
735 741 9.273016 TCTGTTGGAGTTGACTCTTTTATAAAG 57.727 33.333 10.68 0.00 42.48 1.85
736 742 9.273016 CTGTTGGAGTTGACTCTTTTATAAAGA 57.727 33.333 10.68 2.27 42.48 2.52
737 743 9.793259 TGTTGGAGTTGACTCTTTTATAAAGAT 57.207 29.630 10.68 0.00 42.48 2.40
739 745 9.793259 TTGGAGTTGACTCTTTTATAAAGATGT 57.207 29.630 10.68 3.94 42.48 3.06
809 815 1.200020 GTTGTTCTAAGCAATGCGCCT 59.800 47.619 4.18 0.00 44.04 5.52
934 940 2.046892 CCAACCACCAGCGGAGAG 60.047 66.667 1.50 0.00 0.00 3.20
1011 1021 2.208431 GAGAAGAAGATGGTGATGCCG 58.792 52.381 0.00 0.00 41.21 5.69
1080 1090 3.711782 CCCCTCCCCTCTTCCCCT 61.712 72.222 0.00 0.00 0.00 4.79
1242 1594 1.857318 CTCTCCGTCCATCGATCCCG 61.857 65.000 0.00 0.00 42.86 5.14
1244 1596 4.664677 CCGTCCATCGATCCCGGC 62.665 72.222 12.38 0.00 42.86 6.13
1313 1667 0.512952 CTGCGTCTTACAGTTGTGGC 59.487 55.000 0.00 0.00 0.00 5.01
1314 1668 0.105964 TGCGTCTTACAGTTGTGGCT 59.894 50.000 0.00 0.00 0.00 4.75
1318 1672 2.032894 CGTCTTACAGTTGTGGCTTGTG 60.033 50.000 0.00 0.00 0.00 3.33
1319 1673 2.290641 GTCTTACAGTTGTGGCTTGTGG 59.709 50.000 0.00 0.00 0.00 4.17
1320 1674 1.608590 CTTACAGTTGTGGCTTGTGGG 59.391 52.381 0.00 0.00 0.00 4.61
1321 1675 0.179004 TACAGTTGTGGCTTGTGGGG 60.179 55.000 0.00 0.00 0.00 4.96
1322 1676 1.152777 CAGTTGTGGCTTGTGGGGA 60.153 57.895 0.00 0.00 0.00 4.81
1323 1677 0.754957 CAGTTGTGGCTTGTGGGGAA 60.755 55.000 0.00 0.00 0.00 3.97
1400 1754 4.227134 CTCGGGGCTCCCATGACG 62.227 72.222 7.34 1.24 45.83 4.35
1497 1851 2.427410 CGCGGTTCTTTGCTGTGC 60.427 61.111 0.00 0.00 0.00 4.57
1512 1866 2.046023 TGCATGCAGTTCGGAGGG 60.046 61.111 18.46 0.00 0.00 4.30
1588 1946 5.929697 TTGTCTTTAGATTGCACTGTGAG 57.070 39.130 12.86 0.00 0.00 3.51
1611 1969 3.363341 TTCGTGGGATGCAAAGAAAAC 57.637 42.857 0.00 0.00 0.00 2.43
1684 2053 4.687018 TGCACAATGATTGTTGCTCATTTC 59.313 37.500 23.09 4.50 43.23 2.17
1910 2282 5.879223 ACACATCTTTCTCATGCCTTTAGAG 59.121 40.000 0.00 0.00 0.00 2.43
1945 2317 4.568152 AAACAGTTCCCTTGATGTTTCG 57.432 40.909 0.00 0.00 40.82 3.46
1949 2321 1.068541 GTTCCCTTGATGTTTCGCACC 60.069 52.381 0.00 0.00 0.00 5.01
2051 2423 8.770438 TTTAATGCCAATACTTTTTCCATGAC 57.230 30.769 0.00 0.00 0.00 3.06
2110 2482 3.759581 ACATGGTCAGCTTGATTTCTGT 58.240 40.909 0.00 0.00 0.00 3.41
2111 2483 3.755378 ACATGGTCAGCTTGATTTCTGTC 59.245 43.478 0.00 0.00 0.00 3.51
2112 2484 3.777106 TGGTCAGCTTGATTTCTGTCT 57.223 42.857 0.00 0.00 0.00 3.41
2113 2485 3.405831 TGGTCAGCTTGATTTCTGTCTG 58.594 45.455 0.00 0.00 0.00 3.51
2186 2558 3.818121 TTGGTTCACCGTGCTCCCG 62.818 63.158 0.00 0.00 39.43 5.14
2230 2602 7.724305 TTATTTAACATTGTAGAGATCGGGC 57.276 36.000 0.00 0.00 0.00 6.13
2231 2603 4.746535 TTAACATTGTAGAGATCGGGCA 57.253 40.909 0.00 0.00 0.00 5.36
2232 2604 2.604046 ACATTGTAGAGATCGGGCAC 57.396 50.000 0.00 0.00 0.00 5.01
2525 2901 0.392998 CATCCCCTCCACAAAGACGG 60.393 60.000 0.00 0.00 0.00 4.79
2534 2910 2.034053 TCCACAAAGACGGAAAATGTGC 59.966 45.455 0.00 0.00 39.93 4.57
2594 2970 2.250031 AGAAAACCAGGAATGCATGCA 58.750 42.857 25.04 25.04 0.00 3.96
2649 3025 4.537015 GCACCACTTCAAAGTTACATGAC 58.463 43.478 0.00 0.00 37.08 3.06
2701 3077 3.076621 GTGAATGACATGGCTGAGAACA 58.923 45.455 0.00 0.00 0.00 3.18
2764 3140 2.934553 GCCTAGACCATTTACACGGTTC 59.065 50.000 0.00 0.00 34.99 3.62
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 2.441164 AGAGTCAGATCGGCGGCT 60.441 61.111 7.21 1.56 0.00 5.52
23 24 1.470632 CGGTTCCAGCAGAGTCAGATC 60.471 57.143 0.00 0.00 0.00 2.75
67 68 1.468224 CGTGACTAGGTAGCTGCACAG 60.468 57.143 18.16 2.20 0.00 3.66
77 78 1.901591 TTTCTCCGTCGTGACTAGGT 58.098 50.000 0.00 0.00 0.00 3.08
95 96 1.057851 TCCTCCACTCCCCGTGTTTT 61.058 55.000 0.00 0.00 42.20 2.43
129 130 0.392461 TCTCCTTGCCGGTGTATTGC 60.392 55.000 1.90 0.00 0.00 3.56
131 132 2.421529 GGAATCTCCTTGCCGGTGTATT 60.422 50.000 1.90 0.00 32.53 1.89
162 163 1.357991 GAACTGCTGCTCTCTTCGGC 61.358 60.000 0.00 0.00 36.41 5.54
163 164 0.739112 GGAACTGCTGCTCTCTTCGG 60.739 60.000 0.00 0.00 0.00 4.30
189 190 1.583986 GGAGCCGATCCGATCTCTG 59.416 63.158 6.81 0.00 38.67 3.35
310 316 2.223745 GTTTCCACTTCCAGCCGTAAA 58.776 47.619 0.00 0.00 0.00 2.01
343 349 1.299926 CAGCGTCCGCCTATACACC 60.300 63.158 8.23 0.00 43.17 4.16
349 355 1.038681 TCATTACCAGCGTCCGCCTA 61.039 55.000 8.23 0.00 43.17 3.93
378 384 5.118971 TGGCACGTATTTGTAACTCTTAACG 59.881 40.000 0.00 0.00 35.38 3.18
393 399 2.917933 ACAATGCTACATGGCACGTAT 58.082 42.857 0.00 0.00 45.36 3.06
394 400 2.394930 ACAATGCTACATGGCACGTA 57.605 45.000 0.00 0.00 45.36 3.57
395 401 1.199789 CAACAATGCTACATGGCACGT 59.800 47.619 0.00 0.00 45.36 4.49
396 402 1.199789 ACAACAATGCTACATGGCACG 59.800 47.619 0.00 0.00 45.36 5.34
397 403 3.689161 TCTACAACAATGCTACATGGCAC 59.311 43.478 0.00 0.00 45.36 5.01
398 404 3.949132 TCTACAACAATGCTACATGGCA 58.051 40.909 0.00 0.00 46.63 4.92
399 405 4.963276 TTCTACAACAATGCTACATGGC 57.037 40.909 0.00 0.00 0.00 4.40
481 487 2.338577 ACATGCAGGCTATCCAAGTC 57.661 50.000 0.00 0.00 33.74 3.01
495 501 9.555727 TCCACTAACCTATTTATCTAAACATGC 57.444 33.333 0.00 0.00 0.00 4.06
555 561 9.947433 ATTTTCACATGTCCACAATATCAAATT 57.053 25.926 0.00 0.00 0.00 1.82
556 562 9.947433 AATTTTCACATGTCCACAATATCAAAT 57.053 25.926 0.00 0.00 0.00 2.32
557 563 9.775854 AAATTTTCACATGTCCACAATATCAAA 57.224 25.926 0.00 0.00 0.00 2.69
563 569 9.612066 AACTTTAAATTTTCACATGTCCACAAT 57.388 25.926 0.00 0.00 0.00 2.71
564 570 9.092876 GAACTTTAAATTTTCACATGTCCACAA 57.907 29.630 0.00 0.00 0.00 3.33
565 571 7.433719 CGAACTTTAAATTTTCACATGTCCACA 59.566 33.333 0.00 0.00 0.00 4.17
566 572 7.646130 TCGAACTTTAAATTTTCACATGTCCAC 59.354 33.333 0.00 0.00 0.00 4.02
567 573 7.646130 GTCGAACTTTAAATTTTCACATGTCCA 59.354 33.333 0.00 0.00 0.00 4.02
568 574 7.860872 AGTCGAACTTTAAATTTTCACATGTCC 59.139 33.333 0.00 0.00 0.00 4.02
569 575 8.782533 AGTCGAACTTTAAATTTTCACATGTC 57.217 30.769 0.00 0.00 0.00 3.06
570 576 7.586300 CGAGTCGAACTTTAAATTTTCACATGT 59.414 33.333 6.73 0.00 0.00 3.21
571 577 7.059488 CCGAGTCGAACTTTAAATTTTCACATG 59.941 37.037 15.64 0.00 0.00 3.21
572 578 7.075741 CCGAGTCGAACTTTAAATTTTCACAT 58.924 34.615 15.64 0.00 0.00 3.21
573 579 6.037391 ACCGAGTCGAACTTTAAATTTTCACA 59.963 34.615 15.64 0.00 0.00 3.58
574 580 6.424683 ACCGAGTCGAACTTTAAATTTTCAC 58.575 36.000 15.64 7.06 0.00 3.18
575 581 6.607735 ACCGAGTCGAACTTTAAATTTTCA 57.392 33.333 15.64 0.00 0.00 2.69
576 582 8.225777 ACATACCGAGTCGAACTTTAAATTTTC 58.774 33.333 15.64 0.00 0.00 2.29
577 583 8.091385 ACATACCGAGTCGAACTTTAAATTTT 57.909 30.769 15.64 0.00 0.00 1.82
578 584 7.662604 ACATACCGAGTCGAACTTTAAATTT 57.337 32.000 15.64 0.00 0.00 1.82
579 585 7.662604 AACATACCGAGTCGAACTTTAAATT 57.337 32.000 15.64 0.00 0.00 1.82
580 586 7.662604 AAACATACCGAGTCGAACTTTAAAT 57.337 32.000 15.64 0.00 0.00 1.40
581 587 7.224362 TGAAAACATACCGAGTCGAACTTTAAA 59.776 33.333 15.64 0.00 0.00 1.52
582 588 6.700960 TGAAAACATACCGAGTCGAACTTTAA 59.299 34.615 15.64 0.00 0.00 1.52
583 589 6.215121 TGAAAACATACCGAGTCGAACTTTA 58.785 36.000 15.64 0.00 0.00 1.85
584 590 5.051816 TGAAAACATACCGAGTCGAACTTT 58.948 37.500 15.64 4.59 0.00 2.66
585 591 4.624015 TGAAAACATACCGAGTCGAACTT 58.376 39.130 15.64 0.00 0.00 2.66
586 592 4.247267 TGAAAACATACCGAGTCGAACT 57.753 40.909 15.64 0.00 0.00 3.01
587 593 5.526010 AATGAAAACATACCGAGTCGAAC 57.474 39.130 15.64 0.00 0.00 3.95
588 594 6.548441 AAAATGAAAACATACCGAGTCGAA 57.452 33.333 15.64 1.55 0.00 3.71
589 595 7.655236 TTAAAATGAAAACATACCGAGTCGA 57.345 32.000 15.64 0.00 0.00 4.20
590 596 8.889849 AATTAAAATGAAAACATACCGAGTCG 57.110 30.769 5.29 5.29 0.00 4.18
595 601 9.828220 CGCATAAATTAAAATGAAAACATACCG 57.172 29.630 0.00 0.00 0.00 4.02
600 606 9.046296 ACAACCGCATAAATTAAAATGAAAACA 57.954 25.926 0.79 0.00 0.00 2.83
603 609 9.692749 TGTACAACCGCATAAATTAAAATGAAA 57.307 25.926 0.00 0.00 0.00 2.69
604 610 9.347934 CTGTACAACCGCATAAATTAAAATGAA 57.652 29.630 0.00 0.00 0.00 2.57
605 611 8.516234 ACTGTACAACCGCATAAATTAAAATGA 58.484 29.630 0.00 0.00 0.00 2.57
606 612 8.582930 CACTGTACAACCGCATAAATTAAAATG 58.417 33.333 0.00 0.00 0.00 2.32
607 613 7.757624 CCACTGTACAACCGCATAAATTAAAAT 59.242 33.333 0.00 0.00 0.00 1.82
608 614 7.085116 CCACTGTACAACCGCATAAATTAAAA 58.915 34.615 0.00 0.00 0.00 1.52
609 615 6.207025 ACCACTGTACAACCGCATAAATTAAA 59.793 34.615 0.00 0.00 0.00 1.52
610 616 5.706369 ACCACTGTACAACCGCATAAATTAA 59.294 36.000 0.00 0.00 0.00 1.40
611 617 5.247084 ACCACTGTACAACCGCATAAATTA 58.753 37.500 0.00 0.00 0.00 1.40
612 618 4.076394 ACCACTGTACAACCGCATAAATT 58.924 39.130 0.00 0.00 0.00 1.82
613 619 3.681593 ACCACTGTACAACCGCATAAAT 58.318 40.909 0.00 0.00 0.00 1.40
614 620 3.128852 ACCACTGTACAACCGCATAAA 57.871 42.857 0.00 0.00 0.00 1.40
615 621 2.809119 CAACCACTGTACAACCGCATAA 59.191 45.455 0.00 0.00 0.00 1.90
616 622 2.224329 ACAACCACTGTACAACCGCATA 60.224 45.455 0.00 0.00 36.10 3.14
617 623 1.234821 CAACCACTGTACAACCGCAT 58.765 50.000 0.00 0.00 0.00 4.73
618 624 0.107606 ACAACCACTGTACAACCGCA 60.108 50.000 0.00 0.00 36.10 5.69
619 625 1.868469 TACAACCACTGTACAACCGC 58.132 50.000 0.00 0.00 39.64 5.68
626 632 1.269883 CGGCTGTGTACAACCACTGTA 60.270 52.381 0.00 0.00 39.64 2.74
627 633 0.531974 CGGCTGTGTACAACCACTGT 60.532 55.000 0.00 0.00 42.47 3.55
628 634 1.841663 GCGGCTGTGTACAACCACTG 61.842 60.000 0.00 0.00 36.30 3.66
629 635 1.597027 GCGGCTGTGTACAACCACT 60.597 57.895 0.00 0.00 36.30 4.00
630 636 2.943653 GCGGCTGTGTACAACCAC 59.056 61.111 0.00 0.00 31.74 4.16
631 637 2.663520 CGCGGCTGTGTACAACCA 60.664 61.111 0.00 0.00 31.74 3.67
632 638 1.778027 AAACGCGGCTGTGTACAACC 61.778 55.000 13.10 0.00 38.01 3.77
633 639 0.860533 TAAACGCGGCTGTGTACAAC 59.139 50.000 13.10 0.00 38.01 3.32
634 640 0.860533 GTAAACGCGGCTGTGTACAA 59.139 50.000 13.10 0.00 38.01 2.41
635 641 0.249363 TGTAAACGCGGCTGTGTACA 60.249 50.000 13.10 17.79 39.62 2.90
636 642 1.060122 GATGTAAACGCGGCTGTGTAC 59.940 52.381 13.10 8.68 38.01 2.90
637 643 1.067425 AGATGTAAACGCGGCTGTGTA 60.067 47.619 13.10 0.00 38.01 2.90
638 644 0.320421 AGATGTAAACGCGGCTGTGT 60.320 50.000 12.47 5.74 41.58 3.72
639 645 0.796312 AAGATGTAAACGCGGCTGTG 59.204 50.000 12.47 4.06 0.00 3.66
640 646 1.519408 AAAGATGTAAACGCGGCTGT 58.481 45.000 12.47 0.00 0.00 4.40
641 647 3.944422 ATAAAGATGTAAACGCGGCTG 57.056 42.857 12.47 0.00 0.00 4.85
642 648 4.957759 AAATAAAGATGTAAACGCGGCT 57.042 36.364 12.47 0.00 0.00 5.52
643 649 5.090083 TGAAAATAAAGATGTAAACGCGGC 58.910 37.500 12.47 0.00 0.00 6.53
644 650 6.964370 TGATGAAAATAAAGATGTAAACGCGG 59.036 34.615 12.47 0.00 0.00 6.46
645 651 7.946918 TGATGAAAATAAAGATGTAAACGCG 57.053 32.000 3.53 3.53 0.00 6.01
646 652 9.722056 AGATGATGAAAATAAAGATGTAAACGC 57.278 29.630 0.00 0.00 0.00 4.84
660 666 9.690913 TCTTCAACTCCAATAGATGATGAAAAT 57.309 29.630 0.00 0.00 37.87 1.82
661 667 8.950210 GTCTTCAACTCCAATAGATGATGAAAA 58.050 33.333 0.00 0.00 40.51 2.29
662 668 8.324306 AGTCTTCAACTCCAATAGATGATGAAA 58.676 33.333 0.00 0.00 40.51 2.69
663 669 7.855375 AGTCTTCAACTCCAATAGATGATGAA 58.145 34.615 0.00 0.00 40.51 2.57
664 670 7.429374 AGTCTTCAACTCCAATAGATGATGA 57.571 36.000 0.00 0.00 36.93 2.92
665 671 9.039870 GTAAGTCTTCAACTCCAATAGATGATG 57.960 37.037 0.00 0.00 36.93 3.07
666 672 8.762645 TGTAAGTCTTCAACTCCAATAGATGAT 58.237 33.333 0.00 0.00 36.93 2.45
667 673 8.134202 TGTAAGTCTTCAACTCCAATAGATGA 57.866 34.615 0.00 0.00 37.17 2.92
668 674 8.954950 ATGTAAGTCTTCAACTCCAATAGATG 57.045 34.615 0.00 0.00 37.17 2.90
669 675 8.762645 TGATGTAAGTCTTCAACTCCAATAGAT 58.237 33.333 0.00 0.00 37.17 1.98
670 676 8.035394 GTGATGTAAGTCTTCAACTCCAATAGA 58.965 37.037 0.00 0.00 37.17 1.98
671 677 7.278868 GGTGATGTAAGTCTTCAACTCCAATAG 59.721 40.741 0.00 0.00 37.17 1.73
672 678 7.103641 GGTGATGTAAGTCTTCAACTCCAATA 58.896 38.462 0.00 0.00 37.17 1.90
673 679 5.940470 GGTGATGTAAGTCTTCAACTCCAAT 59.060 40.000 0.00 0.00 37.17 3.16
674 680 5.163248 TGGTGATGTAAGTCTTCAACTCCAA 60.163 40.000 10.64 1.53 38.32 3.53
675 681 4.346709 TGGTGATGTAAGTCTTCAACTCCA 59.653 41.667 9.72 9.72 38.32 3.86
676 682 4.894784 TGGTGATGTAAGTCTTCAACTCC 58.105 43.478 0.00 0.00 38.32 3.85
677 683 8.723942 ATATTGGTGATGTAAGTCTTCAACTC 57.276 34.615 0.00 0.00 38.32 3.01
690 696 9.676861 CCAACAGATGATATATATTGGTGATGT 57.323 33.333 10.49 3.69 32.25 3.06
691 697 9.895138 TCCAACAGATGATATATATTGGTGATG 57.105 33.333 10.49 5.64 37.11 3.07
693 699 9.104713 ACTCCAACAGATGATATATATTGGTGA 57.895 33.333 10.49 0.00 37.11 4.02
694 700 9.730705 AACTCCAACAGATGATATATATTGGTG 57.269 33.333 8.26 6.20 37.11 4.17
695 701 9.730705 CAACTCCAACAGATGATATATATTGGT 57.269 33.333 8.26 0.00 37.11 3.67
696 702 9.948964 TCAACTCCAACAGATGATATATATTGG 57.051 33.333 0.00 0.08 37.13 3.16
700 706 9.593565 AGAGTCAACTCCAACAGATGATATATA 57.406 33.333 6.54 0.00 43.88 0.86
701 707 8.489676 AGAGTCAACTCCAACAGATGATATAT 57.510 34.615 6.54 0.00 43.88 0.86
702 708 7.904558 AGAGTCAACTCCAACAGATGATATA 57.095 36.000 6.54 0.00 43.88 0.86
703 709 6.805016 AGAGTCAACTCCAACAGATGATAT 57.195 37.500 6.54 0.00 43.88 1.63
704 710 6.611613 AAGAGTCAACTCCAACAGATGATA 57.388 37.500 6.54 0.00 43.88 2.15
705 711 5.495926 AAGAGTCAACTCCAACAGATGAT 57.504 39.130 6.54 0.00 43.88 2.45
706 712 4.963318 AAGAGTCAACTCCAACAGATGA 57.037 40.909 6.54 0.00 43.88 2.92
707 713 7.678947 ATAAAAGAGTCAACTCCAACAGATG 57.321 36.000 6.54 0.00 43.88 2.90
708 714 9.793259 TTTATAAAAGAGTCAACTCCAACAGAT 57.207 29.630 6.54 0.00 43.88 2.90
709 715 9.273016 CTTTATAAAAGAGTCAACTCCAACAGA 57.727 33.333 6.54 0.00 43.88 3.41
710 716 9.273016 TCTTTATAAAAGAGTCAACTCCAACAG 57.727 33.333 6.54 0.00 43.88 3.16
711 717 9.793259 ATCTTTATAAAAGAGTCAACTCCAACA 57.207 29.630 6.54 0.00 43.88 3.33
713 719 9.793259 ACATCTTTATAAAAGAGTCAACTCCAA 57.207 29.630 6.54 0.00 43.88 3.53
770 776 8.576442 AGAACAACTCCATAAAATTAGGTGTTG 58.424 33.333 18.52 18.52 46.86 3.33
772 778 9.802039 TTAGAACAACTCCATAAAATTAGGTGT 57.198 29.630 0.00 0.00 41.53 4.16
774 780 8.957466 GCTTAGAACAACTCCATAAAATTAGGT 58.043 33.333 0.00 0.00 0.00 3.08
775 781 8.956426 TGCTTAGAACAACTCCATAAAATTAGG 58.044 33.333 0.00 0.00 0.00 2.69
778 784 9.643693 CATTGCTTAGAACAACTCCATAAAATT 57.356 29.630 0.00 0.00 0.00 1.82
779 785 7.761249 GCATTGCTTAGAACAACTCCATAAAAT 59.239 33.333 0.16 0.00 0.00 1.82
780 786 7.090173 GCATTGCTTAGAACAACTCCATAAAA 58.910 34.615 0.16 0.00 0.00 1.52
781 787 6.620678 GCATTGCTTAGAACAACTCCATAAA 58.379 36.000 0.16 0.00 0.00 1.40
782 788 5.163764 CGCATTGCTTAGAACAACTCCATAA 60.164 40.000 7.12 0.00 0.00 1.90
783 789 4.332543 CGCATTGCTTAGAACAACTCCATA 59.667 41.667 7.12 0.00 0.00 2.74
784 790 3.127548 CGCATTGCTTAGAACAACTCCAT 59.872 43.478 7.12 0.00 0.00 3.41
785 791 2.483877 CGCATTGCTTAGAACAACTCCA 59.516 45.455 7.12 0.00 0.00 3.86
786 792 2.729156 GCGCATTGCTTAGAACAACTCC 60.729 50.000 0.30 0.00 41.73 3.85
787 793 2.509870 GCGCATTGCTTAGAACAACTC 58.490 47.619 0.30 0.00 41.73 3.01
788 794 1.200020 GGCGCATTGCTTAGAACAACT 59.800 47.619 10.83 0.00 45.43 3.16
789 795 1.200020 AGGCGCATTGCTTAGAACAAC 59.800 47.619 10.83 0.00 45.43 3.32
790 796 1.533625 AGGCGCATTGCTTAGAACAA 58.466 45.000 10.83 0.00 45.43 2.83
791 797 1.199789 CAAGGCGCATTGCTTAGAACA 59.800 47.619 22.74 0.00 45.43 3.18
792 798 1.900237 CAAGGCGCATTGCTTAGAAC 58.100 50.000 22.74 0.00 45.43 3.01
809 815 1.187974 CTTGGATGAATGGCCAGCAA 58.812 50.000 13.05 0.00 35.23 3.91
821 827 3.865745 GTGAGACGTTGGATACTTGGATG 59.134 47.826 0.00 0.00 37.61 3.51
934 940 2.205243 CTGCTTGCGCTTTCCTTCCC 62.205 60.000 9.73 0.00 36.97 3.97
972 982 2.039405 CCTCTTCGGGTCGTCGTCT 61.039 63.158 0.00 0.00 0.00 4.18
1011 1021 1.006102 CCATAGCATCGGGTCCGTC 60.006 63.158 9.36 0.85 40.74 4.79
1073 1083 1.074850 GGAGGAGGAGGAGGGGAAG 60.075 68.421 0.00 0.00 0.00 3.46
1074 1084 1.550374 AGGAGGAGGAGGAGGGGAA 60.550 63.158 0.00 0.00 0.00 3.97
1075 1085 2.015726 GAGGAGGAGGAGGAGGGGA 61.016 68.421 0.00 0.00 0.00 4.81
1077 1087 2.612251 GGAGGAGGAGGAGGAGGG 59.388 72.222 0.00 0.00 0.00 4.30
1167 1519 3.853330 CGGAACATGTGCGCTCCG 61.853 66.667 19.26 19.26 44.31 4.63
1400 1754 2.746277 ACGATGTTGGGGCGCTTC 60.746 61.111 7.64 0.00 0.00 3.86
1480 1834 2.427410 GCACAGCAAAGAACCGCG 60.427 61.111 0.00 0.00 0.00 6.46
1497 1851 1.372087 GAAGCCCTCCGAACTGCATG 61.372 60.000 0.00 0.00 0.00 4.06
1512 1866 3.854784 GCACAATTCCAGTTGTCAGAAGC 60.855 47.826 0.00 0.00 40.17 3.86
1560 1918 6.039717 ACAGTGCAATCTAAAGACAAACACAT 59.960 34.615 0.00 0.00 0.00 3.21
1561 1919 5.356751 ACAGTGCAATCTAAAGACAAACACA 59.643 36.000 0.00 0.00 0.00 3.72
1562 1920 5.682862 CACAGTGCAATCTAAAGACAAACAC 59.317 40.000 0.00 0.00 0.00 3.32
1563 1921 5.588246 TCACAGTGCAATCTAAAGACAAACA 59.412 36.000 0.00 0.00 0.00 2.83
1588 1946 3.363341 TTCTTTGCATCCCACGAAAAC 57.637 42.857 0.00 0.00 0.00 2.43
1684 2053 3.935203 CACAGTGTAGCACCTAGAAATGG 59.065 47.826 0.00 0.00 34.49 3.16
1945 2317 2.945668 GGATGTACAAATGAGGAGGTGC 59.054 50.000 0.00 0.00 0.00 5.01
1949 2321 4.148128 AGCAGGATGTACAAATGAGGAG 57.852 45.455 0.00 0.00 39.31 3.69
2051 2423 1.134280 AGAGCCAAGATCCCGTGATTG 60.134 52.381 0.00 0.00 0.00 2.67
2110 2482 3.168292 TGGAAGCAGAGAGATTGACAGA 58.832 45.455 0.00 0.00 0.00 3.41
2111 2483 3.606595 TGGAAGCAGAGAGATTGACAG 57.393 47.619 0.00 0.00 0.00 3.51
2112 2484 3.118482 GGATGGAAGCAGAGAGATTGACA 60.118 47.826 0.00 0.00 0.00 3.58
2113 2485 3.118482 TGGATGGAAGCAGAGAGATTGAC 60.118 47.826 0.00 0.00 0.00 3.18
2325 2699 2.183679 AGAGACCCAAACAGCTAGGAG 58.816 52.381 0.00 0.00 0.00 3.69
2571 2947 3.056322 GCATGCATTCCTGGTTTTCTTCT 60.056 43.478 14.21 0.00 0.00 2.85
2631 3007 7.281484 GTCGTAAGTCATGTAACTTTGAAGTG 58.719 38.462 5.23 0.00 40.01 3.16
2649 3025 2.853159 TGCCAATGCAGGTCGTAAG 58.147 52.632 0.00 0.00 44.23 2.34
2701 3077 9.747898 TGACAGGGAGTATACAAAAACATTATT 57.252 29.630 5.50 0.00 0.00 1.40


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

AutoCloner maintained by Alex Coulton.