Multiple sequence alignment - TraesCS2D01G059000

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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 TraesCS2D01G059000 chr2D 100.000 3230 0 0 1 3230 23423427 23420198 0.000000e+00 5965.0
1 TraesCS2D01G059000 chr2A 94.290 1909 77 15 762 2642 25342925 25344829 0.000000e+00 2892.0
2 TraesCS2D01G059000 chr2A 94.151 530 23 2 2649 3177 25344797 25345319 0.000000e+00 800.0
3 TraesCS2D01G059000 chr2A 92.157 153 9 3 241 393 25335707 25335856 2.520000e-51 213.0
4 TraesCS2D01G059000 chr2A 98.182 55 1 0 3176 3230 25345344 25345398 2.650000e-16 97.1
5 TraesCS2D01G059000 chr2A 97.222 36 1 0 2307 2342 25344445 25344480 9.680000e-06 62.1
6 TraesCS2D01G059000 chr2B 93.977 1876 73 12 797 2642 36839072 36840937 0.000000e+00 2802.0
7 TraesCS2D01G059000 chr2B 96.792 530 14 3 2649 3177 36840905 36841432 0.000000e+00 881.0
8 TraesCS2D01G059000 chr2B 92.050 239 16 3 1 236 36837351 36837589 1.860000e-87 333.0
9 TraesCS2D01G059000 chr2B 87.640 89 7 2 228 315 36837799 36837884 2.050000e-17 100.0
10 TraesCS2D01G059000 chr2B 98.182 55 1 0 3176 3230 36841457 36841511 2.650000e-16 97.1


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 TraesCS2D01G059000 chr2D 23420198 23423427 3229 True 5965.00 5965 100.00000 1 3230 1 chr2D.!!$R1 3229
1 TraesCS2D01G059000 chr2A 25342925 25345398 2473 False 962.80 2892 95.96125 762 3230 4 chr2A.!!$F2 2468
2 TraesCS2D01G059000 chr2B 36837351 36841511 4160 False 842.62 2802 93.72820 1 3230 5 chr2B.!!$F1 3229

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
525 789 0.247460 TGAACTCCATCAGCCAGTCG 59.753 55.0 0.0 0.0 0.00 4.18 F
710 974 0.313043 TTCAGTGACGGAAGGACGAC 59.687 55.0 0.0 0.0 37.61 4.34 F
2151 3209 0.109723 TGCAGGTTGGTAGGTTCACC 59.890 55.0 0.0 0.0 39.20 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1989 3047 0.621862 GGTCTCCCCATTCCTCAGGT 60.622 60.0 0.0 0.0 0.0 4.00 R
2169 3227 2.180432 AAAGGTAGGCTTCGTTCACC 57.820 50.0 0.0 0.0 0.0 4.02 R
2984 4058 0.680618 CAAGGCTGCAACAATTCCCA 59.319 50.0 0.5 0.0 0.0 4.37 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
24 26 4.556233 TCACGTCCAACAAGACATCTAAG 58.444 43.478 0.00 0.00 36.52 2.18
34 36 4.125703 CAAGACATCTAAGTCATGAGGGC 58.874 47.826 0.00 0.00 39.00 5.19
66 68 2.094390 AGAAGATACGTACTGCGGCAAA 60.094 45.455 3.44 0.00 46.52 3.68
74 76 1.535462 GTACTGCGGCAAACTCAATGT 59.465 47.619 3.44 0.00 0.00 2.71
97 99 8.786826 TGTAACAACAACTATCTTAAGATGGG 57.213 34.615 26.77 20.34 37.35 4.00
186 189 9.027129 TCGTAATTGCAACATGTAGAAGTATAC 57.973 33.333 0.00 0.00 0.00 1.47
187 190 9.031360 CGTAATTGCAACATGTAGAAGTATACT 57.969 33.333 0.00 0.00 0.00 2.12
193 197 7.762615 TGCAACATGTAGAAGTATACTGGTAAC 59.237 37.037 6.06 3.85 0.00 2.50
205 209 8.718102 AGTATACTGGTAACTAGCACAAAATG 57.282 34.615 4.10 0.00 37.61 2.32
210 214 6.546034 ACTGGTAACTAGCACAAAATGAAAGT 59.454 34.615 0.00 0.00 37.61 2.66
215 219 3.102052 AGCACAAAATGAAAGTGGCAG 57.898 42.857 0.00 0.00 33.98 4.85
230 234 1.915489 TGGCAGGGATGTGACTAATGT 59.085 47.619 0.00 0.00 0.00 2.71
237 460 4.964897 AGGGATGTGACTAATGTGATCTGA 59.035 41.667 0.00 0.00 0.00 3.27
239 462 6.784473 AGGGATGTGACTAATGTGATCTGATA 59.216 38.462 0.00 0.00 0.00 2.15
250 473 4.297768 TGTGATCTGATACCCTTCATGGA 58.702 43.478 0.00 0.00 38.35 3.41
251 474 4.721274 TGTGATCTGATACCCTTCATGGAA 59.279 41.667 0.00 0.00 38.35 3.53
252 475 5.191522 TGTGATCTGATACCCTTCATGGAAA 59.808 40.000 0.00 0.00 38.35 3.13
253 476 6.122277 GTGATCTGATACCCTTCATGGAAAA 58.878 40.000 0.00 0.00 38.35 2.29
254 477 6.038714 GTGATCTGATACCCTTCATGGAAAAC 59.961 42.308 0.00 0.00 38.35 2.43
292 515 5.904362 ACATAAAAGTTGGGATCAAGCTC 57.096 39.130 0.00 0.00 32.92 4.09
310 533 9.774742 ATCAAGCTCGAATTGTTCTTTATTAAC 57.225 29.630 9.22 0.00 0.00 2.01
340 563 8.792830 TTTTCTTACATGAAACATCCTAGAGG 57.207 34.615 0.00 0.00 35.91 3.69
341 564 8.146053 TTTCTTACATGAAACATCCTAGAGGA 57.854 34.615 0.00 0.00 38.51 3.71
357 580 6.710744 TCCTAGAGGAAATGAAACAAGTGAAC 59.289 38.462 0.00 0.00 42.18 3.18
358 581 6.486657 CCTAGAGGAAATGAAACAAGTGAACA 59.513 38.462 0.00 0.00 37.39 3.18
359 582 6.773976 AGAGGAAATGAAACAAGTGAACAA 57.226 33.333 0.00 0.00 0.00 2.83
360 583 7.169158 AGAGGAAATGAAACAAGTGAACAAA 57.831 32.000 0.00 0.00 0.00 2.83
361 584 7.610865 AGAGGAAATGAAACAAGTGAACAAAA 58.389 30.769 0.00 0.00 0.00 2.44
362 585 7.761249 AGAGGAAATGAAACAAGTGAACAAAAG 59.239 33.333 0.00 0.00 0.00 2.27
363 586 7.386059 AGGAAATGAAACAAGTGAACAAAAGT 58.614 30.769 0.00 0.00 0.00 2.66
364 587 7.331687 AGGAAATGAAACAAGTGAACAAAAGTG 59.668 33.333 0.00 0.00 0.00 3.16
365 588 7.117667 GGAAATGAAACAAGTGAACAAAAGTGT 59.882 33.333 0.00 0.00 40.75 3.55
366 589 9.134734 GAAATGAAACAAGTGAACAAAAGTGTA 57.865 29.630 0.00 0.00 36.80 2.90
367 590 8.460831 AATGAAACAAGTGAACAAAAGTGTAC 57.539 30.769 0.00 0.00 36.80 2.90
368 591 7.209471 TGAAACAAGTGAACAAAAGTGTACT 57.791 32.000 0.00 0.00 36.80 2.73
369 592 7.081349 TGAAACAAGTGAACAAAAGTGTACTG 58.919 34.615 0.00 0.00 36.80 2.74
370 593 6.811253 AACAAGTGAACAAAAGTGTACTGA 57.189 33.333 0.00 0.00 36.80 3.41
371 594 7.391148 AACAAGTGAACAAAAGTGTACTGAT 57.609 32.000 0.00 0.00 36.80 2.90
372 595 6.785191 ACAAGTGAACAAAAGTGTACTGATG 58.215 36.000 0.00 0.00 36.80 3.07
373 596 6.183360 ACAAGTGAACAAAAGTGTACTGATGG 60.183 38.462 0.00 0.00 36.80 3.51
374 597 4.275936 AGTGAACAAAAGTGTACTGATGGC 59.724 41.667 0.00 0.00 36.80 4.40
375 598 4.275936 GTGAACAAAAGTGTACTGATGGCT 59.724 41.667 0.00 0.00 36.80 4.75
376 599 5.468746 GTGAACAAAAGTGTACTGATGGCTA 59.531 40.000 0.00 0.00 36.80 3.93
377 600 6.017440 GTGAACAAAAGTGTACTGATGGCTAA 60.017 38.462 0.00 0.00 36.80 3.09
378 601 6.204688 TGAACAAAAGTGTACTGATGGCTAAG 59.795 38.462 0.00 0.00 36.80 2.18
379 602 4.455877 ACAAAAGTGTACTGATGGCTAAGC 59.544 41.667 0.00 0.00 35.72 3.09
380 603 6.548030 ACAAAAGTGTACTGATGGCTAAGCC 61.548 44.000 0.00 0.00 42.50 4.35
381 604 8.658330 ACAAAAGTGTACTGATGGCTAAGCCT 62.658 42.308 0.00 0.00 42.59 4.58
391 614 2.031258 GGCTAAGCCTTCTTCAGGTC 57.969 55.000 0.00 0.00 46.69 3.85
392 615 1.557371 GGCTAAGCCTTCTTCAGGTCT 59.443 52.381 0.00 0.00 46.69 3.85
393 616 2.626840 GCTAAGCCTTCTTCAGGTCTG 58.373 52.381 0.00 0.00 46.07 3.51
394 617 2.679349 GCTAAGCCTTCTTCAGGTCTGG 60.679 54.545 0.00 0.00 46.07 3.86
395 618 1.734655 AAGCCTTCTTCAGGTCTGGA 58.265 50.000 0.00 0.00 46.07 3.86
396 619 1.963985 AGCCTTCTTCAGGTCTGGAT 58.036 50.000 0.00 0.00 46.07 3.41
397 620 2.273619 AGCCTTCTTCAGGTCTGGATT 58.726 47.619 0.00 0.00 46.07 3.01
398 621 2.026449 AGCCTTCTTCAGGTCTGGATTG 60.026 50.000 0.00 0.00 46.07 2.67
399 622 2.363683 CCTTCTTCAGGTCTGGATTGC 58.636 52.381 0.00 0.00 37.99 3.56
400 623 2.026449 CCTTCTTCAGGTCTGGATTGCT 60.026 50.000 0.00 0.00 37.99 3.91
401 624 3.560882 CCTTCTTCAGGTCTGGATTGCTT 60.561 47.826 0.00 0.00 37.99 3.91
402 625 3.063510 TCTTCAGGTCTGGATTGCTTG 57.936 47.619 0.00 0.00 0.00 4.01
403 626 2.089980 CTTCAGGTCTGGATTGCTTGG 58.910 52.381 0.00 0.00 0.00 3.61
404 627 0.322816 TCAGGTCTGGATTGCTTGGC 60.323 55.000 0.00 0.00 0.00 4.52
405 628 1.377725 AGGTCTGGATTGCTTGGCG 60.378 57.895 0.00 0.00 0.00 5.69
406 629 1.377202 GGTCTGGATTGCTTGGCGA 60.377 57.895 0.00 0.00 0.00 5.54
407 630 0.749454 GGTCTGGATTGCTTGGCGAT 60.749 55.000 0.00 0.00 35.05 4.58
408 631 1.475034 GGTCTGGATTGCTTGGCGATA 60.475 52.381 0.00 0.00 32.11 2.92
409 632 2.498167 GTCTGGATTGCTTGGCGATAT 58.502 47.619 0.00 0.00 32.11 1.63
410 633 2.880890 GTCTGGATTGCTTGGCGATATT 59.119 45.455 0.00 0.00 32.11 1.28
411 634 4.065088 GTCTGGATTGCTTGGCGATATTA 58.935 43.478 0.00 0.00 32.11 0.98
412 635 4.065088 TCTGGATTGCTTGGCGATATTAC 58.935 43.478 0.00 0.00 32.11 1.89
413 636 3.814625 TGGATTGCTTGGCGATATTACA 58.185 40.909 0.00 0.00 32.11 2.41
414 637 3.563808 TGGATTGCTTGGCGATATTACAC 59.436 43.478 0.00 0.00 32.11 2.90
415 638 3.815401 GGATTGCTTGGCGATATTACACT 59.185 43.478 0.00 0.00 32.11 3.55
416 639 4.275936 GGATTGCTTGGCGATATTACACTT 59.724 41.667 0.00 0.00 32.11 3.16
417 640 4.875544 TTGCTTGGCGATATTACACTTC 57.124 40.909 0.00 0.00 0.00 3.01
418 641 3.202906 TGCTTGGCGATATTACACTTCC 58.797 45.455 0.00 0.00 0.00 3.46
419 642 3.202906 GCTTGGCGATATTACACTTCCA 58.797 45.455 0.00 0.00 0.00 3.53
420 643 3.002348 GCTTGGCGATATTACACTTCCAC 59.998 47.826 0.00 0.00 0.00 4.02
421 644 4.442706 CTTGGCGATATTACACTTCCACT 58.557 43.478 0.00 0.00 0.00 4.00
422 645 4.481368 TGGCGATATTACACTTCCACTT 57.519 40.909 0.00 0.00 0.00 3.16
423 646 4.839121 TGGCGATATTACACTTCCACTTT 58.161 39.130 0.00 0.00 0.00 2.66
424 647 4.634004 TGGCGATATTACACTTCCACTTTG 59.366 41.667 0.00 0.00 0.00 2.77
425 648 4.873827 GGCGATATTACACTTCCACTTTGA 59.126 41.667 0.00 0.00 0.00 2.69
426 649 5.353123 GGCGATATTACACTTCCACTTTGAA 59.647 40.000 0.00 0.00 0.00 2.69
427 650 6.248631 GCGATATTACACTTCCACTTTGAAC 58.751 40.000 0.00 0.00 0.00 3.18
428 651 6.092259 GCGATATTACACTTCCACTTTGAACT 59.908 38.462 0.00 0.00 0.00 3.01
429 652 7.674240 GCGATATTACACTTCCACTTTGAACTC 60.674 40.741 0.00 0.00 0.00 3.01
430 653 7.545965 CGATATTACACTTCCACTTTGAACTCT 59.454 37.037 0.00 0.00 0.00 3.24
431 654 9.871238 GATATTACACTTCCACTTTGAACTCTA 57.129 33.333 0.00 0.00 0.00 2.43
432 655 7.964604 ATTACACTTCCACTTTGAACTCTAC 57.035 36.000 0.00 0.00 0.00 2.59
433 656 4.369182 ACACTTCCACTTTGAACTCTACG 58.631 43.478 0.00 0.00 0.00 3.51
434 657 4.142004 ACACTTCCACTTTGAACTCTACGT 60.142 41.667 0.00 0.00 0.00 3.57
435 658 4.209288 CACTTCCACTTTGAACTCTACGTG 59.791 45.833 0.00 0.00 0.00 4.49
436 659 4.098960 ACTTCCACTTTGAACTCTACGTGA 59.901 41.667 0.00 0.00 0.00 4.35
437 660 4.866508 TCCACTTTGAACTCTACGTGAT 57.133 40.909 0.00 0.00 0.00 3.06
438 661 5.209818 TCCACTTTGAACTCTACGTGATT 57.790 39.130 0.00 0.00 0.00 2.57
439 662 5.607477 TCCACTTTGAACTCTACGTGATTT 58.393 37.500 0.00 0.00 0.00 2.17
440 663 6.053005 TCCACTTTGAACTCTACGTGATTTT 58.947 36.000 0.00 0.00 0.00 1.82
441 664 6.202188 TCCACTTTGAACTCTACGTGATTTTC 59.798 38.462 0.00 0.00 0.00 2.29
442 665 6.018262 CCACTTTGAACTCTACGTGATTTTCA 60.018 38.462 0.00 0.00 0.00 2.69
443 666 7.307989 CCACTTTGAACTCTACGTGATTTTCAT 60.308 37.037 0.00 0.00 31.07 2.57
444 667 8.070171 CACTTTGAACTCTACGTGATTTTCATT 58.930 33.333 0.00 0.00 31.07 2.57
445 668 8.621286 ACTTTGAACTCTACGTGATTTTCATTT 58.379 29.630 0.00 0.00 31.07 2.32
465 688 8.824159 TCATTTATAGAAGAGCATAGAAGCAC 57.176 34.615 0.00 0.00 36.85 4.40
468 691 1.827969 AGAAGAGCATAGAAGCACCGT 59.172 47.619 0.00 0.00 36.85 4.83
475 698 2.412870 CATAGAAGCACCGTCACACAA 58.587 47.619 0.00 0.00 0.00 3.33
518 782 2.425312 AGCTACGTCTGAACTCCATCAG 59.575 50.000 0.00 0.00 46.62 2.90
525 789 0.247460 TGAACTCCATCAGCCAGTCG 59.753 55.000 0.00 0.00 0.00 4.18
548 812 8.379902 GTCGGCATTCCATATTTTTACAAAAAG 58.620 33.333 6.10 0.00 40.78 2.27
550 814 7.547370 CGGCATTCCATATTTTTACAAAAAGGA 59.453 33.333 6.10 4.79 40.78 3.36
551 815 8.664798 GGCATTCCATATTTTTACAAAAAGGAC 58.335 33.333 6.10 0.00 40.78 3.85
643 907 2.503765 TCAAGGAATCTGATAACGCCCA 59.496 45.455 0.00 0.00 0.00 5.36
647 911 2.031683 GGAATCTGATAACGCCCAAACG 59.968 50.000 0.00 0.00 39.50 3.60
655 919 3.618171 ACGCCCAAACGTCAAGTAT 57.382 47.368 0.00 0.00 44.43 2.12
666 930 2.233676 ACGTCAAGTATGAGCACATGGA 59.766 45.455 6.91 0.00 35.88 3.41
675 939 7.414222 AGTATGAGCACATGGAAAATCAAAT 57.586 32.000 6.91 0.00 37.87 2.32
682 946 8.188531 AGCACATGGAAAATCAAATATTTTCG 57.811 30.769 13.94 6.25 44.56 3.46
701 965 1.202065 CGATGGCAAATTCAGTGACGG 60.202 52.381 0.00 0.00 0.00 4.79
704 968 1.879380 TGGCAAATTCAGTGACGGAAG 59.121 47.619 4.28 0.00 0.00 3.46
706 970 2.151202 GCAAATTCAGTGACGGAAGGA 58.849 47.619 4.28 0.00 0.00 3.36
707 971 2.095718 GCAAATTCAGTGACGGAAGGAC 60.096 50.000 4.28 0.00 0.00 3.85
708 972 2.080286 AATTCAGTGACGGAAGGACG 57.920 50.000 4.28 0.00 40.31 4.79
709 973 1.254026 ATTCAGTGACGGAAGGACGA 58.746 50.000 4.28 0.00 37.61 4.20
710 974 0.313043 TTCAGTGACGGAAGGACGAC 59.687 55.000 0.00 0.00 37.61 4.34
711 975 0.820482 TCAGTGACGGAAGGACGACA 60.820 55.000 0.00 0.00 36.30 4.35
715 979 2.140717 GTGACGGAAGGACGACAAATT 58.859 47.619 0.00 0.00 39.86 1.82
716 980 2.546789 GTGACGGAAGGACGACAAATTT 59.453 45.455 0.00 0.00 39.86 1.82
718 982 2.546789 GACGGAAGGACGACAAATTTGT 59.453 45.455 23.49 23.49 45.65 2.83
719 983 2.946990 ACGGAAGGACGACAAATTTGTT 59.053 40.909 24.02 10.17 42.43 2.83
721 985 3.972502 CGGAAGGACGACAAATTTGTTTC 59.027 43.478 24.02 20.65 42.43 2.78
722 986 3.972502 GGAAGGACGACAAATTTGTTTCG 59.027 43.478 24.02 23.60 42.43 3.46
724 988 4.625972 AGGACGACAAATTTGTTTCGTT 57.374 36.364 28.11 16.87 40.29 3.85
725 989 4.989044 AGGACGACAAATTTGTTTCGTTT 58.011 34.783 28.11 20.21 40.29 3.60
749 1013 3.918294 TGAGAATCAGATGACATGGCA 57.082 42.857 2.18 2.18 42.56 4.92
750 1014 4.432980 TGAGAATCAGATGACATGGCAT 57.567 40.909 15.73 15.73 42.56 4.40
751 1015 4.134563 TGAGAATCAGATGACATGGCATG 58.865 43.478 21.56 25.31 42.56 4.06
752 1016 2.885266 AGAATCAGATGACATGGCATGC 59.115 45.455 26.70 18.94 0.00 4.06
754 1345 2.358322 TCAGATGACATGGCATGCAT 57.642 45.000 26.70 26.51 32.43 3.96
776 1367 2.159393 GCATGGCATCTTCGTGCTTTAA 60.159 45.455 0.00 0.00 44.45 1.52
794 1385 4.761845 TGCGCGTCGGGCCAAATA 62.762 61.111 28.56 9.36 40.86 1.40
795 1386 3.937062 GCGCGTCGGGCCAAATAG 61.937 66.667 22.51 0.00 38.94 1.73
823 1851 1.935933 CCACCGCTATATTATCGGCC 58.064 55.000 0.00 0.00 46.49 6.13
904 1933 0.685097 CAACCGACCTCTTTCTGGGA 59.315 55.000 0.00 0.00 0.00 4.37
936 1965 2.044946 AACCAGGCCGAGCATTCC 60.045 61.111 0.00 0.00 0.00 3.01
983 2035 4.944372 CGTAGATCCACCGCCGCC 62.944 72.222 0.00 0.00 0.00 6.13
984 2042 3.845259 GTAGATCCACCGCCGCCA 61.845 66.667 0.00 0.00 0.00 5.69
1389 2447 3.569049 CTTCACCGAGGTCGCCGTT 62.569 63.158 0.00 0.00 38.18 4.44
1905 2963 3.433615 CCGTTGTGGTCTCAGATCTTTTC 59.566 47.826 0.00 0.00 0.00 2.29
1989 3047 4.022935 CAGCTGCTGAACAAAATCACCTTA 60.023 41.667 24.88 0.00 32.44 2.69
2151 3209 0.109723 TGCAGGTTGGTAGGTTCACC 59.890 55.000 0.00 0.00 39.20 4.02
2169 3227 3.064958 TCACCGAGATAAGTTCTGCTACG 59.935 47.826 0.00 0.00 33.74 3.51
2261 3319 5.298026 AGCTTGTTCTCTCTTCCTGTTTTTC 59.702 40.000 0.00 0.00 0.00 2.29
2395 3459 9.007901 TCTTCTGGAGAATCTCAAAATTTTCTC 57.992 33.333 12.79 3.76 42.05 2.87
2494 3558 7.826252 ACAACTCATGCTAGATAATTCACAGTT 59.174 33.333 0.00 0.00 0.00 3.16
2497 3561 7.279536 ACTCATGCTAGATAATTCACAGTTGTG 59.720 37.037 5.91 5.91 46.91 3.33
2566 3639 8.304596 TCGTCATCTTGTAAGATACTGAAGTTT 58.695 33.333 6.79 0.00 43.65 2.66
2608 3681 5.963176 TGTTTCTGCTGATTAATGAGCAA 57.037 34.783 26.29 16.17 45.99 3.91
2610 3683 6.558009 TGTTTCTGCTGATTAATGAGCAATC 58.442 36.000 26.29 17.37 45.99 2.67
2611 3684 6.376299 TGTTTCTGCTGATTAATGAGCAATCT 59.624 34.615 26.29 0.00 45.99 2.40
2612 3685 6.373186 TTCTGCTGATTAATGAGCAATCTG 57.627 37.500 26.29 16.56 45.99 2.90
2613 3686 5.434408 TCTGCTGATTAATGAGCAATCTGT 58.566 37.500 26.29 0.00 45.99 3.41
2614 3687 5.884232 TCTGCTGATTAATGAGCAATCTGTT 59.116 36.000 26.29 0.00 45.99 3.16
2615 3688 6.376299 TCTGCTGATTAATGAGCAATCTGTTT 59.624 34.615 26.29 0.00 45.99 2.83
2616 3689 6.927416 TGCTGATTAATGAGCAATCTGTTTT 58.073 32.000 24.74 0.00 43.88 2.43
2617 3690 7.380536 TGCTGATTAATGAGCAATCTGTTTTT 58.619 30.769 24.74 0.00 43.88 1.94
2618 3691 7.543172 TGCTGATTAATGAGCAATCTGTTTTTC 59.457 33.333 24.74 0.00 43.88 2.29
2619 3692 7.543172 GCTGATTAATGAGCAATCTGTTTTTCA 59.457 33.333 20.34 0.00 36.99 2.69
2620 3693 9.582431 CTGATTAATGAGCAATCTGTTTTTCAT 57.418 29.630 0.00 0.00 34.21 2.57
2621 3694 9.932207 TGATTAATGAGCAATCTGTTTTTCATT 57.068 25.926 0.00 3.43 38.43 2.57
2624 3697 9.761504 TTAATGAGCAATCTGTTTTTCATTTCA 57.238 25.926 3.25 0.00 36.81 2.69
2625 3698 8.842358 AATGAGCAATCTGTTTTTCATTTCAT 57.158 26.923 0.00 0.00 32.94 2.57
2626 3699 7.646446 TGAGCAATCTGTTTTTCATTTCATG 57.354 32.000 0.00 0.00 0.00 3.07
2627 3700 6.647481 TGAGCAATCTGTTTTTCATTTCATGG 59.353 34.615 0.00 0.00 0.00 3.66
2628 3701 6.527423 AGCAATCTGTTTTTCATTTCATGGT 58.473 32.000 0.00 0.00 0.00 3.55
2629 3702 6.993902 AGCAATCTGTTTTTCATTTCATGGTT 59.006 30.769 0.00 0.00 0.00 3.67
2630 3703 7.499895 AGCAATCTGTTTTTCATTTCATGGTTT 59.500 29.630 0.00 0.00 0.00 3.27
2631 3704 8.772705 GCAATCTGTTTTTCATTTCATGGTTTA 58.227 29.630 0.00 0.00 0.00 2.01
2635 3708 9.829507 TCTGTTTTTCATTTCATGGTTTAATGT 57.170 25.926 0.00 0.00 32.49 2.71
2640 3713 9.941325 TTTTCATTTCATGGTTTAATGTATGCT 57.059 25.926 0.00 0.00 32.49 3.79
2643 3716 9.625747 TCATTTCATGGTTTAATGTATGCTAGA 57.374 29.630 0.00 0.00 32.49 2.43
2826 3900 5.393866 AGGGTTCTATGTCACCACATTTTT 58.606 37.500 0.00 0.00 40.66 1.94
2908 3982 2.316108 GGTTCCTTGGAGCTGGAAAAA 58.684 47.619 4.89 0.00 43.06 1.94
2943 4017 2.037251 TGTGTCACTCTTTACAGCCTCC 59.963 50.000 4.27 0.00 0.00 4.30
2978 4052 5.488341 AGCATTCTTGTATCGGTACAACTT 58.512 37.500 17.19 2.61 43.86 2.66
2984 4058 8.836268 TTCTTGTATCGGTACAACTTTTATGT 57.164 30.769 17.19 0.00 43.86 2.29
3163 4239 1.021390 GCCCAGTCGAGTGTTGATGG 61.021 60.000 18.64 12.83 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 21 3.369892 GCTTCTTGCCCTCATGACTTAGA 60.370 47.826 0.00 0.00 35.15 2.10
24 26 0.807496 GTGCTTCTTGCCCTCATGAC 59.193 55.000 0.00 0.00 42.00 3.06
34 36 3.589988 ACGTATCTTCTGGTGCTTCTTG 58.410 45.455 0.00 0.00 0.00 3.02
61 63 5.348164 AGTTGTTGTTACATTGAGTTTGCC 58.652 37.500 0.00 0.00 33.44 4.52
74 76 7.398829 TGCCCATCTTAAGATAGTTGTTGTTA 58.601 34.615 17.53 0.00 32.63 2.41
97 99 2.569059 TGCATCCTTCTGCTTCTATGC 58.431 47.619 0.00 0.00 42.75 3.14
149 152 9.086336 CATGTTGCAATTACGAAGGAAAAATAT 57.914 29.630 0.59 0.00 0.00 1.28
156 159 5.483811 TCTACATGTTGCAATTACGAAGGA 58.516 37.500 2.30 0.00 0.00 3.36
186 189 6.857964 CACTTTCATTTTGTGCTAGTTACCAG 59.142 38.462 0.00 0.00 0.00 4.00
187 190 6.238897 CCACTTTCATTTTGTGCTAGTTACCA 60.239 38.462 0.00 0.00 0.00 3.25
188 191 6.149633 CCACTTTCATTTTGTGCTAGTTACC 58.850 40.000 0.00 0.00 0.00 2.85
193 197 4.232221 CTGCCACTTTCATTTTGTGCTAG 58.768 43.478 0.00 0.00 0.00 3.42
205 209 1.168714 GTCACATCCCTGCCACTTTC 58.831 55.000 0.00 0.00 0.00 2.62
210 214 1.915489 ACATTAGTCACATCCCTGCCA 59.085 47.619 0.00 0.00 0.00 4.92
215 219 5.282055 TCAGATCACATTAGTCACATCCC 57.718 43.478 0.00 0.00 0.00 3.85
230 234 5.974156 TTTCCATGAAGGGTATCAGATCA 57.026 39.130 0.00 0.00 38.24 2.92
237 460 7.010160 TCTCTTTTGTTTTCCATGAAGGGTAT 58.990 34.615 0.00 0.00 38.24 2.73
239 462 5.208121 TCTCTTTTGTTTTCCATGAAGGGT 58.792 37.500 0.00 0.00 38.24 4.34
250 473 8.770438 TTATGTTTGCAGTTCTCTTTTGTTTT 57.230 26.923 0.00 0.00 0.00 2.43
251 474 8.770438 TTTATGTTTGCAGTTCTCTTTTGTTT 57.230 26.923 0.00 0.00 0.00 2.83
252 475 8.770438 TTTTATGTTTGCAGTTCTCTTTTGTT 57.230 26.923 0.00 0.00 0.00 2.83
253 476 8.034804 ACTTTTATGTTTGCAGTTCTCTTTTGT 58.965 29.630 0.00 0.00 0.00 2.83
254 477 8.411318 ACTTTTATGTTTGCAGTTCTCTTTTG 57.589 30.769 0.00 0.00 0.00 2.44
315 538 8.602424 TCCTCTAGGATGTTTCATGTAAGAAAA 58.398 33.333 0.00 0.00 39.78 2.29
318 541 7.733773 TTCCTCTAGGATGTTTCATGTAAGA 57.266 36.000 0.00 0.00 44.98 2.10
319 542 8.834465 CATTTCCTCTAGGATGTTTCATGTAAG 58.166 37.037 0.00 0.00 44.98 2.34
320 543 8.548025 TCATTTCCTCTAGGATGTTTCATGTAA 58.452 33.333 0.00 0.00 44.98 2.41
321 544 8.089625 TCATTTCCTCTAGGATGTTTCATGTA 57.910 34.615 0.00 0.00 44.98 2.29
323 546 7.870509 TTCATTTCCTCTAGGATGTTTCATG 57.129 36.000 0.00 0.00 44.98 3.07
325 548 7.230747 TGTTTCATTTCCTCTAGGATGTTTCA 58.769 34.615 0.00 0.00 44.98 2.69
326 549 7.687941 TGTTTCATTTCCTCTAGGATGTTTC 57.312 36.000 0.00 0.00 44.98 2.78
328 551 7.175641 CACTTGTTTCATTTCCTCTAGGATGTT 59.824 37.037 0.00 0.00 44.98 2.71
330 553 6.881065 TCACTTGTTTCATTTCCTCTAGGATG 59.119 38.462 0.00 0.00 44.98 3.51
331 554 7.020827 TCACTTGTTTCATTTCCTCTAGGAT 57.979 36.000 0.00 0.00 44.98 3.24
333 556 6.486657 TGTTCACTTGTTTCATTTCCTCTAGG 59.513 38.462 0.00 0.00 0.00 3.02
334 557 7.496529 TGTTCACTTGTTTCATTTCCTCTAG 57.503 36.000 0.00 0.00 0.00 2.43
335 558 7.873719 TTGTTCACTTGTTTCATTTCCTCTA 57.126 32.000 0.00 0.00 0.00 2.43
337 560 7.545615 ACTTTTGTTCACTTGTTTCATTTCCTC 59.454 33.333 0.00 0.00 0.00 3.71
339 562 7.117667 ACACTTTTGTTCACTTGTTTCATTTCC 59.882 33.333 0.00 0.00 28.43 3.13
340 563 8.017587 ACACTTTTGTTCACTTGTTTCATTTC 57.982 30.769 0.00 0.00 28.43 2.17
341 564 7.961325 ACACTTTTGTTCACTTGTTTCATTT 57.039 28.000 0.00 0.00 28.43 2.32
344 567 7.041030 TCAGTACACTTTTGTTCACTTGTTTCA 60.041 33.333 0.00 0.00 37.15 2.69
345 568 7.302524 TCAGTACACTTTTGTTCACTTGTTTC 58.697 34.615 0.00 0.00 37.15 2.78
348 571 6.183360 CCATCAGTACACTTTTGTTCACTTGT 60.183 38.462 0.00 0.00 37.15 3.16
349 572 6.201517 CCATCAGTACACTTTTGTTCACTTG 58.798 40.000 0.00 0.00 37.15 3.16
350 573 5.221048 GCCATCAGTACACTTTTGTTCACTT 60.221 40.000 0.00 0.00 37.15 3.16
351 574 4.275936 GCCATCAGTACACTTTTGTTCACT 59.724 41.667 0.00 0.00 37.15 3.41
352 575 4.275936 AGCCATCAGTACACTTTTGTTCAC 59.724 41.667 0.00 0.00 37.15 3.18
353 576 4.460263 AGCCATCAGTACACTTTTGTTCA 58.540 39.130 0.00 0.00 37.15 3.18
354 577 6.554334 TTAGCCATCAGTACACTTTTGTTC 57.446 37.500 0.00 0.00 37.15 3.18
357 580 4.974591 GCTTAGCCATCAGTACACTTTTG 58.025 43.478 0.00 0.00 0.00 2.44
380 603 3.347077 AGCAATCCAGACCTGAAGAAG 57.653 47.619 0.00 0.00 0.00 2.85
381 604 3.415212 CAAGCAATCCAGACCTGAAGAA 58.585 45.455 0.00 0.00 0.00 2.52
382 605 2.290514 CCAAGCAATCCAGACCTGAAGA 60.291 50.000 0.00 0.00 0.00 2.87
383 606 2.089980 CCAAGCAATCCAGACCTGAAG 58.910 52.381 0.00 0.00 0.00 3.02
384 607 1.887956 GCCAAGCAATCCAGACCTGAA 60.888 52.381 0.00 0.00 0.00 3.02
385 608 0.322816 GCCAAGCAATCCAGACCTGA 60.323 55.000 0.00 0.00 0.00 3.86
386 609 1.651240 CGCCAAGCAATCCAGACCTG 61.651 60.000 0.00 0.00 0.00 4.00
387 610 1.377725 CGCCAAGCAATCCAGACCT 60.378 57.895 0.00 0.00 0.00 3.85
388 611 0.749454 ATCGCCAAGCAATCCAGACC 60.749 55.000 0.00 0.00 0.00 3.85
389 612 1.953559 TATCGCCAAGCAATCCAGAC 58.046 50.000 0.00 0.00 0.00 3.51
390 613 2.936919 ATATCGCCAAGCAATCCAGA 57.063 45.000 0.00 0.00 0.00 3.86
391 614 3.814842 TGTAATATCGCCAAGCAATCCAG 59.185 43.478 0.00 0.00 0.00 3.86
392 615 3.563808 GTGTAATATCGCCAAGCAATCCA 59.436 43.478 0.00 0.00 0.00 3.41
393 616 3.815401 AGTGTAATATCGCCAAGCAATCC 59.185 43.478 0.00 0.00 0.00 3.01
394 617 5.424121 AAGTGTAATATCGCCAAGCAATC 57.576 39.130 0.00 0.00 0.00 2.67
395 618 4.275936 GGAAGTGTAATATCGCCAAGCAAT 59.724 41.667 0.00 0.00 0.00 3.56
396 619 3.625764 GGAAGTGTAATATCGCCAAGCAA 59.374 43.478 0.00 0.00 0.00 3.91
397 620 3.202906 GGAAGTGTAATATCGCCAAGCA 58.797 45.455 0.00 0.00 0.00 3.91
398 621 3.002348 GTGGAAGTGTAATATCGCCAAGC 59.998 47.826 0.00 0.00 0.00 4.01
399 622 4.442706 AGTGGAAGTGTAATATCGCCAAG 58.557 43.478 0.00 0.00 0.00 3.61
400 623 4.481368 AGTGGAAGTGTAATATCGCCAA 57.519 40.909 0.00 0.00 0.00 4.52
401 624 4.481368 AAGTGGAAGTGTAATATCGCCA 57.519 40.909 0.00 0.00 0.00 5.69
402 625 4.873827 TCAAAGTGGAAGTGTAATATCGCC 59.126 41.667 0.00 0.00 0.00 5.54
403 626 6.092259 AGTTCAAAGTGGAAGTGTAATATCGC 59.908 38.462 0.00 0.00 0.00 4.58
404 627 7.545965 AGAGTTCAAAGTGGAAGTGTAATATCG 59.454 37.037 0.00 0.00 30.77 2.92
405 628 8.779354 AGAGTTCAAAGTGGAAGTGTAATATC 57.221 34.615 0.00 0.00 30.77 1.63
406 629 9.654663 GTAGAGTTCAAAGTGGAAGTGTAATAT 57.345 33.333 0.00 0.00 30.58 1.28
407 630 7.811236 CGTAGAGTTCAAAGTGGAAGTGTAATA 59.189 37.037 0.00 0.00 30.58 0.98
408 631 6.645415 CGTAGAGTTCAAAGTGGAAGTGTAAT 59.355 38.462 0.00 0.00 30.58 1.89
409 632 5.981315 CGTAGAGTTCAAAGTGGAAGTGTAA 59.019 40.000 0.00 0.00 30.58 2.41
410 633 5.068198 ACGTAGAGTTCAAAGTGGAAGTGTA 59.932 40.000 0.00 0.00 30.77 2.90
411 634 4.142004 ACGTAGAGTTCAAAGTGGAAGTGT 60.142 41.667 0.00 0.00 30.77 3.55
412 635 4.209288 CACGTAGAGTTCAAAGTGGAAGTG 59.791 45.833 0.00 0.00 30.77 3.16
413 636 4.098960 TCACGTAGAGTTCAAAGTGGAAGT 59.901 41.667 0.00 0.00 33.24 3.01
414 637 4.617959 TCACGTAGAGTTCAAAGTGGAAG 58.382 43.478 0.00 0.00 0.00 3.46
415 638 4.659111 TCACGTAGAGTTCAAAGTGGAA 57.341 40.909 0.00 0.00 0.00 3.53
416 639 4.866508 ATCACGTAGAGTTCAAAGTGGA 57.133 40.909 0.00 0.00 0.00 4.02
417 640 5.924475 AAATCACGTAGAGTTCAAAGTGG 57.076 39.130 0.00 0.00 25.64 4.00
418 641 6.943981 TGAAAATCACGTAGAGTTCAAAGTG 58.056 36.000 0.00 0.00 32.53 3.16
419 642 7.730364 ATGAAAATCACGTAGAGTTCAAAGT 57.270 32.000 14.68 3.94 37.60 2.66
430 653 9.594478 TGCTCTTCTATAAATGAAAATCACGTA 57.406 29.630 0.00 0.00 0.00 3.57
431 654 8.492673 TGCTCTTCTATAAATGAAAATCACGT 57.507 30.769 0.00 0.00 0.00 4.49
438 661 9.836864 TGCTTCTATGCTCTTCTATAAATGAAA 57.163 29.630 0.00 0.00 0.00 2.69
439 662 9.265901 GTGCTTCTATGCTCTTCTATAAATGAA 57.734 33.333 0.00 0.00 0.00 2.57
440 663 7.875041 GGTGCTTCTATGCTCTTCTATAAATGA 59.125 37.037 0.00 0.00 0.00 2.57
441 664 7.148672 CGGTGCTTCTATGCTCTTCTATAAATG 60.149 40.741 0.00 0.00 0.00 2.32
442 665 6.870965 CGGTGCTTCTATGCTCTTCTATAAAT 59.129 38.462 0.00 0.00 0.00 1.40
443 666 6.183360 ACGGTGCTTCTATGCTCTTCTATAAA 60.183 38.462 0.00 0.00 0.00 1.40
444 667 5.302059 ACGGTGCTTCTATGCTCTTCTATAA 59.698 40.000 0.00 0.00 0.00 0.98
445 668 4.827835 ACGGTGCTTCTATGCTCTTCTATA 59.172 41.667 0.00 0.00 0.00 1.31
446 669 3.639094 ACGGTGCTTCTATGCTCTTCTAT 59.361 43.478 0.00 0.00 0.00 1.98
447 670 3.024547 ACGGTGCTTCTATGCTCTTCTA 58.975 45.455 0.00 0.00 0.00 2.10
448 671 1.827969 ACGGTGCTTCTATGCTCTTCT 59.172 47.619 0.00 0.00 0.00 2.85
449 672 2.197577 GACGGTGCTTCTATGCTCTTC 58.802 52.381 0.00 0.00 0.00 2.87
450 673 1.550524 TGACGGTGCTTCTATGCTCTT 59.449 47.619 0.00 0.00 0.00 2.85
451 674 1.134965 GTGACGGTGCTTCTATGCTCT 60.135 52.381 0.00 0.00 0.00 4.09
452 675 1.281899 GTGACGGTGCTTCTATGCTC 58.718 55.000 0.00 0.00 0.00 4.26
453 676 0.608130 TGTGACGGTGCTTCTATGCT 59.392 50.000 0.00 0.00 0.00 3.79
454 677 0.721718 GTGTGACGGTGCTTCTATGC 59.278 55.000 0.00 0.00 0.00 3.14
465 688 6.633668 TGTAAAATTTGTTTTGTGTGACGG 57.366 33.333 0.00 0.00 0.00 4.79
494 758 2.235891 TGGAGTTCAGACGTAGCTTCA 58.764 47.619 0.00 0.00 0.00 3.02
495 759 3.119459 TGATGGAGTTCAGACGTAGCTTC 60.119 47.826 0.00 0.00 0.00 3.86
499 763 2.480416 GGCTGATGGAGTTCAGACGTAG 60.480 54.545 5.67 0.00 44.88 3.51
525 789 8.664798 GTCCTTTTTGTAAAAATATGGAATGCC 58.335 33.333 9.50 0.00 37.27 4.40
531 795 9.942850 ATCAAGGTCCTTTTTGTAAAAATATGG 57.057 29.630 0.00 2.58 37.27 2.74
623 887 2.917933 TGGGCGTTATCAGATTCCTTG 58.082 47.619 0.00 0.00 0.00 3.61
627 891 2.676342 ACGTTTGGGCGTTATCAGATTC 59.324 45.455 0.00 0.00 43.04 2.52
628 892 2.676342 GACGTTTGGGCGTTATCAGATT 59.324 45.455 0.00 0.00 45.79 2.40
639 903 1.130561 GCTCATACTTGACGTTTGGGC 59.869 52.381 0.00 0.00 42.43 5.36
643 907 3.436704 CCATGTGCTCATACTTGACGTTT 59.563 43.478 0.04 0.00 32.47 3.60
647 911 5.627499 TTTTCCATGTGCTCATACTTGAC 57.373 39.130 0.04 0.00 32.47 3.18
648 912 5.945191 TGATTTTCCATGTGCTCATACTTGA 59.055 36.000 0.04 0.00 32.47 3.02
650 914 6.839124 TTGATTTTCCATGTGCTCATACTT 57.161 33.333 0.04 0.00 32.47 2.24
651 915 6.839124 TTTGATTTTCCATGTGCTCATACT 57.161 33.333 0.04 0.00 32.47 2.12
652 916 9.754382 AATATTTGATTTTCCATGTGCTCATAC 57.246 29.630 0.04 0.00 32.47 2.39
655 919 9.153721 GAAAATATTTGATTTTCCATGTGCTCA 57.846 29.630 0.39 0.00 40.34 4.26
675 939 6.321717 GTCACTGAATTTGCCATCGAAAATA 58.678 36.000 0.00 0.00 0.00 1.40
682 946 2.083774 TCCGTCACTGAATTTGCCATC 58.916 47.619 0.00 0.00 0.00 3.51
693 957 0.031585 TTGTCGTCCTTCCGTCACTG 59.968 55.000 0.00 0.00 0.00 3.66
701 965 4.594136 ACGAAACAAATTTGTCGTCCTTC 58.406 39.130 24.32 20.67 41.31 3.46
704 968 5.689927 AAAACGAAACAAATTTGTCGTCC 57.310 34.783 27.79 15.84 39.62 4.79
725 989 5.477637 TGCCATGTCATCTGATTCTCAAAAA 59.522 36.000 0.00 0.00 0.00 1.94
729 993 3.918294 TGCCATGTCATCTGATTCTCA 57.082 42.857 0.00 0.00 0.00 3.27
731 995 2.885266 GCATGCCATGTCATCTGATTCT 59.115 45.455 6.36 0.00 0.00 2.40
734 998 2.358322 TGCATGCCATGTCATCTGAT 57.642 45.000 16.68 0.00 0.00 2.90
736 1000 2.422276 CATGCATGCCATGTCATCTG 57.578 50.000 14.93 0.00 45.05 2.90
754 1345 3.189921 GCACGAAGATGCCATGCA 58.810 55.556 0.00 0.00 44.86 3.96
760 1351 2.104144 CGCATTAAAGCACGAAGATGC 58.896 47.619 3.30 0.00 46.50 3.91
763 1354 0.094558 CGCGCATTAAAGCACGAAGA 59.905 50.000 8.75 0.00 42.17 2.87
793 1384 3.604629 GCGGTGGCTCACTCTCTA 58.395 61.111 5.48 0.00 34.40 2.43
823 1851 2.336088 CGCAGTTTTGGCCCACTG 59.664 61.111 18.34 18.34 42.94 3.66
904 1933 3.276846 GTTGCCGCCTCGTGTTGT 61.277 61.111 0.00 0.00 0.00 3.32
1038 2096 2.037620 GCAGGCGGATGAGGATGTCT 62.038 60.000 0.00 0.00 0.00 3.41
1197 2255 2.042930 AGGGCGGGGAAGAATCCT 59.957 61.111 0.00 0.00 45.77 3.24
1584 2642 4.400961 AGCTTCCCTCGGCAGCAC 62.401 66.667 5.14 0.00 35.88 4.40
1671 2729 2.184830 CATGACCCTCCGCATGCTG 61.185 63.158 17.13 9.82 35.93 4.41
1722 2780 0.824109 TCATCCAGTAGAAGCACCCG 59.176 55.000 0.00 0.00 0.00 5.28
1905 2963 2.614057 GACACATCTTTTATCCGCCCTG 59.386 50.000 0.00 0.00 0.00 4.45
1973 3031 5.070001 CCTCAGGTAAGGTGATTTTGTTCA 58.930 41.667 0.00 0.00 0.00 3.18
1989 3047 0.621862 GGTCTCCCCATTCCTCAGGT 60.622 60.000 0.00 0.00 0.00 4.00
2151 3209 3.064958 TCACCGTAGCAGAACTTATCTCG 59.935 47.826 0.00 0.00 35.73 4.04
2169 3227 2.180432 AAAGGTAGGCTTCGTTCACC 57.820 50.000 0.00 0.00 0.00 4.02
2283 3347 8.349568 TGAGATAATCTAGTATGGCATAACGT 57.650 34.615 9.14 0.00 0.00 3.99
2305 3369 6.687105 GGCATAACGCTAAACTACAAAATGAG 59.313 38.462 0.00 0.00 41.91 2.90
2395 3459 9.442047 GGTTGGAAGATGTATAAATATGAGGAG 57.558 37.037 0.00 0.00 0.00 3.69
2494 3558 4.713814 AGCTGATGATTAGAACTCCTCACA 59.286 41.667 0.00 0.00 0.00 3.58
2497 3561 4.057432 GCAGCTGATGATTAGAACTCCTC 58.943 47.826 20.43 0.00 0.00 3.71
2566 3639 3.181434 ACATTCTTTCTGGCAGTACCCAA 60.181 43.478 15.27 0.00 37.83 4.12
2622 3695 9.502091 GGTTATCTAGCATACATTAAACCATGA 57.498 33.333 0.00 0.00 35.15 3.07
2623 3696 9.507329 AGGTTATCTAGCATACATTAAACCATG 57.493 33.333 0.00 0.00 37.02 3.66
2624 3697 9.726438 GAGGTTATCTAGCATACATTAAACCAT 57.274 33.333 0.00 0.00 37.02 3.55
2625 3698 8.710239 TGAGGTTATCTAGCATACATTAAACCA 58.290 33.333 0.00 0.00 37.02 3.67
2626 3699 9.209175 CTGAGGTTATCTAGCATACATTAAACC 57.791 37.037 0.00 0.00 35.24 3.27
2627 3700 9.765795 ACTGAGGTTATCTAGCATACATTAAAC 57.234 33.333 0.00 0.00 0.00 2.01
2631 3704 9.686683 AAAAACTGAGGTTATCTAGCATACATT 57.313 29.630 0.00 0.00 34.90 2.71
2632 3705 9.331282 GAAAAACTGAGGTTATCTAGCATACAT 57.669 33.333 0.00 0.00 34.90 2.29
2633 3706 8.318412 TGAAAAACTGAGGTTATCTAGCATACA 58.682 33.333 0.00 0.00 34.90 2.29
2634 3707 8.718102 TGAAAAACTGAGGTTATCTAGCATAC 57.282 34.615 0.00 0.00 34.90 2.39
2635 3708 9.905713 AATGAAAAACTGAGGTTATCTAGCATA 57.094 29.630 0.00 0.00 34.90 3.14
2636 3709 8.814038 AATGAAAAACTGAGGTTATCTAGCAT 57.186 30.769 0.00 0.00 34.90 3.79
2637 3710 8.635765 AAATGAAAAACTGAGGTTATCTAGCA 57.364 30.769 0.00 0.00 34.90 3.49
2638 3711 8.730680 TGAAATGAAAAACTGAGGTTATCTAGC 58.269 33.333 0.00 0.00 34.90 3.42
2908 3982 3.008375 AGTGACACATTACTCATGCACCT 59.992 43.478 8.59 0.00 36.14 4.00
2943 4017 8.535592 CGATACAAGAATGCTAGTAAAGACAAG 58.464 37.037 0.00 0.00 0.00 3.16
2978 4052 3.306641 GGCTGCAACAATTCCCACATAAA 60.307 43.478 0.50 0.00 0.00 1.40
2984 4058 0.680618 CAAGGCTGCAACAATTCCCA 59.319 50.000 0.50 0.00 0.00 4.37
3042 4117 3.063510 TCTTGAATTGGTGCTCCTCAG 57.936 47.619 6.34 0.00 34.23 3.35


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

AutoCloner maintained by Alex Coulton.