Multiple sequence alignment - TraesCS3A01G245300

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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 TraesCS3A01G245300 chr3A 100.000 6228 0 0 1 6228 459041917 459048144 0.000000e+00 11502
1 TraesCS3A01G245300 chr3D 97.750 4622 91 4 624 5233 343482899 343478279 0.000000e+00 7947
2 TraesCS3A01G245300 chr3D 93.006 958 36 10 5277 6228 343454960 343454028 0.000000e+00 1369
3 TraesCS3A01G245300 chr3B 96.252 4856 130 23 598 5414 443363002 443367844 0.000000e+00 7912
4 TraesCS3A01G245300 chr3B 94.382 801 33 7 5429 6225 443367900 443368692 0.000000e+00 1219
5 TraesCS3A01G245300 chr5D 87.425 501 54 6 1 500 15428976 15428484 9.060000e-158 568
6 TraesCS3A01G245300 chr5D 87.854 494 45 4 21 501 382293805 382294296 3.260000e-157 566
7 TraesCS3A01G245300 chr2B 86.965 514 54 2 1 501 657491524 657492037 3.260000e-157 566
8 TraesCS3A01G245300 chr5A 86.888 511 51 5 2 498 534454191 534454699 5.450000e-155 558
9 TraesCS3A01G245300 chr2A 86.654 517 48 10 1 499 12239840 12240353 2.540000e-153 553
10 TraesCS3A01G245300 chr2A 82.932 457 74 3 44 497 474803596 474804051 5.810000e-110 409
11 TraesCS3A01G245300 chr2D 85.030 501 75 0 1 501 142029706 142030206 1.550000e-140 510
12 TraesCS3A01G245300 chr4A 81.854 507 89 3 1 506 443732914 443733418 2.080000e-114 424
13 TraesCS3A01G245300 chr7A 82.780 482 58 8 1 459 543961915 543962394 2.090000e-109 407
14 TraesCS3A01G245300 chr7A 82.432 444 73 3 58 499 110402432 110402872 3.520000e-102 383
15 TraesCS3A01G245300 chr4D 82.430 461 76 5 44 501 434452472 434452014 1.260000e-106 398
16 TraesCS3A01G245300 chr1B 81.607 473 78 6 36 501 553453651 553454121 3.520000e-102 383


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 TraesCS3A01G245300 chr3A 459041917 459048144 6227 False 11502.0 11502 100.000 1 6228 1 chr3A.!!$F1 6227
1 TraesCS3A01G245300 chr3D 343478279 343482899 4620 True 7947.0 7947 97.750 624 5233 1 chr3D.!!$R2 4609
2 TraesCS3A01G245300 chr3D 343454028 343454960 932 True 1369.0 1369 93.006 5277 6228 1 chr3D.!!$R1 951
3 TraesCS3A01G245300 chr3B 443363002 443368692 5690 False 4565.5 7912 95.317 598 6225 2 chr3B.!!$F1 5627
4 TraesCS3A01G245300 chr2B 657491524 657492037 513 False 566.0 566 86.965 1 501 1 chr2B.!!$F1 500
5 TraesCS3A01G245300 chr5A 534454191 534454699 508 False 558.0 558 86.888 2 498 1 chr5A.!!$F1 496
6 TraesCS3A01G245300 chr2A 12239840 12240353 513 False 553.0 553 86.654 1 499 1 chr2A.!!$F1 498
7 TraesCS3A01G245300 chr2D 142029706 142030206 500 False 510.0 510 85.030 1 501 1 chr2D.!!$F1 500
8 TraesCS3A01G245300 chr4A 443732914 443733418 504 False 424.0 424 81.854 1 506 1 chr4A.!!$F1 505

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
463 479 0.250553 ACTCGCCGGAATTTTGTGGA 60.251 50.000 5.05 0.00 0.00 4.02 F
603 619 1.343465 AGCAGGCTAAACTGTACGTGT 59.657 47.619 0.00 0.00 40.59 4.49 F
2118 2142 1.374758 CGAGTCTGTGGTTGCTCCC 60.375 63.158 0.00 0.00 34.77 4.30 F
2867 2891 1.003355 TACCTCGAGTCGTTCCGGT 60.003 57.895 13.12 15.91 0.00 5.28 F
3235 3259 1.144936 CTCCATCGAGCCCTTCACC 59.855 63.158 0.00 0.00 0.00 4.02 F
4220 4244 0.809241 GGAGCTCATCTGCAAGTCGG 60.809 60.000 17.19 0.00 32.82 4.79 F
4399 4423 0.961358 CGGAGACCTTCGACCAGTCT 60.961 60.000 10.16 10.16 43.42 3.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2031 2050 0.376152 GAACCGTGCTGCAGATCATG 59.624 55.000 20.43 12.11 0.00 3.07 R
2179 2203 1.204704 CTGCCAACTCGGAGTATCACA 59.795 52.381 11.71 6.95 36.25 3.58 R
3238 3262 0.029300 GCTTGTGCTTGAAGTCGCAA 59.971 50.000 12.49 12.49 37.97 4.85 R
3739 3763 0.811219 CGATCATGCCGGACACATGT 60.811 55.000 16.94 0.00 44.26 3.21 R
5018 5051 0.792640 GACTTGATGCACGTGTCCAG 59.207 55.000 18.38 11.13 0.00 3.86 R
5146 5179 2.438614 TCCCAGAGCTCGTCTCCG 60.439 66.667 8.37 0.00 42.90 4.63 R
5315 5374 3.074412 CAGCCGTCAAACTGGAAACTAT 58.926 45.455 0.00 0.00 0.00 2.12 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
197 199 2.721167 CGGATCTGCTCCCGGAACA 61.721 63.158 0.73 0.00 41.49 3.18
199 201 1.617947 GGATCTGCTCCCGGAACAGT 61.618 60.000 15.93 5.44 38.19 3.55
202 204 1.071471 CTGCTCCCGGAACAGTGTT 59.929 57.895 8.61 8.61 0.00 3.32
265 280 0.902531 GACGAGAAATGTGGGGAGGA 59.097 55.000 0.00 0.00 0.00 3.71
390 406 2.474735 CCGCGGCAAATATTTTTATGGC 59.525 45.455 14.67 0.00 35.24 4.40
393 409 3.398406 CGGCAAATATTTTTATGGCCCC 58.602 45.455 16.65 0.00 36.62 5.80
432 448 0.902516 TTCTGGCCGGAAAATTGGGG 60.903 55.000 25.12 0.00 0.00 4.96
463 479 0.250553 ACTCGCCGGAATTTTGTGGA 60.251 50.000 5.05 0.00 0.00 4.02
501 517 3.445805 AGGTCTGCTAGAGTTGCTCTAAC 59.554 47.826 7.22 4.03 41.74 2.34
515 531 7.815398 GTTGCTCTAACTAGAACCTCTTTAC 57.185 40.000 0.00 0.00 36.34 2.01
516 532 6.527057 TGCTCTAACTAGAACCTCTTTACC 57.473 41.667 0.00 0.00 0.00 2.85
517 533 6.254522 TGCTCTAACTAGAACCTCTTTACCT 58.745 40.000 0.00 0.00 0.00 3.08
518 534 6.153000 TGCTCTAACTAGAACCTCTTTACCTG 59.847 42.308 0.00 0.00 0.00 4.00
519 535 6.527057 TCTAACTAGAACCTCTTTACCTGC 57.473 41.667 0.00 0.00 0.00 4.85
520 536 6.014647 TCTAACTAGAACCTCTTTACCTGCA 58.985 40.000 0.00 0.00 0.00 4.41
521 537 4.810191 ACTAGAACCTCTTTACCTGCAG 57.190 45.455 6.78 6.78 0.00 4.41
522 538 4.161102 ACTAGAACCTCTTTACCTGCAGT 58.839 43.478 13.81 3.45 0.00 4.40
523 539 4.593634 ACTAGAACCTCTTTACCTGCAGTT 59.406 41.667 13.81 0.00 0.00 3.16
524 540 3.744660 AGAACCTCTTTACCTGCAGTTG 58.255 45.455 13.81 0.00 0.00 3.16
525 541 3.391296 AGAACCTCTTTACCTGCAGTTGA 59.609 43.478 13.81 0.00 0.00 3.18
526 542 4.042187 AGAACCTCTTTACCTGCAGTTGAT 59.958 41.667 13.81 0.00 0.00 2.57
527 543 5.248477 AGAACCTCTTTACCTGCAGTTGATA 59.752 40.000 13.81 0.00 0.00 2.15
528 544 5.091261 ACCTCTTTACCTGCAGTTGATAG 57.909 43.478 13.81 3.54 0.00 2.08
529 545 4.777896 ACCTCTTTACCTGCAGTTGATAGA 59.222 41.667 13.81 7.66 0.00 1.98
530 546 5.105146 ACCTCTTTACCTGCAGTTGATAGAG 60.105 44.000 13.81 15.74 0.00 2.43
531 547 5.105146 CCTCTTTACCTGCAGTTGATAGAGT 60.105 44.000 13.81 3.03 0.00 3.24
532 548 6.096987 CCTCTTTACCTGCAGTTGATAGAGTA 59.903 42.308 13.81 2.00 0.00 2.59
533 549 7.201956 CCTCTTTACCTGCAGTTGATAGAGTAT 60.202 40.741 13.81 0.00 0.00 2.12
534 550 8.079211 TCTTTACCTGCAGTTGATAGAGTATT 57.921 34.615 13.81 0.00 0.00 1.89
535 551 8.540388 TCTTTACCTGCAGTTGATAGAGTATTT 58.460 33.333 13.81 0.00 0.00 1.40
536 552 9.167311 CTTTACCTGCAGTTGATAGAGTATTTT 57.833 33.333 13.81 0.00 0.00 1.82
537 553 8.718102 TTACCTGCAGTTGATAGAGTATTTTC 57.282 34.615 13.81 0.00 0.00 2.29
538 554 6.951971 ACCTGCAGTTGATAGAGTATTTTCT 58.048 36.000 13.81 0.00 0.00 2.52
539 555 8.079211 ACCTGCAGTTGATAGAGTATTTTCTA 57.921 34.615 13.81 0.00 34.38 2.10
540 556 8.709308 ACCTGCAGTTGATAGAGTATTTTCTAT 58.291 33.333 13.81 0.00 41.81 1.98
550 566 9.377312 GATAGAGTATTTTCTATCCATTCCTGC 57.623 37.037 10.51 0.00 45.32 4.85
551 567 7.141758 AGAGTATTTTCTATCCATTCCTGCA 57.858 36.000 0.00 0.00 0.00 4.41
552 568 6.995091 AGAGTATTTTCTATCCATTCCTGCAC 59.005 38.462 0.00 0.00 0.00 4.57
553 569 6.904626 AGTATTTTCTATCCATTCCTGCACT 58.095 36.000 0.00 0.00 0.00 4.40
554 570 7.349598 AGTATTTTCTATCCATTCCTGCACTT 58.650 34.615 0.00 0.00 0.00 3.16
555 571 7.836183 AGTATTTTCTATCCATTCCTGCACTTT 59.164 33.333 0.00 0.00 0.00 2.66
556 572 9.120538 GTATTTTCTATCCATTCCTGCACTTTA 57.879 33.333 0.00 0.00 0.00 1.85
557 573 7.391148 TTTTCTATCCATTCCTGCACTTTAC 57.609 36.000 0.00 0.00 0.00 2.01
558 574 5.957771 TCTATCCATTCCTGCACTTTACT 57.042 39.130 0.00 0.00 0.00 2.24
559 575 5.918608 TCTATCCATTCCTGCACTTTACTC 58.081 41.667 0.00 0.00 0.00 2.59
560 576 3.350219 TCCATTCCTGCACTTTACTCC 57.650 47.619 0.00 0.00 0.00 3.85
561 577 2.642311 TCCATTCCTGCACTTTACTCCA 59.358 45.455 0.00 0.00 0.00 3.86
562 578 3.266772 TCCATTCCTGCACTTTACTCCAT 59.733 43.478 0.00 0.00 0.00 3.41
563 579 4.473196 TCCATTCCTGCACTTTACTCCATA 59.527 41.667 0.00 0.00 0.00 2.74
564 580 4.818546 CCATTCCTGCACTTTACTCCATAG 59.181 45.833 0.00 0.00 0.00 2.23
565 581 5.396772 CCATTCCTGCACTTTACTCCATAGA 60.397 44.000 0.00 0.00 0.00 1.98
566 582 4.737855 TCCTGCACTTTACTCCATAGAC 57.262 45.455 0.00 0.00 0.00 2.59
567 583 4.093743 TCCTGCACTTTACTCCATAGACA 58.906 43.478 0.00 0.00 0.00 3.41
568 584 4.160439 TCCTGCACTTTACTCCATAGACAG 59.840 45.833 0.00 0.00 0.00 3.51
569 585 4.081420 CCTGCACTTTACTCCATAGACAGT 60.081 45.833 0.00 0.00 0.00 3.55
570 586 5.073311 TGCACTTTACTCCATAGACAGTC 57.927 43.478 0.00 0.00 0.00 3.51
571 587 4.772624 TGCACTTTACTCCATAGACAGTCT 59.227 41.667 8.50 8.50 0.00 3.24
572 588 5.246203 TGCACTTTACTCCATAGACAGTCTT 59.754 40.000 8.80 0.00 0.00 3.01
573 589 6.166982 GCACTTTACTCCATAGACAGTCTTT 58.833 40.000 8.80 0.00 0.00 2.52
574 590 6.311690 GCACTTTACTCCATAGACAGTCTTTC 59.688 42.308 8.80 0.00 0.00 2.62
575 591 7.378966 CACTTTACTCCATAGACAGTCTTTCA 58.621 38.462 8.80 0.00 0.00 2.69
576 592 7.872993 CACTTTACTCCATAGACAGTCTTTCAA 59.127 37.037 8.80 0.00 0.00 2.69
577 593 8.091449 ACTTTACTCCATAGACAGTCTTTCAAG 58.909 37.037 8.80 4.95 0.00 3.02
578 594 7.540474 TTACTCCATAGACAGTCTTTCAAGT 57.460 36.000 8.80 10.32 0.00 3.16
579 595 8.645814 TTACTCCATAGACAGTCTTTCAAGTA 57.354 34.615 8.80 9.40 0.00 2.24
580 596 7.726033 ACTCCATAGACAGTCTTTCAAGTAT 57.274 36.000 8.80 0.00 0.00 2.12
581 597 8.140112 ACTCCATAGACAGTCTTTCAAGTATT 57.860 34.615 8.80 0.00 0.00 1.89
582 598 8.598041 ACTCCATAGACAGTCTTTCAAGTATTT 58.402 33.333 8.80 0.00 0.00 1.40
585 601 8.821894 CCATAGACAGTCTTTCAAGTATTTAGC 58.178 37.037 8.80 0.00 0.00 3.09
586 602 9.371136 CATAGACAGTCTTTCAAGTATTTAGCA 57.629 33.333 8.80 0.00 0.00 3.49
587 603 7.897575 AGACAGTCTTTCAAGTATTTAGCAG 57.102 36.000 0.00 0.00 0.00 4.24
588 604 6.876257 AGACAGTCTTTCAAGTATTTAGCAGG 59.124 38.462 0.00 0.00 0.00 4.85
589 605 5.412904 ACAGTCTTTCAAGTATTTAGCAGGC 59.587 40.000 0.00 0.00 0.00 4.85
590 606 5.645497 CAGTCTTTCAAGTATTTAGCAGGCT 59.355 40.000 0.00 0.00 0.00 4.58
591 607 6.818644 CAGTCTTTCAAGTATTTAGCAGGCTA 59.181 38.462 0.00 0.00 0.00 3.93
592 608 7.334421 CAGTCTTTCAAGTATTTAGCAGGCTAA 59.666 37.037 9.56 9.56 36.81 3.09
594 610 7.963465 GTCTTTCAAGTATTTAGCAGGCTAAAC 59.037 37.037 24.16 15.56 46.94 2.01
595 611 7.883311 TCTTTCAAGTATTTAGCAGGCTAAACT 59.117 33.333 24.16 17.25 46.94 2.66
596 612 6.985188 TCAAGTATTTAGCAGGCTAAACTG 57.015 37.500 24.16 18.51 46.94 3.16
597 613 6.472887 TCAAGTATTTAGCAGGCTAAACTGT 58.527 36.000 24.16 13.87 46.94 3.55
598 614 7.617225 TCAAGTATTTAGCAGGCTAAACTGTA 58.383 34.615 24.16 13.02 46.94 2.74
599 615 7.548075 TCAAGTATTTAGCAGGCTAAACTGTAC 59.452 37.037 24.16 21.18 46.94 2.90
600 616 6.040878 AGTATTTAGCAGGCTAAACTGTACG 58.959 40.000 24.16 0.00 46.94 3.67
601 617 3.947910 TTAGCAGGCTAAACTGTACGT 57.052 42.857 11.10 0.00 40.59 3.57
602 618 2.080286 AGCAGGCTAAACTGTACGTG 57.920 50.000 0.00 0.00 40.59 4.49
603 619 1.343465 AGCAGGCTAAACTGTACGTGT 59.657 47.619 0.00 0.00 40.59 4.49
735 753 3.067106 ACTTCTACATGCAACCGTGAAG 58.933 45.455 14.12 14.12 36.49 3.02
920 939 4.330620 GCGTACGTCCTCCAATATTCAAAA 59.669 41.667 17.90 0.00 0.00 2.44
928 947 7.010552 CGTCCTCCAATATTCAAAAGTAGACAG 59.989 40.741 0.00 0.00 0.00 3.51
936 955 4.273148 TCAAAAGTAGACAGAGCCTTCC 57.727 45.455 0.00 0.00 0.00 3.46
969 988 2.898472 ATCCTCCCCTTGACCTCGGG 62.898 65.000 0.00 0.00 40.29 5.14
995 1014 2.023414 AATAATCCTCGACGCCGGCA 62.023 55.000 28.98 5.45 36.24 5.69
2031 2050 2.063378 CAGCCCTCTGGTCCTCTCC 61.063 68.421 0.00 0.00 36.68 3.71
2118 2142 1.374758 CGAGTCTGTGGTTGCTCCC 60.375 63.158 0.00 0.00 34.77 4.30
2329 2353 1.394572 CTGATGCGCAATGTCTTCGAA 59.605 47.619 17.11 0.00 0.00 3.71
2452 2476 3.041940 GCCGACAACGTGGAGGTG 61.042 66.667 0.00 0.00 44.94 4.00
2817 2841 2.093394 TCACCGACACCTTTGACTTCAA 60.093 45.455 0.00 0.00 0.00 2.69
2858 2882 1.749638 CTCCGCACCTACCTCGAGT 60.750 63.158 12.31 2.17 0.00 4.18
2867 2891 1.003355 TACCTCGAGTCGTTCCGGT 60.003 57.895 13.12 15.91 0.00 5.28
2872 2896 2.741211 GAGTCGTTCCGGTTGCCC 60.741 66.667 0.00 0.00 0.00 5.36
2902 2926 2.263077 CAGAAGATACAGCGCGTTCTT 58.737 47.619 8.43 18.81 31.69 2.52
3007 3031 2.283298 GTCATCATGCTCAACACCGAT 58.717 47.619 0.00 0.00 0.00 4.18
3235 3259 1.144936 CTCCATCGAGCCCTTCACC 59.855 63.158 0.00 0.00 0.00 4.02
3238 3262 2.041265 ATCGAGCCCTTCACCCCT 59.959 61.111 0.00 0.00 0.00 4.79
4039 4063 0.846427 TCTCCCTGGCCAACCTTCAT 60.846 55.000 7.01 0.00 36.63 2.57
4138 4162 2.812499 GCGGAGAAGGCCATCGTA 59.188 61.111 5.01 0.00 0.00 3.43
4220 4244 0.809241 GGAGCTCATCTGCAAGTCGG 60.809 60.000 17.19 0.00 32.82 4.79
4399 4423 0.961358 CGGAGACCTTCGACCAGTCT 60.961 60.000 10.16 10.16 43.42 3.24
4402 4426 0.962489 AGACCTTCGACCAGTCTGTG 59.038 55.000 9.69 0.00 39.36 3.66
4531 4555 3.068732 TCGAGATTAGCACCAAGATCCTG 59.931 47.826 0.00 0.00 0.00 3.86
4611 4644 2.282745 GGGGAGCAGCAACAGCTT 60.283 61.111 0.00 0.00 43.58 3.74
4873 4906 3.584052 CTCGAGTACTCCCGGCGG 61.584 72.222 21.46 21.46 0.00 6.13
5171 5204 1.743321 CGAGCTCTGGGAGATCACCC 61.743 65.000 20.57 20.57 44.21 4.61
5251 5299 8.110860 AGTTAACCTCACAGAATAATGTTTGG 57.889 34.615 0.88 0.00 0.00 3.28
5253 5301 6.824305 AACCTCACAGAATAATGTTTGGAG 57.176 37.500 0.00 0.00 31.21 3.86
5254 5302 6.126863 ACCTCACAGAATAATGTTTGGAGA 57.873 37.500 0.00 0.00 31.21 3.71
5255 5303 6.542821 ACCTCACAGAATAATGTTTGGAGAA 58.457 36.000 0.00 0.00 31.21 2.87
5256 5304 6.431234 ACCTCACAGAATAATGTTTGGAGAAC 59.569 38.462 0.00 0.00 31.21 3.01
5257 5305 6.430925 CCTCACAGAATAATGTTTGGAGAACA 59.569 38.462 0.00 0.00 34.31 3.18
5258 5306 7.361542 CCTCACAGAATAATGTTTGGAGAACAG 60.362 40.741 0.00 0.00 33.18 3.16
5259 5307 6.430925 TCACAGAATAATGTTTGGAGAACAGG 59.569 38.462 0.00 0.00 33.18 4.00
5302 5361 7.287810 ACTTTGTAGGTCTGAATTACCTGTTT 58.712 34.615 8.42 0.00 46.90 2.83
5303 5362 8.434392 ACTTTGTAGGTCTGAATTACCTGTTTA 58.566 33.333 8.42 0.00 46.90 2.01
5304 5363 8.842358 TTTGTAGGTCTGAATTACCTGTTTAG 57.158 34.615 8.42 0.00 46.90 1.85
5305 5364 6.403878 TGTAGGTCTGAATTACCTGTTTAGC 58.596 40.000 8.42 0.00 46.90 3.09
5315 5374 3.738830 ACCTGTTTAGCTTGTCGTGTA 57.261 42.857 0.00 0.00 0.00 2.90
5356 5415 1.547223 GGCTTATCTGCATCTGCCCAT 60.547 52.381 0.00 0.00 41.18 4.00
5424 5531 7.043565 TCGTTCAGGGATAATTACTTGGTAAC 58.956 38.462 0.00 0.00 30.49 2.50
5425 5532 7.046033 CGTTCAGGGATAATTACTTGGTAACT 58.954 38.462 0.00 0.00 30.49 2.24
5426 5533 7.011109 CGTTCAGGGATAATTACTTGGTAACTG 59.989 40.741 0.00 0.00 30.49 3.16
5427 5534 6.895782 TCAGGGATAATTACTTGGTAACTGG 58.104 40.000 0.00 0.00 30.49 4.00
5428 5535 6.445786 TCAGGGATAATTACTTGGTAACTGGT 59.554 38.462 0.00 0.00 30.49 4.00
5429 5536 7.624478 TCAGGGATAATTACTTGGTAACTGGTA 59.376 37.037 0.00 0.00 30.49 3.25
5430 5537 8.269317 CAGGGATAATTACTTGGTAACTGGTAA 58.731 37.037 0.00 0.00 38.09 2.85
5431 5538 8.491958 AGGGATAATTACTTGGTAACTGGTAAG 58.508 37.037 0.00 0.00 37.53 2.34
5432 5539 7.718314 GGGATAATTACTTGGTAACTGGTAAGG 59.282 40.741 0.00 0.00 37.53 2.69
5433 5540 7.228108 GGATAATTACTTGGTAACTGGTAAGGC 59.772 40.741 0.00 0.00 37.53 4.35
5434 5541 2.467566 ACTTGGTAACTGGTAAGGCG 57.532 50.000 0.00 0.00 37.61 5.52
5602 5709 6.546395 CAAACTAGCACTACAAATTAGCCAG 58.454 40.000 0.00 0.00 0.00 4.85
5613 5720 8.217799 ACTACAAATTAGCCAGGCTTATATTGA 58.782 33.333 22.26 11.30 40.44 2.57
5668 5775 0.899720 TCCACGTGGTCATCCCTAAC 59.100 55.000 32.74 0.00 36.34 2.34
5761 5868 1.448922 TACAACAAACTGCACGGGGC 61.449 55.000 0.00 0.00 45.13 5.80
5856 5963 4.103153 ACCGGATCCAACTATTGACATGAT 59.897 41.667 9.46 0.00 0.00 2.45
5929 6036 1.250328 CCAGCTTTGTTCCTGCATCA 58.750 50.000 0.00 0.00 0.00 3.07
5982 6089 8.406297 GTTCAAGTTCTGGACTGTTTAAATTCT 58.594 33.333 0.00 0.00 39.00 2.40
5983 6090 9.621629 TTCAAGTTCTGGACTGTTTAAATTCTA 57.378 29.630 0.00 0.00 39.00 2.10
5984 6091 9.273016 TCAAGTTCTGGACTGTTTAAATTCTAG 57.727 33.333 0.00 0.00 39.00 2.43
5992 6102 8.092687 TGGACTGTTTAAATTCTAGTACAGGAC 58.907 37.037 0.00 0.00 37.80 3.85
6091 6205 8.777865 TGTTAAAAACAAAAATGTGGACATGA 57.222 26.923 0.00 0.00 38.72 3.07
6144 6258 2.238521 GGGATTTTCACTGCAACAGGA 58.761 47.619 0.00 0.00 35.51 3.86
6156 6270 2.622942 TGCAACAGGAACTTCCATGAAC 59.377 45.455 10.57 0.00 39.61 3.18
6180 6294 3.524095 TTGGTCAACATCCAACATCCT 57.476 42.857 0.00 0.00 39.62 3.24
6182 6296 2.094675 GGTCAACATCCAACATCCTGG 58.905 52.381 0.00 0.00 37.87 4.45
6194 6308 6.356556 TCCAACATCCTGGAGTTATGTAATG 58.643 40.000 1.52 0.00 40.71 1.90
6216 6330 6.045072 TGGTACTCCAAGTGGTTGTATTAG 57.955 41.667 0.00 0.00 41.25 1.73
6225 6339 5.320549 AGTGGTTGTATTAGTGGTACTCG 57.679 43.478 0.00 0.00 0.00 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 4.362476 GCACGACCGTACCCCGTT 62.362 66.667 0.00 0.00 33.96 4.44
46 47 1.547596 GCGAGACGAACGAATACGC 59.452 57.895 0.14 0.00 43.96 4.42
172 174 3.838271 GAGCAGATCCGGTGGCGA 61.838 66.667 0.00 0.00 0.00 5.54
195 197 1.367840 GTGGAGCTCCGAACACTGT 59.632 57.895 27.43 0.00 39.43 3.55
197 199 0.036952 CATGTGGAGCTCCGAACACT 60.037 55.000 27.43 13.50 39.43 3.55
199 201 1.296392 CCATGTGGAGCTCCGAACA 59.704 57.895 27.43 25.49 39.43 3.18
202 204 4.147449 CGCCATGTGGAGCTCCGA 62.147 66.667 27.43 17.08 39.43 4.55
244 259 0.246635 CTCCCCACATTTCTCGTCGT 59.753 55.000 0.00 0.00 0.00 4.34
247 262 0.905357 CTCCTCCCCACATTTCTCGT 59.095 55.000 0.00 0.00 0.00 4.18
265 280 2.237392 GAGCTACACAATTCCCCACTCT 59.763 50.000 0.00 0.00 0.00 3.24
338 354 1.068127 GCACGTCCCGACCAGTATATT 59.932 52.381 0.00 0.00 0.00 1.28
393 409 1.667724 ACAGAACCCGTATACTCGTCG 59.332 52.381 0.56 0.00 0.00 5.12
408 424 2.286365 ATTTTCCGGCCAGAACAGAA 57.714 45.000 0.00 0.00 0.00 3.02
463 479 1.080569 CCTCGCAAAAGCCGCAAAT 60.081 52.632 0.00 0.00 0.00 2.32
479 495 2.230130 AGAGCAACTCTAGCAGACCT 57.770 50.000 0.00 0.00 39.28 3.85
501 517 4.810191 ACTGCAGGTAAAGAGGTTCTAG 57.190 45.455 19.93 0.00 0.00 2.43
502 518 4.591498 TCAACTGCAGGTAAAGAGGTTCTA 59.409 41.667 19.93 0.00 0.00 2.10
503 519 3.391296 TCAACTGCAGGTAAAGAGGTTCT 59.609 43.478 19.93 0.00 0.00 3.01
504 520 3.740115 TCAACTGCAGGTAAAGAGGTTC 58.260 45.455 19.93 0.00 0.00 3.62
505 521 3.857157 TCAACTGCAGGTAAAGAGGTT 57.143 42.857 19.93 0.00 0.00 3.50
506 522 4.777896 TCTATCAACTGCAGGTAAAGAGGT 59.222 41.667 19.93 0.00 0.00 3.85
507 523 5.105146 ACTCTATCAACTGCAGGTAAAGAGG 60.105 44.000 27.63 16.63 33.80 3.69
508 524 5.971763 ACTCTATCAACTGCAGGTAAAGAG 58.028 41.667 24.81 24.81 35.27 2.85
509 525 7.661536 ATACTCTATCAACTGCAGGTAAAGA 57.338 36.000 19.93 13.42 0.00 2.52
510 526 8.723942 AAATACTCTATCAACTGCAGGTAAAG 57.276 34.615 19.93 9.65 0.00 1.85
511 527 9.162764 GAAAATACTCTATCAACTGCAGGTAAA 57.837 33.333 19.93 3.20 0.00 2.01
512 528 8.540388 AGAAAATACTCTATCAACTGCAGGTAA 58.460 33.333 19.93 0.00 0.00 2.85
513 529 8.079211 AGAAAATACTCTATCAACTGCAGGTA 57.921 34.615 19.93 8.11 0.00 3.08
514 530 6.951971 AGAAAATACTCTATCAACTGCAGGT 58.048 36.000 19.93 9.19 0.00 4.00
525 541 8.884323 TGCAGGAATGGATAGAAAATACTCTAT 58.116 33.333 0.00 0.00 40.60 1.98
526 542 8.150945 GTGCAGGAATGGATAGAAAATACTCTA 58.849 37.037 0.00 0.00 32.53 2.43
527 543 6.995091 GTGCAGGAATGGATAGAAAATACTCT 59.005 38.462 0.00 0.00 0.00 3.24
528 544 6.995091 AGTGCAGGAATGGATAGAAAATACTC 59.005 38.462 0.00 0.00 0.00 2.59
529 545 6.904626 AGTGCAGGAATGGATAGAAAATACT 58.095 36.000 0.00 0.00 0.00 2.12
530 546 7.573968 AAGTGCAGGAATGGATAGAAAATAC 57.426 36.000 0.00 0.00 0.00 1.89
531 547 9.120538 GTAAAGTGCAGGAATGGATAGAAAATA 57.879 33.333 0.00 0.00 0.00 1.40
532 548 7.836183 AGTAAAGTGCAGGAATGGATAGAAAAT 59.164 33.333 0.00 0.00 0.00 1.82
533 549 7.175104 AGTAAAGTGCAGGAATGGATAGAAAA 58.825 34.615 0.00 0.00 0.00 2.29
534 550 6.721318 AGTAAAGTGCAGGAATGGATAGAAA 58.279 36.000 0.00 0.00 0.00 2.52
535 551 6.313519 AGTAAAGTGCAGGAATGGATAGAA 57.686 37.500 0.00 0.00 0.00 2.10
536 552 5.163301 GGAGTAAAGTGCAGGAATGGATAGA 60.163 44.000 0.00 0.00 0.00 1.98
537 553 5.059833 GGAGTAAAGTGCAGGAATGGATAG 58.940 45.833 0.00 0.00 0.00 2.08
538 554 4.473196 TGGAGTAAAGTGCAGGAATGGATA 59.527 41.667 0.00 0.00 0.00 2.59
539 555 3.266772 TGGAGTAAAGTGCAGGAATGGAT 59.733 43.478 0.00 0.00 0.00 3.41
540 556 2.642311 TGGAGTAAAGTGCAGGAATGGA 59.358 45.455 0.00 0.00 0.00 3.41
541 557 3.071874 TGGAGTAAAGTGCAGGAATGG 57.928 47.619 0.00 0.00 0.00 3.16
542 558 5.525378 GTCTATGGAGTAAAGTGCAGGAATG 59.475 44.000 0.00 0.00 0.00 2.67
543 559 5.189736 TGTCTATGGAGTAAAGTGCAGGAAT 59.810 40.000 0.00 0.00 0.00 3.01
544 560 4.530553 TGTCTATGGAGTAAAGTGCAGGAA 59.469 41.667 0.00 0.00 0.00 3.36
545 561 4.093743 TGTCTATGGAGTAAAGTGCAGGA 58.906 43.478 0.00 0.00 0.00 3.86
546 562 4.081420 ACTGTCTATGGAGTAAAGTGCAGG 60.081 45.833 0.00 0.00 0.00 4.85
547 563 5.078411 ACTGTCTATGGAGTAAAGTGCAG 57.922 43.478 0.00 0.00 0.00 4.41
548 564 4.772624 AGACTGTCTATGGAGTAAAGTGCA 59.227 41.667 8.91 0.00 0.00 4.57
549 565 5.331876 AGACTGTCTATGGAGTAAAGTGC 57.668 43.478 8.91 0.00 0.00 4.40
550 566 7.378966 TGAAAGACTGTCTATGGAGTAAAGTG 58.621 38.462 11.30 0.00 0.00 3.16
551 567 7.540474 TGAAAGACTGTCTATGGAGTAAAGT 57.460 36.000 11.30 0.00 0.00 2.66
552 568 8.091449 ACTTGAAAGACTGTCTATGGAGTAAAG 58.909 37.037 11.30 8.89 0.00 1.85
553 569 7.963532 ACTTGAAAGACTGTCTATGGAGTAAA 58.036 34.615 11.30 0.00 0.00 2.01
554 570 7.540474 ACTTGAAAGACTGTCTATGGAGTAA 57.460 36.000 11.30 0.13 0.00 2.24
555 571 8.824756 ATACTTGAAAGACTGTCTATGGAGTA 57.175 34.615 11.30 15.80 0.00 2.59
556 572 7.726033 ATACTTGAAAGACTGTCTATGGAGT 57.274 36.000 11.30 14.34 0.00 3.85
559 575 8.821894 GCTAAATACTTGAAAGACTGTCTATGG 58.178 37.037 11.30 3.17 0.00 2.74
560 576 9.371136 TGCTAAATACTTGAAAGACTGTCTATG 57.629 33.333 11.30 0.91 0.00 2.23
561 577 9.593134 CTGCTAAATACTTGAAAGACTGTCTAT 57.407 33.333 11.30 0.00 0.00 1.98
562 578 8.035394 CCTGCTAAATACTTGAAAGACTGTCTA 58.965 37.037 11.30 0.00 0.00 2.59
563 579 6.876257 CCTGCTAAATACTTGAAAGACTGTCT 59.124 38.462 4.06 4.06 0.00 3.41
564 580 6.402658 GCCTGCTAAATACTTGAAAGACTGTC 60.403 42.308 0.00 0.00 0.00 3.51
565 581 5.412904 GCCTGCTAAATACTTGAAAGACTGT 59.587 40.000 0.00 0.00 0.00 3.55
566 582 5.645497 AGCCTGCTAAATACTTGAAAGACTG 59.355 40.000 0.00 0.00 0.00 3.51
567 583 5.810095 AGCCTGCTAAATACTTGAAAGACT 58.190 37.500 0.00 0.00 0.00 3.24
568 584 7.611213 TTAGCCTGCTAAATACTTGAAAGAC 57.389 36.000 9.07 0.00 35.80 3.01
569 585 7.883311 AGTTTAGCCTGCTAAATACTTGAAAGA 59.117 33.333 22.92 0.00 46.18 2.52
570 586 7.965107 CAGTTTAGCCTGCTAAATACTTGAAAG 59.035 37.037 22.92 5.89 46.18 2.62
571 587 7.447238 ACAGTTTAGCCTGCTAAATACTTGAAA 59.553 33.333 22.92 1.52 46.18 2.69
572 588 6.940298 ACAGTTTAGCCTGCTAAATACTTGAA 59.060 34.615 22.92 0.49 46.18 2.69
573 589 6.472887 ACAGTTTAGCCTGCTAAATACTTGA 58.527 36.000 22.92 1.15 46.18 3.02
574 590 6.743575 ACAGTTTAGCCTGCTAAATACTTG 57.256 37.500 22.92 19.54 46.18 3.16
575 591 6.534079 CGTACAGTTTAGCCTGCTAAATACTT 59.466 38.462 22.92 12.69 46.18 2.24
576 592 6.040878 CGTACAGTTTAGCCTGCTAAATACT 58.959 40.000 22.92 15.98 46.18 2.12
577 593 5.809051 ACGTACAGTTTAGCCTGCTAAATAC 59.191 40.000 22.92 19.30 46.18 1.89
578 594 5.808540 CACGTACAGTTTAGCCTGCTAAATA 59.191 40.000 22.92 11.78 46.18 1.40
579 595 4.630069 CACGTACAGTTTAGCCTGCTAAAT 59.370 41.667 22.92 12.62 46.18 1.40
580 596 3.991773 CACGTACAGTTTAGCCTGCTAAA 59.008 43.478 17.89 17.89 43.64 1.85
581 597 3.006110 ACACGTACAGTTTAGCCTGCTAA 59.994 43.478 7.49 7.49 35.83 3.09
582 598 2.559668 ACACGTACAGTTTAGCCTGCTA 59.440 45.455 0.00 0.00 35.83 3.49
583 599 1.343465 ACACGTACAGTTTAGCCTGCT 59.657 47.619 0.00 0.00 35.83 4.24
584 600 1.792006 ACACGTACAGTTTAGCCTGC 58.208 50.000 0.00 0.00 35.83 4.85
585 601 3.059188 CCAAACACGTACAGTTTAGCCTG 60.059 47.826 11.68 2.75 37.10 4.85
586 602 3.135994 CCAAACACGTACAGTTTAGCCT 58.864 45.455 11.68 0.00 37.10 4.58
587 603 2.874086 ACCAAACACGTACAGTTTAGCC 59.126 45.455 11.68 0.00 37.10 3.93
588 604 4.276460 CAACCAAACACGTACAGTTTAGC 58.724 43.478 11.68 0.00 37.10 3.09
589 605 4.571580 TCCAACCAAACACGTACAGTTTAG 59.428 41.667 11.68 8.37 37.10 1.85
590 606 4.511527 TCCAACCAAACACGTACAGTTTA 58.488 39.130 11.68 0.00 37.10 2.01
591 607 3.345414 TCCAACCAAACACGTACAGTTT 58.655 40.909 7.42 7.42 39.61 2.66
592 608 2.988570 TCCAACCAAACACGTACAGTT 58.011 42.857 0.00 0.00 0.00 3.16
593 609 2.695127 TCCAACCAAACACGTACAGT 57.305 45.000 0.00 0.00 0.00 3.55
594 610 4.095185 TCTTTTCCAACCAAACACGTACAG 59.905 41.667 0.00 0.00 0.00 2.74
595 611 4.008330 TCTTTTCCAACCAAACACGTACA 58.992 39.130 0.00 0.00 0.00 2.90
596 612 4.619437 TCTTTTCCAACCAAACACGTAC 57.381 40.909 0.00 0.00 0.00 3.67
597 613 4.882427 TCATCTTTTCCAACCAAACACGTA 59.118 37.500 0.00 0.00 0.00 3.57
598 614 3.697045 TCATCTTTTCCAACCAAACACGT 59.303 39.130 0.00 0.00 0.00 4.49
599 615 4.300189 TCATCTTTTCCAACCAAACACG 57.700 40.909 0.00 0.00 0.00 4.49
600 616 5.221422 TGGATCATCTTTTCCAACCAAACAC 60.221 40.000 0.00 0.00 39.05 3.32
601 617 4.898265 TGGATCATCTTTTCCAACCAAACA 59.102 37.500 0.00 0.00 39.05 2.83
602 618 5.467035 TGGATCATCTTTTCCAACCAAAC 57.533 39.130 0.00 0.00 39.05 2.93
630 646 1.476891 TGCAATGAGTACCGAGTCCTC 59.523 52.381 0.00 0.00 0.00 3.71
638 654 1.803334 TGGTTCGTGCAATGAGTACC 58.197 50.000 0.00 0.00 34.11 3.34
639 655 3.889196 TTTGGTTCGTGCAATGAGTAC 57.111 42.857 0.00 0.00 30.60 2.73
693 711 8.296713 AGAAGTGCGATTTTCTAAAAATAGCAA 58.703 29.630 24.49 12.74 45.14 3.91
757 775 2.807967 TCTGTTCTTCAGCAAACGATGG 59.192 45.455 0.00 0.00 43.32 3.51
784 803 2.825532 TGGACTGCTGCCCTTAATTTTC 59.174 45.455 0.00 0.00 0.00 2.29
920 939 0.713579 AGGGGAAGGCTCTGTCTACT 59.286 55.000 0.00 0.00 0.00 2.57
928 947 0.402121 ACTTGTTCAGGGGAAGGCTC 59.598 55.000 0.00 0.00 32.62 4.70
936 955 3.621558 GGGAGGATTAACTTGTTCAGGG 58.378 50.000 0.00 0.00 0.00 4.45
969 988 2.480845 CGTCGAGGATTATTGGGTTCC 58.519 52.381 0.00 0.00 0.00 3.62
971 990 1.474498 GGCGTCGAGGATTATTGGGTT 60.474 52.381 9.75 0.00 0.00 4.11
972 991 0.106149 GGCGTCGAGGATTATTGGGT 59.894 55.000 9.75 0.00 0.00 4.51
1197 1216 3.479269 GCGAACACGGCCTCTTCG 61.479 66.667 17.43 17.43 39.81 3.79
1725 1744 1.869574 CATGTCGTCCTCAGCGTCG 60.870 63.158 0.00 0.00 0.00 5.12
1771 1790 3.133464 ATCAACCATGCACCGCGG 61.133 61.111 26.86 26.86 0.00 6.46
2031 2050 0.376152 GAACCGTGCTGCAGATCATG 59.624 55.000 20.43 12.11 0.00 3.07
2090 2114 2.690497 ACCACAGACTCGGATGACATAG 59.310 50.000 0.00 0.00 0.00 2.23
2118 2142 3.674753 GGAACAAGATGCCATTCAAAACG 59.325 43.478 0.00 0.00 0.00 3.60
2179 2203 1.204704 CTGCCAACTCGGAGTATCACA 59.795 52.381 11.71 6.95 36.25 3.58
2329 2353 3.308014 GAGCAGCTTGCCGACCTCT 62.308 63.158 0.00 0.00 46.52 3.69
2687 2711 0.257039 AAGTAGGCCATGCTCTTGGG 59.743 55.000 5.01 0.00 37.24 4.12
2817 2841 2.362503 TGTCGAGGATGGAGCCGT 60.363 61.111 0.00 0.00 0.00 5.68
2867 2891 4.069232 CTGCGACTCTCCGGGCAA 62.069 66.667 0.00 0.00 34.60 4.52
2872 2896 1.671328 TGTATCTTCTGCGACTCTCCG 59.329 52.381 0.00 0.00 0.00 4.63
2902 2926 2.568612 CGCTCCGAGAAGTGCTCA 59.431 61.111 0.00 0.00 44.15 4.26
3007 3031 2.776526 ACCTGGGGGTTGTGCAGA 60.777 61.111 0.00 0.00 44.73 4.26
3172 3196 2.202797 CGGCTGGTGGTCATCTCG 60.203 66.667 0.00 0.00 0.00 4.04
3235 3259 1.165907 TGTGCTTGAAGTCGCAAGGG 61.166 55.000 0.00 0.00 44.17 3.95
3238 3262 0.029300 GCTTGTGCTTGAAGTCGCAA 59.971 50.000 12.49 12.49 37.97 4.85
3739 3763 0.811219 CGATCATGCCGGACACATGT 60.811 55.000 16.94 0.00 44.26 3.21
3928 3952 2.124901 CCACCGGCCGCAAAGATA 60.125 61.111 22.85 0.00 0.00 1.98
4138 4162 1.004440 GGCGACCTTGAAGAGCACT 60.004 57.895 0.00 0.00 0.00 4.40
4220 4244 2.191128 AGCTTCCACATCAGGTTGAC 57.809 50.000 0.00 0.00 0.00 3.18
4399 4423 1.815003 CTTGATCATCGCGGCCACA 60.815 57.895 6.13 0.00 0.00 4.17
4402 4426 2.590007 AGCTTGATCATCGCGGCC 60.590 61.111 6.13 0.00 0.00 6.13
4408 4432 2.475864 GTCGCTCATCAGCTTGATCATC 59.524 50.000 0.00 0.00 44.40 2.92
4531 4555 2.107953 GACTCGGCCATCAGCTCC 59.892 66.667 2.24 0.00 43.05 4.70
4804 4837 2.376808 AGATGACGAGGTTGAAGCAG 57.623 50.000 0.00 0.00 0.00 4.24
4954 4987 4.785453 GCCAGCGTCCCCAGGAAG 62.785 72.222 0.00 0.00 34.41 3.46
4993 5026 4.749310 AGCACGCCGAGCCAGAAG 62.749 66.667 2.11 0.00 0.00 2.85
5018 5051 0.792640 GACTTGATGCACGTGTCCAG 59.207 55.000 18.38 11.13 0.00 3.86
5146 5179 2.438614 TCCCAGAGCTCGTCTCCG 60.439 66.667 8.37 0.00 42.90 4.63
5171 5204 3.211865 CAATCCACTGGATCTGGATGTG 58.788 50.000 14.05 10.92 46.15 3.21
5249 5297 8.884124 ATGAATCTAATTTTTCCTGTTCTCCA 57.116 30.769 0.00 0.00 0.00 3.86
5276 5331 7.549147 ACAGGTAATTCAGACCTACAAAGTA 57.451 36.000 0.00 0.00 45.93 2.24
5277 5332 6.435292 ACAGGTAATTCAGACCTACAAAGT 57.565 37.500 0.00 0.00 45.93 2.66
5278 5333 7.745620 AAACAGGTAATTCAGACCTACAAAG 57.254 36.000 0.00 0.00 45.93 2.77
5280 5335 6.877322 GCTAAACAGGTAATTCAGACCTACAA 59.123 38.462 0.00 0.00 45.93 2.41
5287 5346 5.637810 CGACAAGCTAAACAGGTAATTCAGA 59.362 40.000 0.00 0.00 0.00 3.27
5302 5361 5.184479 ACTGGAAACTATACACGACAAGCTA 59.816 40.000 0.00 0.00 0.00 3.32
5303 5362 4.021368 ACTGGAAACTATACACGACAAGCT 60.021 41.667 0.00 0.00 0.00 3.74
5304 5363 4.243270 ACTGGAAACTATACACGACAAGC 58.757 43.478 0.00 0.00 0.00 4.01
5305 5364 6.422701 TCAAACTGGAAACTATACACGACAAG 59.577 38.462 0.00 0.00 0.00 3.16
5315 5374 3.074412 CAGCCGTCAAACTGGAAACTAT 58.926 45.455 0.00 0.00 0.00 2.12
5405 5464 6.903340 ACCAGTTACCAAGTAATTATCCCT 57.097 37.500 0.00 0.00 30.49 4.20
5424 5531 4.761975 TGAGTAATTAACCGCCTTACCAG 58.238 43.478 0.00 0.00 0.00 4.00
5425 5532 4.822685 TGAGTAATTAACCGCCTTACCA 57.177 40.909 0.00 0.00 0.00 3.25
5426 5533 5.181009 AGTTGAGTAATTAACCGCCTTACC 58.819 41.667 0.00 0.00 0.00 2.85
5427 5534 5.292834 GGAGTTGAGTAATTAACCGCCTTAC 59.707 44.000 0.00 0.00 0.00 2.34
5428 5535 5.046448 TGGAGTTGAGTAATTAACCGCCTTA 60.046 40.000 8.20 0.00 0.00 2.69
5429 5536 4.259356 GGAGTTGAGTAATTAACCGCCTT 58.741 43.478 0.00 0.00 0.00 4.35
5430 5537 3.262405 TGGAGTTGAGTAATTAACCGCCT 59.738 43.478 8.20 0.00 0.00 5.52
5431 5538 3.373130 GTGGAGTTGAGTAATTAACCGCC 59.627 47.826 0.00 0.00 0.00 6.13
5432 5539 3.998341 TGTGGAGTTGAGTAATTAACCGC 59.002 43.478 0.00 0.00 0.00 5.68
5433 5540 5.390567 GCTTGTGGAGTTGAGTAATTAACCG 60.391 44.000 0.00 0.00 0.00 4.44
5434 5541 5.705905 AGCTTGTGGAGTTGAGTAATTAACC 59.294 40.000 0.00 0.00 0.00 2.85
5495 5602 7.064609 TGTTGTCTCGCTTATTATTTTCTCTGG 59.935 37.037 0.00 0.00 0.00 3.86
5761 5868 4.029198 CGAGTTTAACTCAATCTGTCGACG 59.971 45.833 22.70 6.07 45.30 5.12
5796 5903 9.924650 ACGATTGGTATTGTTAGATATTAGGAC 57.075 33.333 0.00 0.00 0.00 3.85
5812 5919 6.161381 CGGTAGCCTTAATTACGATTGGTAT 58.839 40.000 0.00 0.00 0.00 2.73
5856 5963 5.389520 TGTTTCAGACACAAAATGGGGATA 58.610 37.500 0.00 0.00 32.00 2.59
5929 6036 5.875359 GGAAGATGACTTGTTTAATCTCCGT 59.125 40.000 0.00 0.00 36.39 4.69
5982 6089 5.818678 ATGTTGGTTTCTGTCCTGTACTA 57.181 39.130 0.00 0.00 0.00 1.82
5983 6090 4.706842 ATGTTGGTTTCTGTCCTGTACT 57.293 40.909 0.00 0.00 0.00 2.73
5984 6091 5.063880 AGAATGTTGGTTTCTGTCCTGTAC 58.936 41.667 0.00 0.00 32.30 2.90
5992 6102 8.737168 TTATCCAGATAGAATGTTGGTTTCTG 57.263 34.615 0.00 0.00 35.19 3.02
6113 6227 5.786311 CAGTGAAAATCCCACATCATTGTT 58.214 37.500 0.00 0.00 37.01 2.83
6144 6258 6.549364 TGTTGACCAAATAGTTCATGGAAGTT 59.451 34.615 0.00 0.00 37.66 2.66
6156 6270 5.653769 AGGATGTTGGATGTTGACCAAATAG 59.346 40.000 0.00 0.00 46.77 1.73
6182 6296 6.761714 CCACTTGGAGTACCATTACATAACTC 59.238 42.308 0.00 0.00 46.34 3.01
6188 6302 4.103469 ACAACCACTTGGAGTACCATTACA 59.897 41.667 1.14 0.00 46.34 2.41
6194 6308 5.873164 CACTAATACAACCACTTGGAGTACC 59.127 44.000 1.14 0.00 38.94 3.34
6204 6318 3.861689 GCGAGTACCACTAATACAACCAC 59.138 47.826 0.00 0.00 0.00 4.16
6206 6320 3.451526 GGCGAGTACCACTAATACAACC 58.548 50.000 0.00 0.00 0.00 3.77


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

AutoCloner maintained by Alex Coulton.