Multiple sequence alignment - TraesCS3B01G372900

Loading Multiple Alignment...

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 TraesCS3B01G372900 chr3B 100.000 4436 0 0 1 4436 585732675 585728240 0.000000e+00 8192
1 TraesCS3B01G372900 chr3B 88.544 515 43 4 1 499 542208020 542208534 1.050000e-170 610
2 TraesCS3B01G372900 chr5B 91.555 2238 142 17 619 2827 373047029 373044810 0.000000e+00 3042
3 TraesCS3B01G372900 chr5B 92.122 787 17 10 3686 4436 373043566 373042789 0.000000e+00 1068
4 TraesCS3B01G372900 chr5B 92.785 596 40 2 3065 3658 373044542 373043948 0.000000e+00 859
5 TraesCS3B01G372900 chr5A 91.482 2207 137 17 645 2819 417051987 417049800 0.000000e+00 2987
6 TraesCS3B01G372900 chr5A 84.404 763 61 36 3686 4412 417044982 417044242 0.000000e+00 697
7 TraesCS3B01G372900 chr5A 89.024 574 48 8 3087 3658 417045900 417045340 0.000000e+00 697
8 TraesCS3B01G372900 chr5A 92.079 101 7 1 495 594 446421914 446422014 1.660000e-29 141
9 TraesCS3B01G372900 chr5D 93.889 1980 83 10 609 2562 321904047 321902080 0.000000e+00 2952
10 TraesCS3B01G372900 chr5D 93.267 1099 66 7 2565 3658 321901917 321900822 0.000000e+00 1613
11 TraesCS3B01G372900 chr5D 89.299 785 38 21 3686 4436 321900447 321899675 0.000000e+00 942
12 TraesCS3B01G372900 chr7B 92.398 513 23 1 3 499 424527527 424527015 0.000000e+00 717
13 TraesCS3B01G372900 chr2A 80.309 518 80 8 1 499 170092588 170093102 5.420000e-99 372
14 TraesCS3B01G372900 chr2A 92.079 101 7 1 495 594 44128539 44128639 1.660000e-29 141
15 TraesCS3B01G372900 chr4A 82.759 203 10 7 3686 3874 374661674 374661865 1.650000e-34 158
16 TraesCS3B01G372900 chr4A 84.173 139 9 6 3520 3658 374661163 374661288 6.030000e-24 122
17 TraesCS3B01G372900 chr7A 83.978 181 10 6 3686 3858 3419577 3419746 5.940000e-34 156
18 TraesCS3B01G372900 chr7A 93.069 101 6 1 495 594 55353844 55353944 3.580000e-31 147
19 TraesCS3B01G372900 chr7A 84.173 139 9 6 3520 3658 3419067 3419192 6.030000e-24 122
20 TraesCS3B01G372900 chr6A 93.684 95 6 0 500 594 525220728 525220634 4.630000e-30 143
21 TraesCS3B01G372900 chr6D 92.079 101 7 1 495 594 416665646 416665546 1.660000e-29 141
22 TraesCS3B01G372900 chr4B 92.079 101 7 1 495 594 480660288 480660188 1.660000e-29 141
23 TraesCS3B01G372900 chr2D 92.079 101 7 1 495 594 9350769 9350669 1.660000e-29 141
24 TraesCS3B01G372900 chr1D 92.079 101 7 1 495 594 4925896 4925996 1.660000e-29 141
25 TraesCS3B01G372900 chr7D 90.476 105 8 2 495 597 156529033 156528929 2.150000e-28 137
26 TraesCS3B01G372900 chrUn 85.039 127 6 6 3532 3658 82536780 82536667 2.800000e-22 117


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 TraesCS3B01G372900 chr3B 585728240 585732675 4435 True 8192.000000 8192 100.000000 1 4436 1 chr3B.!!$R1 4435
1 TraesCS3B01G372900 chr3B 542208020 542208534 514 False 610.000000 610 88.544000 1 499 1 chr3B.!!$F1 498
2 TraesCS3B01G372900 chr5B 373042789 373047029 4240 True 1656.333333 3042 92.154000 619 4436 3 chr5B.!!$R1 3817
3 TraesCS3B01G372900 chr5A 417044242 417051987 7745 True 1460.333333 2987 88.303333 645 4412 3 chr5A.!!$R1 3767
4 TraesCS3B01G372900 chr5D 321899675 321904047 4372 True 1835.666667 2952 92.151667 609 4436 3 chr5D.!!$R1 3827
5 TraesCS3B01G372900 chr7B 424527015 424527527 512 True 717.000000 717 92.398000 3 499 1 chr7B.!!$R1 496
6 TraesCS3B01G372900 chr2A 170092588 170093102 514 False 372.000000 372 80.309000 1 499 1 chr2A.!!$F2 498

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
717 734 0.031616 AGGGGTGCCACTTTTCCAAA 60.032 50.000 0.00 0.0 0.00 3.28 F
739 756 0.172578 TTGACCGCGAGATCACGATT 59.827 50.000 17.02 0.0 29.29 3.34 F
888 922 0.887933 TTCCGCTGCATTTTCTTCCC 59.112 50.000 0.00 0.0 0.00 3.97 F
1238 1272 2.125912 CGAGTCCGACAAGGCAGG 60.126 66.667 0.40 0.0 40.77 4.85 F
2841 3216 1.207329 GTTTGCGTAGGTCCTCCTGAT 59.793 52.381 0.00 0.0 44.81 2.90 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2023 2057 1.526686 CACAACTGGGTGCTGAGCA 60.527 57.895 1.40 1.4 35.60 4.26 R
2119 2153 2.981859 ATACAGGTGTAAGAAGGCCG 57.018 50.000 0.00 0.0 33.76 6.13 R
2821 3196 0.606604 TCAGGAGGACCTACGCAAAC 59.393 55.000 0.00 0.0 45.94 2.93 R
2862 3237 1.672881 AGTTTGCATGCTTATCGGCTC 59.327 47.619 20.33 0.0 0.00 4.70 R
3943 8330 0.322816 GAACATCTTGGGAGCCAGCA 60.323 55.000 0.00 0.0 33.81 4.41 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
121 122 1.298340 CCGCATAACCCTGGTGACA 59.702 57.895 0.00 0.00 39.59 3.58
299 316 2.373338 ATAGCCTCAGCCGCCTCCTA 62.373 60.000 0.00 0.00 41.25 2.94
314 331 4.111016 CTAGCACGACACCGCCGA 62.111 66.667 0.00 0.00 39.95 5.54
506 523 2.185350 CGGAGCGGTCAAGCAGAT 59.815 61.111 17.59 0.00 40.15 2.90
507 524 1.448540 CGGAGCGGTCAAGCAGATT 60.449 57.895 17.59 0.00 40.15 2.40
508 525 1.699656 CGGAGCGGTCAAGCAGATTG 61.700 60.000 17.59 0.00 40.15 2.67
509 526 1.372087 GGAGCGGTCAAGCAGATTGG 61.372 60.000 17.59 0.00 39.54 3.16
510 527 1.986575 GAGCGGTCAAGCAGATTGGC 61.987 60.000 10.30 0.00 43.11 4.52
517 534 4.308526 AGCAGATTGGCTTCACCG 57.691 55.556 0.00 0.00 42.71 4.94
518 535 1.377725 AGCAGATTGGCTTCACCGG 60.378 57.895 0.00 0.00 42.71 5.28
519 536 3.056313 GCAGATTGGCTTCACCGGC 62.056 63.158 0.00 0.00 43.94 6.13
520 537 1.377725 CAGATTGGCTTCACCGGCT 60.378 57.895 0.00 0.00 43.94 5.52
521 538 1.078143 AGATTGGCTTCACCGGCTC 60.078 57.895 0.00 0.00 43.94 4.70
522 539 1.078143 GATTGGCTTCACCGGCTCT 60.078 57.895 0.00 0.00 43.94 4.09
523 540 0.678048 GATTGGCTTCACCGGCTCTT 60.678 55.000 0.00 0.00 43.94 2.85
524 541 0.618458 ATTGGCTTCACCGGCTCTTA 59.382 50.000 0.00 0.00 43.94 2.10
525 542 0.398696 TTGGCTTCACCGGCTCTTAA 59.601 50.000 0.00 0.00 43.94 1.85
526 543 0.398696 TGGCTTCACCGGCTCTTAAA 59.601 50.000 0.00 0.00 43.94 1.52
527 544 1.004277 TGGCTTCACCGGCTCTTAAAT 59.996 47.619 0.00 0.00 43.94 1.40
528 545 1.401905 GGCTTCACCGGCTCTTAAATG 59.598 52.381 0.00 0.00 0.00 2.32
529 546 2.356135 GCTTCACCGGCTCTTAAATGA 58.644 47.619 0.00 0.00 0.00 2.57
530 547 2.096013 GCTTCACCGGCTCTTAAATGAC 59.904 50.000 0.00 0.00 0.00 3.06
531 548 3.600388 CTTCACCGGCTCTTAAATGACT 58.400 45.455 0.00 0.00 0.00 3.41
532 549 3.695830 TCACCGGCTCTTAAATGACTT 57.304 42.857 0.00 0.00 0.00 3.01
533 550 3.334691 TCACCGGCTCTTAAATGACTTG 58.665 45.455 0.00 0.00 0.00 3.16
534 551 2.084546 ACCGGCTCTTAAATGACTTGC 58.915 47.619 0.00 0.00 0.00 4.01
535 552 1.401905 CCGGCTCTTAAATGACTTGCC 59.598 52.381 0.00 0.00 35.94 4.52
536 553 2.083774 CGGCTCTTAAATGACTTGCCA 58.916 47.619 0.00 0.00 38.87 4.92
537 554 2.096496 CGGCTCTTAAATGACTTGCCAG 59.904 50.000 0.00 0.00 38.87 4.85
538 555 3.084786 GGCTCTTAAATGACTTGCCAGT 58.915 45.455 0.00 0.00 38.79 4.00
539 556 3.507622 GGCTCTTAAATGACTTGCCAGTT 59.492 43.478 0.00 0.00 38.79 3.16
540 557 4.479619 GCTCTTAAATGACTTGCCAGTTG 58.520 43.478 0.00 0.00 31.22 3.16
541 558 4.022849 GCTCTTAAATGACTTGCCAGTTGT 60.023 41.667 0.00 0.00 31.22 3.32
542 559 5.507985 GCTCTTAAATGACTTGCCAGTTGTT 60.508 40.000 0.00 0.00 31.22 2.83
543 560 5.830912 TCTTAAATGACTTGCCAGTTGTTG 58.169 37.500 0.00 0.00 31.22 3.33
544 561 5.592282 TCTTAAATGACTTGCCAGTTGTTGA 59.408 36.000 0.00 0.00 31.22 3.18
545 562 3.996150 AATGACTTGCCAGTTGTTGAG 57.004 42.857 0.00 0.00 31.22 3.02
546 563 2.708216 TGACTTGCCAGTTGTTGAGA 57.292 45.000 0.00 0.00 31.22 3.27
547 564 2.997980 TGACTTGCCAGTTGTTGAGAA 58.002 42.857 0.00 0.00 31.22 2.87
548 565 3.351740 TGACTTGCCAGTTGTTGAGAAA 58.648 40.909 0.00 0.00 31.22 2.52
549 566 3.128589 TGACTTGCCAGTTGTTGAGAAAC 59.871 43.478 0.00 0.00 31.22 2.78
550 567 2.427095 ACTTGCCAGTTGTTGAGAAACC 59.573 45.455 0.00 0.00 0.00 3.27
551 568 2.435372 TGCCAGTTGTTGAGAAACCT 57.565 45.000 0.00 0.00 0.00 3.50
552 569 2.023673 TGCCAGTTGTTGAGAAACCTG 58.976 47.619 0.00 0.00 0.00 4.00
553 570 2.024414 GCCAGTTGTTGAGAAACCTGT 58.976 47.619 0.00 0.00 0.00 4.00
554 571 3.211045 GCCAGTTGTTGAGAAACCTGTA 58.789 45.455 0.00 0.00 0.00 2.74
555 572 3.003378 GCCAGTTGTTGAGAAACCTGTAC 59.997 47.826 0.00 0.00 0.00 2.90
556 573 3.564225 CCAGTTGTTGAGAAACCTGTACC 59.436 47.826 0.00 0.00 0.00 3.34
557 574 3.247648 CAGTTGTTGAGAAACCTGTACCG 59.752 47.826 0.00 0.00 0.00 4.02
558 575 2.536761 TGTTGAGAAACCTGTACCGG 57.463 50.000 0.00 0.00 0.00 5.28
559 576 2.040939 TGTTGAGAAACCTGTACCGGA 58.959 47.619 9.46 0.00 0.00 5.14
560 577 2.635915 TGTTGAGAAACCTGTACCGGAT 59.364 45.455 9.46 0.00 0.00 4.18
561 578 3.833650 TGTTGAGAAACCTGTACCGGATA 59.166 43.478 9.46 0.00 0.00 2.59
562 579 4.468510 TGTTGAGAAACCTGTACCGGATAT 59.531 41.667 9.46 0.00 0.00 1.63
563 580 5.046159 TGTTGAGAAACCTGTACCGGATATT 60.046 40.000 9.46 2.28 0.00 1.28
564 581 5.272283 TGAGAAACCTGTACCGGATATTC 57.728 43.478 9.46 10.72 0.00 1.75
565 582 4.960469 TGAGAAACCTGTACCGGATATTCT 59.040 41.667 9.46 14.68 32.21 2.40
566 583 5.424252 TGAGAAACCTGTACCGGATATTCTT 59.576 40.000 9.46 0.00 30.86 2.52
567 584 6.608405 TGAGAAACCTGTACCGGATATTCTTA 59.392 38.462 9.46 9.98 30.86 2.10
568 585 7.289317 TGAGAAACCTGTACCGGATATTCTTAT 59.711 37.037 9.46 0.00 30.86 1.73
569 586 7.442656 AGAAACCTGTACCGGATATTCTTATG 58.557 38.462 9.46 0.00 0.00 1.90
570 587 6.989155 AACCTGTACCGGATATTCTTATGA 57.011 37.500 9.46 0.00 0.00 2.15
571 588 6.989155 ACCTGTACCGGATATTCTTATGAA 57.011 37.500 9.46 0.00 36.54 2.57
572 589 7.369551 ACCTGTACCGGATATTCTTATGAAA 57.630 36.000 9.46 0.00 35.63 2.69
573 590 7.974504 ACCTGTACCGGATATTCTTATGAAAT 58.025 34.615 9.46 0.00 35.63 2.17
574 591 7.878127 ACCTGTACCGGATATTCTTATGAAATG 59.122 37.037 9.46 0.00 35.63 2.32
575 592 7.148407 CCTGTACCGGATATTCTTATGAAATGC 60.148 40.741 9.46 0.00 35.63 3.56
576 593 5.862924 ACCGGATATTCTTATGAAATGCG 57.137 39.130 9.46 14.21 36.01 4.73
577 594 5.547465 ACCGGATATTCTTATGAAATGCGA 58.453 37.500 9.46 0.00 37.06 5.10
578 595 5.408604 ACCGGATATTCTTATGAAATGCGAC 59.591 40.000 9.46 2.45 37.06 5.19
579 596 5.408299 CCGGATATTCTTATGAAATGCGACA 59.592 40.000 18.68 0.00 37.06 4.35
580 597 6.073276 CCGGATATTCTTATGAAATGCGACAA 60.073 38.462 18.68 0.00 37.06 3.18
581 598 7.361201 CCGGATATTCTTATGAAATGCGACAAT 60.361 37.037 18.68 0.00 37.06 2.71
582 599 7.689812 CGGATATTCTTATGAAATGCGACAATC 59.310 37.037 15.18 0.00 37.06 2.67
583 600 8.506437 GGATATTCTTATGAAATGCGACAATCA 58.494 33.333 0.00 0.00 35.63 2.57
584 601 9.882996 GATATTCTTATGAAATGCGACAATCAA 57.117 29.630 0.00 0.00 35.63 2.57
586 603 7.795431 TTCTTATGAAATGCGACAATCAAAC 57.205 32.000 0.00 0.00 0.00 2.93
587 604 7.144722 TCTTATGAAATGCGACAATCAAACT 57.855 32.000 0.00 0.00 0.00 2.66
588 605 7.022979 TCTTATGAAATGCGACAATCAAACTG 58.977 34.615 0.00 0.00 0.00 3.16
589 606 3.307674 TGAAATGCGACAATCAAACTGC 58.692 40.909 0.00 0.00 0.00 4.40
590 607 1.967762 AATGCGACAATCAAACTGCG 58.032 45.000 0.00 0.00 0.00 5.18
591 608 1.155889 ATGCGACAATCAAACTGCGA 58.844 45.000 0.00 0.00 0.00 5.10
592 609 1.155889 TGCGACAATCAAACTGCGAT 58.844 45.000 0.00 0.00 0.00 4.58
593 610 1.128507 TGCGACAATCAAACTGCGATC 59.871 47.619 0.00 0.00 0.00 3.69
594 611 1.394917 GCGACAATCAAACTGCGATCT 59.605 47.619 0.00 0.00 0.00 2.75
595 612 2.785681 GCGACAATCAAACTGCGATCTG 60.786 50.000 0.00 0.00 0.00 2.90
596 613 2.667969 CGACAATCAAACTGCGATCTGA 59.332 45.455 0.00 0.00 0.00 3.27
597 614 3.241900 CGACAATCAAACTGCGATCTGAG 60.242 47.826 0.00 0.00 0.00 3.35
598 615 2.417933 ACAATCAAACTGCGATCTGAGC 59.582 45.455 0.00 0.00 0.00 4.26
599 616 1.661341 ATCAAACTGCGATCTGAGCC 58.339 50.000 0.00 0.00 0.00 4.70
600 617 0.737367 TCAAACTGCGATCTGAGCCG 60.737 55.000 0.00 0.00 0.00 5.52
601 618 1.016130 CAAACTGCGATCTGAGCCGT 61.016 55.000 0.00 0.00 33.58 5.68
602 619 1.016130 AAACTGCGATCTGAGCCGTG 61.016 55.000 0.00 1.83 32.56 4.94
603 620 2.584418 CTGCGATCTGAGCCGTGG 60.584 66.667 0.00 0.00 0.00 4.94
604 621 3.068064 TGCGATCTGAGCCGTGGA 61.068 61.111 0.00 0.00 0.00 4.02
605 622 2.184322 GCGATCTGAGCCGTGGAA 59.816 61.111 0.00 0.00 0.00 3.53
606 623 1.880340 GCGATCTGAGCCGTGGAAG 60.880 63.158 0.00 0.00 0.00 3.46
607 624 1.513158 CGATCTGAGCCGTGGAAGT 59.487 57.895 0.00 0.00 0.00 3.01
641 658 0.616395 TTCTATCTGCCACGGTCCCA 60.616 55.000 0.00 0.00 0.00 4.37
642 659 0.616395 TCTATCTGCCACGGTCCCAA 60.616 55.000 0.00 0.00 0.00 4.12
643 660 0.462047 CTATCTGCCACGGTCCCAAC 60.462 60.000 0.00 0.00 0.00 3.77
672 689 3.881953 AGATCATGATCTGACGGCG 57.118 52.632 32.58 4.80 45.77 6.46
691 708 1.113517 GCCAGGAGAGCCCACGTATA 61.114 60.000 0.00 0.00 37.41 1.47
694 711 0.186386 AGGAGAGCCCACGTATAGCT 59.814 55.000 5.90 5.90 40.24 3.32
711 728 1.115326 GCTGAAAGGGGTGCCACTTT 61.115 55.000 17.47 17.47 39.45 2.66
717 734 0.031616 AGGGGTGCCACTTTTCCAAA 60.032 50.000 0.00 0.00 0.00 3.28
739 756 0.172578 TTGACCGCGAGATCACGATT 59.827 50.000 17.02 0.00 29.29 3.34
888 922 0.887933 TTCCGCTGCATTTTCTTCCC 59.112 50.000 0.00 0.00 0.00 3.97
945 979 2.873288 GCGGCAAGCTCCTTCTTG 59.127 61.111 0.00 0.00 44.63 3.02
1020 1054 3.184683 GCGTCGCTGGCTTCTCTG 61.185 66.667 10.68 0.00 0.00 3.35
1207 1241 4.373116 GCGTCTCCAAGGGCGACA 62.373 66.667 6.25 0.00 0.00 4.35
1238 1272 2.125912 CGAGTCCGACAAGGCAGG 60.126 66.667 0.40 0.00 40.77 4.85
1362 1396 3.532155 GAGGATGTCGCCCTCGCT 61.532 66.667 0.00 0.00 40.58 4.93
1385 1419 2.847234 CCGTGCCCAGGCCCTATA 60.847 66.667 6.14 0.00 41.09 1.31
1602 1636 2.282040 GTTGAGGCAGCTGCTGGT 60.282 61.111 35.82 21.84 41.70 4.00
1842 1876 4.841422 AGACTGATAAGCTTGATGCACTT 58.159 39.130 9.86 0.00 45.94 3.16
1856 1890 7.442364 GCTTGATGCACTTTATGAGAAGGTATA 59.558 37.037 0.00 0.00 42.31 1.47
1868 1902 6.161855 TGAGAAGGTATAGTTGCGATGAAT 57.838 37.500 0.00 0.00 0.00 2.57
1872 1906 6.703607 AGAAGGTATAGTTGCGATGAATCTTG 59.296 38.462 0.00 0.00 0.00 3.02
1924 1958 5.869579 TCTTGAGATACTGCTCAGGTTTTT 58.130 37.500 0.00 0.00 44.93 1.94
1940 1974 6.824196 TCAGGTTTTTATGTGTGTAGTGACAA 59.176 34.615 0.00 0.00 37.31 3.18
1955 1989 9.139174 GTGTAGTGACAATTTGATTAAAATGGG 57.861 33.333 2.79 0.00 38.52 4.00
2095 2129 9.772973 TTCAGTTACAACAGTAGTATCAACATT 57.227 29.630 0.00 0.00 0.00 2.71
2131 2165 2.987125 GAGGGCGGCCTTCTTACA 59.013 61.111 33.28 0.00 0.00 2.41
2166 2208 5.824624 AGGATGTTGATAAGGTACTGCAATG 59.175 40.000 0.00 0.00 40.86 2.82
2183 2225 5.118990 TGCAATGGCTGTCTTCTCTATTAC 58.881 41.667 0.00 0.00 41.91 1.89
2184 2226 5.118990 GCAATGGCTGTCTTCTCTATTACA 58.881 41.667 0.00 0.00 36.96 2.41
2219 2261 2.902523 AGCATGTGAGTACATCAGCTG 58.097 47.619 7.63 7.63 45.53 4.24
2255 2303 9.566432 AAAATAAAAATTAACATGGCAGTTGGA 57.434 25.926 11.08 2.89 33.07 3.53
2256 2304 9.737844 AAATAAAAATTAACATGGCAGTTGGAT 57.262 25.926 11.08 4.58 33.07 3.41
2460 2511 3.264964 TCTTGGTATGTTTGGGGTAGACC 59.735 47.826 0.00 0.00 39.11 3.85
2519 2570 3.606595 TTTCCTGATCTCTGCTCAGTG 57.393 47.619 0.00 0.00 38.77 3.66
2521 2573 2.812658 TCCTGATCTCTGCTCAGTGAA 58.187 47.619 5.85 0.00 38.77 3.18
2593 2805 9.744468 AACAATTAAGAACCACTGAATGTAAAC 57.256 29.630 0.00 0.00 30.61 2.01
2809 3022 3.319238 GCACATGTTGCGGAAGTATAC 57.681 47.619 0.00 0.00 42.79 1.47
2841 3216 1.207329 GTTTGCGTAGGTCCTCCTGAT 59.793 52.381 0.00 0.00 44.81 2.90
2862 3237 9.874215 CCTGATGCTATAATCATATAATTTGCG 57.126 33.333 0.00 0.00 36.03 4.85
2865 3240 9.591404 GATGCTATAATCATATAATTTGCGAGC 57.409 33.333 0.00 0.00 0.00 5.03
2893 3269 4.559153 AGCATGCAAACTTGGTTGATTAC 58.441 39.130 21.98 0.00 0.00 1.89
2904 3280 7.923414 ACTTGGTTGATTACATAAGAGGTTC 57.077 36.000 0.00 0.00 0.00 3.62
2985 6896 4.821805 TCTTTTTACCTGAGCTGGTTTCTG 59.178 41.667 0.33 0.00 41.22 3.02
3027 6938 6.909550 TGGTTTGGTTCTATAACTGCAAAT 57.090 33.333 0.00 0.00 32.80 2.32
3028 6939 8.410673 TTGGTTTGGTTCTATAACTGCAAATA 57.589 30.769 0.00 0.00 32.80 1.40
3047 6958 8.343366 TGCAAATACGTTTTAGTTTGTGACATA 58.657 29.630 0.00 0.00 34.82 2.29
3107 7089 4.870123 TGCTTTGTGGCAGTTATCAATT 57.130 36.364 0.00 0.00 37.29 2.32
3159 7141 7.090808 CAGACTGTACATTCTAAGTGCTAACA 58.909 38.462 14.69 0.00 0.00 2.41
3168 7150 8.677300 ACATTCTAAGTGCTAACATACAAATGG 58.323 33.333 0.00 0.00 37.43 3.16
3299 7281 9.321562 CAAAATCCTATTAAAATGCAGCTCATT 57.678 29.630 0.00 5.80 46.82 2.57
3380 7362 2.184020 TATGGCGCTGACTTGGCAGT 62.184 55.000 7.64 0.00 44.30 4.40
3385 7367 1.466360 GCGCTGACTTGGCAGTATTTG 60.466 52.381 0.00 0.00 38.17 2.32
3524 7506 0.107703 ATGGAGAATTCGCGAAGGCA 60.108 50.000 27.20 3.79 39.92 4.75
3606 7588 2.159282 CCTGATTCAGCAAGCCATGAAC 60.159 50.000 8.23 0.00 38.19 3.18
3658 7640 7.823149 AATGCAAAAGATCTTTACATTCAGC 57.177 32.000 27.62 19.73 35.98 4.26
3660 7642 6.747125 TGCAAAAGATCTTTACATTCAGCAA 58.253 32.000 20.76 5.84 31.63 3.91
3661 7643 6.864685 TGCAAAAGATCTTTACATTCAGCAAG 59.135 34.615 20.76 1.98 31.63 4.01
3662 7644 6.183360 GCAAAAGATCTTTACATTCAGCAAGC 60.183 38.462 20.76 7.28 31.63 4.01
3664 7646 4.592942 AGATCTTTACATTCAGCAAGCCA 58.407 39.130 0.00 0.00 0.00 4.75
3666 7648 4.707030 TCTTTACATTCAGCAAGCCATG 57.293 40.909 0.00 0.00 0.00 3.66
3670 7652 2.241160 ACATTCAGCAAGCCATGAACA 58.759 42.857 0.00 0.00 38.19 3.18
3671 7653 2.629137 ACATTCAGCAAGCCATGAACAA 59.371 40.909 0.00 0.00 38.19 2.83
3672 7654 3.259876 ACATTCAGCAAGCCATGAACAAT 59.740 39.130 0.00 0.00 38.19 2.71
3673 7655 4.250464 CATTCAGCAAGCCATGAACAATT 58.750 39.130 0.00 0.00 38.19 2.32
3674 7656 3.581024 TCAGCAAGCCATGAACAATTC 57.419 42.857 0.00 0.00 0.00 2.17
3675 7657 3.159472 TCAGCAAGCCATGAACAATTCT 58.841 40.909 0.00 0.00 0.00 2.40
3676 7658 3.057104 TCAGCAAGCCATGAACAATTCTG 60.057 43.478 0.00 0.00 0.00 3.02
3677 7659 2.895404 AGCAAGCCATGAACAATTCTGT 59.105 40.909 0.00 0.00 37.39 3.41
3679 7661 4.708421 AGCAAGCCATGAACAATTCTGTAT 59.292 37.500 0.00 0.00 33.45 2.29
3681 7663 5.973565 GCAAGCCATGAACAATTCTGTATAC 59.026 40.000 0.00 0.00 33.45 1.47
3682 7664 6.183360 GCAAGCCATGAACAATTCTGTATACT 60.183 38.462 4.17 0.00 33.45 2.12
3683 7665 7.412853 CAAGCCATGAACAATTCTGTATACTC 58.587 38.462 4.17 0.00 33.45 2.59
3684 7666 6.653020 AGCCATGAACAATTCTGTATACTCA 58.347 36.000 4.17 0.00 33.45 3.41
3737 8094 1.326213 CGATCAGGTGGCTCTCCAGT 61.326 60.000 0.00 0.00 44.48 4.00
3752 8109 3.318839 TCTCCAGTTCTGCCAATTTTGTG 59.681 43.478 0.00 0.00 0.00 3.33
3898 8258 0.249784 CTCATCCTCAGGGTCATGCG 60.250 60.000 0.00 0.00 0.00 4.73
3943 8330 3.366089 CTGCTTGCTGCTGCTGCT 61.366 61.111 27.67 0.00 43.37 4.24
3944 8331 3.617122 CTGCTTGCTGCTGCTGCTG 62.617 63.158 27.67 21.23 43.37 4.41
3993 8380 2.902608 ACCCTGTAGTCCATGAAGACA 58.097 47.619 0.00 0.00 39.34 3.41
4038 8439 3.379445 GGAGGCGACTGACCGGAA 61.379 66.667 9.46 0.00 44.43 4.30
4119 8520 1.451927 TGGGGAATTAGCGCTGCTG 60.452 57.895 22.90 0.00 40.10 4.41
4191 8592 1.006220 ACGTGCGCTGTCAGAATCA 60.006 52.632 9.73 0.00 0.00 2.57
4237 8638 5.344743 TTTGCTATCTGTTCTTCGGATCT 57.655 39.130 0.00 0.00 41.76 2.75
4317 8719 3.572584 GAGAGGCAAAAAGTTCTGCATG 58.427 45.455 10.96 0.00 40.46 4.06
4385 8788 5.855740 GGCTCTACCTTGTACTACTTGAT 57.144 43.478 0.00 0.00 34.51 2.57
4386 8789 5.834169 GGCTCTACCTTGTACTACTTGATC 58.166 45.833 0.00 0.00 34.51 2.92
4387 8790 5.360144 GGCTCTACCTTGTACTACTTGATCA 59.640 44.000 0.00 0.00 34.51 2.92
4390 8793 7.154435 TCTACCTTGTACTACTTGATCACAC 57.846 40.000 0.00 0.00 0.00 3.82
4412 8815 0.320374 CACCTTTACGCCTCAGACCA 59.680 55.000 0.00 0.00 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
45 46 0.032815 TGCGTGGACGATTGAGACAA 59.967 50.000 2.73 0.00 43.02 3.18
193 194 2.904866 GGTGTTCGCAACAGGGCA 60.905 61.111 2.52 0.00 43.10 5.36
224 241 1.606994 CGGTTCACAAGTTCCATCCGA 60.607 52.381 0.00 0.00 39.17 4.55
299 316 4.796231 GATCGGCGGTGTCGTGCT 62.796 66.667 7.21 0.00 38.89 4.40
314 331 2.374525 TATGTGGGCGGCACCAGAT 61.375 57.895 18.93 18.93 45.45 2.90
435 452 2.034066 CCTGTGGGGTTCGTGCAT 59.966 61.111 0.00 0.00 0.00 3.96
472 489 2.757917 GCTGGAGAGGTCCTCGCT 60.758 66.667 20.52 1.29 44.30 4.93
500 517 1.377725 CCGGTGAAGCCAATCTGCT 60.378 57.895 0.00 0.00 45.43 4.24
501 518 3.056313 GCCGGTGAAGCCAATCTGC 62.056 63.158 1.90 0.00 36.97 4.26
502 519 1.372087 GAGCCGGTGAAGCCAATCTG 61.372 60.000 1.90 0.00 36.97 2.90
503 520 1.078143 GAGCCGGTGAAGCCAATCT 60.078 57.895 1.90 0.00 36.97 2.40
504 521 0.678048 AAGAGCCGGTGAAGCCAATC 60.678 55.000 1.90 0.00 36.97 2.67
505 522 0.618458 TAAGAGCCGGTGAAGCCAAT 59.382 50.000 1.90 0.00 36.97 3.16
506 523 0.398696 TTAAGAGCCGGTGAAGCCAA 59.601 50.000 1.90 0.00 36.97 4.52
507 524 0.398696 TTTAAGAGCCGGTGAAGCCA 59.601 50.000 1.90 0.00 36.97 4.75
508 525 1.401905 CATTTAAGAGCCGGTGAAGCC 59.598 52.381 1.90 0.00 0.00 4.35
509 526 2.096013 GTCATTTAAGAGCCGGTGAAGC 59.904 50.000 1.90 0.00 0.00 3.86
510 527 3.600388 AGTCATTTAAGAGCCGGTGAAG 58.400 45.455 1.90 0.00 0.00 3.02
511 528 3.695830 AGTCATTTAAGAGCCGGTGAA 57.304 42.857 1.90 0.00 0.00 3.18
512 529 3.334691 CAAGTCATTTAAGAGCCGGTGA 58.665 45.455 1.90 0.00 0.00 4.02
513 530 2.159517 GCAAGTCATTTAAGAGCCGGTG 60.160 50.000 1.90 0.00 0.00 4.94
514 531 2.084546 GCAAGTCATTTAAGAGCCGGT 58.915 47.619 1.90 0.00 0.00 5.28
515 532 1.401905 GGCAAGTCATTTAAGAGCCGG 59.598 52.381 0.00 0.00 0.00 6.13
516 533 2.083774 TGGCAAGTCATTTAAGAGCCG 58.916 47.619 0.00 0.00 43.35 5.52
517 534 3.084786 ACTGGCAAGTCATTTAAGAGCC 58.915 45.455 0.00 0.00 40.93 4.70
518 535 4.022849 ACAACTGGCAAGTCATTTAAGAGC 60.023 41.667 0.00 0.00 34.77 4.09
519 536 5.695851 ACAACTGGCAAGTCATTTAAGAG 57.304 39.130 0.00 0.00 34.77 2.85
520 537 5.592282 TCAACAACTGGCAAGTCATTTAAGA 59.408 36.000 0.00 0.00 34.77 2.10
521 538 5.830912 TCAACAACTGGCAAGTCATTTAAG 58.169 37.500 0.00 0.00 34.77 1.85
522 539 5.592282 TCTCAACAACTGGCAAGTCATTTAA 59.408 36.000 0.00 0.00 34.77 1.52
523 540 5.129634 TCTCAACAACTGGCAAGTCATTTA 58.870 37.500 0.00 0.00 34.77 1.40
524 541 3.953612 TCTCAACAACTGGCAAGTCATTT 59.046 39.130 0.00 0.00 34.77 2.32
525 542 3.554934 TCTCAACAACTGGCAAGTCATT 58.445 40.909 0.00 0.00 34.77 2.57
526 543 3.213206 TCTCAACAACTGGCAAGTCAT 57.787 42.857 0.00 0.00 34.77 3.06
527 544 2.708216 TCTCAACAACTGGCAAGTCA 57.292 45.000 0.00 0.00 34.77 3.41
528 545 3.489229 GGTTTCTCAACAACTGGCAAGTC 60.489 47.826 0.00 0.00 34.77 3.01
529 546 2.427095 GGTTTCTCAACAACTGGCAAGT 59.573 45.455 0.00 0.00 38.71 3.16
530 547 2.689983 AGGTTTCTCAACAACTGGCAAG 59.310 45.455 0.00 0.00 34.15 4.01
531 548 2.426738 CAGGTTTCTCAACAACTGGCAA 59.573 45.455 0.00 0.00 34.15 4.52
532 549 2.023673 CAGGTTTCTCAACAACTGGCA 58.976 47.619 0.00 0.00 34.15 4.92
533 550 2.024414 ACAGGTTTCTCAACAACTGGC 58.976 47.619 0.00 0.00 34.15 4.85
534 551 3.564225 GGTACAGGTTTCTCAACAACTGG 59.436 47.826 0.00 0.00 34.15 4.00
535 552 3.247648 CGGTACAGGTTTCTCAACAACTG 59.752 47.826 0.00 0.00 34.15 3.16
536 553 3.463944 CGGTACAGGTTTCTCAACAACT 58.536 45.455 0.00 0.00 34.15 3.16
537 554 2.546789 CCGGTACAGGTTTCTCAACAAC 59.453 50.000 3.54 0.00 34.15 3.32
538 555 2.435069 TCCGGTACAGGTTTCTCAACAA 59.565 45.455 12.04 0.00 34.15 2.83
539 556 2.040939 TCCGGTACAGGTTTCTCAACA 58.959 47.619 12.04 0.00 34.15 3.33
540 557 2.825861 TCCGGTACAGGTTTCTCAAC 57.174 50.000 12.04 0.00 0.00 3.18
541 558 5.424252 AGAATATCCGGTACAGGTTTCTCAA 59.576 40.000 12.04 0.00 0.00 3.02
542 559 4.960469 AGAATATCCGGTACAGGTTTCTCA 59.040 41.667 12.04 0.00 0.00 3.27
543 560 5.532664 AGAATATCCGGTACAGGTTTCTC 57.467 43.478 12.04 5.59 0.00 2.87
544 561 5.952347 AAGAATATCCGGTACAGGTTTCT 57.048 39.130 12.04 14.44 32.13 2.52
545 562 7.439381 TCATAAGAATATCCGGTACAGGTTTC 58.561 38.462 12.04 12.70 0.00 2.78
546 563 7.369551 TCATAAGAATATCCGGTACAGGTTT 57.630 36.000 12.04 4.87 0.00 3.27
547 564 6.989155 TCATAAGAATATCCGGTACAGGTT 57.011 37.500 12.04 6.40 0.00 3.50
548 565 6.989155 TTCATAAGAATATCCGGTACAGGT 57.011 37.500 12.04 2.51 0.00 4.00
549 566 7.148407 GCATTTCATAAGAATATCCGGTACAGG 60.148 40.741 5.57 5.57 32.89 4.00
550 567 7.411912 CGCATTTCATAAGAATATCCGGTACAG 60.412 40.741 0.00 0.00 32.89 2.74
551 568 6.367695 CGCATTTCATAAGAATATCCGGTACA 59.632 38.462 0.00 0.00 32.89 2.90
552 569 6.588756 TCGCATTTCATAAGAATATCCGGTAC 59.411 38.462 0.00 0.00 32.89 3.34
553 570 6.588756 GTCGCATTTCATAAGAATATCCGGTA 59.411 38.462 0.00 0.00 32.89 4.02
554 571 5.408604 GTCGCATTTCATAAGAATATCCGGT 59.591 40.000 0.00 0.00 32.89 5.28
555 572 5.408299 TGTCGCATTTCATAAGAATATCCGG 59.592 40.000 0.00 0.00 32.89 5.14
556 573 6.466308 TGTCGCATTTCATAAGAATATCCG 57.534 37.500 0.00 0.00 32.89 4.18
557 574 8.506437 TGATTGTCGCATTTCATAAGAATATCC 58.494 33.333 0.00 0.00 32.89 2.59
558 575 9.882996 TTGATTGTCGCATTTCATAAGAATATC 57.117 29.630 0.00 0.00 32.89 1.63
560 577 9.502145 GTTTGATTGTCGCATTTCATAAGAATA 57.498 29.630 0.00 0.00 32.89 1.75
561 578 8.246180 AGTTTGATTGTCGCATTTCATAAGAAT 58.754 29.630 0.00 0.00 32.89 2.40
562 579 7.538334 CAGTTTGATTGTCGCATTTCATAAGAA 59.462 33.333 0.00 0.00 0.00 2.52
563 580 7.022979 CAGTTTGATTGTCGCATTTCATAAGA 58.977 34.615 0.00 0.00 0.00 2.10
564 581 6.237384 GCAGTTTGATTGTCGCATTTCATAAG 60.237 38.462 0.00 0.00 0.00 1.73
565 582 5.572511 GCAGTTTGATTGTCGCATTTCATAA 59.427 36.000 0.00 0.00 0.00 1.90
566 583 5.094812 GCAGTTTGATTGTCGCATTTCATA 58.905 37.500 0.00 0.00 0.00 2.15
567 584 3.922240 GCAGTTTGATTGTCGCATTTCAT 59.078 39.130 0.00 0.00 0.00 2.57
568 585 3.307674 GCAGTTTGATTGTCGCATTTCA 58.692 40.909 0.00 0.00 0.00 2.69
569 586 2.339400 CGCAGTTTGATTGTCGCATTTC 59.661 45.455 0.00 0.00 0.00 2.17
570 587 2.031245 TCGCAGTTTGATTGTCGCATTT 60.031 40.909 0.00 0.00 0.00 2.32
571 588 1.535028 TCGCAGTTTGATTGTCGCATT 59.465 42.857 0.00 0.00 0.00 3.56
572 589 1.155889 TCGCAGTTTGATTGTCGCAT 58.844 45.000 0.00 0.00 0.00 4.73
573 590 1.128507 GATCGCAGTTTGATTGTCGCA 59.871 47.619 0.00 0.00 0.00 5.10
574 591 1.394917 AGATCGCAGTTTGATTGTCGC 59.605 47.619 0.00 0.00 0.00 5.19
575 592 2.667969 TCAGATCGCAGTTTGATTGTCG 59.332 45.455 0.00 0.00 0.00 4.35
576 593 3.484886 GCTCAGATCGCAGTTTGATTGTC 60.485 47.826 0.00 0.00 0.00 3.18
577 594 2.417933 GCTCAGATCGCAGTTTGATTGT 59.582 45.455 0.00 0.00 0.00 2.71
578 595 2.223203 GGCTCAGATCGCAGTTTGATTG 60.223 50.000 0.00 0.00 0.00 2.67
579 596 2.012673 GGCTCAGATCGCAGTTTGATT 58.987 47.619 0.00 0.00 0.00 2.57
580 597 1.661341 GGCTCAGATCGCAGTTTGAT 58.339 50.000 0.00 0.00 0.00 2.57
581 598 0.737367 CGGCTCAGATCGCAGTTTGA 60.737 55.000 0.00 0.00 0.00 2.69
582 599 1.016130 ACGGCTCAGATCGCAGTTTG 61.016 55.000 0.00 0.00 31.90 2.93
583 600 1.016130 CACGGCTCAGATCGCAGTTT 61.016 55.000 0.00 0.00 33.61 2.66
584 601 1.446792 CACGGCTCAGATCGCAGTT 60.447 57.895 0.00 0.00 33.61 3.16
585 602 2.182791 CACGGCTCAGATCGCAGT 59.817 61.111 0.00 0.00 36.24 4.40
586 603 2.563050 TTCCACGGCTCAGATCGCAG 62.563 60.000 0.00 0.00 0.00 5.18
587 604 2.563050 CTTCCACGGCTCAGATCGCA 62.563 60.000 0.00 0.00 0.00 5.10
588 605 1.880340 CTTCCACGGCTCAGATCGC 60.880 63.158 0.00 0.00 0.00 4.58
589 606 0.108615 AACTTCCACGGCTCAGATCG 60.109 55.000 0.00 0.00 0.00 3.69
590 607 2.100605 AAACTTCCACGGCTCAGATC 57.899 50.000 0.00 0.00 0.00 2.75
591 608 2.678190 GCTAAACTTCCACGGCTCAGAT 60.678 50.000 0.00 0.00 0.00 2.90
592 609 1.337823 GCTAAACTTCCACGGCTCAGA 60.338 52.381 0.00 0.00 0.00 3.27
593 610 1.079503 GCTAAACTTCCACGGCTCAG 58.920 55.000 0.00 0.00 0.00 3.35
594 611 0.321298 GGCTAAACTTCCACGGCTCA 60.321 55.000 0.00 0.00 0.00 4.26
595 612 1.359459 CGGCTAAACTTCCACGGCTC 61.359 60.000 0.00 0.00 0.00 4.70
596 613 1.375523 CGGCTAAACTTCCACGGCT 60.376 57.895 0.00 0.00 0.00 5.52
597 614 1.359459 CTCGGCTAAACTTCCACGGC 61.359 60.000 0.00 0.00 0.00 5.68
598 615 1.359459 GCTCGGCTAAACTTCCACGG 61.359 60.000 0.00 0.00 0.00 4.94
599 616 0.669318 TGCTCGGCTAAACTTCCACG 60.669 55.000 0.00 0.00 0.00 4.94
600 617 1.519408 TTGCTCGGCTAAACTTCCAC 58.481 50.000 0.00 0.00 0.00 4.02
601 618 2.151202 CTTTGCTCGGCTAAACTTCCA 58.849 47.619 0.00 0.00 0.00 3.53
602 619 2.152016 ACTTTGCTCGGCTAAACTTCC 58.848 47.619 0.00 0.00 0.00 3.46
603 620 3.498777 AGAACTTTGCTCGGCTAAACTTC 59.501 43.478 0.00 1.67 0.00 3.01
604 621 3.477530 AGAACTTTGCTCGGCTAAACTT 58.522 40.909 0.00 0.00 0.00 2.66
605 622 3.127425 AGAACTTTGCTCGGCTAAACT 57.873 42.857 0.00 0.00 0.00 2.66
606 623 4.870991 AGATAGAACTTTGCTCGGCTAAAC 59.129 41.667 0.00 0.00 0.00 2.01
607 624 4.870426 CAGATAGAACTTTGCTCGGCTAAA 59.130 41.667 0.00 0.00 0.00 1.85
641 658 5.731657 GATCATGATCTCCCTGTCCAGGTT 61.732 50.000 25.47 0.00 39.52 3.50
642 659 4.266786 GATCATGATCTCCCTGTCCAGGT 61.267 52.174 25.47 0.00 39.52 4.00
643 660 2.302445 GATCATGATCTCCCTGTCCAGG 59.698 54.545 25.47 6.35 40.16 4.45
650 667 2.246469 CCGTCAGATCATGATCTCCCT 58.754 52.381 31.15 11.85 45.78 4.20
672 689 1.113517 TATACGTGGGCTCTCCTGGC 61.114 60.000 0.00 0.00 36.20 4.85
691 708 2.011617 AAGTGGCACCCCTTTCAGCT 62.012 55.000 15.27 0.00 0.00 4.24
694 711 1.408969 GAAAAGTGGCACCCCTTTCA 58.591 50.000 22.50 0.00 30.81 2.69
711 728 1.001520 TCTCGCGGTCAAGATTTGGAA 59.998 47.619 6.13 0.00 0.00 3.53
717 734 0.248661 CGTGATCTCGCGGTCAAGAT 60.249 55.000 6.13 7.06 45.14 2.40
739 756 2.113433 GCTCTCTAGACGCCGTCCA 61.113 63.158 14.60 0.00 32.18 4.02
875 909 2.339556 CGGGCGGGAAGAAAATGCA 61.340 57.895 0.00 0.00 0.00 3.96
945 979 1.681825 GTCGTGGCGAAATTTGGAAC 58.318 50.000 4.16 0.97 37.72 3.62
1020 1054 4.515404 GGCACGGTGTAGATGGAC 57.485 61.111 10.24 0.00 0.00 4.02
1059 1093 2.978824 CGAGGGGTGTGAACGGAT 59.021 61.111 0.00 0.00 0.00 4.18
1238 1272 1.673168 GAAGGTCTCCACATCCATGC 58.327 55.000 0.00 0.00 0.00 4.06
1393 1427 1.269703 GGAGGGGTTTCTTCGCCCTA 61.270 60.000 0.00 0.00 44.25 3.53
1602 1636 2.446435 GCCTTTGGCTTTGACTGGATA 58.554 47.619 0.73 0.00 46.69 2.59
1842 1876 7.284919 TCATCGCAACTATACCTTCTCATAA 57.715 36.000 0.00 0.00 0.00 1.90
1856 1890 3.057969 TGTCCAAGATTCATCGCAACT 57.942 42.857 0.00 0.00 0.00 3.16
1868 1902 9.806203 CTATGCAATTCAATATTTTGTCCAAGA 57.194 29.630 0.00 0.00 34.32 3.02
1872 1906 9.403110 CTAGCTATGCAATTCAATATTTTGTCC 57.597 33.333 0.00 0.00 34.32 4.02
1940 1974 5.939296 CCTGCACAACCCATTTTAATCAAAT 59.061 36.000 0.00 0.00 35.24 2.32
1955 1989 4.359706 CCTTTCAACTTAACCTGCACAAC 58.640 43.478 0.00 0.00 0.00 3.32
2023 2057 1.526686 CACAACTGGGTGCTGAGCA 60.527 57.895 1.40 1.40 35.60 4.26
2119 2153 2.981859 ATACAGGTGTAAGAAGGCCG 57.018 50.000 0.00 0.00 33.76 6.13
2131 2165 7.569111 ACCTTATCAACATCCTCTAATACAGGT 59.431 37.037 0.00 0.00 32.20 4.00
2166 2208 6.094048 TGCATTTTGTAATAGAGAAGACAGCC 59.906 38.462 0.00 0.00 0.00 4.85
2183 2225 6.889494 TCACATGCTAAAATGTTGCATTTTG 58.111 32.000 22.52 15.65 43.85 2.44
2184 2226 6.707161 ACTCACATGCTAAAATGTTGCATTTT 59.293 30.769 19.38 19.38 43.85 1.82
2374 2422 4.887071 TGTAAGCACAGTTCCAGTGAAAAT 59.113 37.500 0.00 0.00 39.30 1.82
2562 2614 9.612620 CATTCAGTGGTTCTTAATTGTTACTTC 57.387 33.333 0.00 0.00 0.00 3.01
2563 2615 9.131791 ACATTCAGTGGTTCTTAATTGTTACTT 57.868 29.630 0.00 0.00 0.00 2.24
2809 3022 8.904834 AGGACCTACGCAAACTATATATGATAG 58.095 37.037 0.00 0.00 0.00 2.08
2821 3196 0.606604 TCAGGAGGACCTACGCAAAC 59.393 55.000 0.00 0.00 45.94 2.93
2841 3216 7.254421 CGGCTCGCAAATTATATGATTATAGCA 60.254 37.037 13.27 0.00 0.00 3.49
2862 3237 1.672881 AGTTTGCATGCTTATCGGCTC 59.327 47.619 20.33 0.00 0.00 4.70
2865 3240 2.164219 ACCAAGTTTGCATGCTTATCGG 59.836 45.455 20.33 14.17 0.00 4.18
2893 3269 7.012515 AGTCTACATCACTACGAACCTCTTATG 59.987 40.741 0.00 0.00 0.00 1.90
2904 3280 7.481642 ACCTGAAATTAGTCTACATCACTACG 58.518 38.462 0.00 0.00 0.00 3.51
2985 6896 7.011016 CCAAACCAAACTTTACCAGATTGTTTC 59.989 37.037 0.00 0.00 34.21 2.78
3079 7061 3.923017 ACTGCCACAAAGCATTTCTAC 57.077 42.857 0.00 0.00 43.09 2.59
3107 7089 6.611613 AGAATCAGGAGACAAACAGTATCA 57.388 37.500 0.00 0.00 40.23 2.15
3201 7183 8.809066 ACGGCTGTATGGTATAATACTATGAAA 58.191 33.333 0.00 0.00 34.66 2.69
3216 7198 2.981859 AAGGTCTAACGGCTGTATGG 57.018 50.000 0.00 0.00 0.00 2.74
3220 7202 3.518303 AGGATTAAAGGTCTAACGGCTGT 59.482 43.478 0.00 0.00 0.00 4.40
3225 7207 6.402226 GCAACTGAAGGATTAAAGGTCTAACG 60.402 42.308 0.00 0.00 0.00 3.18
3299 7281 6.383147 AGGTTATGAGCAACTTAGTTAGGCTA 59.617 38.462 9.44 0.00 34.44 3.93
3606 7588 7.703058 ATTAACACCCCAAAGAGTAGAATTG 57.297 36.000 0.00 0.00 0.00 2.32
3658 7640 7.066163 TGAGTATACAGAATTGTTCATGGCTTG 59.934 37.037 5.50 0.00 38.76 4.01
3660 7642 6.653020 TGAGTATACAGAATTGTTCATGGCT 58.347 36.000 5.50 0.00 38.76 4.75
3661 7643 6.512415 GCTGAGTATACAGAATTGTTCATGGC 60.512 42.308 5.50 0.00 39.94 4.40
3662 7644 6.765036 AGCTGAGTATACAGAATTGTTCATGG 59.235 38.462 5.50 0.00 39.94 3.66
3664 7646 7.559486 TCAGCTGAGTATACAGAATTGTTCAT 58.441 34.615 13.74 0.00 39.94 2.57
3666 7648 7.010923 CCTTCAGCTGAGTATACAGAATTGTTC 59.989 40.741 17.43 0.00 39.94 3.18
3670 7652 5.363939 GCCTTCAGCTGAGTATACAGAATT 58.636 41.667 17.43 0.00 39.94 2.17
3671 7653 4.500545 CGCCTTCAGCTGAGTATACAGAAT 60.501 45.833 17.43 0.00 39.94 2.40
3672 7654 3.181486 CGCCTTCAGCTGAGTATACAGAA 60.181 47.826 17.43 0.00 39.94 3.02
3673 7655 2.359214 CGCCTTCAGCTGAGTATACAGA 59.641 50.000 17.43 0.00 39.94 3.41
3674 7656 2.736978 CGCCTTCAGCTGAGTATACAG 58.263 52.381 17.43 10.10 40.39 2.74
3675 7657 1.202417 GCGCCTTCAGCTGAGTATACA 60.202 52.381 17.43 0.00 40.39 2.29
3676 7658 1.492720 GCGCCTTCAGCTGAGTATAC 58.507 55.000 17.43 4.49 40.39 1.47
3677 7659 0.389391 GGCGCCTTCAGCTGAGTATA 59.611 55.000 22.15 0.48 40.39 1.47
3679 7661 2.579201 GGCGCCTTCAGCTGAGTA 59.421 61.111 22.15 1.72 40.39 2.59
3752 8109 4.058124 TGTGTTGCTCTGTGTTATCTGAC 58.942 43.478 0.00 0.00 0.00 3.51
3898 8258 2.094442 GGTGCACCTCTCTTACTCTGTC 60.094 54.545 29.12 0.00 0.00 3.51
3943 8330 0.322816 GAACATCTTGGGAGCCAGCA 60.323 55.000 0.00 0.00 33.81 4.41
3944 8331 0.322816 TGAACATCTTGGGAGCCAGC 60.323 55.000 0.00 0.00 33.81 4.85
3946 8333 3.824133 CATATGAACATCTTGGGAGCCA 58.176 45.455 0.00 0.00 0.00 4.75
3947 8334 2.555757 GCATATGAACATCTTGGGAGCC 59.444 50.000 6.97 0.00 0.00 4.70
3948 8335 3.004106 GTGCATATGAACATCTTGGGAGC 59.996 47.826 9.12 0.00 0.00 4.70
3993 8380 1.594310 GAGGAAGAGCAGCCTCGTT 59.406 57.895 0.00 0.00 43.05 3.85
4023 8418 0.602905 CTTTTTCCGGTCAGTCGCCT 60.603 55.000 0.00 0.00 0.00 5.52
4191 8592 4.268359 GAACAATCTGGGAAGCAGAATCT 58.732 43.478 0.00 0.00 31.89 2.40
4237 8638 4.288626 AGGTCCTACCAGCAACTGATAAAA 59.711 41.667 0.00 0.00 41.95 1.52
4317 8719 1.033574 ACAGGCTACAGGTATCTCGC 58.966 55.000 0.00 0.00 0.00 5.03
4375 8778 6.665992 AAGGTGAAGTGTGATCAAGTAGTA 57.334 37.500 0.00 0.00 0.00 1.82
4385 8788 1.414919 AGGCGTAAAGGTGAAGTGTGA 59.585 47.619 0.00 0.00 0.00 3.58
4386 8789 1.798813 GAGGCGTAAAGGTGAAGTGTG 59.201 52.381 0.00 0.00 0.00 3.82
4387 8790 1.414919 TGAGGCGTAAAGGTGAAGTGT 59.585 47.619 0.00 0.00 0.00 3.55
4390 8793 2.338500 GTCTGAGGCGTAAAGGTGAAG 58.662 52.381 0.00 0.00 0.00 3.02


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

AutoCloner maintained by Alex Coulton.