Multiple sequence alignment - TraesCS7D01G245400

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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 TraesCS7D01G245400 chr7D 100.000 3896 0 0 1 3896 214327648 214331543 0.000000e+00 7195
1 TraesCS7D01G245400 chr7B 97.436 3198 62 7 702 3896 186872407 186869227 0.000000e+00 5433
2 TraesCS7D01G245400 chr7B 86.395 441 44 5 1 441 186890724 186890300 5.890000e-128 468
3 TraesCS7D01G245400 chr7A 96.666 3209 70 14 700 3896 226713961 226717144 0.000000e+00 5299
4 TraesCS7D01G245400 chr7A 83.302 533 64 8 1 526 226713427 226713941 5.890000e-128 468
5 TraesCS7D01G245400 chr2A 85.792 183 18 4 522 699 775753839 775753660 1.850000e-43 187


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 TraesCS7D01G245400 chr7D 214327648 214331543 3895 False 7195.0 7195 100.000 1 3896 1 chr7D.!!$F1 3895
1 TraesCS7D01G245400 chr7B 186869227 186872407 3180 True 5433.0 5433 97.436 702 3896 1 chr7B.!!$R1 3194
2 TraesCS7D01G245400 chr7A 226713427 226717144 3717 False 2883.5 5299 89.984 1 3896 2 chr7A.!!$F1 3895

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
618 626 0.17899 GATATGGTTGGGGTCTGGCC 60.179 60.0 0.00 0.0 0.00 5.36 F
2109 2118 0.10412 TACAGCTGTTCGTGCAGTGT 59.896 50.0 27.06 0.0 38.65 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2202 2211 1.012086 CAGGGCATGATGAGACAACG 58.988 55.000 0.00 0.0 0.00 4.10 R
3571 3590 4.032452 TGGCTCCGGCAGATGCAA 62.032 61.111 7.19 0.0 44.36 4.08 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
43 44 1.134175 ACAACGTTGCTTCAAACCCAG 59.866 47.619 27.61 0.00 0.00 4.45
56 57 3.197766 TCAAACCCAGCTATAGTGTGAGG 59.802 47.826 0.84 6.06 0.00 3.86
57 58 2.848678 ACCCAGCTATAGTGTGAGGA 57.151 50.000 0.84 0.00 0.00 3.71
62 63 4.202202 CCCAGCTATAGTGTGAGGAGAAAG 60.202 50.000 0.84 0.00 0.00 2.62
71 74 6.874288 AGTGTGAGGAGAAAGAAAATGAAG 57.126 37.500 0.00 0.00 0.00 3.02
77 80 7.645735 GTGAGGAGAAAGAAAATGAAGTTTCAC 59.354 37.037 6.07 0.00 40.49 3.18
95 98 1.001048 CACTCATGCCACAACAGTTGG 60.001 52.381 17.76 2.39 34.12 3.77
96 99 0.599558 CTCATGCCACAACAGTTGGG 59.400 55.000 17.76 13.57 34.12 4.12
105 108 0.250901 CAACAGTTGGGGGTCTGGAG 60.251 60.000 5.25 0.00 36.17 3.86
112 115 2.348998 GGGGTCTGGAGCACACTG 59.651 66.667 2.27 0.00 31.40 3.66
123 126 3.077339 GCACACTGCAAACTAAGCG 57.923 52.632 0.00 0.00 44.26 4.68
130 133 2.878406 ACTGCAAACTAAGCGTTCACAT 59.122 40.909 0.00 0.00 33.90 3.21
143 146 6.741992 AGCGTTCACATCTTTCAAATATGA 57.258 33.333 2.65 0.00 0.00 2.15
158 161 4.946478 AATATGAAGGCTAGAAGCTCGT 57.054 40.909 0.00 0.00 41.99 4.18
189 192 7.664318 TGAACCAACTTTAGAAATTACTCCCTC 59.336 37.037 0.00 0.00 0.00 4.30
199 202 6.937392 AGAAATTACTCCCTCTGTTCACTAC 58.063 40.000 0.00 0.00 0.00 2.73
205 208 8.749026 TTACTCCCTCTGTTCACTACTATAAG 57.251 38.462 0.00 0.00 0.00 1.73
213 216 7.321153 TCTGTTCACTACTATAAGTGCCTTTC 58.679 38.462 0.39 0.00 45.34 2.62
214 217 6.403878 TGTTCACTACTATAAGTGCCTTTCC 58.596 40.000 0.39 0.00 45.34 3.13
216 219 6.869206 TCACTACTATAAGTGCCTTTCCTT 57.131 37.500 0.39 0.00 45.34 3.36
217 220 7.253905 TCACTACTATAAGTGCCTTTCCTTT 57.746 36.000 0.39 0.00 45.34 3.11
218 221 7.686434 TCACTACTATAAGTGCCTTTCCTTTT 58.314 34.615 0.39 0.00 45.34 2.27
264 267 9.110617 AGTTATTACAACGATCGATAACATACG 57.889 33.333 25.77 0.00 36.26 3.06
272 275 5.633601 ACGATCGATAACATACGAATGCATT 59.366 36.000 24.34 12.83 41.65 3.56
275 278 5.439828 TCGATAACATACGAATGCATTTGC 58.560 37.500 23.99 7.28 36.50 3.68
276 279 5.236263 TCGATAACATACGAATGCATTTGCT 59.764 36.000 23.99 14.54 37.49 3.91
283 286 7.930217 ACATACGAATGCATTTGCTATAGTTT 58.070 30.769 23.99 6.93 42.66 2.66
285 288 6.683974 ACGAATGCATTTGCTATAGTTTCT 57.316 33.333 23.99 0.42 42.66 2.52
291 294 7.234187 TGCATTTGCTATAGTTTCTCTAACG 57.766 36.000 3.94 0.00 40.79 3.18
301 304 5.579564 AGTTTCTCTAACGGATGTACTCC 57.420 43.478 0.00 0.00 41.78 3.85
302 305 5.014858 AGTTTCTCTAACGGATGTACTCCA 58.985 41.667 10.68 0.00 45.24 3.86
303 306 5.657302 AGTTTCTCTAACGGATGTACTCCAT 59.343 40.000 10.68 3.36 45.24 3.41
312 315 2.307768 GATGTACTCCATCTGTCCGGA 58.692 52.381 0.00 0.00 45.50 5.14
327 330 4.894784 TGTCCGGATTTATTAGGCATCTC 58.105 43.478 7.81 0.00 0.00 2.75
328 331 4.593206 TGTCCGGATTTATTAGGCATCTCT 59.407 41.667 7.81 0.00 0.00 3.10
333 336 7.038302 TCCGGATTTATTAGGCATCTCTGTATT 60.038 37.037 0.00 0.00 0.00 1.89
346 349 7.764443 GGCATCTCTGTATTCAGTGTAAAACTA 59.236 37.037 0.00 0.00 41.91 2.24
408 411 7.402054 TGACACAAACATCATAGGTAGGAATT 58.598 34.615 0.00 0.00 0.00 2.17
517 525 8.283291 GTCATATAGACGGTCAAAATTTGATCC 58.717 37.037 11.87 12.93 38.62 3.36
520 528 5.782893 AGACGGTCAAAATTTGATCCAAA 57.217 34.783 11.87 0.00 42.47 3.28
521 529 6.345096 AGACGGTCAAAATTTGATCCAAAT 57.655 33.333 11.87 4.23 44.62 2.32
522 530 7.461182 AGACGGTCAAAATTTGATCCAAATA 57.539 32.000 11.87 0.00 42.32 1.40
524 532 8.531146 AGACGGTCAAAATTTGATCCAAATATT 58.469 29.630 11.87 0.00 42.32 1.28
525 533 9.796120 GACGGTCAAAATTTGATCCAAATATTA 57.204 29.630 11.87 0.00 42.32 0.98
526 534 9.581099 ACGGTCAAAATTTGATCCAAATATTAC 57.419 29.630 11.87 0.00 42.32 1.89
527 535 9.801873 CGGTCAAAATTTGATCCAAATATTACT 57.198 29.630 11.87 0.00 42.32 2.24
538 546 9.476202 TGATCCAAATATTACTCATGTAAGACG 57.524 33.333 0.00 0.00 41.33 4.18
539 547 9.477484 GATCCAAATATTACTCATGTAAGACGT 57.523 33.333 0.00 0.00 41.33 4.34
540 548 9.832445 ATCCAAATATTACTCATGTAAGACGTT 57.168 29.630 0.00 0.00 41.33 3.99
541 549 9.309516 TCCAAATATTACTCATGTAAGACGTTC 57.690 33.333 0.00 0.00 41.33 3.95
542 550 9.093970 CCAAATATTACTCATGTAAGACGTTCA 57.906 33.333 0.00 0.00 41.33 3.18
543 551 9.901724 CAAATATTACTCATGTAAGACGTTCAC 57.098 33.333 0.00 0.00 41.33 3.18
544 552 9.647797 AAATATTACTCATGTAAGACGTTCACA 57.352 29.630 0.00 0.00 41.33 3.58
545 553 9.647797 AATATTACTCATGTAAGACGTTCACAA 57.352 29.630 0.00 0.00 41.33 3.33
546 554 7.956420 ATTACTCATGTAAGACGTTCACAAA 57.044 32.000 0.00 0.00 41.33 2.83
547 555 7.773864 TTACTCATGTAAGACGTTCACAAAA 57.226 32.000 0.00 0.00 34.10 2.44
548 556 6.861065 ACTCATGTAAGACGTTCACAAAAT 57.139 33.333 0.00 0.00 0.00 1.82
549 557 7.956420 ACTCATGTAAGACGTTCACAAAATA 57.044 32.000 0.00 0.00 0.00 1.40
550 558 8.373048 ACTCATGTAAGACGTTCACAAAATAA 57.627 30.769 0.00 0.00 0.00 1.40
551 559 8.495949 ACTCATGTAAGACGTTCACAAAATAAG 58.504 33.333 0.00 0.00 0.00 1.73
552 560 7.802738 TCATGTAAGACGTTCACAAAATAAGG 58.197 34.615 0.00 0.00 0.00 2.69
553 561 7.442969 TCATGTAAGACGTTCACAAAATAAGGT 59.557 33.333 0.00 0.00 0.00 3.50
554 562 7.556733 TGTAAGACGTTCACAAAATAAGGTT 57.443 32.000 0.00 0.00 0.00 3.50
555 563 8.659925 TGTAAGACGTTCACAAAATAAGGTTA 57.340 30.769 0.00 0.00 0.00 2.85
556 564 8.767085 TGTAAGACGTTCACAAAATAAGGTTAG 58.233 33.333 0.00 0.00 0.00 2.34
557 565 6.237313 AGACGTTCACAAAATAAGGTTAGC 57.763 37.500 0.00 0.00 0.00 3.09
558 566 5.761234 AGACGTTCACAAAATAAGGTTAGCA 59.239 36.000 0.00 0.00 0.00 3.49
559 567 6.261381 AGACGTTCACAAAATAAGGTTAGCAA 59.739 34.615 0.00 0.00 0.00 3.91
560 568 6.977213 ACGTTCACAAAATAAGGTTAGCAAT 58.023 32.000 0.00 0.00 0.00 3.56
561 569 7.430441 ACGTTCACAAAATAAGGTTAGCAATT 58.570 30.769 0.00 0.00 0.00 2.32
562 570 7.381139 ACGTTCACAAAATAAGGTTAGCAATTG 59.619 33.333 0.00 0.00 0.00 2.32
563 571 7.381139 CGTTCACAAAATAAGGTTAGCAATTGT 59.619 33.333 7.40 0.00 0.00 2.71
564 572 9.040939 GTTCACAAAATAAGGTTAGCAATTGTT 57.959 29.630 7.40 3.27 0.00 2.83
565 573 9.606631 TTCACAAAATAAGGTTAGCAATTGTTT 57.393 25.926 7.40 0.00 0.00 2.83
568 576 9.203421 ACAAAATAAGGTTAGCAATTGTTTAGC 57.797 29.630 7.40 4.83 0.00 3.09
569 577 9.202273 CAAAATAAGGTTAGCAATTGTTTAGCA 57.798 29.630 11.99 0.00 0.00 3.49
570 578 9.771534 AAAATAAGGTTAGCAATTGTTTAGCAA 57.228 25.926 11.99 1.83 41.89 3.91
593 601 8.948853 CAATTTTTGCTCGTATGAAAAGTAGA 57.051 30.769 0.00 0.00 0.00 2.59
594 602 9.393249 CAATTTTTGCTCGTATGAAAAGTAGAA 57.607 29.630 0.00 0.00 0.00 2.10
595 603 8.950403 ATTTTTGCTCGTATGAAAAGTAGAAC 57.050 30.769 0.00 0.00 0.00 3.01
596 604 6.476243 TTTGCTCGTATGAAAAGTAGAACC 57.524 37.500 0.00 0.00 0.00 3.62
597 605 5.142061 TGCTCGTATGAAAAGTAGAACCA 57.858 39.130 0.00 0.00 0.00 3.67
598 606 5.730550 TGCTCGTATGAAAAGTAGAACCAT 58.269 37.500 0.00 0.00 0.00 3.55
599 607 5.580691 TGCTCGTATGAAAAGTAGAACCATG 59.419 40.000 0.00 0.00 0.00 3.66
600 608 5.810587 GCTCGTATGAAAAGTAGAACCATGA 59.189 40.000 0.00 0.00 0.00 3.07
601 609 6.480320 GCTCGTATGAAAAGTAGAACCATGAT 59.520 38.462 0.00 0.00 0.00 2.45
602 610 7.652105 GCTCGTATGAAAAGTAGAACCATGATA 59.348 37.037 0.00 0.00 0.00 2.15
603 611 9.698309 CTCGTATGAAAAGTAGAACCATGATAT 57.302 33.333 0.00 0.00 0.00 1.63
604 612 9.476202 TCGTATGAAAAGTAGAACCATGATATG 57.524 33.333 0.00 0.00 0.00 1.78
615 623 2.867624 CCATGATATGGTTGGGGTCTG 58.132 52.381 0.00 0.00 45.54 3.51
616 624 2.489619 CCATGATATGGTTGGGGTCTGG 60.490 54.545 0.00 0.00 45.54 3.86
617 625 0.550914 TGATATGGTTGGGGTCTGGC 59.449 55.000 0.00 0.00 0.00 4.85
618 626 0.178990 GATATGGTTGGGGTCTGGCC 60.179 60.000 0.00 0.00 0.00 5.36
628 636 3.808984 GGTCTGGCCCTCCTAATTG 57.191 57.895 0.00 0.00 0.00 2.32
629 637 1.213296 GGTCTGGCCCTCCTAATTGA 58.787 55.000 0.00 0.00 0.00 2.57
630 638 1.141858 GGTCTGGCCCTCCTAATTGAG 59.858 57.143 0.00 0.00 0.00 3.02
631 639 0.839946 TCTGGCCCTCCTAATTGAGC 59.160 55.000 0.00 0.00 0.00 4.26
632 640 0.842635 CTGGCCCTCCTAATTGAGCT 59.157 55.000 0.00 0.00 0.00 4.09
633 641 0.548031 TGGCCCTCCTAATTGAGCTG 59.452 55.000 0.00 0.00 0.00 4.24
634 642 0.839946 GGCCCTCCTAATTGAGCTGA 59.160 55.000 0.00 0.00 0.00 4.26
635 643 1.212935 GGCCCTCCTAATTGAGCTGAA 59.787 52.381 0.00 0.00 0.00 3.02
636 644 2.293170 GCCCTCCTAATTGAGCTGAAC 58.707 52.381 0.00 0.00 0.00 3.18
637 645 2.356125 GCCCTCCTAATTGAGCTGAACA 60.356 50.000 0.00 0.00 0.00 3.18
638 646 3.686691 GCCCTCCTAATTGAGCTGAACAT 60.687 47.826 0.00 0.00 0.00 2.71
639 647 4.530875 CCCTCCTAATTGAGCTGAACATT 58.469 43.478 0.00 0.00 0.00 2.71
640 648 4.337555 CCCTCCTAATTGAGCTGAACATTG 59.662 45.833 0.00 0.00 0.00 2.82
641 649 4.946157 CCTCCTAATTGAGCTGAACATTGT 59.054 41.667 0.00 0.00 0.00 2.71
642 650 5.416952 CCTCCTAATTGAGCTGAACATTGTT 59.583 40.000 0.63 0.63 0.00 2.83
643 651 6.258230 TCCTAATTGAGCTGAACATTGTTG 57.742 37.500 6.80 0.00 0.00 3.33
644 652 6.003326 TCCTAATTGAGCTGAACATTGTTGA 58.997 36.000 6.80 0.00 0.00 3.18
645 653 6.660521 TCCTAATTGAGCTGAACATTGTTGAT 59.339 34.615 6.80 0.00 0.00 2.57
646 654 7.177216 TCCTAATTGAGCTGAACATTGTTGATT 59.823 33.333 6.80 0.00 0.00 2.57
647 655 7.274904 CCTAATTGAGCTGAACATTGTTGATTG 59.725 37.037 6.80 0.00 0.00 2.67
648 656 5.518848 TTGAGCTGAACATTGTTGATTGT 57.481 34.783 6.80 0.00 0.00 2.71
649 657 6.631971 TTGAGCTGAACATTGTTGATTGTA 57.368 33.333 6.80 0.00 0.00 2.41
650 658 6.631971 TGAGCTGAACATTGTTGATTGTAA 57.368 33.333 6.80 0.00 0.00 2.41
651 659 7.218228 TGAGCTGAACATTGTTGATTGTAAT 57.782 32.000 6.80 0.00 0.00 1.89
652 660 7.307694 TGAGCTGAACATTGTTGATTGTAATC 58.692 34.615 6.80 0.00 35.97 1.75
653 661 6.624423 AGCTGAACATTGTTGATTGTAATCC 58.376 36.000 6.80 0.00 34.50 3.01
654 662 6.435277 AGCTGAACATTGTTGATTGTAATCCT 59.565 34.615 6.80 0.00 34.50 3.24
655 663 6.749118 GCTGAACATTGTTGATTGTAATCCTC 59.251 38.462 6.80 0.00 34.50 3.71
656 664 7.156876 TGAACATTGTTGATTGTAATCCTCC 57.843 36.000 6.80 0.00 34.50 4.30
657 665 6.152661 TGAACATTGTTGATTGTAATCCTCCC 59.847 38.462 6.80 0.00 34.50 4.30
658 666 4.640201 ACATTGTTGATTGTAATCCTCCCG 59.360 41.667 2.41 0.00 34.50 5.14
659 667 3.992943 TGTTGATTGTAATCCTCCCGT 57.007 42.857 2.41 0.00 34.50 5.28
660 668 3.605634 TGTTGATTGTAATCCTCCCGTG 58.394 45.455 2.41 0.00 34.50 4.94
661 669 3.008594 TGTTGATTGTAATCCTCCCGTGT 59.991 43.478 2.41 0.00 34.50 4.49
662 670 3.992943 TGATTGTAATCCTCCCGTGTT 57.007 42.857 2.41 0.00 34.50 3.32
663 671 4.295141 TGATTGTAATCCTCCCGTGTTT 57.705 40.909 2.41 0.00 34.50 2.83
664 672 4.006989 TGATTGTAATCCTCCCGTGTTTG 58.993 43.478 2.41 0.00 34.50 2.93
665 673 3.773418 TTGTAATCCTCCCGTGTTTGA 57.227 42.857 0.00 0.00 0.00 2.69
666 674 3.328382 TGTAATCCTCCCGTGTTTGAG 57.672 47.619 0.00 0.00 0.00 3.02
667 675 2.635915 TGTAATCCTCCCGTGTTTGAGT 59.364 45.455 0.00 0.00 0.00 3.41
668 676 3.833650 TGTAATCCTCCCGTGTTTGAGTA 59.166 43.478 0.00 0.00 0.00 2.59
669 677 4.468510 TGTAATCCTCCCGTGTTTGAGTAT 59.531 41.667 0.00 0.00 0.00 2.12
670 678 4.569719 AATCCTCCCGTGTTTGAGTATT 57.430 40.909 0.00 0.00 0.00 1.89
671 679 5.687166 AATCCTCCCGTGTTTGAGTATTA 57.313 39.130 0.00 0.00 0.00 0.98
672 680 4.460948 TCCTCCCGTGTTTGAGTATTAC 57.539 45.455 0.00 0.00 0.00 1.89
673 681 3.833650 TCCTCCCGTGTTTGAGTATTACA 59.166 43.478 0.00 0.00 0.00 2.41
674 682 4.283978 TCCTCCCGTGTTTGAGTATTACAA 59.716 41.667 0.00 0.00 0.00 2.41
675 683 4.630069 CCTCCCGTGTTTGAGTATTACAAG 59.370 45.833 0.00 0.00 0.00 3.16
676 684 5.217978 TCCCGTGTTTGAGTATTACAAGT 57.782 39.130 0.00 0.00 0.00 3.16
677 685 4.992319 TCCCGTGTTTGAGTATTACAAGTG 59.008 41.667 0.00 0.00 0.00 3.16
678 686 4.753107 CCCGTGTTTGAGTATTACAAGTGT 59.247 41.667 0.00 0.00 0.00 3.55
679 687 5.237779 CCCGTGTTTGAGTATTACAAGTGTT 59.762 40.000 0.00 0.00 0.00 3.32
680 688 6.238538 CCCGTGTTTGAGTATTACAAGTGTTT 60.239 38.462 0.00 0.00 0.00 2.83
681 689 7.190871 CCGTGTTTGAGTATTACAAGTGTTTT 58.809 34.615 0.00 0.00 0.00 2.43
682 690 8.336806 CCGTGTTTGAGTATTACAAGTGTTTTA 58.663 33.333 0.00 0.00 0.00 1.52
683 691 9.150653 CGTGTTTGAGTATTACAAGTGTTTTAC 57.849 33.333 0.00 0.00 0.00 2.01
684 692 9.442033 GTGTTTGAGTATTACAAGTGTTTTACC 57.558 33.333 0.00 0.00 0.00 2.85
685 693 8.623030 TGTTTGAGTATTACAAGTGTTTTACCC 58.377 33.333 0.00 0.00 0.00 3.69
686 694 7.424227 TTGAGTATTACAAGTGTTTTACCCG 57.576 36.000 0.00 0.00 0.00 5.28
687 695 5.409214 TGAGTATTACAAGTGTTTTACCCGC 59.591 40.000 0.00 0.00 0.00 6.13
688 696 5.307204 AGTATTACAAGTGTTTTACCCGCA 58.693 37.500 0.00 0.00 0.00 5.69
689 697 4.759516 ATTACAAGTGTTTTACCCGCAG 57.240 40.909 0.00 0.00 0.00 5.18
690 698 2.335316 ACAAGTGTTTTACCCGCAGA 57.665 45.000 0.00 0.00 0.00 4.26
691 699 2.645802 ACAAGTGTTTTACCCGCAGAA 58.354 42.857 0.00 0.00 0.00 3.02
692 700 3.018149 ACAAGTGTTTTACCCGCAGAAA 58.982 40.909 0.00 0.00 0.00 2.52
693 701 3.444388 ACAAGTGTTTTACCCGCAGAAAA 59.556 39.130 0.00 0.00 0.00 2.29
694 702 4.082136 ACAAGTGTTTTACCCGCAGAAAAA 60.082 37.500 0.00 0.00 0.00 1.94
720 728 3.278668 CGGAGGGAGTACTCTGTAAGA 57.721 52.381 21.88 0.00 43.69 2.10
750 758 5.560966 TTCATTTTGGATACGAGAAAGGC 57.439 39.130 0.00 0.00 42.51 4.35
880 889 5.220854 GGGTTTTAACATCAGTGATGGATCG 60.221 44.000 31.41 11.30 43.60 3.69
886 895 3.181482 ACATCAGTGATGGATCGTCAGTC 60.181 47.826 31.41 0.00 43.60 3.51
1158 1167 0.652592 CTATCAGTTTCCGCTTGCCG 59.347 55.000 0.00 0.00 0.00 5.69
1177 1186 3.866327 GCCGCTAGTTTTTAGAAGAGGAG 59.134 47.826 0.00 0.00 31.26 3.69
1178 1187 4.621038 GCCGCTAGTTTTTAGAAGAGGAGT 60.621 45.833 0.00 0.00 31.26 3.85
1179 1188 5.480205 CCGCTAGTTTTTAGAAGAGGAGTT 58.520 41.667 0.00 0.00 31.26 3.01
1180 1189 5.348997 CCGCTAGTTTTTAGAAGAGGAGTTG 59.651 44.000 0.00 0.00 31.26 3.16
1181 1190 5.927115 CGCTAGTTTTTAGAAGAGGAGTTGT 59.073 40.000 0.00 0.00 0.00 3.32
1182 1191 6.424207 CGCTAGTTTTTAGAAGAGGAGTTGTT 59.576 38.462 0.00 0.00 0.00 2.83
1183 1192 7.569591 CGCTAGTTTTTAGAAGAGGAGTTGTTG 60.570 40.741 0.00 0.00 0.00 3.33
1184 1193 6.378710 AGTTTTTAGAAGAGGAGTTGTTGC 57.621 37.500 0.00 0.00 0.00 4.17
1185 1194 6.122964 AGTTTTTAGAAGAGGAGTTGTTGCT 58.877 36.000 0.00 0.00 0.00 3.91
1206 1215 1.476488 GTTGTTGCTGGTTCTTGTGGT 59.524 47.619 0.00 0.00 0.00 4.16
1212 1221 1.597742 CTGGTTCTTGTGGTGTGAGG 58.402 55.000 0.00 0.00 0.00 3.86
1263 1272 3.350612 CGGTGCTTTTCCGGCGAA 61.351 61.111 9.30 0.00 43.68 4.70
1389 1398 2.381911 TCTACGCGGGGAATAGAGTTT 58.618 47.619 12.47 0.00 0.00 2.66
1395 1404 2.808543 GCGGGGAATAGAGTTTATGCTG 59.191 50.000 0.00 0.00 0.00 4.41
1638 1647 5.499004 TGCTGGAGAATTACCAAGTACTT 57.501 39.130 1.12 1.12 36.95 2.24
2109 2118 0.104120 TACAGCTGTTCGTGCAGTGT 59.896 50.000 27.06 0.00 38.65 3.55
2202 2211 1.297893 GGCATTCGACATTGCTCGC 60.298 57.895 12.36 0.00 38.88 5.03
2566 2575 1.901159 TGATCAAAGTGGCCCCATTTG 59.099 47.619 14.94 14.94 35.68 2.32
2730 2739 1.212751 GTGGCTCACCGAAAATGGC 59.787 57.895 0.00 0.00 39.70 4.40
3107 3117 3.648739 AGGACCTACTTGGAGAGGAATC 58.351 50.000 0.00 0.00 39.71 2.52
3223 3233 3.050275 GTGAGGTTGACCAGCGGC 61.050 66.667 2.56 0.00 38.89 6.53
3374 3385 4.751060 TGGTAGTATGGCTTACAGTTTCG 58.249 43.478 12.44 0.00 32.87 3.46
3571 3590 9.214957 TGATAAGTACTTTGTGATTTGTCGATT 57.785 29.630 14.49 0.00 0.00 3.34
3620 3639 0.949588 CCACACTGAGCTGCACTGAG 60.950 60.000 10.56 5.56 35.43 3.35
3632 3651 1.610038 TGCACTGAGCCTTGTGAATTG 59.390 47.619 4.99 0.00 44.83 2.32
3771 3790 2.662596 AAGGCGCGATGTCCTTGA 59.337 55.556 12.10 0.00 40.90 3.02
3842 3862 5.707298 AGAGAGAAAATTTCCGAGCATTTGA 59.293 36.000 1.57 0.00 0.00 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 7.827156 CGTTGTCGTTCGTACATAATATACT 57.173 36.000 0.00 0.00 0.00 2.12
21 22 1.462791 GGTTTGAAGCAACGTTGTCG 58.537 50.000 27.78 4.90 43.34 4.35
23 24 1.134175 CTGGGTTTGAAGCAACGTTGT 59.866 47.619 27.78 10.68 0.00 3.32
32 33 4.832248 TCACACTATAGCTGGGTTTGAAG 58.168 43.478 0.00 0.00 0.00 3.02
43 44 7.766278 TCATTTTCTTTCTCCTCACACTATAGC 59.234 37.037 0.00 0.00 0.00 2.97
71 74 2.358898 ACTGTTGTGGCATGAGTGAAAC 59.641 45.455 0.00 0.00 0.00 2.78
77 80 0.599558 CCCAACTGTTGTGGCATGAG 59.400 55.000 18.38 1.58 0.00 2.90
95 98 2.348998 CAGTGTGCTCCAGACCCC 59.651 66.667 0.00 0.00 0.00 4.95
96 99 2.359230 GCAGTGTGCTCCAGACCC 60.359 66.667 0.00 0.00 40.96 4.46
97 100 0.819259 TTTGCAGTGTGCTCCAGACC 60.819 55.000 0.00 0.00 45.31 3.85
105 108 0.307760 ACGCTTAGTTTGCAGTGTGC 59.692 50.000 0.00 0.00 45.29 4.57
112 115 3.813529 AGATGTGAACGCTTAGTTTGC 57.186 42.857 0.00 0.00 44.35 3.68
123 126 7.542025 AGCCTTCATATTTGAAAGATGTGAAC 58.458 34.615 11.73 2.45 41.22 3.18
130 133 7.341805 AGCTTCTAGCCTTCATATTTGAAAGA 58.658 34.615 0.20 0.00 43.77 2.52
163 166 7.523415 AGGGAGTAATTTCTAAAGTTGGTTCA 58.477 34.615 0.00 0.00 0.00 3.18
164 167 7.883833 AGAGGGAGTAATTTCTAAAGTTGGTTC 59.116 37.037 0.00 0.00 0.00 3.62
167 170 7.168905 ACAGAGGGAGTAATTTCTAAAGTTGG 58.831 38.462 0.00 0.00 0.00 3.77
168 171 8.622948 AACAGAGGGAGTAATTTCTAAAGTTG 57.377 34.615 0.00 0.00 0.00 3.16
171 174 8.097662 AGTGAACAGAGGGAGTAATTTCTAAAG 58.902 37.037 0.00 0.00 0.00 1.85
177 180 6.936968 AGTAGTGAACAGAGGGAGTAATTT 57.063 37.500 0.00 0.00 0.00 1.82
185 188 5.452077 GGCACTTATAGTAGTGAACAGAGGG 60.452 48.000 8.47 0.00 46.72 4.30
243 246 7.357777 GCATTCGTATGTTATCGATCGTTGTAA 60.358 37.037 15.94 10.12 36.01 2.41
259 262 8.285394 AGAAACTATAGCAAATGCATTCGTATG 58.715 33.333 13.38 8.44 45.16 2.39
260 263 8.383318 AGAAACTATAGCAAATGCATTCGTAT 57.617 30.769 13.38 11.88 45.16 3.06
264 267 9.657121 GTTAGAGAAACTATAGCAAATGCATTC 57.343 33.333 13.38 0.67 38.11 2.67
272 275 7.108841 ACATCCGTTAGAGAAACTATAGCAA 57.891 36.000 0.00 0.00 35.81 3.91
275 278 8.505625 GGAGTACATCCGTTAGAGAAACTATAG 58.494 40.741 0.00 0.00 38.67 1.31
276 279 8.388484 GGAGTACATCCGTTAGAGAAACTATA 57.612 38.462 0.00 0.00 38.67 1.31
301 304 4.641396 TGCCTAATAAATCCGGACAGATG 58.359 43.478 6.12 0.00 0.00 2.90
302 305 4.974645 TGCCTAATAAATCCGGACAGAT 57.025 40.909 6.12 0.00 0.00 2.90
303 306 4.593206 AGATGCCTAATAAATCCGGACAGA 59.407 41.667 6.12 0.00 0.00 3.41
308 311 4.899502 ACAGAGATGCCTAATAAATCCGG 58.100 43.478 0.00 0.00 0.00 5.14
312 315 9.499479 CACTGAATACAGAGATGCCTAATAAAT 57.501 33.333 0.00 0.00 46.03 1.40
333 336 9.787435 AAAGTTATGGTCATAGTTTTACACTGA 57.213 29.630 0.00 0.00 35.97 3.41
382 385 6.367374 TCCTACCTATGATGTTTGTGTCAA 57.633 37.500 0.00 0.00 0.00 3.18
493 496 8.153479 TGGATCAAATTTTGACCGTCTATATG 57.847 34.615 13.80 0.00 43.48 1.78
517 525 9.901724 GTGAACGTCTTACATGAGTAATATTTG 57.098 33.333 0.00 0.00 39.36 2.32
520 528 9.647797 TTTGTGAACGTCTTACATGAGTAATAT 57.352 29.630 0.00 0.00 39.36 1.28
521 529 9.478768 TTTTGTGAACGTCTTACATGAGTAATA 57.521 29.630 0.00 0.00 39.36 0.98
522 530 7.956420 TTTGTGAACGTCTTACATGAGTAAT 57.044 32.000 0.00 0.00 39.36 1.89
524 532 7.956420 ATTTTGTGAACGTCTTACATGAGTA 57.044 32.000 0.00 0.00 0.00 2.59
525 533 6.861065 ATTTTGTGAACGTCTTACATGAGT 57.139 33.333 0.00 0.00 0.00 3.41
526 534 7.957484 CCTTATTTTGTGAACGTCTTACATGAG 59.043 37.037 0.00 0.00 0.00 2.90
527 535 7.442969 ACCTTATTTTGTGAACGTCTTACATGA 59.557 33.333 0.00 0.00 0.00 3.07
528 536 7.581476 ACCTTATTTTGTGAACGTCTTACATG 58.419 34.615 0.00 0.00 0.00 3.21
531 539 7.743400 GCTAACCTTATTTTGTGAACGTCTTAC 59.257 37.037 0.00 0.00 0.00 2.34
532 540 7.441760 TGCTAACCTTATTTTGTGAACGTCTTA 59.558 33.333 0.00 0.00 0.00 2.10
534 542 5.761234 TGCTAACCTTATTTTGTGAACGTCT 59.239 36.000 0.00 0.00 0.00 4.18
535 543 5.992729 TGCTAACCTTATTTTGTGAACGTC 58.007 37.500 0.00 0.00 0.00 4.34
537 545 7.381139 ACAATTGCTAACCTTATTTTGTGAACG 59.619 33.333 5.05 0.00 0.00 3.95
538 546 8.587952 ACAATTGCTAACCTTATTTTGTGAAC 57.412 30.769 5.05 0.00 0.00 3.18
539 547 9.606631 AAACAATTGCTAACCTTATTTTGTGAA 57.393 25.926 5.05 0.00 0.00 3.18
542 550 9.203421 GCTAAACAATTGCTAACCTTATTTTGT 57.797 29.630 5.05 0.00 0.00 2.83
543 551 9.202273 TGCTAAACAATTGCTAACCTTATTTTG 57.798 29.630 5.05 0.00 0.00 2.44
544 552 9.771534 TTGCTAAACAATTGCTAACCTTATTTT 57.228 25.926 5.05 0.00 31.73 1.82
568 576 8.948853 TCTACTTTTCATACGAGCAAAAATTG 57.051 30.769 0.00 0.00 0.00 2.32
569 577 9.394477 GTTCTACTTTTCATACGAGCAAAAATT 57.606 29.630 0.00 0.00 0.00 1.82
570 578 8.021396 GGTTCTACTTTTCATACGAGCAAAAAT 58.979 33.333 0.00 0.00 0.00 1.82
571 579 7.012515 TGGTTCTACTTTTCATACGAGCAAAAA 59.987 33.333 0.00 0.00 0.00 1.94
572 580 6.483974 TGGTTCTACTTTTCATACGAGCAAAA 59.516 34.615 0.00 0.00 0.00 2.44
573 581 5.992829 TGGTTCTACTTTTCATACGAGCAAA 59.007 36.000 0.00 0.00 0.00 3.68
574 582 5.543714 TGGTTCTACTTTTCATACGAGCAA 58.456 37.500 0.00 0.00 0.00 3.91
575 583 5.142061 TGGTTCTACTTTTCATACGAGCA 57.858 39.130 0.00 0.00 0.00 4.26
576 584 5.810587 TCATGGTTCTACTTTTCATACGAGC 59.189 40.000 0.00 0.00 0.00 5.03
577 585 9.698309 ATATCATGGTTCTACTTTTCATACGAG 57.302 33.333 0.00 0.00 0.00 4.18
578 586 9.476202 CATATCATGGTTCTACTTTTCATACGA 57.524 33.333 0.00 0.00 0.00 3.43
579 587 8.712363 CCATATCATGGTTCTACTTTTCATACG 58.288 37.037 0.00 0.00 45.54 3.06
596 604 2.867624 CCAGACCCCAACCATATCATG 58.132 52.381 0.00 0.00 0.00 3.07
597 605 1.145738 GCCAGACCCCAACCATATCAT 59.854 52.381 0.00 0.00 0.00 2.45
598 606 0.550914 GCCAGACCCCAACCATATCA 59.449 55.000 0.00 0.00 0.00 2.15
599 607 0.178990 GGCCAGACCCCAACCATATC 60.179 60.000 0.00 0.00 0.00 1.63
600 608 1.930520 GGCCAGACCCCAACCATAT 59.069 57.895 0.00 0.00 0.00 1.78
601 609 3.422204 GGCCAGACCCCAACCATA 58.578 61.111 0.00 0.00 0.00 2.74
610 618 1.141858 CTCAATTAGGAGGGCCAGACC 59.858 57.143 6.18 6.29 36.29 3.85
611 619 1.475930 GCTCAATTAGGAGGGCCAGAC 60.476 57.143 6.18 0.00 35.41 3.51
612 620 0.839946 GCTCAATTAGGAGGGCCAGA 59.160 55.000 6.18 0.00 35.41 3.86
613 621 0.842635 AGCTCAATTAGGAGGGCCAG 59.157 55.000 6.18 0.00 35.41 4.85
614 622 0.548031 CAGCTCAATTAGGAGGGCCA 59.452 55.000 6.18 0.00 35.41 5.36
615 623 0.839946 TCAGCTCAATTAGGAGGGCC 59.160 55.000 0.00 0.00 35.41 5.80
616 624 2.293170 GTTCAGCTCAATTAGGAGGGC 58.707 52.381 0.00 0.00 35.41 5.19
617 625 3.634397 TGTTCAGCTCAATTAGGAGGG 57.366 47.619 0.00 0.00 35.41 4.30
618 626 4.946157 ACAATGTTCAGCTCAATTAGGAGG 59.054 41.667 0.00 0.00 35.41 4.30
619 627 6.149973 TCAACAATGTTCAGCTCAATTAGGAG 59.850 38.462 0.00 0.00 37.97 3.69
620 628 6.003326 TCAACAATGTTCAGCTCAATTAGGA 58.997 36.000 0.00 0.00 0.00 2.94
621 629 6.258230 TCAACAATGTTCAGCTCAATTAGG 57.742 37.500 0.00 0.00 0.00 2.69
622 630 7.811236 ACAATCAACAATGTTCAGCTCAATTAG 59.189 33.333 0.00 0.00 0.00 1.73
623 631 7.660112 ACAATCAACAATGTTCAGCTCAATTA 58.340 30.769 0.00 0.00 0.00 1.40
624 632 6.518493 ACAATCAACAATGTTCAGCTCAATT 58.482 32.000 0.00 0.00 0.00 2.32
625 633 6.092955 ACAATCAACAATGTTCAGCTCAAT 57.907 33.333 0.00 0.00 0.00 2.57
626 634 5.518848 ACAATCAACAATGTTCAGCTCAA 57.481 34.783 0.00 0.00 0.00 3.02
627 635 6.631971 TTACAATCAACAATGTTCAGCTCA 57.368 33.333 0.00 0.00 0.00 4.26
628 636 6.749118 GGATTACAATCAACAATGTTCAGCTC 59.251 38.462 0.00 0.00 37.15 4.09
629 637 6.435277 AGGATTACAATCAACAATGTTCAGCT 59.565 34.615 0.00 0.00 37.15 4.24
630 638 6.624423 AGGATTACAATCAACAATGTTCAGC 58.376 36.000 0.00 0.00 37.15 4.26
631 639 7.253422 GGAGGATTACAATCAACAATGTTCAG 58.747 38.462 0.00 0.00 37.15 3.02
632 640 6.152661 GGGAGGATTACAATCAACAATGTTCA 59.847 38.462 0.00 0.00 37.15 3.18
633 641 6.564328 GGGAGGATTACAATCAACAATGTTC 58.436 40.000 0.00 0.00 37.15 3.18
634 642 5.125417 CGGGAGGATTACAATCAACAATGTT 59.875 40.000 0.00 0.00 37.15 2.71
635 643 4.640201 CGGGAGGATTACAATCAACAATGT 59.360 41.667 4.45 0.00 37.15 2.71
636 644 4.640201 ACGGGAGGATTACAATCAACAATG 59.360 41.667 4.45 0.00 37.15 2.82
637 645 4.640201 CACGGGAGGATTACAATCAACAAT 59.360 41.667 4.45 0.00 37.15 2.71
638 646 4.006989 CACGGGAGGATTACAATCAACAA 58.993 43.478 4.45 0.00 37.15 2.83
639 647 3.008594 ACACGGGAGGATTACAATCAACA 59.991 43.478 0.00 0.00 37.15 3.33
640 648 3.606687 ACACGGGAGGATTACAATCAAC 58.393 45.455 0.00 0.00 37.15 3.18
641 649 3.992943 ACACGGGAGGATTACAATCAA 57.007 42.857 0.00 0.00 37.15 2.57
642 650 3.992943 AACACGGGAGGATTACAATCA 57.007 42.857 0.00 0.00 37.15 2.57
643 651 4.258543 TCAAACACGGGAGGATTACAATC 58.741 43.478 0.00 0.00 34.66 2.67
644 652 4.261801 CTCAAACACGGGAGGATTACAAT 58.738 43.478 0.00 0.00 0.00 2.71
645 653 3.071892 ACTCAAACACGGGAGGATTACAA 59.928 43.478 0.00 0.00 35.45 2.41
646 654 2.635915 ACTCAAACACGGGAGGATTACA 59.364 45.455 0.00 0.00 35.45 2.41
647 655 3.329929 ACTCAAACACGGGAGGATTAC 57.670 47.619 0.00 0.00 35.45 1.89
648 656 5.687166 AATACTCAAACACGGGAGGATTA 57.313 39.130 0.00 0.00 41.70 1.75
649 657 4.569719 AATACTCAAACACGGGAGGATT 57.430 40.909 0.00 0.00 39.34 3.01
650 658 4.468510 TGTAATACTCAAACACGGGAGGAT 59.531 41.667 0.00 0.00 36.24 3.24
651 659 3.833650 TGTAATACTCAAACACGGGAGGA 59.166 43.478 0.00 0.00 35.45 3.71
652 660 4.196626 TGTAATACTCAAACACGGGAGG 57.803 45.455 0.00 0.00 35.45 4.30
653 661 5.120208 CACTTGTAATACTCAAACACGGGAG 59.880 44.000 0.00 0.00 37.18 4.30
654 662 4.992319 CACTTGTAATACTCAAACACGGGA 59.008 41.667 0.00 0.00 0.00 5.14
655 663 4.753107 ACACTTGTAATACTCAAACACGGG 59.247 41.667 0.00 0.00 0.00 5.28
656 664 5.917541 ACACTTGTAATACTCAAACACGG 57.082 39.130 0.00 0.00 0.00 4.94
657 665 9.150653 GTAAAACACTTGTAATACTCAAACACG 57.849 33.333 0.00 0.00 0.00 4.49
658 666 9.442033 GGTAAAACACTTGTAATACTCAAACAC 57.558 33.333 0.00 0.00 0.00 3.32
659 667 8.623030 GGGTAAAACACTTGTAATACTCAAACA 58.377 33.333 0.00 0.00 0.00 2.83
660 668 7.799914 CGGGTAAAACACTTGTAATACTCAAAC 59.200 37.037 0.00 0.00 0.00 2.93
661 669 7.520292 GCGGGTAAAACACTTGTAATACTCAAA 60.520 37.037 0.00 0.00 0.00 2.69
662 670 6.073112 GCGGGTAAAACACTTGTAATACTCAA 60.073 38.462 0.00 0.00 0.00 3.02
663 671 5.409214 GCGGGTAAAACACTTGTAATACTCA 59.591 40.000 0.00 0.00 0.00 3.41
664 672 5.409214 TGCGGGTAAAACACTTGTAATACTC 59.591 40.000 0.00 1.41 0.00 2.59
665 673 5.307204 TGCGGGTAAAACACTTGTAATACT 58.693 37.500 0.00 0.00 0.00 2.12
666 674 5.409214 TCTGCGGGTAAAACACTTGTAATAC 59.591 40.000 0.00 0.00 0.00 1.89
667 675 5.549347 TCTGCGGGTAAAACACTTGTAATA 58.451 37.500 0.00 0.00 0.00 0.98
668 676 4.391155 TCTGCGGGTAAAACACTTGTAAT 58.609 39.130 0.00 0.00 0.00 1.89
669 677 3.806380 TCTGCGGGTAAAACACTTGTAA 58.194 40.909 0.00 0.00 0.00 2.41
670 678 3.472283 TCTGCGGGTAAAACACTTGTA 57.528 42.857 0.00 0.00 0.00 2.41
671 679 2.335316 TCTGCGGGTAAAACACTTGT 57.665 45.000 0.00 0.00 0.00 3.16
672 680 3.701532 TTTCTGCGGGTAAAACACTTG 57.298 42.857 0.00 0.00 0.00 3.16
673 681 4.722361 TTTTTCTGCGGGTAAAACACTT 57.278 36.364 0.00 0.00 0.00 3.16
695 703 2.970640 ACAGAGTACTCCCTCCGTTTTT 59.029 45.455 19.38 0.00 31.53 1.94
696 704 2.606378 ACAGAGTACTCCCTCCGTTTT 58.394 47.619 19.38 0.00 31.53 2.43
697 705 2.305858 ACAGAGTACTCCCTCCGTTT 57.694 50.000 19.38 0.00 31.53 3.60
698 706 3.009916 TCTTACAGAGTACTCCCTCCGTT 59.990 47.826 19.38 0.00 31.53 4.44
728 736 4.094294 CGCCTTTCTCGTATCCAAAATGAA 59.906 41.667 0.00 0.00 0.00 2.57
732 740 2.997986 GTCGCCTTTCTCGTATCCAAAA 59.002 45.455 0.00 0.00 0.00 2.44
750 758 0.242825 TCGCTTCCAGTTAGGTGTCG 59.757 55.000 0.00 0.00 39.02 4.35
913 922 5.482908 GAGCTTTACTCCAGAGATTTGTCA 58.517 41.667 0.70 0.00 39.75 3.58
1158 1167 7.577107 CAACAACTCCTCTTCTAAAAACTAGC 58.423 38.462 0.00 0.00 0.00 3.42
1177 1186 1.280066 CCAGCAACAACAGCAACAAC 58.720 50.000 0.00 0.00 0.00 3.32
1178 1187 0.894141 ACCAGCAACAACAGCAACAA 59.106 45.000 0.00 0.00 0.00 2.83
1179 1188 0.894141 AACCAGCAACAACAGCAACA 59.106 45.000 0.00 0.00 0.00 3.33
1180 1189 1.134946 AGAACCAGCAACAACAGCAAC 59.865 47.619 0.00 0.00 0.00 4.17
1181 1190 1.473258 AGAACCAGCAACAACAGCAA 58.527 45.000 0.00 0.00 0.00 3.91
1182 1191 1.134753 CAAGAACCAGCAACAACAGCA 59.865 47.619 0.00 0.00 0.00 4.41
1183 1192 1.134946 ACAAGAACCAGCAACAACAGC 59.865 47.619 0.00 0.00 0.00 4.40
1184 1193 2.480073 CCACAAGAACCAGCAACAACAG 60.480 50.000 0.00 0.00 0.00 3.16
1185 1194 1.476085 CCACAAGAACCAGCAACAACA 59.524 47.619 0.00 0.00 0.00 3.33
1206 1215 4.697514 CAGAGTTCTGAAAAGACCTCACA 58.302 43.478 2.97 0.00 46.59 3.58
1395 1404 2.747460 TTGCTCATGTGCTCGGCC 60.747 61.111 19.60 0.00 0.00 6.13
1638 1647 3.256281 TGGCACGCCATAATCACAA 57.744 47.368 6.67 0.00 41.89 3.33
2109 2118 7.310361 GGAAATTTCATGTTTAGAACCCATGGA 60.310 37.037 15.22 0.00 37.24 3.41
2202 2211 1.012086 CAGGGCATGATGAGACAACG 58.988 55.000 0.00 0.00 0.00 4.10
2730 2739 4.667262 TGTTTGTTGGTTTGATCTTGACG 58.333 39.130 0.00 0.00 0.00 4.35
3107 3117 6.581171 AAATACCAAAGCTTTCCAAGAGAG 57.419 37.500 9.23 0.00 0.00 3.20
3329 3340 9.131791 ACCAGTTGAACTGTAAATCATAAAGTT 57.868 29.630 22.40 0.00 44.50 2.66
3337 3348 7.201617 GCCATACTACCAGTTGAACTGTAAATC 60.202 40.741 22.40 1.14 44.50 2.17
3571 3590 4.032452 TGGCTCCGGCAGATGCAA 62.032 61.111 7.19 0.00 44.36 4.08
3620 3639 5.119931 TCACAATACACAATTCACAAGGC 57.880 39.130 0.00 0.00 0.00 4.35
3632 3651 8.915871 AATCACAAGCATTAATCACAATACAC 57.084 30.769 0.00 0.00 0.00 2.90
3799 3819 9.760926 TTCTCTCTTACATATATACTCCATGCT 57.239 33.333 0.00 0.00 0.00 3.79
3811 3831 7.987458 TGCTCGGAAATTTTCTCTCTTACATAT 59.013 33.333 8.93 0.00 0.00 1.78
3812 3832 7.327975 TGCTCGGAAATTTTCTCTCTTACATA 58.672 34.615 8.93 0.00 0.00 2.29
3813 3833 6.173339 TGCTCGGAAATTTTCTCTCTTACAT 58.827 36.000 8.93 0.00 0.00 2.29
3814 3834 5.547465 TGCTCGGAAATTTTCTCTCTTACA 58.453 37.500 8.93 0.00 0.00 2.41


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

AutoCloner maintained by Alex Coulton.