Multiple sequence alignment - TraesCS2D01G342400

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 TraesCS2D01G342400 chr2D 100.000 3470 0 0 1 3470 437909996 437913465 0.000000e+00 6408
1 TraesCS2D01G342400 chr2D 92.000 125 7 2 539 660 437910567 437910691 4.600000e-39 172
2 TraesCS2D01G342400 chr2D 77.544 285 53 9 1925 2202 593164611 593164331 9.970000e-36 161
3 TraesCS2D01G342400 chr2B 95.851 1928 72 5 875 2798 514369797 514371720 0.000000e+00 3110
4 TraesCS2D01G342400 chr2B 87.456 574 42 14 2844 3397 514373624 514374187 4.890000e-178 634
5 TraesCS2D01G342400 chr2B 91.103 281 10 7 321 587 514353375 514353654 1.970000e-97 366
6 TraesCS2D01G342400 chr2B 93.909 197 11 1 35 231 514353148 514353343 2.620000e-76 296
7 TraesCS2D01G342400 chr2B 90.217 184 5 8 673 854 514353655 514353827 9.690000e-56 228
8 TraesCS2D01G342400 chr2B 74.754 305 63 14 1955 2252 719199750 719199453 1.310000e-24 124
9 TraesCS2D01G342400 chr2A 93.065 1788 113 7 1153 2931 550861138 550859353 0.000000e+00 2604
10 TraesCS2D01G342400 chr2A 93.182 572 18 6 35 587 550864643 550864074 0.000000e+00 821
11 TraesCS2D01G342400 chr2A 91.809 293 21 3 875 1166 550861588 550861298 4.170000e-109 405
12 TraesCS2D01G342400 chr2A 82.474 291 36 10 3084 3359 550859352 550859062 1.240000e-59 241
13 TraesCS2D01G342400 chr2A 85.246 183 27 0 2613 2795 232780756 232780938 4.570000e-44 189
14 TraesCS2D01G342400 chr2A 84.492 187 29 0 2613 2799 668708546 668708732 5.910000e-43 185
15 TraesCS2D01G342400 chr2A 87.654 162 4 3 673 834 550864079 550863934 1.280000e-39 174
16 TraesCS2D01G342400 chr2A 75.618 283 62 7 1925 2202 727687129 727686849 2.170000e-27 134
17 TraesCS2D01G342400 chr6B 85.165 182 27 0 2613 2794 340596446 340596627 1.640000e-43 187
18 TraesCS2D01G342400 chr6A 85.165 182 27 0 2613 2794 159506730 159506911 1.640000e-43 187
19 TraesCS2D01G342400 chr6A 85.165 182 27 0 2613 2794 211600242 211600061 1.640000e-43 187
20 TraesCS2D01G342400 chr5B 85.165 182 27 0 2613 2794 14440212 14440393 1.640000e-43 187
21 TraesCS2D01G342400 chr5B 85.027 187 25 3 2613 2798 78360462 78360646 1.640000e-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 TraesCS2D01G342400 chr2D 437909996 437913465 3469 False 3290.000000 6408 96.0000 1 3470 2 chr2D.!!$F1 3469
1 TraesCS2D01G342400 chr2B 514369797 514374187 4390 False 1872.000000 3110 91.6535 875 3397 2 chr2B.!!$F2 2522
2 TraesCS2D01G342400 chr2B 514353148 514353827 679 False 296.666667 366 91.7430 35 854 3 chr2B.!!$F1 819
3 TraesCS2D01G342400 chr2A 550859062 550864643 5581 True 849.000000 2604 89.6368 35 3359 5 chr2A.!!$R2 3324

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
599 628 0.178301 GCGGGGCTAAGAGCTTACTT 59.822 55.000 0.00 0.00 41.99 2.24 F
838 875 0.320421 CGAAACGGAGGCCTTCTTCA 60.320 55.000 6.77 0.00 0.00 3.02 F
915 3263 1.219522 AAACAACCGAACCTCGCGAG 61.220 55.000 29.06 29.06 38.82 5.03 F
2303 4828 1.887198 ACGGGAAGATATGCGTAGGAG 59.113 52.381 0.00 0.00 0.00 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1494 4016 0.318441 TGGTGAGGAAGTTCTCTGCG 59.682 55.000 2.25 0.0 34.98 5.18 R
1691 4213 2.111043 ACCACGACACCTTGGCAG 59.889 61.111 0.00 0.0 35.28 4.85 R
2441 4966 2.164219 AGGTTCTGCACACACAAAAGTG 59.836 45.455 0.00 0.0 44.93 3.16 R
3128 7524 0.929244 TACTCGGGCTAGGGTTAGGT 59.071 55.000 0.00 0.0 0.00 3.08 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
24 25 6.772078 GCATAGAAATTAACGTTACACAGCT 58.228 36.000 7.70 5.01 0.00 4.24
25 26 7.241376 GCATAGAAATTAACGTTACACAGCTT 58.759 34.615 7.70 0.00 0.00 3.74
26 27 7.425595 GCATAGAAATTAACGTTACACAGCTTC 59.574 37.037 7.70 5.10 0.00 3.86
27 28 6.854496 AGAAATTAACGTTACACAGCTTCA 57.146 33.333 7.70 0.00 0.00 3.02
28 29 7.254227 AGAAATTAACGTTACACAGCTTCAA 57.746 32.000 7.70 0.00 0.00 2.69
29 30 7.130269 AGAAATTAACGTTACACAGCTTCAAC 58.870 34.615 7.70 0.00 0.00 3.18
30 31 6.613755 AATTAACGTTACACAGCTTCAACT 57.386 33.333 7.70 0.00 0.00 3.16
31 32 7.718272 AATTAACGTTACACAGCTTCAACTA 57.282 32.000 7.70 0.00 0.00 2.24
32 33 7.900782 ATTAACGTTACACAGCTTCAACTAT 57.099 32.000 7.70 0.00 0.00 2.12
33 34 5.591643 AACGTTACACAGCTTCAACTATG 57.408 39.130 0.00 0.00 0.00 2.23
178 179 4.391216 CCTTCTGTATGTTCTTCTGCAGTG 59.609 45.833 14.67 8.33 0.00 3.66
191 192 1.808945 CTGCAGTGAAGTAAAGCCCAG 59.191 52.381 5.25 0.00 0.00 4.45
193 194 0.798776 CAGTGAAGTAAAGCCCAGCG 59.201 55.000 0.00 0.00 0.00 5.18
213 214 3.352648 CGAGGGGGAAATAAGCAAAAGA 58.647 45.455 0.00 0.00 0.00 2.52
223 224 7.031975 GGAAATAAGCAAAAGAGGATGAAGTG 58.968 38.462 0.00 0.00 0.00 3.16
232 233 0.250467 AGGATGAAGTGCAGCAACGT 60.250 50.000 0.00 0.00 33.64 3.99
236 237 1.217001 TGAAGTGCAGCAACGTGTAG 58.783 50.000 0.00 0.00 0.00 2.74
244 245 3.737266 TGCAGCAACGTGTAGTACTAAAC 59.263 43.478 12.58 12.58 0.00 2.01
497 526 3.945064 CTCCTTCCCCTTCCCCGGT 62.945 68.421 0.00 0.00 0.00 5.28
512 541 2.230660 CCCGGTTTCTTCTGCTTCTTT 58.769 47.619 0.00 0.00 0.00 2.52
524 553 2.238144 CTGCTTCTTTCCCATCTCTCCA 59.762 50.000 0.00 0.00 0.00 3.86
526 555 2.503356 GCTTCTTTCCCATCTCTCCAGA 59.497 50.000 0.00 0.00 0.00 3.86
534 563 4.883759 TCCCATCTCTCCAGATACTTCAA 58.116 43.478 0.00 0.00 37.25 2.69
572 601 2.418060 GGCTAAGACCTCACTTCTCTGC 60.418 54.545 0.00 0.00 0.00 4.26
573 602 2.733858 GCTAAGACCTCACTTCTCTGCG 60.734 54.545 0.00 0.00 0.00 5.18
574 603 0.605589 AAGACCTCACTTCTCTGCGG 59.394 55.000 0.00 0.00 0.00 5.69
575 604 1.446966 GACCTCACTTCTCTGCGGC 60.447 63.158 0.00 0.00 0.00 6.53
576 605 2.507992 CCTCACTTCTCTGCGGCG 60.508 66.667 0.51 0.51 0.00 6.46
577 606 2.507992 CTCACTTCTCTGCGGCGG 60.508 66.667 9.78 1.35 0.00 6.13
578 607 2.989253 TCACTTCTCTGCGGCGGA 60.989 61.111 11.64 11.64 0.00 5.54
579 608 2.507992 CACTTCTCTGCGGCGGAG 60.508 66.667 28.83 28.83 38.15 4.63
580 609 3.764466 ACTTCTCTGCGGCGGAGG 61.764 66.667 32.31 21.95 37.46 4.30
592 621 3.917760 CGGAGGCGGGGCTAAGAG 61.918 72.222 0.00 0.00 0.00 2.85
593 622 4.243008 GGAGGCGGGGCTAAGAGC 62.243 72.222 0.00 0.00 41.46 4.09
594 623 3.157949 GAGGCGGGGCTAAGAGCT 61.158 66.667 0.00 0.00 41.99 4.09
595 624 2.689034 AGGCGGGGCTAAGAGCTT 60.689 61.111 0.00 0.00 41.99 3.74
596 625 1.382695 AGGCGGGGCTAAGAGCTTA 60.383 57.895 0.00 0.00 41.99 3.09
597 626 1.227586 GGCGGGGCTAAGAGCTTAC 60.228 63.158 0.00 0.00 41.99 2.34
598 627 1.687297 GGCGGGGCTAAGAGCTTACT 61.687 60.000 0.00 0.00 41.99 2.24
599 628 0.178301 GCGGGGCTAAGAGCTTACTT 59.822 55.000 0.00 0.00 41.99 2.24
600 629 1.941325 CGGGGCTAAGAGCTTACTTG 58.059 55.000 0.00 0.00 41.99 3.16
601 630 1.473434 CGGGGCTAAGAGCTTACTTGG 60.473 57.143 0.00 0.00 41.99 3.61
602 631 1.134068 GGGGCTAAGAGCTTACTTGGG 60.134 57.143 0.00 0.00 41.99 4.12
603 632 1.134068 GGGCTAAGAGCTTACTTGGGG 60.134 57.143 0.00 0.00 41.99 4.96
604 633 1.669604 GCTAAGAGCTTACTTGGGGC 58.330 55.000 0.00 0.00 38.45 5.80
605 634 1.941325 CTAAGAGCTTACTTGGGGCG 58.059 55.000 0.00 0.00 0.00 6.13
606 635 0.539986 TAAGAGCTTACTTGGGGCGG 59.460 55.000 0.00 0.00 0.00 6.13
607 636 2.821679 AAGAGCTTACTTGGGGCGGC 62.822 60.000 0.00 0.00 0.00 6.53
608 637 4.778143 AGCTTACTTGGGGCGGCG 62.778 66.667 0.51 0.51 0.00 6.46
627 656 3.917760 CGGAGGCGGGGCTAAGAG 61.918 72.222 0.00 0.00 0.00 2.85
628 657 4.243008 GGAGGCGGGGCTAAGAGC 62.243 72.222 0.00 0.00 41.46 4.09
629 658 3.157949 GAGGCGGGGCTAAGAGCT 61.158 66.667 0.00 0.00 41.99 4.09
630 659 2.689034 AGGCGGGGCTAAGAGCTT 60.689 61.111 0.00 0.00 41.99 3.74
631 660 1.382695 AGGCGGGGCTAAGAGCTTA 60.383 57.895 0.00 0.00 41.99 3.09
632 661 1.227586 GGCGGGGCTAAGAGCTTAC 60.228 63.158 0.00 0.00 41.99 2.34
633 662 1.687297 GGCGGGGCTAAGAGCTTACT 61.687 60.000 0.00 0.00 41.99 2.24
634 663 0.178301 GCGGGGCTAAGAGCTTACTT 59.822 55.000 0.00 0.00 41.99 2.24
635 664 1.941325 CGGGGCTAAGAGCTTACTTG 58.059 55.000 0.00 0.00 41.99 3.16
636 665 1.473434 CGGGGCTAAGAGCTTACTTGG 60.473 57.143 0.00 0.00 41.99 3.61
637 666 1.134068 GGGGCTAAGAGCTTACTTGGG 60.134 57.143 0.00 0.00 41.99 4.12
642 671 2.821679 AAGAGCTTACTTGGGGCGGC 62.822 60.000 0.00 0.00 0.00 6.53
665 694 4.162690 CGGCGGGGCTAAGAGCTT 62.163 66.667 0.00 0.00 41.99 3.74
666 695 2.792947 CGGCGGGGCTAAGAGCTTA 61.793 63.158 0.00 0.00 41.99 3.09
667 696 1.227586 GGCGGGGCTAAGAGCTTAC 60.228 63.158 0.00 0.00 41.99 2.34
668 697 1.687297 GGCGGGGCTAAGAGCTTACT 61.687 60.000 0.00 0.00 41.99 2.24
669 698 0.178301 GCGGGGCTAAGAGCTTACTT 59.822 55.000 0.00 0.00 41.99 2.24
670 699 1.941325 CGGGGCTAAGAGCTTACTTG 58.059 55.000 0.00 0.00 41.99 3.16
671 700 1.473434 CGGGGCTAAGAGCTTACTTGG 60.473 57.143 0.00 0.00 41.99 3.61
672 701 1.134068 GGGGCTAAGAGCTTACTTGGG 60.134 57.143 0.00 0.00 41.99 4.12
673 702 1.134068 GGGCTAAGAGCTTACTTGGGG 60.134 57.143 0.00 0.00 41.99 4.96
674 703 1.669604 GCTAAGAGCTTACTTGGGGC 58.330 55.000 0.00 0.00 38.45 5.80
675 704 1.941325 CTAAGAGCTTACTTGGGGCG 58.059 55.000 0.00 0.00 0.00 6.13
676 705 0.539986 TAAGAGCTTACTTGGGGCGG 59.460 55.000 0.00 0.00 0.00 6.13
677 706 2.821679 AAGAGCTTACTTGGGGCGGC 62.822 60.000 0.00 0.00 0.00 6.53
678 707 4.778143 AGCTTACTTGGGGCGGCG 62.778 66.667 0.51 0.51 0.00 6.46
722 759 0.399233 CGGGGAGAAGGGGAGAGAAT 60.399 60.000 0.00 0.00 0.00 2.40
732 769 1.616994 GGGGAGAGAATGGTGTTTGGG 60.617 57.143 0.00 0.00 0.00 4.12
733 770 1.354368 GGGAGAGAATGGTGTTTGGGA 59.646 52.381 0.00 0.00 0.00 4.37
734 771 2.437413 GGAGAGAATGGTGTTTGGGAC 58.563 52.381 0.00 0.00 0.00 4.46
735 772 2.040412 GGAGAGAATGGTGTTTGGGACT 59.960 50.000 0.00 0.00 0.00 3.85
736 773 3.498661 GGAGAGAATGGTGTTTGGGACTT 60.499 47.826 0.00 0.00 0.00 3.01
836 873 4.695560 CGAAACGGAGGCCTTCTT 57.304 55.556 6.77 0.00 0.00 2.52
837 874 2.457080 CGAAACGGAGGCCTTCTTC 58.543 57.895 6.77 4.62 0.00 2.87
838 875 0.320421 CGAAACGGAGGCCTTCTTCA 60.320 55.000 6.77 0.00 0.00 3.02
841 878 2.115343 AACGGAGGCCTTCTTCATTC 57.885 50.000 6.77 0.00 0.00 2.67
858 3206 4.541705 TCATTCCTCCAACCAAGAAAACA 58.458 39.130 0.00 0.00 0.00 2.83
861 3209 1.686587 CCTCCAACCAAGAAAACACCC 59.313 52.381 0.00 0.00 0.00 4.61
864 3212 1.412343 CCAACCAAGAAAACACCCCTG 59.588 52.381 0.00 0.00 0.00 4.45
901 3249 9.810545 AAGATAAAGAAAACGGAAATGAAACAA 57.189 25.926 0.00 0.00 0.00 2.83
915 3263 1.219522 AAACAACCGAACCTCGCGAG 61.220 55.000 29.06 29.06 38.82 5.03
916 3264 2.049433 CAACCGAACCTCGCGAGT 60.049 61.111 32.41 17.19 38.82 4.18
918 3266 3.606065 AACCGAACCTCGCGAGTCG 62.606 63.158 30.96 30.96 38.82 4.18
1014 3362 2.041824 AGGGGATGGAGATGGAGATG 57.958 55.000 0.00 0.00 0.00 2.90
1174 3696 4.704833 GCGAGTTGCTGGAGGCCA 62.705 66.667 5.01 0.00 41.73 5.36
1330 3852 3.705289 TTGCTAGCTGGCAGCCGA 61.705 61.111 34.33 22.09 43.77 5.54
1494 4016 3.519930 GAGGACGCCGTCTCCCTC 61.520 72.222 17.76 12.26 38.47 4.30
1641 4163 2.229302 CGACGAGAGGAAGAAAAGAGGT 59.771 50.000 0.00 0.00 0.00 3.85
1985 4510 6.457122 GGGATCTATATCATGTCGTACGTGAG 60.457 46.154 16.05 4.41 46.10 3.51
2029 4554 3.856521 TGAATTTCTGTTTGTGTTGCACG 59.143 39.130 0.00 0.00 37.14 5.34
2131 4656 4.531854 TGTTCCTGGTGTTGATTTTCTGA 58.468 39.130 0.00 0.00 0.00 3.27
2139 4664 8.960591 CCTGGTGTTGATTTTCTGAATATTACT 58.039 33.333 0.00 0.00 0.00 2.24
2303 4828 1.887198 ACGGGAAGATATGCGTAGGAG 59.113 52.381 0.00 0.00 0.00 3.69
2318 4843 2.566708 AGGAGAAAGGAGGAGAGCAT 57.433 50.000 0.00 0.00 0.00 3.79
2441 4966 4.498177 GGAAGACTTCTTTTGCACTCCAAC 60.498 45.833 14.72 0.00 36.11 3.77
2523 5049 1.359130 AGCAAAGGCCCAAGGAATAGT 59.641 47.619 0.00 0.00 42.56 2.12
2671 5200 1.333258 GGCAAGATCGCAAATCGTAGC 60.333 52.381 0.00 0.00 39.67 3.58
2674 5203 3.546815 GCAAGATCGCAAATCGTAGCATT 60.547 43.478 0.00 0.00 39.67 3.56
2758 5287 6.987992 AGTCAGTTTGGATTGTAAAGTCGTAA 59.012 34.615 0.00 0.00 0.00 3.18
2807 5736 8.783093 TCTAACAACCTTGTGTCTATCAATTTG 58.217 33.333 0.00 0.00 41.31 2.32
2854 5783 6.040878 GTCACACAACACTAACACTAACTCT 58.959 40.000 0.00 0.00 0.00 3.24
2892 7279 8.716646 TTAACTGATATACAACATCCACACAG 57.283 34.615 0.00 0.00 0.00 3.66
2939 7326 9.817809 GTTCACATATAATACCTTTCAGACAGA 57.182 33.333 0.00 0.00 0.00 3.41
3000 7387 9.683069 AGCATTTTACTGAAATTGTAAACAGAG 57.317 29.630 0.00 0.00 38.91 3.35
3022 7409 9.698309 CAGAGTAGAGATTAACACAGAGAAAAA 57.302 33.333 0.00 0.00 0.00 1.94
3046 7433 5.652891 AGAGCATGCATTCAGAGAGAAAAAT 59.347 36.000 21.98 0.00 40.22 1.82
3048 7435 6.100004 AGCATGCATTCAGAGAGAAAAATTG 58.900 36.000 21.98 0.00 40.22 2.32
3049 7436 5.867716 GCATGCATTCAGAGAGAAAAATTGT 59.132 36.000 14.21 0.00 40.22 2.71
3050 7437 6.183360 GCATGCATTCAGAGAGAAAAATTGTG 60.183 38.462 14.21 0.00 40.22 3.33
3051 7438 6.395426 TGCATTCAGAGAGAAAAATTGTGT 57.605 33.333 0.00 0.00 40.22 3.72
3054 7441 8.412456 TGCATTCAGAGAGAAAAATTGTGTTTA 58.588 29.630 0.00 0.00 40.22 2.01
3055 7442 8.694394 GCATTCAGAGAGAAAAATTGTGTTTAC 58.306 33.333 0.00 0.00 40.22 2.01
3077 7469 5.469479 ACAATGGAAAATGGTCAAATCGAC 58.531 37.500 0.00 0.00 44.57 4.20
3098 7490 1.595093 GCTGGTCCAAATTGTCCCCG 61.595 60.000 0.00 0.00 0.00 5.73
3181 7577 3.403038 ACATTTGAGTCAAACTCCTCCG 58.597 45.455 20.26 6.14 44.44 4.63
3224 7620 0.544357 TCGTTCCAGGAGACCATGGT 60.544 55.000 19.89 19.89 37.84 3.55
3254 7664 3.193691 ACGGTGGAGTAACAATGAGAGAG 59.806 47.826 0.00 0.00 0.00 3.20
3255 7665 3.429547 CGGTGGAGTAACAATGAGAGAGG 60.430 52.174 0.00 0.00 0.00 3.69
3256 7666 3.769844 GGTGGAGTAACAATGAGAGAGGA 59.230 47.826 0.00 0.00 0.00 3.71
3257 7667 4.223032 GGTGGAGTAACAATGAGAGAGGAA 59.777 45.833 0.00 0.00 0.00 3.36
3258 7668 5.104735 GGTGGAGTAACAATGAGAGAGGAAT 60.105 44.000 0.00 0.00 0.00 3.01
3259 7669 6.045955 GTGGAGTAACAATGAGAGAGGAATC 58.954 44.000 0.00 0.00 0.00 2.52
3260 7670 5.163509 TGGAGTAACAATGAGAGAGGAATCG 60.164 44.000 0.00 0.00 0.00 3.34
3281 7691 0.951558 GGAGAGAGCGAGAGGTGATC 59.048 60.000 0.00 0.00 45.11 2.92
3289 7699 1.791103 CGAGAGGTGATCGAGGGAGC 61.791 65.000 0.00 0.00 42.76 4.70
3340 7750 1.953138 CCGAGCCAGTCATGATCGC 60.953 63.158 9.61 6.79 35.42 4.58
3359 7769 3.960237 CGCTAACGGCAGTTTCCA 58.040 55.556 7.73 0.00 41.49 3.53
3360 7770 2.240230 CGCTAACGGCAGTTTCCAA 58.760 52.632 7.73 0.00 41.49 3.53
3361 7771 0.110373 CGCTAACGGCAGTTTCCAAC 60.110 55.000 7.73 0.00 41.49 3.77
3362 7772 0.110373 GCTAACGGCAGTTTCCAACG 60.110 55.000 7.73 0.00 41.49 4.10
3363 7773 0.110373 CTAACGGCAGTTTCCAACGC 60.110 55.000 7.73 0.00 41.49 4.84
3385 7796 1.086696 CCGTCCGAAATCAGCACATT 58.913 50.000 0.00 0.00 0.00 2.71
3402 7813 4.032960 ACATTAGTGATTTGCCAGGTCA 57.967 40.909 0.00 0.00 0.00 4.02
3403 7814 4.406456 ACATTAGTGATTTGCCAGGTCAA 58.594 39.130 0.00 0.00 0.00 3.18
3404 7815 4.832266 ACATTAGTGATTTGCCAGGTCAAA 59.168 37.500 10.37 10.37 39.87 2.69
3405 7816 5.304101 ACATTAGTGATTTGCCAGGTCAAAA 59.696 36.000 11.58 0.98 39.13 2.44
3406 7817 5.860941 TTAGTGATTTGCCAGGTCAAAAA 57.139 34.783 11.58 3.33 39.13 1.94
3407 7818 4.058721 AGTGATTTGCCAGGTCAAAAAC 57.941 40.909 11.58 12.20 39.13 2.43
3408 7819 3.450457 AGTGATTTGCCAGGTCAAAAACA 59.550 39.130 11.58 11.57 39.13 2.83
3409 7820 3.555547 GTGATTTGCCAGGTCAAAAACAC 59.444 43.478 20.12 20.12 39.13 3.32
3410 7821 2.285827 TTTGCCAGGTCAAAAACACG 57.714 45.000 6.59 0.00 33.47 4.49
3411 7822 0.179124 TTGCCAGGTCAAAAACACGC 60.179 50.000 0.00 0.00 0.00 5.34
3412 7823 1.034838 TGCCAGGTCAAAAACACGCT 61.035 50.000 0.00 0.00 0.00 5.07
3413 7824 0.948678 GCCAGGTCAAAAACACGCTA 59.051 50.000 0.00 0.00 0.00 4.26
3414 7825 1.335496 GCCAGGTCAAAAACACGCTAA 59.665 47.619 0.00 0.00 0.00 3.09
3415 7826 2.223618 GCCAGGTCAAAAACACGCTAAA 60.224 45.455 0.00 0.00 0.00 1.85
3416 7827 3.735514 GCCAGGTCAAAAACACGCTAAAA 60.736 43.478 0.00 0.00 0.00 1.52
3417 7828 4.425520 CCAGGTCAAAAACACGCTAAAAA 58.574 39.130 0.00 0.00 0.00 1.94
3418 7829 5.047188 CCAGGTCAAAAACACGCTAAAAAT 58.953 37.500 0.00 0.00 0.00 1.82
3419 7830 6.210078 CCAGGTCAAAAACACGCTAAAAATA 58.790 36.000 0.00 0.00 0.00 1.40
3420 7831 6.866248 CCAGGTCAAAAACACGCTAAAAATAT 59.134 34.615 0.00 0.00 0.00 1.28
3421 7832 8.024285 CCAGGTCAAAAACACGCTAAAAATATA 58.976 33.333 0.00 0.00 0.00 0.86
3422 7833 8.846607 CAGGTCAAAAACACGCTAAAAATATAC 58.153 33.333 0.00 0.00 0.00 1.47
3423 7834 8.789762 AGGTCAAAAACACGCTAAAAATATACT 58.210 29.630 0.00 0.00 0.00 2.12
3424 7835 9.401873 GGTCAAAAACACGCTAAAAATATACTT 57.598 29.630 0.00 0.00 0.00 2.24
3444 7855 6.220726 ACTTAAATGTTTGTTGCCTTCTGT 57.779 33.333 0.00 0.00 0.00 3.41
3445 7856 6.042143 ACTTAAATGTTTGTTGCCTTCTGTG 58.958 36.000 0.00 0.00 0.00 3.66
3446 7857 4.470334 AAATGTTTGTTGCCTTCTGTGT 57.530 36.364 0.00 0.00 0.00 3.72
3447 7858 5.590530 AAATGTTTGTTGCCTTCTGTGTA 57.409 34.783 0.00 0.00 0.00 2.90
3448 7859 4.836125 ATGTTTGTTGCCTTCTGTGTAG 57.164 40.909 0.00 0.00 0.00 2.74
3449 7860 3.616219 TGTTTGTTGCCTTCTGTGTAGT 58.384 40.909 0.00 0.00 0.00 2.73
3450 7861 3.376859 TGTTTGTTGCCTTCTGTGTAGTG 59.623 43.478 0.00 0.00 0.00 2.74
3451 7862 3.552132 TTGTTGCCTTCTGTGTAGTGA 57.448 42.857 0.00 0.00 0.00 3.41
3452 7863 3.769739 TGTTGCCTTCTGTGTAGTGAT 57.230 42.857 0.00 0.00 0.00 3.06
3453 7864 4.085357 TGTTGCCTTCTGTGTAGTGATT 57.915 40.909 0.00 0.00 0.00 2.57
3454 7865 4.460263 TGTTGCCTTCTGTGTAGTGATTT 58.540 39.130 0.00 0.00 0.00 2.17
3455 7866 4.887071 TGTTGCCTTCTGTGTAGTGATTTT 59.113 37.500 0.00 0.00 0.00 1.82
3456 7867 5.359576 TGTTGCCTTCTGTGTAGTGATTTTT 59.640 36.000 0.00 0.00 0.00 1.94
3457 7868 5.437289 TGCCTTCTGTGTAGTGATTTTTG 57.563 39.130 0.00 0.00 0.00 2.44
3458 7869 4.229876 GCCTTCTGTGTAGTGATTTTTGC 58.770 43.478 0.00 0.00 0.00 3.68
3459 7870 4.466828 CCTTCTGTGTAGTGATTTTTGCG 58.533 43.478 0.00 0.00 0.00 4.85
3460 7871 4.213270 CCTTCTGTGTAGTGATTTTTGCGA 59.787 41.667 0.00 0.00 0.00 5.10
3461 7872 4.725556 TCTGTGTAGTGATTTTTGCGAC 57.274 40.909 0.00 0.00 0.00 5.19
3462 7873 4.123506 TCTGTGTAGTGATTTTTGCGACA 58.876 39.130 0.00 0.00 0.00 4.35
3463 7874 4.572795 TCTGTGTAGTGATTTTTGCGACAA 59.427 37.500 0.00 0.00 0.00 3.18
3464 7875 5.065346 TCTGTGTAGTGATTTTTGCGACAAA 59.935 36.000 1.63 1.63 0.00 2.83
3465 7876 5.270083 TGTGTAGTGATTTTTGCGACAAAG 58.730 37.500 5.42 0.00 0.00 2.77
3466 7877 5.163703 TGTGTAGTGATTTTTGCGACAAAGT 60.164 36.000 5.42 0.58 0.00 2.66
3467 7878 5.171337 GTGTAGTGATTTTTGCGACAAAGTG 59.829 40.000 5.42 0.00 0.00 3.16
3468 7879 4.370364 AGTGATTTTTGCGACAAAGTGT 57.630 36.364 5.42 0.00 0.00 3.55
3469 7880 5.493133 AGTGATTTTTGCGACAAAGTGTA 57.507 34.783 5.42 0.00 0.00 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.772078 AGCTGTGTAACGTTAATTTCTATGC 58.228 36.000 10.11 6.88 42.39 3.14
1 2 8.440059 TGAAGCTGTGTAACGTTAATTTCTATG 58.560 33.333 10.11 0.00 42.39 2.23
2 3 8.542497 TGAAGCTGTGTAACGTTAATTTCTAT 57.458 30.769 10.11 0.00 42.39 1.98
3 4 7.949903 TGAAGCTGTGTAACGTTAATTTCTA 57.050 32.000 10.11 0.00 42.39 2.10
4 5 6.854496 TGAAGCTGTGTAACGTTAATTTCT 57.146 33.333 10.11 1.43 42.39 2.52
5 6 7.130269 AGTTGAAGCTGTGTAACGTTAATTTC 58.870 34.615 10.11 8.26 42.39 2.17
6 7 7.023197 AGTTGAAGCTGTGTAACGTTAATTT 57.977 32.000 10.11 0.00 42.39 1.82
7 8 6.613755 AGTTGAAGCTGTGTAACGTTAATT 57.386 33.333 10.11 0.00 42.39 1.40
8 9 7.601130 TCATAGTTGAAGCTGTGTAACGTTAAT 59.399 33.333 10.11 0.00 42.39 1.40
9 10 6.924612 TCATAGTTGAAGCTGTGTAACGTTAA 59.075 34.615 10.11 0.00 42.39 2.01
10 11 6.448852 TCATAGTTGAAGCTGTGTAACGTTA 58.551 36.000 3.29 3.29 42.39 3.18
11 12 5.294356 TCATAGTTGAAGCTGTGTAACGTT 58.706 37.500 5.88 5.88 42.39 3.99
12 13 4.878439 TCATAGTTGAAGCTGTGTAACGT 58.122 39.130 0.00 0.00 42.39 3.99
13 14 5.839262 TTCATAGTTGAAGCTGTGTAACG 57.161 39.130 0.00 0.00 36.87 3.18
28 29 9.646427 GACAGTTACTGAAAGAATCTTCATAGT 57.354 33.333 20.07 4.25 37.43 2.12
29 30 9.645059 TGACAGTTACTGAAAGAATCTTCATAG 57.355 33.333 20.07 0.00 37.43 2.23
31 32 9.512588 AATGACAGTTACTGAAAGAATCTTCAT 57.487 29.630 20.07 10.82 37.43 2.57
32 33 8.908786 AATGACAGTTACTGAAAGAATCTTCA 57.091 30.769 20.07 8.97 37.43 3.02
64 65 0.321671 GTGAGGCCTTGCAGACACTA 59.678 55.000 6.77 0.00 0.00 2.74
68 69 2.743928 CGGTGAGGCCTTGCAGAC 60.744 66.667 6.77 0.00 34.25 3.51
178 179 2.768834 CCTCGCTGGGCTTTACTTC 58.231 57.895 0.00 0.00 0.00 3.01
191 192 1.470051 TTTGCTTATTTCCCCCTCGC 58.530 50.000 0.00 0.00 0.00 5.03
193 194 3.701542 CCTCTTTTGCTTATTTCCCCCTC 59.298 47.826 0.00 0.00 0.00 4.30
213 214 0.250467 ACGTTGCTGCACTTCATCCT 60.250 50.000 0.00 0.00 0.00 3.24
223 224 3.737266 TGTTTAGTACTACACGTTGCTGC 59.263 43.478 13.17 0.00 0.00 5.25
232 233 9.709495 ATTATGGAACGTTTGTTTAGTACTACA 57.291 29.630 0.46 0.00 38.78 2.74
236 237 9.043678 CGAAATTATGGAACGTTTGTTTAGTAC 57.956 33.333 0.46 0.00 38.78 2.73
497 526 4.990526 AGATGGGAAAGAAGCAGAAGAAA 58.009 39.130 0.00 0.00 0.00 2.52
512 541 4.542906 TGAAGTATCTGGAGAGATGGGA 57.457 45.455 0.00 0.00 39.44 4.37
524 553 1.209128 CGCCGCGAATTGAAGTATCT 58.791 50.000 8.23 0.00 0.00 1.98
526 555 0.179094 TCCGCCGCGAATTGAAGTAT 60.179 50.000 15.93 0.00 0.00 2.12
575 604 3.917760 CTCTTAGCCCCGCCTCCG 61.918 72.222 0.00 0.00 0.00 4.63
576 605 4.243008 GCTCTTAGCCCCGCCTCC 62.243 72.222 0.00 0.00 34.48 4.30
577 606 1.400530 TAAGCTCTTAGCCCCGCCTC 61.401 60.000 0.00 0.00 43.77 4.70
578 607 1.382695 TAAGCTCTTAGCCCCGCCT 60.383 57.895 0.00 0.00 43.77 5.52
579 608 1.227586 GTAAGCTCTTAGCCCCGCC 60.228 63.158 0.00 0.00 43.77 6.13
580 609 0.178301 AAGTAAGCTCTTAGCCCCGC 59.822 55.000 0.00 0.00 43.77 6.13
581 610 1.473434 CCAAGTAAGCTCTTAGCCCCG 60.473 57.143 0.00 0.00 43.77 5.73
582 611 1.134068 CCCAAGTAAGCTCTTAGCCCC 60.134 57.143 0.00 0.00 43.77 5.80
583 612 1.134068 CCCCAAGTAAGCTCTTAGCCC 60.134 57.143 0.00 0.00 43.77 5.19
584 613 1.747552 GCCCCAAGTAAGCTCTTAGCC 60.748 57.143 0.00 0.00 43.77 3.93
585 614 1.669604 GCCCCAAGTAAGCTCTTAGC 58.330 55.000 0.00 0.00 42.84 3.09
586 615 1.473434 CCGCCCCAAGTAAGCTCTTAG 60.473 57.143 0.00 0.00 0.00 2.18
587 616 0.539986 CCGCCCCAAGTAAGCTCTTA 59.460 55.000 0.00 0.00 0.00 2.10
588 617 1.299976 CCGCCCCAAGTAAGCTCTT 59.700 57.895 0.00 0.00 0.00 2.85
589 618 2.990479 CCGCCCCAAGTAAGCTCT 59.010 61.111 0.00 0.00 0.00 4.09
590 619 2.824489 GCCGCCCCAAGTAAGCTC 60.824 66.667 0.00 0.00 0.00 4.09
591 620 4.778143 CGCCGCCCCAAGTAAGCT 62.778 66.667 0.00 0.00 0.00 3.74
610 639 3.917760 CTCTTAGCCCCGCCTCCG 61.918 72.222 0.00 0.00 0.00 4.63
611 640 4.243008 GCTCTTAGCCCCGCCTCC 62.243 72.222 0.00 0.00 34.48 4.30
612 641 1.400530 TAAGCTCTTAGCCCCGCCTC 61.401 60.000 0.00 0.00 43.77 4.70
613 642 1.382695 TAAGCTCTTAGCCCCGCCT 60.383 57.895 0.00 0.00 43.77 5.52
614 643 1.227586 GTAAGCTCTTAGCCCCGCC 60.228 63.158 0.00 0.00 43.77 6.13
615 644 0.178301 AAGTAAGCTCTTAGCCCCGC 59.822 55.000 0.00 0.00 43.77 6.13
616 645 1.473434 CCAAGTAAGCTCTTAGCCCCG 60.473 57.143 0.00 0.00 43.77 5.73
617 646 1.134068 CCCAAGTAAGCTCTTAGCCCC 60.134 57.143 0.00 0.00 43.77 5.80
618 647 1.134068 CCCCAAGTAAGCTCTTAGCCC 60.134 57.143 0.00 0.00 43.77 5.19
619 648 1.747552 GCCCCAAGTAAGCTCTTAGCC 60.748 57.143 0.00 0.00 43.77 3.93
620 649 1.669604 GCCCCAAGTAAGCTCTTAGC 58.330 55.000 0.00 0.00 42.84 3.09
621 650 1.473434 CCGCCCCAAGTAAGCTCTTAG 60.473 57.143 0.00 0.00 0.00 2.18
622 651 0.539986 CCGCCCCAAGTAAGCTCTTA 59.460 55.000 0.00 0.00 0.00 2.10
623 652 1.299976 CCGCCCCAAGTAAGCTCTT 59.700 57.895 0.00 0.00 0.00 2.85
624 653 2.990479 CCGCCCCAAGTAAGCTCT 59.010 61.111 0.00 0.00 0.00 4.09
625 654 2.824489 GCCGCCCCAAGTAAGCTC 60.824 66.667 0.00 0.00 0.00 4.09
626 655 4.778143 CGCCGCCCCAAGTAAGCT 62.778 66.667 0.00 0.00 0.00 3.74
653 682 1.134068 CCCCAAGTAAGCTCTTAGCCC 60.134 57.143 0.00 0.00 43.77 5.19
654 683 1.747552 GCCCCAAGTAAGCTCTTAGCC 60.748 57.143 0.00 0.00 43.77 3.93
655 684 1.669604 GCCCCAAGTAAGCTCTTAGC 58.330 55.000 0.00 0.00 42.84 3.09
656 685 1.473434 CCGCCCCAAGTAAGCTCTTAG 60.473 57.143 0.00 0.00 0.00 2.18
657 686 0.539986 CCGCCCCAAGTAAGCTCTTA 59.460 55.000 0.00 0.00 0.00 2.10
658 687 1.299976 CCGCCCCAAGTAAGCTCTT 59.700 57.895 0.00 0.00 0.00 2.85
659 688 2.990479 CCGCCCCAAGTAAGCTCT 59.010 61.111 0.00 0.00 0.00 4.09
660 689 2.824489 GCCGCCCCAAGTAAGCTC 60.824 66.667 0.00 0.00 0.00 4.09
661 690 4.778143 CGCCGCCCCAAGTAAGCT 62.778 66.667 0.00 0.00 0.00 3.74
722 759 1.231641 CCCCAAGTCCCAAACACCA 59.768 57.895 0.00 0.00 0.00 4.17
732 769 2.671682 GGCTCCACTCCCCAAGTC 59.328 66.667 0.00 0.00 35.45 3.01
733 770 3.322466 CGGCTCCACTCCCCAAGT 61.322 66.667 0.00 0.00 39.44 3.16
734 771 4.101448 CCGGCTCCACTCCCCAAG 62.101 72.222 0.00 0.00 0.00 3.61
835 872 4.959210 TGTTTTCTTGGTTGGAGGAATGAA 59.041 37.500 0.00 0.00 0.00 2.57
836 873 4.340950 GTGTTTTCTTGGTTGGAGGAATGA 59.659 41.667 0.00 0.00 0.00 2.57
837 874 4.501400 GGTGTTTTCTTGGTTGGAGGAATG 60.501 45.833 0.00 0.00 0.00 2.67
838 875 3.641436 GGTGTTTTCTTGGTTGGAGGAAT 59.359 43.478 0.00 0.00 0.00 3.01
841 878 1.686587 GGGTGTTTTCTTGGTTGGAGG 59.313 52.381 0.00 0.00 0.00 4.30
877 3225 8.484799 GGTTGTTTCATTTCCGTTTTCTTTATC 58.515 33.333 0.00 0.00 0.00 1.75
894 3242 1.492319 CGCGAGGTTCGGTTGTTTCA 61.492 55.000 0.00 0.00 40.84 2.69
901 3249 4.099170 CGACTCGCGAGGTTCGGT 62.099 66.667 36.93 18.35 44.57 4.69
915 3263 0.672401 TTTGATTGAGGGGTCGCGAC 60.672 55.000 30.67 30.67 0.00 5.19
916 3264 0.035598 TTTTGATTGAGGGGTCGCGA 59.964 50.000 3.71 3.71 0.00 5.87
918 3266 2.159382 TCTTTTTGATTGAGGGGTCGC 58.841 47.619 0.00 0.00 0.00 5.19
919 3267 3.674997 TCTCTTTTTGATTGAGGGGTCG 58.325 45.455 0.00 0.00 0.00 4.79
920 3268 6.405278 TTTTCTCTTTTTGATTGAGGGGTC 57.595 37.500 0.00 0.00 0.00 4.46
922 3270 5.991606 GGTTTTTCTCTTTTTGATTGAGGGG 59.008 40.000 0.00 0.00 0.00 4.79
923 3271 6.820335 AGGTTTTTCTCTTTTTGATTGAGGG 58.180 36.000 0.00 0.00 0.00 4.30
924 3272 9.249457 GTTAGGTTTTTCTCTTTTTGATTGAGG 57.751 33.333 0.00 0.00 0.00 3.86
998 3346 3.054508 GGAATCCATCTCCATCTCCATCC 60.055 52.174 0.00 0.00 32.77 3.51
1014 3362 3.056313 GCTGGCTTGCACGGAATCC 62.056 63.158 0.00 0.00 0.00 3.01
1126 3474 1.079127 CGAGTTGCCGTCCCAGAAT 60.079 57.895 0.00 0.00 0.00 2.40
1330 3852 2.284699 CTCCTCCAACTCCCCCGT 60.285 66.667 0.00 0.00 0.00 5.28
1410 3932 2.044946 AGATTTGACCAGGCGGCC 60.045 61.111 12.11 12.11 34.57 6.13
1494 4016 0.318441 TGGTGAGGAAGTTCTCTGCG 59.682 55.000 2.25 0.00 34.98 5.18
1641 4163 3.000819 AAGGTGGTCGCATCCGGA 61.001 61.111 6.61 6.61 34.56 5.14
1691 4213 2.111043 ACCACGACACCTTGGCAG 59.889 61.111 0.00 0.00 35.28 4.85
1985 4510 3.128349 TCAAGCTTAACACCAAGTCGAC 58.872 45.455 7.70 7.70 0.00 4.20
2142 4667 5.551305 TCTTGATCAGGTTCTTCACAAGA 57.449 39.130 4.57 0.00 39.46 3.02
2144 4669 4.516698 GCTTCTTGATCAGGTTCTTCACAA 59.483 41.667 4.57 0.00 0.00 3.33
2303 4828 3.679389 TGTTTCATGCTCTCCTCCTTTC 58.321 45.455 0.00 0.00 0.00 2.62
2318 4843 3.462483 TGCGTAGGAGTTTCTGTTTCA 57.538 42.857 0.00 0.00 0.00 2.69
2441 4966 2.164219 AGGTTCTGCACACACAAAAGTG 59.836 45.455 0.00 0.00 44.93 3.16
2455 4980 2.686915 GGCTCCATCAAATCAGGTTCTG 59.313 50.000 0.00 0.00 0.00 3.02
2622 5151 3.303395 GCTCCGATCCGATTCAAAATCAC 60.303 47.826 1.07 0.00 0.00 3.06
2671 5200 3.270027 TGCGATCCTGGTAGTGAAAATG 58.730 45.455 0.00 0.00 0.00 2.32
2674 5203 3.410631 TTTGCGATCCTGGTAGTGAAA 57.589 42.857 0.00 0.00 0.00 2.69
2720 5249 9.520515 AATCCAAACTGACTTGTGTAATTCTAT 57.479 29.630 0.00 0.00 0.00 1.98
2727 5256 7.554835 ACTTTACAATCCAAACTGACTTGTGTA 59.445 33.333 0.00 0.00 32.66 2.90
2775 5304 4.989168 AGACACAAGGTTGTTAGAATCGAC 59.011 41.667 0.00 0.00 39.91 4.20
2866 7253 9.330063 CTGTGTGGATGTTGTATATCAGTTAAT 57.670 33.333 0.00 0.00 0.00 1.40
2913 7300 9.817809 TCTGTCTGAAAGGTATTATATGTGAAC 57.182 33.333 0.00 0.00 0.00 3.18
2939 7326 5.789643 AATGTTTGCTCATTTAGTGTGGT 57.210 34.783 0.00 0.00 34.86 4.16
2974 7361 9.683069 CTCTGTTTACAATTTCAGTAAAATGCT 57.317 29.630 0.00 0.00 41.51 3.79
3000 7387 8.652463 GCTCTTTTTCTCTGTGTTAATCTCTAC 58.348 37.037 0.00 0.00 0.00 2.59
3004 7391 7.574592 GCATGCTCTTTTTCTCTGTGTTAATCT 60.575 37.037 11.37 0.00 0.00 2.40
3022 7409 3.908643 TTCTCTCTGAATGCATGCTCT 57.091 42.857 20.33 5.43 0.00 4.09
3046 7433 6.878317 TGACCATTTTCCATTGTAAACACAA 58.122 32.000 0.00 0.00 0.00 3.33
3048 7435 7.778470 TTTGACCATTTTCCATTGTAAACAC 57.222 32.000 0.00 0.00 0.00 3.32
3049 7436 7.383572 CGATTTGACCATTTTCCATTGTAAACA 59.616 33.333 0.00 0.00 0.00 2.83
3050 7437 7.596995 TCGATTTGACCATTTTCCATTGTAAAC 59.403 33.333 0.00 0.00 0.00 2.01
3051 7438 7.596995 GTCGATTTGACCATTTTCCATTGTAAA 59.403 33.333 0.00 0.00 42.04 2.01
3054 7441 5.469479 GTCGATTTGACCATTTTCCATTGT 58.531 37.500 0.00 0.00 42.04 2.71
3077 7469 0.890683 GGGACAATTTGGACCAGCAG 59.109 55.000 13.89 0.00 0.00 4.24
3110 7506 6.890268 GGTTAGGTTTCTTGGTAGGATTTGAT 59.110 38.462 0.00 0.00 0.00 2.57
3111 7507 6.243148 GGTTAGGTTTCTTGGTAGGATTTGA 58.757 40.000 0.00 0.00 0.00 2.69
3128 7524 0.929244 TACTCGGGCTAGGGTTAGGT 59.071 55.000 0.00 0.00 0.00 3.08
3181 7577 2.425668 GAGAGAGCACTAAGGACTCCAC 59.574 54.545 0.00 0.00 0.00 4.02
3260 7670 2.826738 ACCTCTCGCTCTCTCCGC 60.827 66.667 0.00 0.00 0.00 5.54
3289 7699 2.095919 CCTTTAGGAAAACAACCGCTCG 60.096 50.000 0.00 0.00 37.39 5.03
3362 7772 3.564027 CTGATTTCGGACGGCGGC 61.564 66.667 13.24 8.60 0.00 6.53
3363 7773 3.564027 GCTGATTTCGGACGGCGG 61.564 66.667 13.24 0.00 0.00 6.13
3369 7780 4.200838 TCACTAATGTGCTGATTTCGGA 57.799 40.909 0.00 0.00 43.49 4.55
3370 7781 5.490139 AATCACTAATGTGCTGATTTCGG 57.510 39.130 0.00 0.00 43.49 4.30
3372 7783 5.517770 GGCAAATCACTAATGTGCTGATTTC 59.482 40.000 5.20 2.46 46.37 2.17
3385 7796 4.646945 TGTTTTTGACCTGGCAAATCACTA 59.353 37.500 14.16 0.97 37.57 2.74
3397 7808 8.789762 AGTATATTTTTAGCGTGTTTTTGACCT 58.210 29.630 0.00 0.00 0.00 3.85
3398 7809 8.959734 AGTATATTTTTAGCGTGTTTTTGACC 57.040 30.769 0.00 0.00 0.00 4.02
3418 7829 9.073475 ACAGAAGGCAACAAACATTTAAGTATA 57.927 29.630 0.00 0.00 41.41 1.47
3419 7830 7.867403 CACAGAAGGCAACAAACATTTAAGTAT 59.133 33.333 0.00 0.00 41.41 2.12
3420 7831 7.147983 ACACAGAAGGCAACAAACATTTAAGTA 60.148 33.333 0.00 0.00 41.41 2.24
3421 7832 6.042143 CACAGAAGGCAACAAACATTTAAGT 58.958 36.000 0.00 0.00 41.41 2.24
3422 7833 6.042143 ACACAGAAGGCAACAAACATTTAAG 58.958 36.000 0.00 0.00 41.41 1.85
3423 7834 5.971763 ACACAGAAGGCAACAAACATTTAA 58.028 33.333 0.00 0.00 41.41 1.52
3424 7835 5.590530 ACACAGAAGGCAACAAACATTTA 57.409 34.783 0.00 0.00 41.41 1.40
3425 7836 4.470334 ACACAGAAGGCAACAAACATTT 57.530 36.364 0.00 0.00 41.41 2.32
3426 7837 4.644685 ACTACACAGAAGGCAACAAACATT 59.355 37.500 0.00 0.00 41.41 2.71
3427 7838 4.036734 CACTACACAGAAGGCAACAAACAT 59.963 41.667 0.00 0.00 41.41 2.71
3428 7839 3.376859 CACTACACAGAAGGCAACAAACA 59.623 43.478 0.00 0.00 41.41 2.83
3429 7840 3.625764 TCACTACACAGAAGGCAACAAAC 59.374 43.478 0.00 0.00 41.41 2.93
3430 7841 3.879998 TCACTACACAGAAGGCAACAAA 58.120 40.909 0.00 0.00 41.41 2.83
3431 7842 3.552132 TCACTACACAGAAGGCAACAA 57.448 42.857 0.00 0.00 41.41 2.83
3432 7843 3.769739 ATCACTACACAGAAGGCAACA 57.230 42.857 0.00 0.00 41.41 3.33
3433 7844 5.438761 AAAATCACTACACAGAAGGCAAC 57.561 39.130 0.00 0.00 0.00 4.17
3434 7845 5.735922 GCAAAAATCACTACACAGAAGGCAA 60.736 40.000 0.00 0.00 0.00 4.52
3435 7846 4.261572 GCAAAAATCACTACACAGAAGGCA 60.262 41.667 0.00 0.00 0.00 4.75
3436 7847 4.229876 GCAAAAATCACTACACAGAAGGC 58.770 43.478 0.00 0.00 0.00 4.35
3437 7848 4.213270 TCGCAAAAATCACTACACAGAAGG 59.787 41.667 0.00 0.00 0.00 3.46
3438 7849 5.140177 GTCGCAAAAATCACTACACAGAAG 58.860 41.667 0.00 0.00 0.00 2.85
3439 7850 4.572795 TGTCGCAAAAATCACTACACAGAA 59.427 37.500 0.00 0.00 0.00 3.02
3440 7851 4.123506 TGTCGCAAAAATCACTACACAGA 58.876 39.130 0.00 0.00 0.00 3.41
3441 7852 4.466567 TGTCGCAAAAATCACTACACAG 57.533 40.909 0.00 0.00 0.00 3.66
3442 7853 4.884458 TTGTCGCAAAAATCACTACACA 57.116 36.364 0.00 0.00 0.00 3.72
3443 7854 5.171337 CACTTTGTCGCAAAAATCACTACAC 59.829 40.000 6.50 0.00 0.00 2.90
3444 7855 5.163703 ACACTTTGTCGCAAAAATCACTACA 60.164 36.000 6.50 0.00 0.00 2.74
3445 7856 5.270853 ACACTTTGTCGCAAAAATCACTAC 58.729 37.500 6.50 0.00 0.00 2.73
3446 7857 5.493133 ACACTTTGTCGCAAAAATCACTA 57.507 34.783 6.50 0.00 0.00 2.74
3447 7858 4.370364 ACACTTTGTCGCAAAAATCACT 57.630 36.364 6.50 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.