Multiple sequence alignment - TraesCS2A01G368400

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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 TraesCS2A01G368400 chr2A 100.000 2993 0 0 1 2993 611944886 611947878 0.000000e+00 5528.0
1 TraesCS2A01G368400 chr2D 89.517 2194 161 27 836 2993 470215695 470217855 0.000000e+00 2713.0
2 TraesCS2A01G368400 chr2D 86.389 720 42 23 1 696 470214935 470215622 0.000000e+00 736.0
3 TraesCS2A01G368400 chr2D 88.961 154 14 3 2841 2992 470217944 470218096 1.420000e-43 187.0
4 TraesCS2A01G368400 chr2D 92.857 42 3 0 516 557 533671413 533671372 8.960000e-06 62.1
5 TraesCS2A01G368400 chr2B 92.313 1353 89 6 894 2232 549037598 549038949 0.000000e+00 1908.0
6 TraesCS2A01G368400 chr2B 89.877 326 28 5 2452 2775 549039035 549039357 5.970000e-112 414.0
7 TraesCS2A01G368400 chr2B 79.299 314 37 18 48 357 549036797 549037086 8.470000e-46 195.0
8 TraesCS2A01G368400 chr2B 90.345 145 11 3 377 520 549037298 549037440 1.420000e-43 187.0
9 TraesCS2A01G368400 chr2B 87.248 149 9 5 556 696 549037442 549037588 8.590000e-36 161.0
10 TraesCS2A01G368400 chr2B 100.000 29 0 0 528 556 208622481 208622453 1.000000e-03 54.7
11 TraesCS2A01G368400 chr4D 89.655 58 6 0 505 562 6207645 6207702 1.150000e-09 75.0
12 TraesCS2A01G368400 chrUn 93.617 47 3 0 515 561 110338133 110338087 1.490000e-08 71.3
13 TraesCS2A01G368400 chr7B 89.796 49 5 0 515 563 684403222 684403270 2.490000e-06 63.9
14 TraesCS2A01G368400 chr5D 91.304 46 4 0 516 561 535136260 535136215 2.490000e-06 63.9
15 TraesCS2A01G368400 chr3B 91.304 46 4 0 516 561 684636628 684636673 2.490000e-06 63.9
16 TraesCS2A01G368400 chr1B 89.796 49 5 0 513 561 92616627 92616675 2.490000e-06 63.9
17 TraesCS2A01G368400 chr3D 100.000 29 0 0 529 557 526192484 526192512 1.000000e-03 54.7


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 TraesCS2A01G368400 chr2A 611944886 611947878 2992 False 5528 5528 100.0000 1 2993 1 chr2A.!!$F1 2992
1 TraesCS2A01G368400 chr2D 470214935 470218096 3161 False 1212 2713 88.2890 1 2993 3 chr2D.!!$F1 2992
2 TraesCS2A01G368400 chr2B 549036797 549039357 2560 False 573 1908 87.8164 48 2775 5 chr2B.!!$F1 2727

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
532 727 0.401738 ATTACTCCCGCCATCCCATG 59.598 55.0 0.0 0.0 0.0 3.66 F
534 729 0.473694 TACTCCCGCCATCCCATGAT 60.474 55.0 0.0 0.0 0.0 2.45 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1615 1827 0.529555 GACGCAAAAAGCAGGGCAAA 60.530 50.0 0.0 0.0 46.13 3.68 R
2502 2720 0.821301 TCGCTTGGTTGCCATCACAA 60.821 50.0 0.0 0.0 31.53 3.33 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
36 37 6.715264 AGGTTATCCTTAAGTTTCTGGTGTTG 59.285 38.462 0.97 0.00 42.12 3.33
37 38 6.489022 GGTTATCCTTAAGTTTCTGGTGTTGT 59.511 38.462 0.97 0.00 0.00 3.32
38 39 7.013942 GGTTATCCTTAAGTTTCTGGTGTTGTT 59.986 37.037 0.97 0.00 0.00 2.83
129 130 1.134551 GCTGGGGAGAAGAACTAGCAG 60.135 57.143 0.00 0.00 0.00 4.24
197 200 4.995487 GGATTCAGGCCTAAATAGTTACCG 59.005 45.833 3.98 0.00 0.00 4.02
252 255 7.282450 GGGGACTTTGTATGTCTGGTTTTATAG 59.718 40.741 0.00 0.00 35.04 1.31
267 270 9.416794 CTGGTTTTATAGCTCATACATACTCTG 57.583 37.037 0.00 0.00 0.00 3.35
373 531 7.068226 TGCTTAGGTATTTATCTTTTGGCTTCC 59.932 37.037 0.00 0.00 0.00 3.46
403 598 7.998580 TGTACCTTGTTAAACTTTAGGTTTGG 58.001 34.615 2.65 0.00 46.30 3.28
407 602 7.835682 ACCTTGTTAAACTTTAGGTTTGGTAGT 59.164 33.333 2.65 0.00 46.30 2.73
431 626 4.718961 ACTTGTCTTTAATGAGGTGCAGT 58.281 39.130 0.00 0.00 0.00 4.40
432 627 4.757149 ACTTGTCTTTAATGAGGTGCAGTC 59.243 41.667 0.00 0.00 0.00 3.51
521 716 8.534496 TCCAGTTACAAGTTAACTATTACTCCC 58.466 37.037 8.92 0.00 36.14 4.30
522 717 7.490402 CCAGTTACAAGTTAACTATTACTCCCG 59.510 40.741 8.92 0.00 36.14 5.14
523 718 7.009907 CAGTTACAAGTTAACTATTACTCCCGC 59.990 40.741 8.92 0.00 36.14 6.13
526 721 5.104652 ACAAGTTAACTATTACTCCCGCCAT 60.105 40.000 8.92 0.00 0.00 4.40
527 722 5.211174 AGTTAACTATTACTCCCGCCATC 57.789 43.478 6.26 0.00 0.00 3.51
528 723 4.040095 AGTTAACTATTACTCCCGCCATCC 59.960 45.833 6.26 0.00 0.00 3.51
529 724 1.349067 ACTATTACTCCCGCCATCCC 58.651 55.000 0.00 0.00 0.00 3.85
530 725 1.348064 CTATTACTCCCGCCATCCCA 58.652 55.000 0.00 0.00 0.00 4.37
531 726 1.909302 CTATTACTCCCGCCATCCCAT 59.091 52.381 0.00 0.00 0.00 4.00
532 727 0.401738 ATTACTCCCGCCATCCCATG 59.598 55.000 0.00 0.00 0.00 3.66
533 728 0.692756 TTACTCCCGCCATCCCATGA 60.693 55.000 0.00 0.00 0.00 3.07
534 729 0.473694 TACTCCCGCCATCCCATGAT 60.474 55.000 0.00 0.00 0.00 2.45
535 730 0.473694 ACTCCCGCCATCCCATGATA 60.474 55.000 0.00 0.00 0.00 2.15
536 731 0.914644 CTCCCGCCATCCCATGATAT 59.085 55.000 0.00 0.00 0.00 1.63
537 732 2.118679 CTCCCGCCATCCCATGATATA 58.881 52.381 0.00 0.00 0.00 0.86
538 733 2.505407 CTCCCGCCATCCCATGATATAA 59.495 50.000 0.00 0.00 0.00 0.98
539 734 2.505407 TCCCGCCATCCCATGATATAAG 59.495 50.000 0.00 0.00 0.00 1.73
540 735 2.505407 CCCGCCATCCCATGATATAAGA 59.495 50.000 0.00 0.00 0.00 2.10
541 736 3.535561 CCGCCATCCCATGATATAAGAC 58.464 50.000 0.00 0.00 0.00 3.01
542 737 3.190079 CGCCATCCCATGATATAAGACG 58.810 50.000 0.00 0.00 0.00 4.18
543 738 3.368427 CGCCATCCCATGATATAAGACGT 60.368 47.826 0.00 0.00 0.00 4.34
544 739 4.579869 GCCATCCCATGATATAAGACGTT 58.420 43.478 0.00 0.00 0.00 3.99
545 740 5.003804 GCCATCCCATGATATAAGACGTTT 58.996 41.667 0.00 0.00 0.00 3.60
546 741 5.473504 GCCATCCCATGATATAAGACGTTTT 59.526 40.000 0.00 0.00 0.00 2.43
547 742 6.016276 GCCATCCCATGATATAAGACGTTTTT 60.016 38.462 0.00 0.00 0.00 1.94
548 743 7.362662 CCATCCCATGATATAAGACGTTTTTG 58.637 38.462 0.00 0.00 0.00 2.44
549 744 6.371809 TCCCATGATATAAGACGTTTTTGC 57.628 37.500 0.00 0.00 0.00 3.68
550 745 5.883115 TCCCATGATATAAGACGTTTTTGCA 59.117 36.000 0.00 0.00 0.00 4.08
554 749 6.494893 TGATATAAGACGTTTTTGCAAGCT 57.505 33.333 0.00 0.00 0.00 3.74
563 758 4.686554 ACGTTTTTGCAAGCTAAAACAACA 59.313 33.333 29.55 6.10 45.11 3.33
673 876 6.840527 TGAATATTTGATCTGCCTGTGGATA 58.159 36.000 0.00 0.00 0.00 2.59
682 885 3.199727 TCTGCCTGTGGATACTGCAATTA 59.800 43.478 0.00 0.00 35.76 1.40
692 895 4.868171 GGATACTGCAATTAGTCGTTGTGA 59.132 41.667 0.00 0.00 32.19 3.58
693 896 7.556006 TGGATACTGCAATTAGTCGTTGTGAC 61.556 42.308 0.00 0.00 42.96 3.67
694 897 9.821062 TGGATACTGCAATTAGTCGTTGTGACA 62.821 40.741 0.00 0.00 44.40 3.58
707 910 6.055231 TCGTTGTGACATTACCTTTTCTTG 57.945 37.500 0.00 0.00 0.00 3.02
708 911 5.587043 TCGTTGTGACATTACCTTTTCTTGT 59.413 36.000 0.00 0.00 0.00 3.16
709 912 6.762187 TCGTTGTGACATTACCTTTTCTTGTA 59.238 34.615 0.00 0.00 0.00 2.41
710 913 6.849305 CGTTGTGACATTACCTTTTCTTGTAC 59.151 38.462 0.00 0.00 0.00 2.90
711 914 6.533819 TGTGACATTACCTTTTCTTGTACG 57.466 37.500 0.00 0.00 0.00 3.67
712 915 5.049954 TGTGACATTACCTTTTCTTGTACGC 60.050 40.000 0.00 0.00 0.00 4.42
713 916 5.178809 GTGACATTACCTTTTCTTGTACGCT 59.821 40.000 0.00 0.00 0.00 5.07
714 917 5.407387 TGACATTACCTTTTCTTGTACGCTC 59.593 40.000 0.00 0.00 0.00 5.03
715 918 5.548406 ACATTACCTTTTCTTGTACGCTCT 58.452 37.500 0.00 0.00 0.00 4.09
716 919 5.638234 ACATTACCTTTTCTTGTACGCTCTC 59.362 40.000 0.00 0.00 0.00 3.20
717 920 3.041508 ACCTTTTCTTGTACGCTCTCC 57.958 47.619 0.00 0.00 0.00 3.71
718 921 2.633481 ACCTTTTCTTGTACGCTCTCCT 59.367 45.455 0.00 0.00 0.00 3.69
719 922 3.071167 ACCTTTTCTTGTACGCTCTCCTT 59.929 43.478 0.00 0.00 0.00 3.36
720 923 4.065789 CCTTTTCTTGTACGCTCTCCTTT 58.934 43.478 0.00 0.00 0.00 3.11
721 924 4.152580 CCTTTTCTTGTACGCTCTCCTTTC 59.847 45.833 0.00 0.00 0.00 2.62
722 925 4.330944 TTTCTTGTACGCTCTCCTTTCA 57.669 40.909 0.00 0.00 0.00 2.69
723 926 4.537135 TTCTTGTACGCTCTCCTTTCAT 57.463 40.909 0.00 0.00 0.00 2.57
724 927 5.654603 TTCTTGTACGCTCTCCTTTCATA 57.345 39.130 0.00 0.00 0.00 2.15
733 936 4.681781 CGCTCTCCTTTCATAACATGGACT 60.682 45.833 0.00 0.00 0.00 3.85
734 937 4.574013 GCTCTCCTTTCATAACATGGACTG 59.426 45.833 0.00 0.00 0.00 3.51
790 993 2.816087 GTTGAGTGACATGCCAAGACAT 59.184 45.455 0.00 0.00 0.00 3.06
794 997 4.696877 TGAGTGACATGCCAAGACATAAAG 59.303 41.667 0.00 0.00 0.00 1.85
796 999 3.129287 GTGACATGCCAAGACATAAAGGG 59.871 47.826 0.00 0.00 0.00 3.95
802 1005 1.133025 CCAAGACATAAAGGGCAAGCG 59.867 52.381 0.00 0.00 0.00 4.68
803 1006 1.812571 CAAGACATAAAGGGCAAGCGT 59.187 47.619 0.00 0.00 0.00 5.07
804 1007 1.739067 AGACATAAAGGGCAAGCGTC 58.261 50.000 0.00 0.00 0.00 5.19
805 1008 1.279271 AGACATAAAGGGCAAGCGTCT 59.721 47.619 0.00 0.00 0.00 4.18
806 1009 2.500098 AGACATAAAGGGCAAGCGTCTA 59.500 45.455 0.00 0.00 30.79 2.59
807 1010 3.055385 AGACATAAAGGGCAAGCGTCTAA 60.055 43.478 0.00 0.00 30.79 2.10
808 1011 3.270877 ACATAAAGGGCAAGCGTCTAAG 58.729 45.455 0.00 0.00 0.00 2.18
809 1012 1.734163 TAAAGGGCAAGCGTCTAAGC 58.266 50.000 0.00 0.00 37.41 3.09
823 1026 6.790285 GCGTCTAAGCTAACTACTAGATCT 57.210 41.667 0.00 0.00 0.00 2.75
824 1027 7.887996 GCGTCTAAGCTAACTACTAGATCTA 57.112 40.000 1.69 1.69 0.00 1.98
825 1028 8.309163 GCGTCTAAGCTAACTACTAGATCTAA 57.691 38.462 3.57 0.00 0.00 2.10
826 1029 8.437742 GCGTCTAAGCTAACTACTAGATCTAAG 58.562 40.741 3.57 1.94 0.00 2.18
827 1030 9.480053 CGTCTAAGCTAACTACTAGATCTAAGT 57.520 37.037 3.57 2.60 0.00 2.24
832 1035 9.463902 AAGCTAACTACTAGATCTAAGTGTTGA 57.536 33.333 17.17 3.25 0.00 3.18
833 1036 9.116067 AGCTAACTACTAGATCTAAGTGTTGAG 57.884 37.037 17.17 10.36 0.00 3.02
834 1037 8.895737 GCTAACTACTAGATCTAAGTGTTGAGT 58.104 37.037 17.17 9.01 0.00 3.41
845 1048 9.651718 GATCTAAGTGTTGAGTTTGTTTTACTG 57.348 33.333 0.00 0.00 0.00 2.74
909 1112 9.515226 TTAGCCTGTGTTTGAGTTTATCTTAAT 57.485 29.630 0.00 0.00 0.00 1.40
934 1142 1.745320 GATACCTCGCCACGGTCCAT 61.745 60.000 0.00 0.00 35.98 3.41
963 1171 5.362430 TGGAGGCACTAATTTGTTTCACTTT 59.638 36.000 0.00 0.00 41.55 2.66
964 1172 6.547880 TGGAGGCACTAATTTGTTTCACTTTA 59.452 34.615 0.00 0.00 41.55 1.85
965 1173 7.068839 TGGAGGCACTAATTTGTTTCACTTTAA 59.931 33.333 0.00 0.00 41.55 1.52
967 1175 9.476202 GAGGCACTAATTTGTTTCACTTTAATT 57.524 29.630 0.00 0.00 41.55 1.40
968 1176 9.476202 AGGCACTAATTTGTTTCACTTTAATTC 57.524 29.630 0.00 0.00 36.02 2.17
976 1188 6.826893 TGTTTCACTTTAATTCTTTGCAGC 57.173 33.333 0.00 0.00 0.00 5.25
1086 1298 5.594725 TGAGAATAGACTTACGAGATTGCCT 59.405 40.000 0.00 0.00 0.00 4.75
1089 1301 7.653647 AGAATAGACTTACGAGATTGCCTAAG 58.346 38.462 0.00 0.00 0.00 2.18
1116 1328 1.792757 ATTGGAGCCCCTTGCAGTCA 61.793 55.000 0.00 0.00 44.83 3.41
1122 1334 2.357836 CCCTTGCAGTCAGGCCAT 59.642 61.111 5.01 0.00 0.00 4.40
1128 1340 3.367703 CCTTGCAGTCAGGCCATTTTAAG 60.368 47.826 5.01 0.26 0.00 1.85
1143 1355 5.120519 CCATTTTAAGAACATTGCATTGCGT 59.879 36.000 8.48 0.00 0.00 5.24
1185 1397 1.552792 GAGGCCTCTCTACCATATGCC 59.447 57.143 26.25 0.00 37.07 4.40
1189 1401 2.894731 CCTCTCTACCATATGCCTCCA 58.105 52.381 0.00 0.00 0.00 3.86
1301 1513 1.432514 CAGGATGTTGTGGACGTGAG 58.567 55.000 0.00 0.00 0.00 3.51
1322 1534 2.685388 GGAATGAACCTTCTAAGCAGCC 59.315 50.000 0.00 0.00 0.00 4.85
1437 1649 2.180204 CCTTGGCCCTAACATCGCG 61.180 63.158 0.00 0.00 0.00 5.87
1494 1706 1.636148 ACATGGGAGCAATGCTGTTT 58.364 45.000 14.48 0.00 39.88 2.83
1564 1776 2.237143 CTGACAAGGCAGATCCCAACTA 59.763 50.000 0.00 0.00 38.14 2.24
1572 1784 3.432326 GGCAGATCCCAACTACTTACAGG 60.432 52.174 0.00 0.00 0.00 4.00
1574 1786 4.680975 GCAGATCCCAACTACTTACAGGTC 60.681 50.000 0.00 0.00 0.00 3.85
1575 1787 4.712337 CAGATCCCAACTACTTACAGGTCT 59.288 45.833 0.00 0.00 0.00 3.85
1587 1799 4.351111 ACTTACAGGTCTTGGAATCTGGTT 59.649 41.667 0.00 0.00 0.00 3.67
1605 1817 5.710638 CTGGTTGCCAGCATATTAGGCTTT 61.711 45.833 0.00 0.00 45.13 3.51
1615 1827 4.098501 GCATATTAGGCTTTGTTGCTCCTT 59.901 41.667 0.00 0.00 0.00 3.36
1617 1829 6.633856 CATATTAGGCTTTGTTGCTCCTTTT 58.366 36.000 0.00 0.00 0.00 2.27
1629 1841 1.202687 GCTCCTTTTGCCCTGCTTTTT 60.203 47.619 0.00 0.00 0.00 1.94
1662 1874 3.499050 GCTCTGCAGCCACATCTG 58.501 61.111 9.47 0.00 40.14 2.90
1751 1963 0.391661 ACGCTTACATGGCACTGGAG 60.392 55.000 0.00 0.00 0.00 3.86
1785 1997 2.269883 GTGGCCCCCGTCGTTTAT 59.730 61.111 0.00 0.00 0.00 1.40
1794 2006 1.537562 CCCGTCGTTTATGAGGGCTAC 60.538 57.143 5.38 0.00 41.49 3.58
1803 2015 2.443390 GAGGGCTACCGGGTGCTA 60.443 66.667 10.66 0.00 43.47 3.49
1821 2033 1.340399 TACAGCTGATGAGGGGCCTG 61.340 60.000 23.35 0.00 0.00 4.85
1932 2144 3.267597 GATGCGCGTTGCCTGGTTT 62.268 57.895 8.43 0.00 45.60 3.27
1939 2151 2.523902 TTGCCTGGTTTGCTGGGG 60.524 61.111 0.00 0.00 0.00 4.96
1989 2201 0.926155 CGAGCGATGATGTGAACAGG 59.074 55.000 0.00 0.00 0.00 4.00
2001 2213 4.764050 TGTGAACAGGTAGGTTTCTTCA 57.236 40.909 0.00 0.00 0.00 3.02
2002 2214 5.105567 TGTGAACAGGTAGGTTTCTTCAA 57.894 39.130 0.00 0.00 0.00 2.69
2044 2256 1.831106 ACTGCACGATAGAATGGGTGA 59.169 47.619 0.00 0.00 41.38 4.02
2067 2279 3.769739 TGTTAGTTCTGGTGCATCTGT 57.230 42.857 0.00 0.00 0.00 3.41
2073 2285 3.441572 AGTTCTGGTGCATCTGTATTTGC 59.558 43.478 0.00 0.00 39.33 3.68
2078 2290 2.098117 GGTGCATCTGTATTTGCCAGAC 59.902 50.000 0.00 0.00 41.47 3.51
2080 2292 2.009774 GCATCTGTATTTGCCAGACGT 58.990 47.619 0.00 0.00 41.47 4.34
2156 2368 7.148255 TGCAACTGCTTTGGTATACAGATAAAG 60.148 37.037 5.01 10.08 42.66 1.85
2175 2387 8.806146 AGATAAAGTGAAAATTGTACATTGCCT 58.194 29.630 0.00 0.00 0.00 4.75
2187 2399 2.522185 ACATTGCCTTGATGCTGAACT 58.478 42.857 0.00 0.00 0.00 3.01
2188 2400 2.895404 ACATTGCCTTGATGCTGAACTT 59.105 40.909 0.00 0.00 0.00 2.66
2189 2401 3.250744 CATTGCCTTGATGCTGAACTTG 58.749 45.455 0.00 0.00 0.00 3.16
2386 2604 3.230134 TCTTTTGGTGGGTTCAGGATTG 58.770 45.455 0.00 0.00 0.00 2.67
2392 2610 0.698238 TGGGTTCAGGATTGTGGGAG 59.302 55.000 0.00 0.00 0.00 4.30
2406 2624 0.719015 TGGGAGAATCTGGAGGAGGT 59.281 55.000 0.00 0.00 33.73 3.85
2407 2625 1.081174 TGGGAGAATCTGGAGGAGGTT 59.919 52.381 0.00 0.00 33.73 3.50
2408 2626 2.200955 GGGAGAATCTGGAGGAGGTTT 58.799 52.381 0.00 0.00 33.73 3.27
2409 2627 2.092699 GGGAGAATCTGGAGGAGGTTTG 60.093 54.545 0.00 0.00 33.73 2.93
2410 2628 2.840651 GGAGAATCTGGAGGAGGTTTGA 59.159 50.000 0.00 0.00 33.73 2.69
2411 2629 3.457749 GGAGAATCTGGAGGAGGTTTGAT 59.542 47.826 0.00 0.00 33.73 2.57
2412 2630 4.080072 GGAGAATCTGGAGGAGGTTTGATT 60.080 45.833 0.00 0.00 33.73 2.57
2423 2641 5.504853 AGGAGGTTTGATTCTCAAGATTCC 58.495 41.667 0.00 7.17 37.70 3.01
2425 2643 5.165961 AGGTTTGATTCTCAAGATTCCGA 57.834 39.130 0.00 0.00 37.70 4.55
2502 2720 2.031120 CAACTGGTTGGGTGTGTCATT 58.969 47.619 5.64 0.00 36.95 2.57
2578 2815 2.034104 TGATCCAGATCAAGCAGCAC 57.966 50.000 7.88 0.00 44.14 4.40
2617 2854 2.590114 GCACCCGACCTAACCCTGT 61.590 63.158 0.00 0.00 0.00 4.00
2620 2857 0.765519 ACCCGACCTAACCCTGTGTT 60.766 55.000 0.00 0.00 41.11 3.32
2654 2892 2.338500 GGTTCGCCTACTCTGTTGAAG 58.662 52.381 0.00 0.00 0.00 3.02
2666 2904 3.987547 TCTGTTGAAGTTCAGAGAGCAG 58.012 45.455 5.56 10.31 36.04 4.24
2671 2909 2.288702 TGAAGTTCAGAGAGCAGCTGTC 60.289 50.000 16.64 11.73 34.98 3.51
2698 2936 5.452078 TGTCAAAAGGAATCAGCGAAAAT 57.548 34.783 0.00 0.00 0.00 1.82
2703 2941 6.094048 TCAAAAGGAATCAGCGAAAATCTAGG 59.906 38.462 0.00 0.00 0.00 3.02
2781 3020 3.705638 CTGCTGGCGTGTGTCGTG 61.706 66.667 0.00 0.00 42.13 4.35
2788 3027 3.394874 CGTGTGTCGTGCGTCTGG 61.395 66.667 0.00 0.00 34.52 3.86
2800 3039 0.949105 GCGTCTGGGTTCGATTGTGT 60.949 55.000 0.00 0.00 0.00 3.72
2807 3046 1.084289 GGTTCGATTGTGTAGGCACC 58.916 55.000 0.00 0.00 44.65 5.01
2808 3047 0.719465 GTTCGATTGTGTAGGCACCG 59.281 55.000 0.00 0.00 44.65 4.94
2810 3049 1.739929 CGATTGTGTAGGCACCGCA 60.740 57.895 0.00 0.00 44.65 5.69
2811 3050 1.794222 GATTGTGTAGGCACCGCAC 59.206 57.895 9.49 9.49 44.65 5.34
2814 3053 1.440938 TTGTGTAGGCACCGCACAAC 61.441 55.000 20.82 8.42 44.82 3.32
2816 3055 0.320073 GTGTAGGCACCGCACAACTA 60.320 55.000 10.96 0.00 39.61 2.24
2817 3056 0.393448 TGTAGGCACCGCACAACTAA 59.607 50.000 0.00 0.00 0.00 2.24
2819 3058 0.970640 TAGGCACCGCACAACTAAGA 59.029 50.000 0.00 0.00 0.00 2.10
2820 3059 0.324943 AGGCACCGCACAACTAAGAT 59.675 50.000 0.00 0.00 0.00 2.40
2821 3060 1.553248 AGGCACCGCACAACTAAGATA 59.447 47.619 0.00 0.00 0.00 1.98
2822 3061 2.170607 AGGCACCGCACAACTAAGATAT 59.829 45.455 0.00 0.00 0.00 1.63
2823 3062 2.943033 GGCACCGCACAACTAAGATATT 59.057 45.455 0.00 0.00 0.00 1.28
2824 3063 4.124238 GGCACCGCACAACTAAGATATTA 58.876 43.478 0.00 0.00 0.00 0.98
2825 3064 4.211374 GGCACCGCACAACTAAGATATTAG 59.789 45.833 5.56 5.56 0.00 1.73
2832 3071 8.826710 CCGCACAACTAAGATATTAGAAATTCA 58.173 33.333 13.92 0.00 0.00 2.57
2839 3078 8.421784 ACTAAGATATTAGAAATTCACCGCAGA 58.578 33.333 13.92 0.00 0.00 4.26
2851 3094 9.528847 GAAATTCACCGCAGAAAAATAAAATTC 57.471 29.630 0.00 0.00 0.00 2.17
2854 3097 6.976088 TCACCGCAGAAAAATAAAATTCAGA 58.024 32.000 0.00 0.00 0.00 3.27
2861 3104 9.881529 GCAGAAAAATAAAATTCAGAAATGCAA 57.118 25.926 0.00 0.00 0.00 4.08
2932 3422 5.064198 TGTGGAGTTCAAGACACTTTTTACG 59.936 40.000 0.00 0.00 35.02 3.18
2934 3424 5.064198 TGGAGTTCAAGACACTTTTTACGTG 59.936 40.000 0.00 0.00 38.32 4.49
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 7.778382 ACTAAACAACACCAGAAACTTAAGGAT 59.222 33.333 7.53 0.00 0.00 3.24
36 37 1.868498 TGTGCAGCAACGGTACTAAAC 59.132 47.619 0.00 0.00 0.00 2.01
37 38 2.139917 CTGTGCAGCAACGGTACTAAA 58.860 47.619 0.00 0.00 0.00 1.85
38 39 1.341852 TCTGTGCAGCAACGGTACTAA 59.658 47.619 0.00 0.00 0.00 2.24
81 82 3.611766 ATCTGTCGGAAAGGTTACTGG 57.388 47.619 0.00 0.00 0.00 4.00
129 130 7.097834 AGATGCTACTTTACACAGACCTAAAC 58.902 38.462 0.00 0.00 0.00 2.01
197 200 8.915871 TTAAATTGCATAAGATTCAAGACAGC 57.084 30.769 0.00 0.00 0.00 4.40
252 255 8.616076 AGCAAAAATTACAGAGTATGTATGAGC 58.384 33.333 0.00 0.00 43.87 4.26
298 301 6.398234 AGAATTATCTAGCACACGTGAGAT 57.602 37.500 25.01 20.81 32.88 2.75
373 531 7.225341 ACCTAAAGTTTAACAAGGTACAAGACG 59.775 37.037 12.85 0.00 38.78 4.18
403 598 7.386848 TGCACCTCATTAAAGACAAGTTACTAC 59.613 37.037 0.00 0.00 0.00 2.73
407 602 6.296026 ACTGCACCTCATTAAAGACAAGTTA 58.704 36.000 0.00 0.00 0.00 2.24
448 643 6.433093 ACAGGAAACATGGTAAAACATAGGAC 59.567 38.462 0.00 0.00 0.00 3.85
450 645 6.659242 AGACAGGAAACATGGTAAAACATAGG 59.341 38.462 0.00 0.00 0.00 2.57
452 647 6.370442 CGAGACAGGAAACATGGTAAAACATA 59.630 38.462 0.00 0.00 0.00 2.29
519 714 2.505407 TCTTATATCATGGGATGGCGGG 59.495 50.000 0.00 0.00 34.89 6.13
521 716 3.190079 CGTCTTATATCATGGGATGGCG 58.810 50.000 0.00 0.00 34.89 5.69
522 717 4.207891 ACGTCTTATATCATGGGATGGC 57.792 45.455 0.00 0.00 34.89 4.40
523 718 7.362662 CAAAAACGTCTTATATCATGGGATGG 58.637 38.462 0.00 0.00 34.89 3.51
526 721 5.883115 TGCAAAAACGTCTTATATCATGGGA 59.117 36.000 0.00 0.00 0.00 4.37
527 722 6.130298 TGCAAAAACGTCTTATATCATGGG 57.870 37.500 0.00 0.00 0.00 4.00
528 723 6.197096 GCTTGCAAAAACGTCTTATATCATGG 59.803 38.462 0.00 0.00 0.00 3.66
529 724 6.968904 AGCTTGCAAAAACGTCTTATATCATG 59.031 34.615 0.00 0.00 0.00 3.07
530 725 7.088589 AGCTTGCAAAAACGTCTTATATCAT 57.911 32.000 0.00 0.00 0.00 2.45
531 726 6.494893 AGCTTGCAAAAACGTCTTATATCA 57.505 33.333 0.00 0.00 0.00 2.15
532 727 8.889849 TTTAGCTTGCAAAAACGTCTTATATC 57.110 30.769 0.00 0.00 0.00 1.63
533 728 9.124807 GTTTTAGCTTGCAAAAACGTCTTATAT 57.875 29.630 0.00 0.00 36.27 0.86
534 729 8.129840 TGTTTTAGCTTGCAAAAACGTCTTATA 58.870 29.630 15.90 0.00 44.67 0.98
535 730 6.975772 TGTTTTAGCTTGCAAAAACGTCTTAT 59.024 30.769 15.90 0.00 44.67 1.73
536 731 6.323266 TGTTTTAGCTTGCAAAAACGTCTTA 58.677 32.000 15.90 0.62 44.67 2.10
537 732 5.164954 TGTTTTAGCTTGCAAAAACGTCTT 58.835 33.333 15.90 0.00 44.67 3.01
538 733 4.739195 TGTTTTAGCTTGCAAAAACGTCT 58.261 34.783 15.90 3.84 44.67 4.18
539 734 5.164041 TGTTGTTTTAGCTTGCAAAAACGTC 60.164 36.000 15.90 12.49 44.67 4.34
540 735 4.686554 TGTTGTTTTAGCTTGCAAAAACGT 59.313 33.333 15.90 0.00 44.67 3.99
541 736 5.196809 TGTTGTTTTAGCTTGCAAAAACG 57.803 34.783 15.90 0.35 44.67 3.60
542 737 6.826612 TCTTGTTGTTTTAGCTTGCAAAAAC 58.173 32.000 14.68 14.68 42.96 2.43
543 738 7.172361 ACTTCTTGTTGTTTTAGCTTGCAAAAA 59.828 29.630 0.00 0.00 0.00 1.94
544 739 6.648725 ACTTCTTGTTGTTTTAGCTTGCAAAA 59.351 30.769 0.00 0.00 0.00 2.44
545 740 6.090628 CACTTCTTGTTGTTTTAGCTTGCAAA 59.909 34.615 0.00 0.00 0.00 3.68
546 741 5.576384 CACTTCTTGTTGTTTTAGCTTGCAA 59.424 36.000 0.00 0.00 0.00 4.08
547 742 5.101628 CACTTCTTGTTGTTTTAGCTTGCA 58.898 37.500 0.00 0.00 0.00 4.08
548 743 4.026558 GCACTTCTTGTTGTTTTAGCTTGC 60.027 41.667 0.00 0.00 0.00 4.01
549 744 5.230726 CAGCACTTCTTGTTGTTTTAGCTTG 59.769 40.000 0.00 0.00 31.94 4.01
550 745 5.125417 TCAGCACTTCTTGTTGTTTTAGCTT 59.875 36.000 0.00 0.00 37.67 3.74
554 749 5.125417 AGCTTCAGCACTTCTTGTTGTTTTA 59.875 36.000 0.75 0.00 45.16 1.52
563 758 1.419387 ACTCCAGCTTCAGCACTTCTT 59.581 47.619 0.75 0.00 45.16 2.52
619 814 6.403866 TCCATGATTGCAGTTACTGTTTTT 57.596 33.333 14.23 0.00 33.43 1.94
673 876 3.462982 TGTCACAACGACTAATTGCAGT 58.537 40.909 0.00 0.00 45.60 4.40
682 885 5.365619 AGAAAAGGTAATGTCACAACGACT 58.634 37.500 0.00 0.00 45.60 4.18
692 895 5.548406 AGAGCGTACAAGAAAAGGTAATGT 58.452 37.500 0.00 0.00 0.00 2.71
693 896 5.063564 GGAGAGCGTACAAGAAAAGGTAATG 59.936 44.000 0.00 0.00 0.00 1.90
694 897 5.046520 AGGAGAGCGTACAAGAAAAGGTAAT 60.047 40.000 0.00 0.00 0.00 1.89
695 898 4.282703 AGGAGAGCGTACAAGAAAAGGTAA 59.717 41.667 0.00 0.00 0.00 2.85
696 899 3.830755 AGGAGAGCGTACAAGAAAAGGTA 59.169 43.478 0.00 0.00 0.00 3.08
697 900 2.633481 AGGAGAGCGTACAAGAAAAGGT 59.367 45.455 0.00 0.00 0.00 3.50
698 901 3.320673 AGGAGAGCGTACAAGAAAAGG 57.679 47.619 0.00 0.00 0.00 3.11
699 902 4.750098 TGAAAGGAGAGCGTACAAGAAAAG 59.250 41.667 0.00 0.00 0.00 2.27
700 903 4.699637 TGAAAGGAGAGCGTACAAGAAAA 58.300 39.130 0.00 0.00 0.00 2.29
701 904 4.330944 TGAAAGGAGAGCGTACAAGAAA 57.669 40.909 0.00 0.00 0.00 2.52
702 905 4.537135 ATGAAAGGAGAGCGTACAAGAA 57.463 40.909 0.00 0.00 0.00 2.52
703 906 5.047590 TGTTATGAAAGGAGAGCGTACAAGA 60.048 40.000 0.00 0.00 0.00 3.02
704 907 5.168569 TGTTATGAAAGGAGAGCGTACAAG 58.831 41.667 0.00 0.00 0.00 3.16
705 908 5.142061 TGTTATGAAAGGAGAGCGTACAA 57.858 39.130 0.00 0.00 0.00 2.41
706 909 4.794278 TGTTATGAAAGGAGAGCGTACA 57.206 40.909 0.00 0.00 0.00 2.90
707 910 4.508124 CCATGTTATGAAAGGAGAGCGTAC 59.492 45.833 0.00 0.00 0.00 3.67
708 911 4.404394 TCCATGTTATGAAAGGAGAGCGTA 59.596 41.667 0.00 0.00 0.00 4.42
709 912 3.197766 TCCATGTTATGAAAGGAGAGCGT 59.802 43.478 0.00 0.00 0.00 5.07
710 913 3.557595 GTCCATGTTATGAAAGGAGAGCG 59.442 47.826 0.00 0.00 0.00 5.03
711 914 4.574013 CAGTCCATGTTATGAAAGGAGAGC 59.426 45.833 0.00 0.00 0.00 4.09
712 915 5.982356 TCAGTCCATGTTATGAAAGGAGAG 58.018 41.667 0.00 0.00 0.00 3.20
713 916 6.566079 ATCAGTCCATGTTATGAAAGGAGA 57.434 37.500 0.00 0.00 0.00 3.71
714 917 8.915057 ATTATCAGTCCATGTTATGAAAGGAG 57.085 34.615 0.00 0.00 0.00 3.69
715 918 8.717717 AGATTATCAGTCCATGTTATGAAAGGA 58.282 33.333 0.00 0.00 0.00 3.36
716 919 8.915057 AGATTATCAGTCCATGTTATGAAAGG 57.085 34.615 0.00 0.00 0.00 3.11
719 922 9.123902 CCAAAGATTATCAGTCCATGTTATGAA 57.876 33.333 0.00 0.00 0.00 2.57
720 923 8.274322 ACCAAAGATTATCAGTCCATGTTATGA 58.726 33.333 0.00 0.00 0.00 2.15
721 924 8.455903 ACCAAAGATTATCAGTCCATGTTATG 57.544 34.615 0.00 0.00 0.00 1.90
722 925 9.125026 GAACCAAAGATTATCAGTCCATGTTAT 57.875 33.333 0.00 0.00 0.00 1.89
723 926 8.106462 TGAACCAAAGATTATCAGTCCATGTTA 58.894 33.333 0.00 0.00 0.00 2.41
724 927 6.947733 TGAACCAAAGATTATCAGTCCATGTT 59.052 34.615 0.00 0.00 0.00 2.71
760 963 5.069648 TGGCATGTCACTCAACCATTTTTAA 59.930 36.000 0.00 0.00 33.37 1.52
762 965 3.387374 TGGCATGTCACTCAACCATTTTT 59.613 39.130 0.00 0.00 33.37 1.94
763 966 2.964464 TGGCATGTCACTCAACCATTTT 59.036 40.909 0.00 0.00 33.37 1.82
790 993 1.278127 AGCTTAGACGCTTGCCCTTTA 59.722 47.619 0.00 0.00 36.74 1.85
794 997 1.007580 GTTAGCTTAGACGCTTGCCC 58.992 55.000 0.00 0.00 41.30 5.36
796 999 3.771798 AGTAGTTAGCTTAGACGCTTGC 58.228 45.455 0.00 0.00 41.30 4.01
806 1009 9.463902 TCAACACTTAGATCTAGTAGTTAGCTT 57.536 33.333 2.02 0.00 0.00 3.74
807 1010 9.116067 CTCAACACTTAGATCTAGTAGTTAGCT 57.884 37.037 2.02 0.00 0.00 3.32
808 1011 8.895737 ACTCAACACTTAGATCTAGTAGTTAGC 58.104 37.037 2.02 0.00 0.00 3.09
811 1014 9.915629 CAAACTCAACACTTAGATCTAGTAGTT 57.084 33.333 2.02 6.30 0.00 2.24
812 1015 9.080097 ACAAACTCAACACTTAGATCTAGTAGT 57.920 33.333 2.02 1.92 0.00 2.73
813 1016 9.915629 AACAAACTCAACACTTAGATCTAGTAG 57.084 33.333 2.02 1.26 0.00 2.57
815 1018 9.614792 AAAACAAACTCAACACTTAGATCTAGT 57.385 29.630 2.02 1.18 0.00 2.57
818 1021 9.614792 AGTAAAACAAACTCAACACTTAGATCT 57.385 29.630 0.00 0.00 0.00 2.75
819 1022 9.651718 CAGTAAAACAAACTCAACACTTAGATC 57.348 33.333 0.00 0.00 0.00 2.75
820 1023 9.174166 ACAGTAAAACAAACTCAACACTTAGAT 57.826 29.630 0.00 0.00 0.00 1.98
821 1024 8.556213 ACAGTAAAACAAACTCAACACTTAGA 57.444 30.769 0.00 0.00 0.00 2.10
822 1025 9.061610 CAACAGTAAAACAAACTCAACACTTAG 57.938 33.333 0.00 0.00 0.00 2.18
823 1026 8.569641 ACAACAGTAAAACAAACTCAACACTTA 58.430 29.630 0.00 0.00 0.00 2.24
824 1027 7.430441 ACAACAGTAAAACAAACTCAACACTT 58.570 30.769 0.00 0.00 0.00 3.16
825 1028 6.977213 ACAACAGTAAAACAAACTCAACACT 58.023 32.000 0.00 0.00 0.00 3.55
826 1029 6.858993 TGACAACAGTAAAACAAACTCAACAC 59.141 34.615 0.00 0.00 0.00 3.32
827 1030 6.971602 TGACAACAGTAAAACAAACTCAACA 58.028 32.000 0.00 0.00 0.00 3.33
828 1031 7.148869 GGTTGACAACAGTAAAACAAACTCAAC 60.149 37.037 19.58 1.28 31.21 3.18
829 1032 6.864165 GGTTGACAACAGTAAAACAAACTCAA 59.136 34.615 19.58 0.00 0.00 3.02
830 1033 6.207810 AGGTTGACAACAGTAAAACAAACTCA 59.792 34.615 19.58 0.00 31.05 3.41
831 1034 6.526674 CAGGTTGACAACAGTAAAACAAACTC 59.473 38.462 19.58 0.00 33.88 3.01
832 1035 6.207810 TCAGGTTGACAACAGTAAAACAAACT 59.792 34.615 19.58 0.00 36.02 2.66
833 1036 6.307077 GTCAGGTTGACAACAGTAAAACAAAC 59.693 38.462 19.58 0.00 46.22 2.93
834 1037 6.383415 GTCAGGTTGACAACAGTAAAACAAA 58.617 36.000 19.58 0.00 46.22 2.83
862 1065 6.532657 GCTAACAATGAAATGCAATACAGCTT 59.467 34.615 0.00 0.00 34.99 3.74
864 1067 5.232838 GGCTAACAATGAAATGCAATACAGC 59.767 40.000 0.00 0.00 0.00 4.40
867 1070 6.254157 CACAGGCTAACAATGAAATGCAATAC 59.746 38.462 0.00 0.00 0.00 1.89
909 1112 0.384309 CGTGGCGAGGTATCTAGCAA 59.616 55.000 10.44 0.00 42.33 3.91
934 1142 6.491745 TGAAACAAATTAGTGCCTCCAATGTA 59.508 34.615 0.00 0.00 0.00 2.29
963 1171 4.782019 ATTCCAACGCTGCAAAGAATTA 57.218 36.364 0.00 0.00 0.00 1.40
964 1172 3.665745 ATTCCAACGCTGCAAAGAATT 57.334 38.095 0.00 0.00 0.00 2.17
965 1173 3.665745 AATTCCAACGCTGCAAAGAAT 57.334 38.095 0.00 0.00 0.00 2.40
967 1175 2.545532 CCAAATTCCAACGCTGCAAAGA 60.546 45.455 0.00 0.00 0.00 2.52
968 1176 1.794116 CCAAATTCCAACGCTGCAAAG 59.206 47.619 0.00 0.00 0.00 2.77
976 1188 1.545582 ACAGGATGCCAAATTCCAACG 59.454 47.619 0.00 0.00 42.53 4.10
1086 1298 2.505819 GGGGCTCCAATGAAGAGACTTA 59.494 50.000 0.00 0.00 39.52 2.24
1089 1301 0.915364 AGGGGCTCCAATGAAGAGAC 59.085 55.000 4.79 0.00 38.79 3.36
1116 1328 4.888326 TGCAATGTTCTTAAAATGGCCT 57.112 36.364 3.32 0.00 0.00 5.19
1122 1334 5.557893 GCAACGCAATGCAATGTTCTTAAAA 60.558 36.000 5.91 0.00 45.70 1.52
1128 1340 3.933118 GCAACGCAATGCAATGTTC 57.067 47.368 5.91 0.00 45.70 3.18
1143 1355 3.006752 CCCAAGGCAAATTCTTAGTGCAA 59.993 43.478 0.00 0.00 40.12 4.08
1189 1401 1.620739 ATGCTGGCATCGTCCTCTGT 61.621 55.000 1.86 0.00 29.42 3.41
1301 1513 2.685388 GGCTGCTTAGAAGGTTCATTCC 59.315 50.000 0.00 0.00 0.00 3.01
1437 1649 1.353091 CCACTAGGGATAGAAGGCCC 58.647 60.000 0.00 0.00 45.04 5.80
1494 1706 1.812093 CGCGTCGGCCATAAGGAAA 60.812 57.895 2.24 0.00 36.89 3.13
1564 1776 3.910627 ACCAGATTCCAAGACCTGTAAGT 59.089 43.478 0.00 0.00 0.00 2.24
1572 1784 1.909700 TGGCAACCAGATTCCAAGAC 58.090 50.000 0.00 0.00 0.00 3.01
1597 1809 3.492482 GCAAAAGGAGCAACAAAGCCTAA 60.492 43.478 0.00 0.00 34.23 2.69
1605 1817 1.747325 GCAGGGCAAAAGGAGCAACA 61.747 55.000 0.00 0.00 0.00 3.33
1615 1827 0.529555 GACGCAAAAAGCAGGGCAAA 60.530 50.000 0.00 0.00 46.13 3.68
1617 1829 1.795170 GAGACGCAAAAAGCAGGGCA 61.795 55.000 0.00 0.00 46.13 5.36
1629 1841 3.838271 GCTCCCCGATGAGACGCA 61.838 66.667 5.47 0.00 34.11 5.24
1656 1868 2.425143 ACGGAATGAATGGCAGATGT 57.575 45.000 0.00 0.00 0.00 3.06
1662 1874 1.818674 ACCAAGAACGGAATGAATGGC 59.181 47.619 0.00 0.00 0.00 4.40
1751 1963 2.511600 CCAACCAGACCGGCGATC 60.512 66.667 9.30 0.00 39.03 3.69
1758 1970 4.678743 GGGGCCACCAACCAGACC 62.679 72.222 4.39 0.00 39.85 3.85
1785 1997 3.305619 TAGCACCCGGTAGCCCTCA 62.306 63.158 11.32 0.00 0.00 3.86
1794 2006 1.522355 CATCAGCTGTAGCACCCGG 60.522 63.158 14.67 0.00 45.16 5.73
1803 2015 2.285969 AGGCCCCTCATCAGCTGT 60.286 61.111 14.67 0.00 0.00 4.40
1848 2060 2.273449 CTCTGCACCATCCACCCC 59.727 66.667 0.00 0.00 0.00 4.95
1932 2144 4.329545 GCGGAACTGACCCCAGCA 62.330 66.667 0.00 0.00 44.16 4.41
1939 2151 2.202623 ATCGCTCGCGGAACTGAC 60.203 61.111 6.13 0.00 40.25 3.51
1989 2201 3.058639 CACAGCAGCTTGAAGAAACCTAC 60.059 47.826 0.00 0.00 0.00 3.18
2044 2256 4.005650 CAGATGCACCAGAACTAACATGT 58.994 43.478 0.00 0.00 0.00 3.21
2067 2279 2.416296 CGTCCACTACGTCTGGCAAATA 60.416 50.000 7.23 0.00 46.72 1.40
2100 2312 7.060421 TCAAAGTTTCTATCAGTCAAAACCCT 58.940 34.615 0.00 0.00 33.18 4.34
2101 2313 7.272037 TCAAAGTTTCTATCAGTCAAAACCC 57.728 36.000 0.00 0.00 33.18 4.11
2102 2314 9.399403 GATTCAAAGTTTCTATCAGTCAAAACC 57.601 33.333 0.00 0.00 33.18 3.27
2156 2368 6.401367 GCATCAAGGCAATGTACAATTTTCAC 60.401 38.462 0.00 0.00 0.00 3.18
2175 2387 4.696877 CACTCATACCAAGTTCAGCATCAA 59.303 41.667 0.00 0.00 0.00 2.57
2187 2399 9.787435 AAAGTATTTCTTACACACTCATACCAA 57.213 29.630 0.00 0.00 27.08 3.67
2386 2604 1.127343 CCTCCTCCAGATTCTCCCAC 58.873 60.000 0.00 0.00 0.00 4.61
2392 2610 5.109500 AGAATCAAACCTCCTCCAGATTC 57.891 43.478 0.00 0.00 40.80 2.52
2406 2624 5.798636 TTCCGTCGGAATCTTGAGAATCAAA 60.799 40.000 22.76 0.00 45.34 2.69
2407 2625 4.322424 TTCCGTCGGAATCTTGAGAATCAA 60.322 41.667 22.76 0.00 44.51 2.57
2408 2626 3.194755 TTCCGTCGGAATCTTGAGAATCA 59.805 43.478 22.76 0.00 39.33 2.57
2409 2627 3.438297 TCCGTCGGAATCTTGAGAATC 57.562 47.619 12.68 0.00 0.00 2.52
2410 2628 3.887621 TTCCGTCGGAATCTTGAGAAT 57.112 42.857 22.76 0.00 36.71 2.40
2425 2643 0.879090 GTTCTTTTGGCCGATTCCGT 59.121 50.000 0.00 0.00 0.00 4.69
2451 2669 5.984233 TTAATATCCTGCACACGAATGTC 57.016 39.130 0.00 0.00 36.72 3.06
2502 2720 0.821301 TCGCTTGGTTGCCATCACAA 60.821 50.000 0.00 0.00 31.53 3.33
2596 2833 1.131928 AGGGTTAGGTCGGGTGCTTT 61.132 55.000 0.00 0.00 0.00 3.51
2599 2836 2.267961 CAGGGTTAGGTCGGGTGC 59.732 66.667 0.00 0.00 0.00 5.01
2617 2854 0.315886 ACCGTACGCATCTCACAACA 59.684 50.000 10.49 0.00 0.00 3.33
2620 2857 0.455464 CGAACCGTACGCATCTCACA 60.455 55.000 10.49 0.00 0.00 3.58
2654 2892 0.319728 TGGACAGCTGCTCTCTGAAC 59.680 55.000 15.27 0.00 35.61 3.18
2666 2904 4.320608 TTCCTTTTGACATTTGGACAGC 57.679 40.909 0.00 0.00 0.00 4.40
2671 2909 3.922240 CGCTGATTCCTTTTGACATTTGG 59.078 43.478 0.00 0.00 0.00 3.28
2740 2979 4.492570 CGTTGAATCAACTCATTAGGTCGC 60.493 45.833 21.89 0.00 41.62 5.19
2775 3014 2.028484 GAACCCAGACGCACGACA 59.972 61.111 0.00 0.00 0.00 4.35
2780 3019 0.948623 CACAATCGAACCCAGACGCA 60.949 55.000 0.00 0.00 0.00 5.24
2781 3020 0.949105 ACACAATCGAACCCAGACGC 60.949 55.000 0.00 0.00 0.00 5.19
2800 3039 0.970640 TCTTAGTTGTGCGGTGCCTA 59.029 50.000 0.00 0.00 0.00 3.93
2807 3046 9.638300 GTGAATTTCTAATATCTTAGTTGTGCG 57.362 33.333 0.00 0.00 36.51 5.34
2808 3047 9.937175 GGTGAATTTCTAATATCTTAGTTGTGC 57.063 33.333 0.00 0.00 36.51 4.57
2810 3049 8.827677 GCGGTGAATTTCTAATATCTTAGTTGT 58.172 33.333 0.00 0.00 36.51 3.32
2811 3050 8.826710 TGCGGTGAATTTCTAATATCTTAGTTG 58.173 33.333 0.00 0.00 36.51 3.16
2814 3053 8.818141 TCTGCGGTGAATTTCTAATATCTTAG 57.182 34.615 0.00 0.00 36.46 2.18
2816 3055 8.506168 TTTCTGCGGTGAATTTCTAATATCTT 57.494 30.769 0.00 0.00 0.00 2.40
2817 3056 8.506168 TTTTCTGCGGTGAATTTCTAATATCT 57.494 30.769 0.00 0.00 0.00 1.98
2821 3060 9.921637 TTTATTTTTCTGCGGTGAATTTCTAAT 57.078 25.926 0.00 0.00 0.00 1.73
2822 3061 9.751542 TTTTATTTTTCTGCGGTGAATTTCTAA 57.248 25.926 0.00 0.00 0.00 2.10
2823 3062 9.921637 ATTTTATTTTTCTGCGGTGAATTTCTA 57.078 25.926 0.00 0.00 0.00 2.10
2824 3063 8.831715 ATTTTATTTTTCTGCGGTGAATTTCT 57.168 26.923 0.00 0.00 0.00 2.52
2825 3064 9.528847 GAATTTTATTTTTCTGCGGTGAATTTC 57.471 29.630 0.00 0.00 0.00 2.17
2832 3071 8.711457 CATTTCTGAATTTTATTTTTCTGCGGT 58.289 29.630 0.00 0.00 0.00 5.68
2879 3122 7.282450 GGTCCGGATCTACATTTCAAAAATAGT 59.718 37.037 7.81 0.00 0.00 2.12
2932 3422 8.746623 GCAATGGCAGATTGTCTGTTAGACAC 62.747 46.154 10.92 1.94 46.58 3.67
2934 3424 4.437930 GCAATGGCAGATTGTCTGTTAGAC 60.438 45.833 8.58 2.11 45.94 2.59
2945 3435 7.685740 GCTCTAGCATTTGCAATGGCAGATT 62.686 44.000 20.66 6.59 41.66 2.40


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

AutoCloner maintained by Alex Coulton.