Multiple sequence alignment - TraesCS3B01G218600

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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 TraesCS3B01G218600 chr3B 100.000 6333 0 0 3230 9562 261885390 261879058 0.000000e+00 11695.0
1 TraesCS3B01G218600 chr3B 100.000 2875 0 0 1 2875 261888619 261885745 0.000000e+00 5310.0
2 TraesCS3B01G218600 chr3A 96.264 5675 121 41 3249 8875 232274704 232269073 0.000000e+00 9221.0
3 TraesCS3B01G218600 chr3A 97.077 2053 42 7 831 2869 232277144 232275096 0.000000e+00 3443.0
4 TraesCS3B01G218600 chr3A 87.375 499 47 10 301 790 232280366 232279875 8.390000e-155 558.0
5 TraesCS3B01G218600 chr3A 88.112 143 15 2 9285 9427 232268316 232268176 1.650000e-37 169.0
6 TraesCS3B01G218600 chr3A 88.393 112 6 2 3550 3654 232274296 232274185 2.800000e-25 128.0
7 TraesCS3B01G218600 chr3D 96.745 3195 72 15 3317 6490 182653664 182650481 0.000000e+00 5295.0
8 TraesCS3B01G218600 chr3D 93.097 2709 108 27 200 2875 182656760 182654098 0.000000e+00 3893.0
9 TraesCS3B01G218600 chr3D 94.200 2414 58 31 6488 8875 182648083 182645726 0.000000e+00 3607.0
10 TraesCS3B01G218600 chr3D 91.955 1243 89 4 5315 6546 174109439 174108197 0.000000e+00 1731.0
11 TraesCS3B01G218600 chr3D 89.247 279 22 5 9287 9562 182644984 182644711 9.200000e-90 342.0
12 TraesCS3B01G218600 chr3D 86.594 276 36 1 8872 9146 182645261 182644986 4.340000e-78 303.0
13 TraesCS3B01G218600 chr3D 88.393 112 6 2 3550 3654 182653324 182653213 2.800000e-25 128.0
14 TraesCS3B01G218600 chr3D 85.227 88 13 0 8881 8968 7081769 7081856 3.680000e-14 91.6
15 TraesCS3B01G218600 chr5A 92.013 1252 91 5 5303 6546 359107102 359108352 0.000000e+00 1749.0
16 TraesCS3B01G218600 chr6D 92.514 1229 75 7 5331 6546 296696786 296695562 0.000000e+00 1744.0
17 TraesCS3B01G218600 chrUn 91.794 1243 92 6 5313 6546 1035682 1036923 0.000000e+00 1722.0
18 TraesCS3B01G218600 chrUn 100.000 393 0 0 4291 4683 479551739 479551347 0.000000e+00 726.0
19 TraesCS3B01G218600 chrUn 85.329 593 79 6 1 588 20500616 20500027 2.950000e-169 606.0
20 TraesCS3B01G218600 chrUn 83.803 142 15 3 9147 9284 450859245 450859382 2.800000e-25 128.0
21 TraesCS3B01G218600 chr6B 92.007 1226 92 3 5327 6546 554797524 554796299 0.000000e+00 1716.0
22 TraesCS3B01G218600 chr6B 88.667 150 7 5 9147 9295 672156841 672156981 3.550000e-39 174.0
23 TraesCS3B01G218600 chr1B 91.527 1251 93 9 5308 6546 204407422 204408671 0.000000e+00 1711.0
24 TraesCS3B01G218600 chr1B 91.315 1255 97 8 5303 6546 491329525 491330778 0.000000e+00 1703.0
25 TraesCS3B01G218600 chr1B 79.503 161 29 4 8881 9039 15184347 15184505 2.820000e-20 111.0
26 TraesCS3B01G218600 chr7D 82.412 796 121 16 1 784 515827657 515828445 0.000000e+00 676.0
27 TraesCS3B01G218600 chr7D 82.003 789 118 20 1 775 63934743 63933965 0.000000e+00 649.0
28 TraesCS3B01G218600 chr7D 90.278 144 7 4 9147 9287 613708199 613708060 2.120000e-41 182.0
29 TraesCS3B01G218600 chr7D 100.000 33 0 0 8920 8952 423689055 423689087 2.880000e-05 62.1
30 TraesCS3B01G218600 chr1D 82.252 817 107 21 1 786 365282281 365283090 0.000000e+00 671.0
31 TraesCS3B01G218600 chr1D 85.417 144 13 5 9147 9289 23438250 23438114 1.000000e-29 143.0
32 TraesCS3B01G218600 chr1D 78.107 169 30 6 8880 9043 10338329 10338495 6.110000e-17 100.0
33 TraesCS3B01G218600 chr2D 82.338 770 112 21 1 761 145394280 145395034 0.000000e+00 647.0
34 TraesCS3B01G218600 chr7A 81.853 788 112 26 1 772 67576330 67575558 1.350000e-177 634.0
35 TraesCS3B01G218600 chr7A 85.897 78 9 2 8872 8948 383423185 383423109 2.210000e-11 82.4
36 TraesCS3B01G218600 chr1A 83.171 719 93 15 1 703 520919930 520919224 4.870000e-177 632.0
37 TraesCS3B01G218600 chr2B 82.802 721 95 23 1 703 482716138 482716847 1.360000e-172 617.0
38 TraesCS3B01G218600 chr2B 87.500 144 11 2 9146 9289 655006959 655006823 9.940000e-35 159.0
39 TraesCS3B01G218600 chr2B 84.397 141 14 6 9147 9287 90636360 90636492 2.170000e-26 132.0
40 TraesCS3B01G218600 chr7B 82.517 715 107 15 1 703 215368469 215367761 6.350000e-171 612.0
41 TraesCS3B01G218600 chr7B 87.838 148 8 4 9145 9287 714509682 714509824 2.140000e-36 165.0
42 TraesCS3B01G218600 chr7B 86.525 141 13 3 9147 9287 594417443 594417309 5.980000e-32 150.0
43 TraesCS3B01G218600 chr7B 87.023 131 11 4 9157 9287 504813350 504813474 1.000000e-29 143.0
44 TraesCS3B01G218600 chr7B 78.049 164 31 3 8880 9039 134626767 134626929 2.200000e-16 99.0
45 TraesCS3B01G218600 chr4A 94.872 39 2 0 8874 8912 9915289 9915251 2.880000e-05 62.1
46 TraesCS3B01G218600 chr4A 92.500 40 3 0 8872 8911 473288933 473288894 3.730000e-04 58.4
47 TraesCS3B01G218600 chr4D 100.000 32 0 0 8872 8903 49734548 49734579 1.040000e-04 60.2


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 TraesCS3B01G218600 chr3B 261879058 261888619 9561 True 8502.500000 11695 100.000000 1 9562 2 chr3B.!!$R1 9561
1 TraesCS3B01G218600 chr3A 232268176 232280366 12190 True 2703.800000 9221 91.444200 301 9427 5 chr3A.!!$R1 9126
2 TraesCS3B01G218600 chr3D 182644711 182656760 12049 True 2261.333333 5295 91.379333 200 9562 6 chr3D.!!$R2 9362
3 TraesCS3B01G218600 chr3D 174108197 174109439 1242 True 1731.000000 1731 91.955000 5315 6546 1 chr3D.!!$R1 1231
4 TraesCS3B01G218600 chr5A 359107102 359108352 1250 False 1749.000000 1749 92.013000 5303 6546 1 chr5A.!!$F1 1243
5 TraesCS3B01G218600 chr6D 296695562 296696786 1224 True 1744.000000 1744 92.514000 5331 6546 1 chr6D.!!$R1 1215
6 TraesCS3B01G218600 chrUn 1035682 1036923 1241 False 1722.000000 1722 91.794000 5313 6546 1 chrUn.!!$F1 1233
7 TraesCS3B01G218600 chrUn 20500027 20500616 589 True 606.000000 606 85.329000 1 588 1 chrUn.!!$R1 587
8 TraesCS3B01G218600 chr6B 554796299 554797524 1225 True 1716.000000 1716 92.007000 5327 6546 1 chr6B.!!$R1 1219
9 TraesCS3B01G218600 chr1B 204407422 204408671 1249 False 1711.000000 1711 91.527000 5308 6546 1 chr1B.!!$F2 1238
10 TraesCS3B01G218600 chr1B 491329525 491330778 1253 False 1703.000000 1703 91.315000 5303 6546 1 chr1B.!!$F3 1243
11 TraesCS3B01G218600 chr7D 515827657 515828445 788 False 676.000000 676 82.412000 1 784 1 chr7D.!!$F2 783
12 TraesCS3B01G218600 chr7D 63933965 63934743 778 True 649.000000 649 82.003000 1 775 1 chr7D.!!$R1 774
13 TraesCS3B01G218600 chr1D 365282281 365283090 809 False 671.000000 671 82.252000 1 786 1 chr1D.!!$F2 785
14 TraesCS3B01G218600 chr2D 145394280 145395034 754 False 647.000000 647 82.338000 1 761 1 chr2D.!!$F1 760
15 TraesCS3B01G218600 chr7A 67575558 67576330 772 True 634.000000 634 81.853000 1 772 1 chr7A.!!$R1 771
16 TraesCS3B01G218600 chr1A 520919224 520919930 706 True 632.000000 632 83.171000 1 703 1 chr1A.!!$R1 702
17 TraesCS3B01G218600 chr2B 482716138 482716847 709 False 617.000000 617 82.802000 1 703 1 chr2B.!!$F2 702
18 TraesCS3B01G218600 chr7B 215367761 215368469 708 True 612.000000 612 82.517000 1 703 1 chr7B.!!$R1 702

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
639 701 0.591659 GCCGGACTGGTGTTCTTTTC 59.408 55.000 5.05 0.00 41.21 2.29 F
1393 4149 0.179936 GATTGCTGTAGAGCCAGGCT 59.820 55.000 16.12 16.12 45.57 4.58 F
1410 4166 1.017387 GCTCCCTTAGTTTCATGGCG 58.983 55.000 0.00 0.00 0.00 5.69 F
2855 5629 0.666274 CGAGGCGAAGTAGCACAACA 60.666 55.000 0.00 0.00 39.27 3.33 F
4043 6833 1.296392 CCGGTGGAGACATCTGCAA 59.704 57.895 4.51 0.00 45.78 4.08 F
5528 8348 1.414158 CCATGTCAGTCTACCCCGAT 58.586 55.000 0.00 0.00 0.00 4.18 F
6016 8843 0.031616 CCAGGCTAACCTCCTCCTCT 60.032 60.000 0.00 0.00 46.34 3.69 F
6740 11971 0.614812 TTTCGGCCCCTGGTACTTAC 59.385 55.000 0.00 0.00 0.00 2.34 F
7140 12373 1.144298 ACTAACCTGGGGTGTGTTTCC 59.856 52.381 0.00 0.00 35.34 3.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2276 5040 1.269778 GGTGCTTTGTTTTCCTCAGCC 60.270 52.381 0.00 0.00 0.00 4.85 R
2753 5527 0.325296 CCTACAGCCTCCAGGGTACA 60.325 60.000 0.00 0.00 45.47 2.90 R
3230 6004 0.695803 ACACCATCCTCATCTCCCCC 60.696 60.000 0.00 0.00 0.00 5.40 R
4196 6986 3.309954 GGAGATAAGGACAACGACAATGC 59.690 47.826 0.00 0.00 0.00 3.56 R
5805 8626 2.105766 AGTTCTATAGGACGGCGGTTT 58.894 47.619 13.24 0.00 0.00 3.27 R
6449 9276 0.405973 AGGGAGCAAAAGAAGGACCC 59.594 55.000 0.00 0.00 36.47 4.46 R
7645 12880 4.503714 ACATGAATGGAATTAGTCGGGT 57.496 40.909 0.00 0.00 36.07 5.28 R
8544 13801 0.109226 GTTTAGAGCTCGTCGTGGCT 60.109 55.000 8.37 13.31 41.88 4.75 R
8943 14691 1.019278 AGCGATGCGTGTTTAGTGGG 61.019 55.000 0.00 0.00 0.00 4.61 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
146 152 6.152638 AGATTTTTATGGGGGAAGAAGTGA 57.847 37.500 0.00 0.00 0.00 3.41
161 167 1.221213 AGTGAGAGGAGGAGAGGGCT 61.221 60.000 0.00 0.00 0.00 5.19
165 171 1.216930 GAGAGGAGGAGAGGGCTAAGT 59.783 57.143 0.00 0.00 0.00 2.24
253 262 2.507324 GAAGCGCTCGGACCTCAC 60.507 66.667 12.06 0.00 0.00 3.51
303 313 2.967599 TTGATGGATGAGACGGACAG 57.032 50.000 0.00 0.00 0.00 3.51
389 400 1.134521 AGTTGAAGATCGCCGCCAATA 60.135 47.619 0.00 0.00 0.00 1.90
409 420 2.253610 ACGGAGGACACCAAGATGTTA 58.746 47.619 0.00 0.00 31.24 2.41
424 435 6.094603 CCAAGATGTTAACCTTGAATCTGGAG 59.905 42.308 20.02 8.63 41.56 3.86
478 489 1.619827 TCCGTCCGTTACCAGATGTTT 59.380 47.619 0.00 0.00 0.00 2.83
479 490 1.730064 CCGTCCGTTACCAGATGTTTG 59.270 52.381 0.00 0.00 0.00 2.93
480 491 1.127951 CGTCCGTTACCAGATGTTTGC 59.872 52.381 0.00 0.00 0.00 3.68
481 492 2.147958 GTCCGTTACCAGATGTTTGCA 58.852 47.619 0.00 0.00 0.00 4.08
482 493 2.159627 GTCCGTTACCAGATGTTTGCAG 59.840 50.000 0.00 0.00 0.00 4.41
483 494 1.135689 CCGTTACCAGATGTTTGCAGC 60.136 52.381 0.00 0.00 0.00 5.25
485 496 1.135689 GTTACCAGATGTTTGCAGCGG 60.136 52.381 0.00 0.00 35.92 5.52
486 497 1.305219 TACCAGATGTTTGCAGCGGC 61.305 55.000 0.31 0.31 35.92 6.53
528 539 1.078848 GGACAATGAGGACGCAGCT 60.079 57.895 0.00 0.00 0.00 4.24
557 602 0.824759 GTGGAGGTTGTCTAGGCGAT 59.175 55.000 0.00 0.00 0.00 4.58
617 679 3.118665 GGTATGGCAGAAAATTGCATGGT 60.119 43.478 0.00 0.00 45.86 3.55
618 680 3.706600 ATGGCAGAAAATTGCATGGTT 57.293 38.095 0.00 0.00 45.86 3.67
634 696 1.652563 GTTTGCCGGACTGGTGTTC 59.347 57.895 5.05 0.00 41.21 3.18
639 701 0.591659 GCCGGACTGGTGTTCTTTTC 59.408 55.000 5.05 0.00 41.21 2.29
739 803 2.237751 GCGCGCCGTGTAGATCAAT 61.238 57.895 23.24 0.00 0.00 2.57
751 815 8.062448 GCCGTGTAGATCAATACTAAATTTGAC 58.938 37.037 0.00 0.00 34.87 3.18
775 839 5.697473 TTTGAATTGTCATTTACTGGCGA 57.303 34.783 0.00 0.00 32.48 5.54
787 851 7.223971 GTCATTTACTGGCGAACATATACAGAA 59.776 37.037 0.00 0.00 33.57 3.02
798 874 3.326588 ACATATACAGAAATGGCCGCCTA 59.673 43.478 11.61 0.00 0.00 3.93
802 878 2.124860 GAAATGGCCGCCTACCGT 60.125 61.111 11.61 0.00 34.38 4.83
824 900 5.172053 CGTATTTACGTTTATGGACTCGTCC 59.828 44.000 9.15 9.15 45.59 4.79
825 901 7.699742 CGTATTTACGTTTATGGACTCGTCCC 61.700 46.154 13.22 0.00 45.22 4.46
857 3613 4.502431 GGAAATTTGTGGGTAGTTGTTGGG 60.502 45.833 0.00 0.00 0.00 4.12
862 3618 1.422402 GTGGGTAGTTGTTGGGGAGAA 59.578 52.381 0.00 0.00 0.00 2.87
870 3626 3.954258 AGTTGTTGGGGAGAAAAGTGAAG 59.046 43.478 0.00 0.00 0.00 3.02
876 3632 6.156083 TGTTGGGGAGAAAAGTGAAGAAAAAT 59.844 34.615 0.00 0.00 0.00 1.82
877 3633 7.343316 TGTTGGGGAGAAAAGTGAAGAAAAATA 59.657 33.333 0.00 0.00 0.00 1.40
880 3636 7.782644 TGGGGAGAAAAGTGAAGAAAAATAAGA 59.217 33.333 0.00 0.00 0.00 2.10
881 3637 8.638873 GGGGAGAAAAGTGAAGAAAAATAAGAA 58.361 33.333 0.00 0.00 0.00 2.52
1320 4076 0.903236 AGGTACCGCCTCTTTCTTCC 59.097 55.000 6.18 0.00 46.96 3.46
1330 4086 3.571828 GCCTCTTTCTTCCTCTTTGCTTT 59.428 43.478 0.00 0.00 0.00 3.51
1337 4093 8.695456 TCTTTCTTCCTCTTTGCTTTAAAACAT 58.305 29.630 0.00 0.00 0.00 2.71
1354 4110 1.541588 ACATGCTCTTTTTCTTCCGCC 59.458 47.619 0.00 0.00 0.00 6.13
1391 4147 1.537776 CGAGATTGCTGTAGAGCCAGG 60.538 57.143 9.72 0.00 45.57 4.45
1393 4149 0.179936 GATTGCTGTAGAGCCAGGCT 59.820 55.000 16.12 16.12 45.57 4.58
1410 4166 1.017387 GCTCCCTTAGTTTCATGGCG 58.983 55.000 0.00 0.00 0.00 5.69
1858 4622 5.279306 GGGAGTGATGAATACGGTAGCAATA 60.279 44.000 0.00 0.00 0.00 1.90
2016 4780 8.677148 AAGATGAAGCAGAGTTAACAAAACTA 57.323 30.769 8.61 0.00 0.00 2.24
2276 5040 3.957468 AGAAGAAGCTGAAAAACAAGCG 58.043 40.909 0.00 0.00 0.00 4.68
2456 5223 6.227298 TGAAGAACTAGAACTCATCATCCC 57.773 41.667 0.00 0.00 0.00 3.85
2753 5527 3.726557 TCTCAAGAAACAGATGCCCAT 57.273 42.857 0.00 0.00 0.00 4.00
2855 5629 0.666274 CGAGGCGAAGTAGCACAACA 60.666 55.000 0.00 0.00 39.27 3.33
2861 5635 1.390123 CGAAGTAGCACAACATGACCG 59.610 52.381 0.00 0.00 0.00 4.79
3247 6021 4.758982 GGGGGAGATGAGGATGGT 57.241 61.111 0.00 0.00 0.00 3.55
3291 6077 5.398603 TCTCTTCTCTGAATTGGTGACTC 57.601 43.478 0.00 0.00 0.00 3.36
3582 6370 9.212641 CCCATATGACTAACATAGAAATGTCAG 57.787 37.037 3.65 0.00 45.79 3.51
3706 6495 5.923204 ACAACCATTGGCAAATTAGTGAAA 58.077 33.333 3.01 0.00 34.12 2.69
4043 6833 1.296392 CCGGTGGAGACATCTGCAA 59.704 57.895 4.51 0.00 45.78 4.08
4063 6853 2.226962 TACCTACCGAAGAGCAGGTT 57.773 50.000 0.00 0.00 41.60 3.50
4196 6986 2.223340 ACTGCACTTGCTTGTCTTTTCG 60.223 45.455 2.33 0.00 42.66 3.46
4795 7587 6.698380 ACTGTATGTGGTTATCGATTATCCC 58.302 40.000 1.71 0.00 0.00 3.85
4805 7597 8.817876 TGGTTATCGATTATCCCATTGTATGTA 58.182 33.333 1.71 0.00 0.00 2.29
4806 7598 9.661563 GGTTATCGATTATCCCATTGTATGTAA 57.338 33.333 1.71 0.00 0.00 2.41
4952 7744 4.044065 ACCCCTGTTGATTTATCAGGTCAA 59.956 41.667 9.15 0.00 44.92 3.18
5189 7985 5.637006 TCACCCACTTGTATATTTTGCAC 57.363 39.130 0.00 0.00 0.00 4.57
5475 8282 1.481363 GGCTAGTTCTCTGGTGGTACC 59.519 57.143 4.43 4.43 39.22 3.34
5483 8297 1.537889 CTGGTGGTACCCCAGTCCA 60.538 63.158 28.40 18.94 42.94 4.02
5528 8348 1.414158 CCATGTCAGTCTACCCCGAT 58.586 55.000 0.00 0.00 0.00 4.18
5549 8369 5.981915 CGATCTCTCTTGACATTATCAGCAA 59.018 40.000 0.00 0.00 38.99 3.91
5646 8467 2.029828 GGACAAGCTTCTCTTCAGTCGA 60.030 50.000 0.00 0.00 31.84 4.20
5805 8626 1.458398 CCATACAACATTGCGGGTCA 58.542 50.000 0.00 0.00 0.00 4.02
6016 8843 0.031616 CCAGGCTAACCTCCTCCTCT 60.032 60.000 0.00 0.00 46.34 3.69
6140 8967 0.969894 GACCCCCATCCGACTATCAG 59.030 60.000 0.00 0.00 0.00 2.90
6449 9276 4.094739 TCAAGTCAATGAACACCATATGCG 59.905 41.667 0.00 0.00 34.45 4.73
6571 11798 2.287308 CGGCGAATTTGTTGAAGTTCCA 60.287 45.455 0.00 0.00 0.00 3.53
6730 11961 1.111277 ATAGTTTGCATTTCGGCCCC 58.889 50.000 0.00 0.00 0.00 5.80
6740 11971 0.614812 TTTCGGCCCCTGGTACTTAC 59.385 55.000 0.00 0.00 0.00 2.34
7052 12285 9.013490 GTTTACTGATTTTTGAATCATGATCCG 57.987 33.333 9.06 0.00 38.39 4.18
7140 12373 1.144298 ACTAACCTGGGGTGTGTTTCC 59.856 52.381 0.00 0.00 35.34 3.13
7385 12620 8.777413 CATTCTTCATCATTACCGTGATTACAT 58.223 33.333 0.00 0.00 36.72 2.29
7587 12822 9.908152 AGGTTTGTGTATATAAGCAACTTTTTC 57.092 29.630 0.00 0.00 0.00 2.29
7588 12823 9.685828 GGTTTGTGTATATAAGCAACTTTTTCA 57.314 29.630 0.00 0.00 0.00 2.69
7629 12864 6.443792 ACCATGTTTTCAAACGACTAATTCC 58.556 36.000 0.00 0.00 41.74 3.01
7630 12865 5.861787 CCATGTTTTCAAACGACTAATTCCC 59.138 40.000 0.00 0.00 41.74 3.97
7631 12866 5.441709 TGTTTTCAAACGACTAATTCCCC 57.558 39.130 0.00 0.00 41.74 4.81
7632 12867 4.023878 TGTTTTCAAACGACTAATTCCCCG 60.024 41.667 0.00 0.00 41.74 5.73
7633 12868 3.405823 TTCAAACGACTAATTCCCCGT 57.594 42.857 0.00 0.00 36.77 5.28
7634 12869 3.405823 TCAAACGACTAATTCCCCGTT 57.594 42.857 0.00 0.00 45.56 4.44
7637 12872 2.000429 ACGACTAATTCCCCGTTTCG 58.000 50.000 0.00 0.00 30.41 3.46
7638 12873 1.545582 ACGACTAATTCCCCGTTTCGA 59.454 47.619 0.00 0.00 30.41 3.71
7639 12874 2.029110 ACGACTAATTCCCCGTTTCGAA 60.029 45.455 0.00 0.00 30.41 3.71
7640 12875 2.995258 CGACTAATTCCCCGTTTCGAAA 59.005 45.455 6.47 6.47 0.00 3.46
7641 12876 3.432933 CGACTAATTCCCCGTTTCGAAAA 59.567 43.478 13.10 0.00 0.00 2.29
7642 12877 4.083908 CGACTAATTCCCCGTTTCGAAAAA 60.084 41.667 13.10 3.13 0.00 1.94
7705 12940 7.094162 GCAATTTTAGGAATAGATTAGGGGAGC 60.094 40.741 0.00 0.00 0.00 4.70
7706 12941 7.648177 ATTTTAGGAATAGATTAGGGGAGCA 57.352 36.000 0.00 0.00 0.00 4.26
7985 13232 7.010738 GCAGTTAGTTATCTTGTGCCGTAAATA 59.989 37.037 0.00 0.00 0.00 1.40
7996 13243 7.382759 TCTTGTGCCGTAAATAAAAATGGAAAC 59.617 33.333 0.00 0.00 0.00 2.78
8365 13614 1.413767 GACGCAGGTATGTCGCTGTG 61.414 60.000 0.00 0.00 33.93 3.66
8466 13715 3.201930 TGCATTGAGGTTGGGAGCTAATA 59.798 43.478 0.00 0.00 32.79 0.98
8544 13801 0.179234 TGCGTCTTCAAACCTGTCCA 59.821 50.000 0.00 0.00 0.00 4.02
8606 13863 6.412214 ACTCCACTATTACAACCATAACCAC 58.588 40.000 0.00 0.00 0.00 4.16
8685 13950 2.612221 GCCAAAGTAGCGTTAGTCTGGT 60.612 50.000 8.12 0.00 0.00 4.00
8706 13971 6.653989 TGGTTAGGGAAAATTTTGAGCAAAA 58.346 32.000 8.47 10.43 43.48 2.44
8756 14021 5.819379 TCATCCTGATTTTAGTAGCTGCAAG 59.181 40.000 4.12 0.00 0.00 4.01
8878 14626 2.653115 CACAGCGTCTCTGAGCCA 59.347 61.111 0.00 0.00 45.72 4.75
8910 14658 6.791887 TCTTGAGATTGATGAAGTTGTCAC 57.208 37.500 0.00 0.00 39.72 3.67
8918 14666 3.555547 TGATGAAGTTGTCACAGACGTTG 59.444 43.478 0.00 0.00 39.72 4.10
8919 14667 1.663643 TGAAGTTGTCACAGACGTTGC 59.336 47.619 0.00 0.00 34.95 4.17
8936 14684 1.170442 TGCCGTAGTCGATGAGAACA 58.830 50.000 0.00 0.00 39.71 3.18
8955 14703 3.926616 ACATCTTCTCCCACTAAACACG 58.073 45.455 0.00 0.00 0.00 4.49
8961 14709 1.017177 TCCCACTAAACACGCATCGC 61.017 55.000 0.00 0.00 0.00 4.58
8963 14711 0.095245 CCACTAAACACGCATCGCTG 59.905 55.000 0.00 0.00 0.00 5.18
8996 14744 3.921119 ATCTTGAAAAATGCGAGCACA 57.079 38.095 0.00 0.00 0.00 4.57
9010 14758 4.225984 GCGAGCACAAATGTCAAATGTTA 58.774 39.130 0.00 0.00 0.00 2.41
9019 14767 7.224362 CACAAATGTCAAATGTTAGGCTTGAAA 59.776 33.333 0.00 0.00 31.21 2.69
9065 14813 2.010582 CTCAGTGGCGGAGACCTAGC 62.011 65.000 0.00 0.00 34.24 3.42
9074 14822 1.440145 GGAGACCTAGCGCAATTGGC 61.440 60.000 11.47 9.05 39.90 4.52
9106 14854 6.106673 CCCTAGGCGTAATAACAATATCCTG 58.893 44.000 2.05 0.00 0.00 3.86
9128 14882 7.011016 TCCTGTGCAATACGTTCTTATACAATG 59.989 37.037 0.00 0.00 0.00 2.82
9131 14885 9.152595 TGTGCAATACGTTCTTATACAATGTAA 57.847 29.630 0.00 0.00 30.77 2.41
9148 14902 8.374327 ACAATGTAAAAACTACTGGAGTGTAC 57.626 34.615 0.00 0.00 38.87 2.90
9149 14903 8.208903 ACAATGTAAAAACTACTGGAGTGTACT 58.791 33.333 0.00 0.00 38.87 2.73
9150 14904 8.709646 CAATGTAAAAACTACTGGAGTGTACTC 58.290 37.037 3.43 3.43 38.87 2.59
9159 14913 2.491291 GAGTGTACTCCCTCCGTCC 58.509 63.158 0.48 0.00 37.02 4.79
9160 14914 1.375098 GAGTGTACTCCCTCCGTCCG 61.375 65.000 0.48 0.00 37.02 4.79
9161 14915 2.044650 TGTACTCCCTCCGTCCGG 60.045 66.667 0.00 0.00 0.00 5.14
9162 14916 2.273449 GTACTCCCTCCGTCCGGA 59.727 66.667 0.00 0.00 42.90 5.14
9163 14917 1.379044 GTACTCCCTCCGTCCGGAA 60.379 63.158 5.23 0.00 44.66 4.30
9164 14918 0.967380 GTACTCCCTCCGTCCGGAAA 60.967 60.000 5.23 0.00 44.66 3.13
9165 14919 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
9166 14920 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
9167 14921 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
9168 14922 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
9169 14923 0.828677 CCCTCCGTCCGGAAATACTT 59.171 55.000 5.23 0.00 44.66 2.24
9170 14924 1.472728 CCCTCCGTCCGGAAATACTTG 60.473 57.143 5.23 0.00 44.66 3.16
9171 14925 1.206371 CCTCCGTCCGGAAATACTTGT 59.794 52.381 5.23 0.00 44.66 3.16
9172 14926 2.537401 CTCCGTCCGGAAATACTTGTC 58.463 52.381 5.23 0.00 44.66 3.18
9173 14927 1.894466 TCCGTCCGGAAATACTTGTCA 59.106 47.619 5.23 0.00 42.05 3.58
9174 14928 2.094390 TCCGTCCGGAAATACTTGTCAG 60.094 50.000 5.23 0.00 42.05 3.51
9175 14929 2.353406 CCGTCCGGAAATACTTGTCAGT 60.353 50.000 5.23 0.00 37.50 3.41
9176 14930 2.921754 CGTCCGGAAATACTTGTCAGTC 59.078 50.000 5.23 0.00 34.06 3.51
9177 14931 3.613193 CGTCCGGAAATACTTGTCAGTCA 60.613 47.826 5.23 0.00 34.06 3.41
9178 14932 4.504858 GTCCGGAAATACTTGTCAGTCAT 58.495 43.478 5.23 0.00 34.06 3.06
9179 14933 4.567159 GTCCGGAAATACTTGTCAGTCATC 59.433 45.833 5.23 0.00 34.06 2.92
9180 14934 4.221924 TCCGGAAATACTTGTCAGTCATCA 59.778 41.667 0.00 0.00 34.06 3.07
9181 14935 4.935205 CCGGAAATACTTGTCAGTCATCAA 59.065 41.667 0.00 0.00 34.06 2.57
9182 14936 5.411361 CCGGAAATACTTGTCAGTCATCAAA 59.589 40.000 0.00 0.00 34.06 2.69
9183 14937 6.072728 CCGGAAATACTTGTCAGTCATCAAAA 60.073 38.462 0.00 0.00 34.06 2.44
9184 14938 7.362056 CCGGAAATACTTGTCAGTCATCAAAAT 60.362 37.037 0.00 0.00 34.06 1.82
9185 14939 7.482743 CGGAAATACTTGTCAGTCATCAAAATG 59.517 37.037 0.00 0.00 34.06 2.32
9186 14940 7.756722 GGAAATACTTGTCAGTCATCAAAATGG 59.243 37.037 0.00 0.00 34.06 3.16
9187 14941 8.408043 AAATACTTGTCAGTCATCAAAATGGA 57.592 30.769 0.00 0.00 34.06 3.41
9188 14942 8.585471 AATACTTGTCAGTCATCAAAATGGAT 57.415 30.769 0.00 0.00 34.06 3.41
9189 14943 9.685276 AATACTTGTCAGTCATCAAAATGGATA 57.315 29.630 0.00 0.00 34.06 2.59
9190 14944 9.685276 ATACTTGTCAGTCATCAAAATGGATAA 57.315 29.630 0.00 0.00 34.06 1.75
9191 14945 8.408043 ACTTGTCAGTCATCAAAATGGATAAA 57.592 30.769 0.00 0.00 33.42 1.40
9192 14946 8.859090 ACTTGTCAGTCATCAAAATGGATAAAA 58.141 29.630 0.00 0.00 33.42 1.52
9193 14947 9.350357 CTTGTCAGTCATCAAAATGGATAAAAG 57.650 33.333 0.00 0.00 33.42 2.27
9194 14948 8.634335 TGTCAGTCATCAAAATGGATAAAAGA 57.366 30.769 0.00 0.00 33.42 2.52
9195 14949 8.733458 TGTCAGTCATCAAAATGGATAAAAGAG 58.267 33.333 0.00 0.00 33.42 2.85
9196 14950 8.186821 GTCAGTCATCAAAATGGATAAAAGAGG 58.813 37.037 0.00 0.00 33.42 3.69
9197 14951 8.108999 TCAGTCATCAAAATGGATAAAAGAGGA 58.891 33.333 0.00 0.00 33.42 3.71
9198 14952 8.910944 CAGTCATCAAAATGGATAAAAGAGGAT 58.089 33.333 0.00 0.00 33.42 3.24
9199 14953 8.910944 AGTCATCAAAATGGATAAAAGAGGATG 58.089 33.333 0.00 0.00 33.42 3.51
9200 14954 8.689972 GTCATCAAAATGGATAAAAGAGGATGT 58.310 33.333 0.00 0.00 33.42 3.06
9201 14955 9.919416 TCATCAAAATGGATAAAAGAGGATGTA 57.081 29.630 0.00 0.00 33.42 2.29
9210 14964 9.607333 TGGATAAAAGAGGATGTATCTAGATGT 57.393 33.333 15.79 1.25 0.00 3.06
9274 15028 9.865321 ATCCATTTTGATGACAAGTATTTTCAG 57.135 29.630 0.00 0.00 37.32 3.02
9275 15029 9.076781 TCCATTTTGATGACAAGTATTTTCAGA 57.923 29.630 0.00 0.00 37.32 3.27
9276 15030 9.132521 CCATTTTGATGACAAGTATTTTCAGAC 57.867 33.333 0.00 0.00 37.32 3.51
9277 15031 8.843733 CATTTTGATGACAAGTATTTTCAGACG 58.156 33.333 0.00 0.00 37.32 4.18
9278 15032 6.480524 TTGATGACAAGTATTTTCAGACGG 57.519 37.500 0.00 0.00 0.00 4.79
9279 15033 5.789521 TGATGACAAGTATTTTCAGACGGA 58.210 37.500 0.00 0.00 0.00 4.69
9280 15034 5.869344 TGATGACAAGTATTTTCAGACGGAG 59.131 40.000 0.00 0.00 0.00 4.63
9281 15035 4.566004 TGACAAGTATTTTCAGACGGAGG 58.434 43.478 0.00 0.00 0.00 4.30
9282 15036 3.933332 GACAAGTATTTTCAGACGGAGGG 59.067 47.826 0.00 0.00 0.00 4.30
9283 15037 3.581332 ACAAGTATTTTCAGACGGAGGGA 59.419 43.478 0.00 0.00 0.00 4.20
9290 15044 3.314307 TTCAGACGGAGGGAGTATCAT 57.686 47.619 0.00 0.00 36.25 2.45
9323 15077 5.335035 GCTTAGCTCTAGACGTAATCCGATT 60.335 44.000 0.00 0.00 40.70 3.34
9336 15090 1.758936 TCCGATTCTAGCTTCGTCCA 58.241 50.000 4.94 0.00 33.60 4.02
9347 15101 1.936547 GCTTCGTCCATGATTGTCCTC 59.063 52.381 0.00 0.00 0.00 3.71
9360 15114 5.886609 TGATTGTCCTCCTAACCATTCAAA 58.113 37.500 0.00 0.00 0.00 2.69
9362 15116 4.993705 TGTCCTCCTAACCATTCAAACT 57.006 40.909 0.00 0.00 0.00 2.66
9383 15137 1.053424 AGGTTGGTTCGCCTCTTACA 58.947 50.000 0.00 0.00 38.36 2.41
9439 15193 5.356426 TGAAAGATCAACAAGACACTTCGA 58.644 37.500 0.00 0.00 30.99 3.71
9479 15233 9.177608 CCTGAATTAATCACTTCAATAGGTCAA 57.822 33.333 0.00 0.00 33.47 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
62 63 2.666994 GTCATCGGTTTCTTCCTCGTTC 59.333 50.000 0.00 0.00 0.00 3.95
146 152 1.063266 CACTTAGCCCTCTCCTCCTCT 60.063 57.143 0.00 0.00 0.00 3.69
161 167 1.080093 CGCCGCACCTTCTCACTTA 60.080 57.895 0.00 0.00 0.00 2.24
221 227 1.251251 GCTTCACACATGCCTCCTTT 58.749 50.000 0.00 0.00 0.00 3.11
222 228 0.957395 CGCTTCACACATGCCTCCTT 60.957 55.000 0.00 0.00 0.00 3.36
225 231 1.975363 GAGCGCTTCACACATGCCTC 61.975 60.000 13.26 0.00 0.00 4.70
253 262 0.175760 TCTCCGCCATTTTCTCCTCG 59.824 55.000 0.00 0.00 0.00 4.63
264 274 7.416213 CCATCAATAATTTAAACTTCTCCGCCA 60.416 37.037 0.00 0.00 0.00 5.69
389 400 1.056660 AACATCTTGGTGTCCTCCGT 58.943 50.000 0.00 0.00 0.00 4.69
409 420 4.104738 TCCAAAGACTCCAGATTCAAGGTT 59.895 41.667 0.00 0.00 0.00 3.50
424 435 1.126846 CTTGCGTCGACATCCAAAGAC 59.873 52.381 17.16 0.00 0.00 3.01
528 539 1.458777 AACCTCCACGTCCACCTCA 60.459 57.895 0.00 0.00 0.00 3.86
557 602 1.338655 TCGATCAAGGTGTTGTCGTCA 59.661 47.619 0.00 0.00 37.90 4.35
594 649 3.460103 CATGCAATTTTCTGCCATACCC 58.540 45.455 0.00 0.00 41.90 3.69
599 654 3.139850 CAAACCATGCAATTTTCTGCCA 58.860 40.909 0.00 0.00 41.90 4.92
617 679 0.106918 AAGAACACCAGTCCGGCAAA 60.107 50.000 0.00 0.00 39.03 3.68
618 680 0.106918 AAAGAACACCAGTCCGGCAA 60.107 50.000 0.00 0.00 39.03 4.52
639 701 9.893305 ACTTAGTTTCTAAAAATGTCCAAATCG 57.107 29.630 0.00 0.00 0.00 3.34
720 784 2.629050 ATTGATCTACACGGCGCGCT 62.629 55.000 32.29 14.07 0.00 5.92
751 815 6.148948 TCGCCAGTAAATGACAATTCAAAAG 58.851 36.000 0.00 0.00 34.61 2.27
775 839 2.884639 GGCGGCCATTTCTGTATATGTT 59.115 45.455 15.62 0.00 0.00 2.71
787 851 0.181824 AAATACGGTAGGCGGCCATT 59.818 50.000 23.09 8.01 0.00 3.16
824 900 1.812571 CACAAATTTCCTCCCGACAGG 59.187 52.381 0.00 0.00 34.40 4.00
825 901 1.812571 CCACAAATTTCCTCCCGACAG 59.187 52.381 0.00 0.00 0.00 3.51
870 3626 7.426743 CGAGCCTCGATTCTTTTCTTATTTTTC 59.573 37.037 8.82 0.00 43.74 2.29
876 3632 4.451629 ACGAGCCTCGATTCTTTTCTTA 57.548 40.909 22.80 0.00 43.74 2.10
877 3633 3.320673 ACGAGCCTCGATTCTTTTCTT 57.679 42.857 22.80 0.00 43.74 2.52
880 3636 2.347731 GGAACGAGCCTCGATTCTTTT 58.652 47.619 22.80 2.73 43.74 2.27
881 3637 2.011540 GGAACGAGCCTCGATTCTTT 57.988 50.000 22.80 3.56 43.74 2.52
940 3696 1.285950 GGTTCGCTTCAGGTTTGGC 59.714 57.895 0.00 0.00 0.00 4.52
1320 4076 7.704789 AAAGAGCATGTTTTAAAGCAAAGAG 57.295 32.000 8.89 1.67 0.00 2.85
1330 4086 5.219633 GCGGAAGAAAAAGAGCATGTTTTA 58.780 37.500 0.00 0.00 41.03 1.52
1337 4093 1.238439 CAGGCGGAAGAAAAAGAGCA 58.762 50.000 0.00 0.00 0.00 4.26
1354 4110 2.029020 TCTCGGAGAAATCACACCACAG 60.029 50.000 4.96 0.00 34.09 3.66
1391 4147 1.017387 CGCCATGAAACTAAGGGAGC 58.983 55.000 0.00 0.00 0.00 4.70
1393 4149 1.349688 ACACGCCATGAAACTAAGGGA 59.650 47.619 0.00 0.00 0.00 4.20
1410 4166 3.416352 CAGTTTAAAACTAACGCGCACAC 59.584 43.478 5.73 0.00 40.46 3.82
1421 4177 4.887655 CCAAGACTCCCACAGTTTAAAACT 59.112 41.667 0.00 0.00 44.06 2.66
1427 4183 0.478507 CCCCAAGACTCCCACAGTTT 59.521 55.000 0.00 0.00 34.41 2.66
1842 4606 4.665833 AGTGCTATTGCTACCGTATTCA 57.334 40.909 0.00 0.00 40.48 2.57
1858 4622 3.087031 AGCATGTATTCTTGCAAGTGCT 58.913 40.909 25.78 25.78 43.98 4.40
2016 4780 5.094387 TGGAGTATCTTCTCTTCACCCTTT 58.906 41.667 0.00 0.00 35.11 3.11
2069 4833 4.959596 AAACGACGAGTTAGCTATGAGA 57.040 40.909 0.00 0.00 43.37 3.27
2276 5040 1.269778 GGTGCTTTGTTTTCCTCAGCC 60.270 52.381 0.00 0.00 0.00 4.85
2456 5223 3.056821 TCGGCTTCTGATATTATGGACGG 60.057 47.826 0.00 0.00 0.00 4.79
2753 5527 0.325296 CCTACAGCCTCCAGGGTACA 60.325 60.000 0.00 0.00 45.47 2.90
2855 5629 1.078426 GCAGTTAGGTGGCGGTCAT 60.078 57.895 0.00 0.00 0.00 3.06
3230 6004 0.695803 ACACCATCCTCATCTCCCCC 60.696 60.000 0.00 0.00 0.00 5.40
3231 6005 0.761802 GACACCATCCTCATCTCCCC 59.238 60.000 0.00 0.00 0.00 4.81
3232 6006 0.761802 GGACACCATCCTCATCTCCC 59.238 60.000 0.00 0.00 45.22 4.30
3241 6015 0.765510 GGTATGGGAGGACACCATCC 59.234 60.000 0.00 0.00 45.33 3.51
3242 6016 0.765510 GGGTATGGGAGGACACCATC 59.234 60.000 0.00 0.00 45.33 3.51
3244 6018 1.307517 GGGGTATGGGAGGACACCA 60.308 63.158 0.00 0.00 39.12 4.17
3245 6019 1.004361 AGGGGTATGGGAGGACACC 59.996 63.158 0.00 0.00 39.65 4.16
3246 6020 1.054978 GGAGGGGTATGGGAGGACAC 61.055 65.000 0.00 0.00 0.00 3.67
3247 6021 1.316969 GGAGGGGTATGGGAGGACA 59.683 63.158 0.00 0.00 0.00 4.02
3291 6077 4.382541 GGGGCAAGAGGTTGGGGG 62.383 72.222 0.00 0.00 33.87 5.40
3406 6192 2.458592 CGATGCTTTTCGCCTTAAGG 57.541 50.000 17.81 17.81 38.05 2.69
3536 6324 2.745821 GGCTTTCTTAGTTAACCGTGGG 59.254 50.000 0.88 0.00 0.00 4.61
3706 6495 4.208746 CGTTAGGACTTAGGAGTGAGGAT 58.791 47.826 0.00 0.00 35.88 3.24
3961 6751 9.353431 TGACATGGAAAAACAGCATATATACAT 57.647 29.630 0.00 0.00 0.00 2.29
4196 6986 3.309954 GGAGATAAGGACAACGACAATGC 59.690 47.826 0.00 0.00 0.00 3.56
4763 7555 7.229308 TCGATAACCACATACAGTAGGATAGT 58.771 38.462 0.00 0.00 0.00 2.12
4766 7558 7.540474 AATCGATAACCACATACAGTAGGAT 57.460 36.000 0.00 0.00 0.00 3.24
4819 7611 7.219484 TCTGAAGGAAGGAACAAATCAAATC 57.781 36.000 0.00 0.00 0.00 2.17
4952 7744 9.871238 AGAATCAACAAAAGTAGTATGTACGAT 57.129 29.630 0.00 0.00 0.00 3.73
5213 8010 5.046910 ACCGAAAGCACAACATTTGATAG 57.953 39.130 0.00 0.00 0.00 2.08
5417 8224 2.295885 GAAGCTTGCTATCCATGTGCT 58.704 47.619 2.10 0.00 0.00 4.40
5475 8282 2.961510 AGAGAGATCTGATGGACTGGG 58.038 52.381 0.00 0.00 0.00 4.45
5483 8297 6.074648 AGGAATCCGTAAAGAGAGATCTGAT 58.925 40.000 0.00 0.00 0.00 2.90
5528 8348 5.105023 AGCTTGCTGATAATGTCAAGAGAGA 60.105 40.000 5.16 0.00 38.45 3.10
5571 8391 4.496336 GGCCTCCAGAAGCGCCAT 62.496 66.667 2.29 0.00 39.69 4.40
5646 8467 2.894126 CGAGATAGAGTTGGGGTAGCAT 59.106 50.000 0.00 0.00 0.00 3.79
5805 8626 2.105766 AGTTCTATAGGACGGCGGTTT 58.894 47.619 13.24 0.00 0.00 3.27
6016 8843 3.367703 GCGGTTTCAGTACTACTAGGCAA 60.368 47.826 0.00 0.00 0.00 4.52
6140 8967 1.212616 GATGATGTGGTGCTAGTCGC 58.787 55.000 0.00 0.00 39.77 5.19
6449 9276 0.405973 AGGGAGCAAAAGAAGGACCC 59.594 55.000 0.00 0.00 36.47 4.46
6581 11808 8.841300 GTTATTTTTGGCCATTTTAAGGAACAA 58.159 29.630 6.09 0.00 0.00 2.83
6730 11961 8.561738 AGTTGGAAATGTATTGTAAGTACCAG 57.438 34.615 0.00 0.00 0.00 4.00
6740 11971 7.775120 AGCCTCAAATAGTTGGAAATGTATTG 58.225 34.615 2.65 0.00 35.29 1.90
7052 12285 5.650703 ACCTTGTAAACATACCTGCCAATAC 59.349 40.000 0.00 0.00 0.00 1.89
7140 12373 6.496338 AAACTAAATCTTAAAGGAGTGCGG 57.504 37.500 0.00 0.00 0.00 5.69
7342 12577 5.417754 AGAATGAACAAGATCTCAGCTCA 57.582 39.130 0.00 0.00 0.00 4.26
7641 12876 6.210584 ACATGAATGGAATTAGTCGGGTTTTT 59.789 34.615 0.00 0.00 36.07 1.94
7642 12877 5.714806 ACATGAATGGAATTAGTCGGGTTTT 59.285 36.000 0.00 0.00 36.07 2.43
7643 12878 5.261216 ACATGAATGGAATTAGTCGGGTTT 58.739 37.500 0.00 0.00 36.07 3.27
7644 12879 4.855340 ACATGAATGGAATTAGTCGGGTT 58.145 39.130 0.00 0.00 36.07 4.11
7645 12880 4.503714 ACATGAATGGAATTAGTCGGGT 57.496 40.909 0.00 0.00 36.07 5.28
7646 12881 5.126067 AGAACATGAATGGAATTAGTCGGG 58.874 41.667 0.00 0.00 36.07 5.14
7647 12882 6.051717 AGAGAACATGAATGGAATTAGTCGG 58.948 40.000 0.00 0.00 36.07 4.79
7648 12883 7.545362 AAGAGAACATGAATGGAATTAGTCG 57.455 36.000 0.00 0.00 36.07 4.18
7649 12884 9.050601 CCTAAGAGAACATGAATGGAATTAGTC 57.949 37.037 0.00 0.00 36.07 2.59
7650 12885 7.995488 CCCTAAGAGAACATGAATGGAATTAGT 59.005 37.037 0.00 0.00 36.07 2.24
7651 12886 8.213679 TCCCTAAGAGAACATGAATGGAATTAG 58.786 37.037 0.00 0.00 36.07 1.73
7652 12887 8.101309 TCCCTAAGAGAACATGAATGGAATTA 57.899 34.615 0.00 0.00 36.07 1.40
7653 12888 6.973642 TCCCTAAGAGAACATGAATGGAATT 58.026 36.000 0.00 0.00 40.93 2.17
7654 12889 6.581388 TCCCTAAGAGAACATGAATGGAAT 57.419 37.500 0.00 0.00 0.00 3.01
7655 12890 6.359804 CATCCCTAAGAGAACATGAATGGAA 58.640 40.000 0.00 0.00 0.00 3.53
7656 12891 5.688500 GCATCCCTAAGAGAACATGAATGGA 60.689 44.000 0.00 0.00 0.00 3.41
7657 12892 4.518211 GCATCCCTAAGAGAACATGAATGG 59.482 45.833 0.00 0.00 0.00 3.16
7705 12940 6.466413 CACAGCACATTGAAAACAAAATTGTG 59.534 34.615 0.00 0.00 41.31 3.33
7706 12941 6.149142 ACACAGCACATTGAAAACAAAATTGT 59.851 30.769 0.00 0.00 44.72 2.71
7943 13190 6.273825 ACTAACTGCACTAGGAATGATAACG 58.726 40.000 0.00 0.00 0.00 3.18
7985 13232 5.656416 TGACCAACAGAGAGTTTCCATTTTT 59.344 36.000 0.00 0.00 38.74 1.94
8235 13482 1.153025 GCATCTGCTGGGCTCATCA 60.153 57.895 0.00 0.00 38.21 3.07
8271 13520 8.408043 AAAAAGATCAAAGGTGTATCATGACA 57.592 30.769 0.00 0.00 0.00 3.58
8347 13596 1.446099 CACAGCGACATACCTGCGT 60.446 57.895 0.00 0.00 32.37 5.24
8365 13614 1.068748 CACATTGCAGGAGTTGACAGC 60.069 52.381 0.00 0.00 0.00 4.40
8535 13792 2.426023 GTCGTGGCTGGACAGGTT 59.574 61.111 1.01 0.00 34.56 3.50
8544 13801 0.109226 GTTTAGAGCTCGTCGTGGCT 60.109 55.000 8.37 13.31 41.88 4.75
8606 13863 3.003480 CCTCGGTAGCCTTTCTTTCTTG 58.997 50.000 0.00 0.00 0.00 3.02
8671 13936 3.370840 TCCCTAACCAGACTAACGCTA 57.629 47.619 0.00 0.00 0.00 4.26
8685 13950 7.286313 ACCATTTTGCTCAAAATTTTCCCTAA 58.714 30.769 15.57 0.00 45.67 2.69
8706 13971 4.526262 TGAAAATTTCAACCATCCGACCAT 59.474 37.500 5.87 0.00 36.59 3.55
8878 14626 7.933215 TTCATCAATCTCAAGATGATGTGTT 57.067 32.000 19.97 2.11 47.00 3.32
8918 14666 2.386249 GATGTTCTCATCGACTACGGC 58.614 52.381 0.00 0.00 40.55 5.68
8936 14684 2.301870 TGCGTGTTTAGTGGGAGAAGAT 59.698 45.455 0.00 0.00 0.00 2.40
8940 14688 1.403647 CGATGCGTGTTTAGTGGGAGA 60.404 52.381 0.00 0.00 0.00 3.71
8943 14691 1.019278 AGCGATGCGTGTTTAGTGGG 61.019 55.000 0.00 0.00 0.00 4.61
8955 14703 5.698545 AGATTTATAGGTCTTTCAGCGATGC 59.301 40.000 0.00 0.00 0.00 3.91
8996 14744 6.705825 GGTTTCAAGCCTAACATTTGACATTT 59.294 34.615 0.00 0.00 31.11 2.32
9010 14758 1.153756 CCCACCAGGTTTCAAGCCT 59.846 57.895 0.00 0.00 36.66 4.58
9019 14767 3.326385 TATCCTCCGCCCACCAGGT 62.326 63.158 0.00 0.00 38.26 4.00
9043 14791 2.060980 GGTCTCCGCCACTGAGGAT 61.061 63.158 0.00 0.00 39.93 3.24
9106 14854 9.976255 TTTACATTGTATAAGAACGTATTGCAC 57.024 29.630 0.00 0.00 0.00 4.57
9141 14895 1.375098 CGGACGGAGGGAGTACACTC 61.375 65.000 0.49 0.49 45.04 3.51
9142 14896 1.378250 CGGACGGAGGGAGTACACT 60.378 63.158 0.00 0.00 0.00 3.55
9143 14897 2.413142 CCGGACGGAGGGAGTACAC 61.413 68.421 4.40 0.00 37.50 2.90
9144 14898 2.044650 CCGGACGGAGGGAGTACA 60.045 66.667 4.40 0.00 37.50 2.90
9145 14899 0.967380 TTTCCGGACGGAGGGAGTAC 60.967 60.000 13.64 0.00 46.06 2.73
9146 14900 0.032813 ATTTCCGGACGGAGGGAGTA 60.033 55.000 13.64 0.00 46.06 2.59
9147 14901 0.032813 TATTTCCGGACGGAGGGAGT 60.033 55.000 13.64 0.00 46.06 3.85
9148 14902 0.388294 GTATTTCCGGACGGAGGGAG 59.612 60.000 13.64 0.00 46.06 4.30
9149 14903 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.000 13.64 4.95 46.06 4.20
9150 14904 0.828677 AAGTATTTCCGGACGGAGGG 59.171 55.000 13.64 0.00 46.06 4.30
9151 14905 1.206371 ACAAGTATTTCCGGACGGAGG 59.794 52.381 13.64 0.00 46.06 4.30
9152 14906 2.094390 TGACAAGTATTTCCGGACGGAG 60.094 50.000 13.64 3.15 46.06 4.63
9153 14907 1.894466 TGACAAGTATTTCCGGACGGA 59.106 47.619 1.83 9.76 43.52 4.69
9154 14908 2.268298 CTGACAAGTATTTCCGGACGG 58.732 52.381 1.83 3.96 0.00 4.79
9155 14909 2.921754 GACTGACAAGTATTTCCGGACG 59.078 50.000 1.83 0.00 36.52 4.79
9156 14910 3.921677 TGACTGACAAGTATTTCCGGAC 58.078 45.455 1.83 0.00 36.52 4.79
9157 14911 4.221924 TGATGACTGACAAGTATTTCCGGA 59.778 41.667 0.00 0.00 36.52 5.14
9158 14912 4.503910 TGATGACTGACAAGTATTTCCGG 58.496 43.478 0.00 0.00 36.52 5.14
9159 14913 6.480524 TTTGATGACTGACAAGTATTTCCG 57.519 37.500 0.00 0.00 36.52 4.30
9160 14914 7.756722 CCATTTTGATGACTGACAAGTATTTCC 59.243 37.037 0.00 0.00 36.52 3.13
9161 14915 8.514594 TCCATTTTGATGACTGACAAGTATTTC 58.485 33.333 0.00 0.00 36.52 2.17
9162 14916 8.408043 TCCATTTTGATGACTGACAAGTATTT 57.592 30.769 0.00 0.00 36.52 1.40
9163 14917 8.585471 ATCCATTTTGATGACTGACAAGTATT 57.415 30.769 0.00 0.00 36.52 1.89
9164 14918 9.685276 TTATCCATTTTGATGACTGACAAGTAT 57.315 29.630 0.00 0.00 36.52 2.12
9165 14919 9.513906 TTTATCCATTTTGATGACTGACAAGTA 57.486 29.630 0.00 0.00 36.52 2.24
9166 14920 8.408043 TTTATCCATTTTGATGACTGACAAGT 57.592 30.769 0.00 0.00 40.21 3.16
9167 14921 9.350357 CTTTTATCCATTTTGATGACTGACAAG 57.650 33.333 0.00 0.00 0.00 3.16
9168 14922 9.076781 TCTTTTATCCATTTTGATGACTGACAA 57.923 29.630 0.00 0.00 0.00 3.18
9169 14923 8.634335 TCTTTTATCCATTTTGATGACTGACA 57.366 30.769 0.00 0.00 0.00 3.58
9170 14924 8.186821 CCTCTTTTATCCATTTTGATGACTGAC 58.813 37.037 0.00 0.00 0.00 3.51
9171 14925 8.108999 TCCTCTTTTATCCATTTTGATGACTGA 58.891 33.333 0.00 0.00 0.00 3.41
9172 14926 8.284945 TCCTCTTTTATCCATTTTGATGACTG 57.715 34.615 0.00 0.00 0.00 3.51
9173 14927 8.910944 CATCCTCTTTTATCCATTTTGATGACT 58.089 33.333 0.00 0.00 0.00 3.41
9174 14928 8.689972 ACATCCTCTTTTATCCATTTTGATGAC 58.310 33.333 0.00 0.00 32.39 3.06
9175 14929 8.827832 ACATCCTCTTTTATCCATTTTGATGA 57.172 30.769 0.00 0.00 32.39 2.92
9184 14938 9.607333 ACATCTAGATACATCCTCTTTTATCCA 57.393 33.333 4.54 0.00 0.00 3.41
9248 15002 9.865321 CTGAAAATACTTGTCATCAAAATGGAT 57.135 29.630 0.00 0.00 33.42 3.41
9249 15003 9.076781 TCTGAAAATACTTGTCATCAAAATGGA 57.923 29.630 0.00 0.00 33.42 3.41
9250 15004 9.132521 GTCTGAAAATACTTGTCATCAAAATGG 57.867 33.333 0.00 0.00 33.42 3.16
9251 15005 8.843733 CGTCTGAAAATACTTGTCATCAAAATG 58.156 33.333 0.00 0.00 32.87 2.32
9252 15006 8.023128 CCGTCTGAAAATACTTGTCATCAAAAT 58.977 33.333 0.00 0.00 32.87 1.82
9253 15007 7.227711 TCCGTCTGAAAATACTTGTCATCAAAA 59.772 33.333 0.00 0.00 32.87 2.44
9254 15008 6.708502 TCCGTCTGAAAATACTTGTCATCAAA 59.291 34.615 0.00 0.00 32.87 2.69
9255 15009 6.227522 TCCGTCTGAAAATACTTGTCATCAA 58.772 36.000 0.00 0.00 0.00 2.57
9256 15010 5.789521 TCCGTCTGAAAATACTTGTCATCA 58.210 37.500 0.00 0.00 0.00 3.07
9257 15011 5.292101 CCTCCGTCTGAAAATACTTGTCATC 59.708 44.000 0.00 0.00 0.00 2.92
9258 15012 5.178797 CCTCCGTCTGAAAATACTTGTCAT 58.821 41.667 0.00 0.00 0.00 3.06
9259 15013 4.562757 CCCTCCGTCTGAAAATACTTGTCA 60.563 45.833 0.00 0.00 0.00 3.58
9260 15014 3.933332 CCCTCCGTCTGAAAATACTTGTC 59.067 47.826 0.00 0.00 0.00 3.18
9261 15015 3.581332 TCCCTCCGTCTGAAAATACTTGT 59.419 43.478 0.00 0.00 0.00 3.16
9262 15016 4.184629 CTCCCTCCGTCTGAAAATACTTG 58.815 47.826 0.00 0.00 0.00 3.16
9263 15017 3.838903 ACTCCCTCCGTCTGAAAATACTT 59.161 43.478 0.00 0.00 0.00 2.24
9264 15018 3.442076 ACTCCCTCCGTCTGAAAATACT 58.558 45.455 0.00 0.00 0.00 2.12
9265 15019 3.889520 ACTCCCTCCGTCTGAAAATAC 57.110 47.619 0.00 0.00 0.00 1.89
9266 15020 5.205821 TGATACTCCCTCCGTCTGAAAATA 58.794 41.667 0.00 0.00 0.00 1.40
9267 15021 4.030913 TGATACTCCCTCCGTCTGAAAAT 58.969 43.478 0.00 0.00 0.00 1.82
9268 15022 3.437213 TGATACTCCCTCCGTCTGAAAA 58.563 45.455 0.00 0.00 0.00 2.29
9269 15023 3.095912 TGATACTCCCTCCGTCTGAAA 57.904 47.619 0.00 0.00 0.00 2.69
9270 15024 2.820728 TGATACTCCCTCCGTCTGAA 57.179 50.000 0.00 0.00 0.00 3.02
9271 15025 3.314307 AATGATACTCCCTCCGTCTGA 57.686 47.619 0.00 0.00 0.00 3.27
9272 15026 5.531122 TTAAATGATACTCCCTCCGTCTG 57.469 43.478 0.00 0.00 0.00 3.51
9273 15027 5.661759 AGTTTAAATGATACTCCCTCCGTCT 59.338 40.000 0.00 0.00 0.00 4.18
9274 15028 5.915175 AGTTTAAATGATACTCCCTCCGTC 58.085 41.667 0.00 0.00 0.00 4.79
9275 15029 5.952347 AGTTTAAATGATACTCCCTCCGT 57.048 39.130 0.00 0.00 0.00 4.69
9276 15030 5.927115 GCTAGTTTAAATGATACTCCCTCCG 59.073 44.000 0.00 0.00 0.00 4.63
9277 15031 7.068686 AGCTAGTTTAAATGATACTCCCTCC 57.931 40.000 0.00 0.00 0.00 4.30
9278 15032 9.699703 CTAAGCTAGTTTAAATGATACTCCCTC 57.300 37.037 0.48 0.00 0.00 4.30
9279 15033 8.151596 GCTAAGCTAGTTTAAATGATACTCCCT 58.848 37.037 0.48 0.00 0.00 4.20
9280 15034 8.151596 AGCTAAGCTAGTTTAAATGATACTCCC 58.848 37.037 0.48 0.00 36.99 4.30
9281 15035 9.198837 GAGCTAAGCTAGTTTAAATGATACTCC 57.801 37.037 0.48 0.00 39.88 3.85
9282 15036 9.974980 AGAGCTAAGCTAGTTTAAATGATACTC 57.025 33.333 0.48 0.00 39.88 2.59
9290 15044 7.388460 ACGTCTAGAGCTAAGCTAGTTTAAA 57.612 36.000 7.59 0.00 39.88 1.52
9323 15077 3.181475 GGACAATCATGGACGAAGCTAGA 60.181 47.826 0.00 0.00 0.00 2.43
9336 15090 5.715439 TGAATGGTTAGGAGGACAATCAT 57.285 39.130 0.00 0.00 0.00 2.45
9347 15101 5.773176 ACCAACCTTAGTTTGAATGGTTAGG 59.227 40.000 0.00 0.00 38.76 2.69
9360 15114 1.349067 AGAGGCGAACCAACCTTAGT 58.651 50.000 0.00 0.00 36.05 2.24
9362 15116 2.633967 TGTAAGAGGCGAACCAACCTTA 59.366 45.455 0.00 0.00 36.05 2.69
9383 15137 3.887621 TGCGCCATCTAAAACTAGACT 57.112 42.857 4.18 0.00 0.00 3.24


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

AutoCloner maintained by Alex Coulton.