Multiple sequence alignment - TraesCS2B01G222600

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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 TraesCS2B01G222600 chr2B 100.000 5754 0 0 1 5754 212295784 212301537 0.000000e+00 10626
1 TraesCS2B01G222600 chr2A 96.309 3224 104 10 783 4000 144958710 144955496 0.000000e+00 5280
2 TraesCS2B01G222600 chr2A 82.863 1523 132 70 4266 5697 144955246 144953762 0.000000e+00 1247
3 TraesCS2B01G222600 chr2A 93.939 66 4 0 4221 4286 144955393 144955328 3.670000e-17 100
4 TraesCS2B01G222600 chr2D 89.257 2141 128 39 2979 5090 155332658 155334725 0.000000e+00 2586
5 TraesCS2B01G222600 chr2D 94.538 1666 67 13 783 2430 155161758 155163417 0.000000e+00 2551
6 TraesCS2B01G222600 chr2D 92.894 1365 82 5 2428 3779 155163697 155165059 0.000000e+00 1969
7 TraesCS2B01G222600 chr2D 91.846 1067 70 7 1927 2983 155178461 155179520 0.000000e+00 1472
8 TraesCS2B01G222600 chr2D 86.409 596 52 17 4245 4818 155165877 155166465 4.900000e-175 625
9 TraesCS2B01G222600 chr2D 88.136 531 20 11 5204 5713 155337921 155338429 4.960000e-165 592
10 TraesCS2B01G222600 chr2D 87.906 339 33 5 3776 4111 155165315 155165648 5.400000e-105 392
11 TraesCS2B01G222600 chr2D 92.917 240 6 2 1657 1896 155178234 155178462 7.140000e-89 339
12 TraesCS2B01G222600 chr2D 97.674 43 1 0 5094 5136 155334758 155334800 2.220000e-09 75
13 TraesCS2B01G222600 chr5B 96.505 744 26 0 1 744 355899412 355900155 0.000000e+00 1230
14 TraesCS2B01G222600 chr5B 89.744 117 12 0 627 743 355899137 355899021 3.590000e-32 150
15 TraesCS2B01G222600 chr5B 78.761 113 22 2 633 744 53542759 53542870 2.220000e-09 75
16 TraesCS2B01G222600 chr3A 95.699 744 21 1 1 744 632036474 632035742 0.000000e+00 1186
17 TraesCS2B01G222600 chr3A 81.890 127 23 0 618 744 718064148 718064022 2.190000e-19 108
18 TraesCS2B01G222600 chr7D 83.853 353 41 13 4504 4855 7531619 7531956 7.190000e-84 322
19 TraesCS2B01G222600 chr3B 78.995 219 43 3 526 743 467274947 467274731 4.650000e-31 147


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 TraesCS2B01G222600 chr2B 212295784 212301537 5753 False 10626.000000 10626 100.00000 1 5754 1 chr2B.!!$F1 5753
1 TraesCS2B01G222600 chr2A 144953762 144958710 4948 True 2209.000000 5280 91.03700 783 5697 3 chr2A.!!$R1 4914
2 TraesCS2B01G222600 chr2D 155161758 155166465 4707 False 1384.250000 2551 90.43675 783 4818 4 chr2D.!!$F1 4035
3 TraesCS2B01G222600 chr2D 155332658 155338429 5771 False 1084.333333 2586 91.68900 2979 5713 3 chr2D.!!$F3 2734
4 TraesCS2B01G222600 chr2D 155178234 155179520 1286 False 905.500000 1472 92.38150 1657 2983 2 chr2D.!!$F2 1326
5 TraesCS2B01G222600 chr5B 355899412 355900155 743 False 1230.000000 1230 96.50500 1 744 1 chr5B.!!$F2 743
6 TraesCS2B01G222600 chr3A 632035742 632036474 732 True 1186.000000 1186 95.69900 1 744 1 chr3A.!!$R1 743

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
778 779 0.106894 CGCTACCAAATCCCTCCCTC 59.893 60.000 0.00 0.0 0.00 4.30 F
779 780 0.474614 GCTACCAAATCCCTCCCTCC 59.525 60.000 0.00 0.0 0.00 4.30 F
780 781 0.759346 CTACCAAATCCCTCCCTCCG 59.241 60.000 0.00 0.0 0.00 4.63 F
781 782 1.342672 TACCAAATCCCTCCCTCCGC 61.343 60.000 0.00 0.0 0.00 5.54 F
1597 1604 1.519408 ACCTTTGTGCCGTATCACAC 58.481 50.000 2.49 0.0 45.58 3.82 F
2536 2845 5.126067 TGAAATAATTCACTAGCCTGAGCC 58.874 41.667 0.00 0.0 40.59 4.70 F
3748 4072 3.162666 CCTACTGAGTCACCACTTACCA 58.837 50.000 0.00 0.0 30.63 3.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2414 2435 3.119388 TGCTACATCATTTCAGCAAAGCC 60.119 43.478 0.00 0.00 40.87 4.35 R
2471 2780 3.690139 TGTTACATGTTTGTGTGGTCGTT 59.310 39.130 2.30 0.00 36.53 3.85 R
2536 2845 9.745018 AGAACACCATATAAATTATGATGGGAG 57.255 33.333 17.56 13.92 42.72 4.30 R
2820 3138 5.740290 TGAGGAAAGAATACCGAGAAAGT 57.260 39.130 0.00 0.00 0.00 2.66 R
2963 3282 1.202533 CCAAGTGACCAGACTGAACGT 60.203 52.381 3.32 0.00 0.00 3.99 R
3847 4431 1.877637 TGCACTGCAACGAGTATGTT 58.122 45.000 0.00 0.00 34.76 2.71 R
4872 5732 0.031178 GCCTTGCCTCAACAACAGTG 59.969 55.000 0.00 0.00 0.00 3.66 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
70 71 1.413812 GGATGATGCCAAATTGGGTCC 59.586 52.381 14.59 0.00 38.19 4.46
189 190 2.904866 GCCCAACCTGTTGTGCGA 60.905 61.111 9.03 0.00 38.85 5.10
235 236 0.779358 CCCATCCCAATGCTCCCATA 59.221 55.000 0.00 0.00 0.00 2.74
260 261 2.672996 GTGCGCATGGGTGGTTCT 60.673 61.111 15.91 0.00 0.00 3.01
293 294 1.817099 GCCGCCAGAATCTCCTGTG 60.817 63.158 0.00 0.00 32.43 3.66
486 487 5.636965 CGTGATGATGGATCTGGATAGAAAC 59.363 44.000 0.00 0.00 36.32 2.78
487 488 6.528321 GTGATGATGGATCTGGATAGAAACA 58.472 40.000 0.00 0.00 36.32 2.83
550 551 0.251341 GGATATGACATGTGGGCCCC 60.251 60.000 22.27 11.72 0.00 5.80
578 579 2.094803 CAGTGAGAGAAGCGTGTGATCT 60.095 50.000 0.00 0.00 0.00 2.75
690 691 6.146673 GCCAATTTCAAGGATTTTGAGTTCAG 59.853 38.462 0.00 0.00 0.00 3.02
705 706 4.103153 TGAGTTCAGGGTTTGATTCAGACT 59.897 41.667 7.22 0.00 35.27 3.24
747 748 9.847224 AGGTTTATTTTAGACTTTTCTCTCACA 57.153 29.630 0.00 0.00 32.75 3.58
750 751 9.847224 TTTATTTTAGACTTTTCTCTCACAGGT 57.153 29.630 0.00 0.00 32.75 4.00
751 752 9.847224 TTATTTTAGACTTTTCTCTCACAGGTT 57.153 29.630 0.00 0.00 32.75 3.50
753 754 8.888579 TTTTAGACTTTTCTCTCACAGGTTAG 57.111 34.615 0.00 0.00 32.75 2.34
754 755 5.476091 AGACTTTTCTCTCACAGGTTAGG 57.524 43.478 0.00 0.00 0.00 2.69
755 756 4.284746 AGACTTTTCTCTCACAGGTTAGGG 59.715 45.833 0.00 0.00 0.00 3.53
756 757 4.232091 ACTTTTCTCTCACAGGTTAGGGA 58.768 43.478 0.00 0.00 0.00 4.20
757 758 4.658901 ACTTTTCTCTCACAGGTTAGGGAA 59.341 41.667 0.00 0.00 30.32 3.97
758 759 5.132144 ACTTTTCTCTCACAGGTTAGGGAAA 59.868 40.000 4.90 4.90 39.77 3.13
759 760 4.618920 TTCTCTCACAGGTTAGGGAAAC 57.381 45.455 0.00 0.00 37.36 2.78
760 761 2.561419 TCTCTCACAGGTTAGGGAAACG 59.439 50.000 0.00 0.00 39.13 3.60
761 762 1.001633 TCTCACAGGTTAGGGAAACGC 59.998 52.381 0.00 0.00 39.13 4.84
762 763 1.002087 CTCACAGGTTAGGGAAACGCT 59.998 52.381 0.00 0.00 39.13 5.07
763 764 2.232941 CTCACAGGTTAGGGAAACGCTA 59.767 50.000 0.00 0.00 39.13 4.26
764 765 2.028748 TCACAGGTTAGGGAAACGCTAC 60.029 50.000 0.00 0.00 39.13 3.58
765 766 1.277273 ACAGGTTAGGGAAACGCTACC 59.723 52.381 0.00 0.00 39.13 3.18
766 767 1.276989 CAGGTTAGGGAAACGCTACCA 59.723 52.381 0.00 0.00 39.13 3.25
767 768 1.980036 AGGTTAGGGAAACGCTACCAA 59.020 47.619 0.00 0.00 39.13 3.67
768 769 2.372837 AGGTTAGGGAAACGCTACCAAA 59.627 45.455 0.00 0.00 39.13 3.28
769 770 3.009805 AGGTTAGGGAAACGCTACCAAAT 59.990 43.478 0.00 0.00 39.13 2.32
770 771 3.376234 GGTTAGGGAAACGCTACCAAATC 59.624 47.826 0.00 0.00 39.13 2.17
771 772 2.124277 AGGGAAACGCTACCAAATCC 57.876 50.000 0.00 0.00 0.00 3.01
772 773 1.100510 GGGAAACGCTACCAAATCCC 58.899 55.000 0.00 0.00 39.74 3.85
773 774 1.340697 GGGAAACGCTACCAAATCCCT 60.341 52.381 1.40 0.00 42.64 4.20
774 775 2.014857 GGAAACGCTACCAAATCCCTC 58.985 52.381 0.00 0.00 0.00 4.30
775 776 2.014857 GAAACGCTACCAAATCCCTCC 58.985 52.381 0.00 0.00 0.00 4.30
776 777 0.255033 AACGCTACCAAATCCCTCCC 59.745 55.000 0.00 0.00 0.00 4.30
777 778 0.620700 ACGCTACCAAATCCCTCCCT 60.621 55.000 0.00 0.00 0.00 4.20
778 779 0.106894 CGCTACCAAATCCCTCCCTC 59.893 60.000 0.00 0.00 0.00 4.30
779 780 0.474614 GCTACCAAATCCCTCCCTCC 59.525 60.000 0.00 0.00 0.00 4.30
780 781 0.759346 CTACCAAATCCCTCCCTCCG 59.241 60.000 0.00 0.00 0.00 4.63
781 782 1.342672 TACCAAATCCCTCCCTCCGC 61.343 60.000 0.00 0.00 0.00 5.54
800 801 2.580867 CTCTTCTTCCTCGCCGCG 60.581 66.667 6.39 6.39 0.00 6.46
928 929 2.043450 CCTCACGCCTCCTCCTCT 60.043 66.667 0.00 0.00 0.00 3.69
985 986 2.607750 AGGAGGGCAAGGCGAAGA 60.608 61.111 0.00 0.00 0.00 2.87
1101 1102 2.433664 CGACGGCGCCTTTAGGTT 60.434 61.111 26.68 0.00 37.57 3.50
1145 1146 3.576982 GGATTTTCGTTTCCCCTTTTCCT 59.423 43.478 0.00 0.00 0.00 3.36
1149 1150 4.659111 TTCGTTTCCCCTTTTCCTTTTC 57.341 40.909 0.00 0.00 0.00 2.29
1166 1167 2.992124 TTCGTTTGTTCTGTCTCCCA 57.008 45.000 0.00 0.00 0.00 4.37
1205 1206 5.939764 TTCCTAGTACATGCTGATGTTCT 57.060 39.130 0.00 0.00 40.05 3.01
1279 1286 2.681344 GTGTTCGTTTGAGGTTCCTTGT 59.319 45.455 0.00 0.00 0.00 3.16
1420 1427 4.951094 GGAGGTCTCTTTCTAGCAGTAAGA 59.049 45.833 0.00 0.00 32.03 2.10
1551 1558 1.671328 GGTTCGAAGGGCAAGAATAGC 59.329 52.381 0.00 0.00 0.00 2.97
1597 1604 1.519408 ACCTTTGTGCCGTATCACAC 58.481 50.000 2.49 0.00 45.58 3.82
1754 1761 7.686438 TGAATATAGTGTCACAACAGCAAAT 57.314 32.000 5.62 0.00 35.64 2.32
1780 1788 8.850454 TTTTCGGTGAGAATTTAAGTTTTCTG 57.150 30.769 3.45 0.00 38.86 3.02
1942 1950 9.654663 GATAATAGGTGACCATTCTACCATAAC 57.345 37.037 3.63 0.00 36.94 1.89
1953 1961 7.456902 ACCATTCTACCATAACCTACCGATTAT 59.543 37.037 0.00 0.00 0.00 1.28
2362 2373 8.239998 GTGCTCTTTTTCTACTTTGCTGATATT 58.760 33.333 0.00 0.00 0.00 1.28
2471 2780 6.156775 TCCTCACCAAGTATTCATCATTCTGA 59.843 38.462 0.00 0.00 0.00 3.27
2536 2845 5.126067 TGAAATAATTCACTAGCCTGAGCC 58.874 41.667 0.00 0.00 40.59 4.70
2628 2937 7.531716 AGAACTGTTCATAGTACTCTTCTTCG 58.468 38.462 21.50 0.00 0.00 3.79
2820 3138 9.612066 AGCAAAATAAGTTTGGATTCTTTTTCA 57.388 25.926 2.81 0.00 45.79 2.69
3101 3420 4.037803 AGTATGTGACTTTGTGCAATTGCA 59.962 37.500 28.80 28.80 42.03 4.08
3402 3726 6.951971 AGATTGCTTATTCTAACCTGACTGT 58.048 36.000 0.00 0.00 0.00 3.55
3510 3834 9.894783 CTGGATCATTGATCTGATTTAACATTC 57.105 33.333 22.54 5.48 38.91 2.67
3520 3844 7.589574 TCTGATTTAACATTCGATCGTTTGA 57.410 32.000 21.10 6.42 0.00 2.69
3531 3855 7.492669 ACATTCGATCGTTTGAGATGAACTTAT 59.507 33.333 21.10 0.00 0.00 1.73
3534 3858 6.472486 TCGATCGTTTGAGATGAACTTATGTC 59.528 38.462 15.94 0.00 0.00 3.06
3655 3979 8.613482 CAACGGGTTTTGTGGTTTAAATTATTT 58.387 29.630 0.00 0.00 0.00 1.40
3679 4003 9.906660 TTTTGTTATAACCATCTTTGCTACAAG 57.093 29.630 13.01 0.00 0.00 3.16
3748 4072 3.162666 CCTACTGAGTCACCACTTACCA 58.837 50.000 0.00 0.00 30.63 3.25
3768 4092 5.838529 ACCATTTTAGTGGCAGTTTGTAAC 58.161 37.500 0.00 0.00 43.27 2.50
3862 4446 3.743911 TGTGGTTAACATACTCGTTGCAG 59.256 43.478 8.10 0.00 32.36 4.41
3897 4481 5.648178 ATTCATGCATTGCTAGTTCAACA 57.352 34.783 10.49 0.00 0.00 3.33
3909 4493 8.621532 TTGCTAGTTCAACATAAGTTCAGATT 57.378 30.769 0.00 0.00 35.28 2.40
4037 4621 7.081349 TGATGAATTGTTTAAGGCAGTTTACG 58.919 34.615 0.00 0.00 0.00 3.18
4067 4653 7.633193 TTTTCAACAGTGGCTCTTTTACTTA 57.367 32.000 0.00 0.00 0.00 2.24
4071 4657 5.629079 ACAGTGGCTCTTTTACTTAATGC 57.371 39.130 0.00 0.00 0.00 3.56
4072 4658 5.070001 ACAGTGGCTCTTTTACTTAATGCA 58.930 37.500 0.00 0.00 0.00 3.96
4087 4673 9.632807 TTACTTAATGCACATCGCTTAAATTTT 57.367 25.926 0.00 0.00 43.06 1.82
4140 4851 6.183359 GCATGTCTGCGTTCTTAATTTTTGAG 60.183 38.462 0.00 0.00 38.92 3.02
4176 4887 5.121925 CCACATTCTGTCATCTGAGAAACTG 59.878 44.000 0.00 0.00 32.07 3.16
4177 4888 5.121925 CACATTCTGTCATCTGAGAAACTGG 59.878 44.000 0.00 0.00 32.07 4.00
4178 4889 5.012458 ACATTCTGTCATCTGAGAAACTGGA 59.988 40.000 0.00 0.00 32.07 3.86
4179 4890 5.551305 TTCTGTCATCTGAGAAACTGGAA 57.449 39.130 0.00 0.00 0.00 3.53
4180 4891 5.551305 TCTGTCATCTGAGAAACTGGAAA 57.449 39.130 0.00 0.00 0.00 3.13
4181 4892 5.545588 TCTGTCATCTGAGAAACTGGAAAG 58.454 41.667 0.00 0.00 0.00 2.62
4182 4893 5.070981 TCTGTCATCTGAGAAACTGGAAAGT 59.929 40.000 0.00 0.00 0.00 2.66
4183 4894 6.267699 TCTGTCATCTGAGAAACTGGAAAGTA 59.732 38.462 0.00 0.00 0.00 2.24
4184 4895 6.459066 TGTCATCTGAGAAACTGGAAAGTAG 58.541 40.000 0.00 0.00 0.00 2.57
4185 4896 6.042093 TGTCATCTGAGAAACTGGAAAGTAGT 59.958 38.462 0.00 0.00 0.00 2.73
4186 4897 6.367422 GTCATCTGAGAAACTGGAAAGTAGTG 59.633 42.308 0.00 0.00 0.00 2.74
4187 4898 5.215252 TCTGAGAAACTGGAAAGTAGTGG 57.785 43.478 0.00 0.00 0.00 4.00
4188 4899 3.740115 TGAGAAACTGGAAAGTAGTGGC 58.260 45.455 0.00 0.00 0.00 5.01
4189 4900 3.135712 TGAGAAACTGGAAAGTAGTGGCA 59.864 43.478 0.00 0.00 0.00 4.92
4190 4901 4.202461 TGAGAAACTGGAAAGTAGTGGCAT 60.202 41.667 0.00 0.00 0.00 4.40
4193 4904 2.269940 ACTGGAAAGTAGTGGCATCCT 58.730 47.619 4.36 0.00 0.00 3.24
4194 4905 3.450904 ACTGGAAAGTAGTGGCATCCTA 58.549 45.455 4.36 0.00 0.00 2.94
4195 4906 4.040755 ACTGGAAAGTAGTGGCATCCTAT 58.959 43.478 4.36 0.00 0.00 2.57
4197 4908 5.665812 ACTGGAAAGTAGTGGCATCCTATTA 59.334 40.000 4.36 0.00 0.00 0.98
4198 4909 6.330250 ACTGGAAAGTAGTGGCATCCTATTAT 59.670 38.462 4.36 0.00 0.00 1.28
4199 4910 7.512746 ACTGGAAAGTAGTGGCATCCTATTATA 59.487 37.037 4.36 0.00 0.00 0.98
4200 4911 8.449423 TGGAAAGTAGTGGCATCCTATTATAT 57.551 34.615 4.36 0.00 0.00 0.86
4201 4912 8.890472 TGGAAAGTAGTGGCATCCTATTATATT 58.110 33.333 4.36 0.00 0.00 1.28
4205 4916 8.320338 AGTAGTGGCATCCTATTATATTACCC 57.680 38.462 0.00 0.00 0.00 3.69
4206 4917 8.129656 AGTAGTGGCATCCTATTATATTACCCT 58.870 37.037 0.00 0.00 0.00 4.34
4207 4918 9.430399 GTAGTGGCATCCTATTATATTACCCTA 57.570 37.037 0.00 0.00 0.00 3.53
4208 4919 8.927059 AGTGGCATCCTATTATATTACCCTAA 57.073 34.615 0.00 0.00 0.00 2.69
4209 4920 8.993424 AGTGGCATCCTATTATATTACCCTAAG 58.007 37.037 0.00 0.00 0.00 2.18
4210 4921 8.211629 GTGGCATCCTATTATATTACCCTAAGG 58.788 40.741 0.00 0.00 40.04 2.69
4232 4943 4.392138 GGGGTAAGTTGAAATCTCTTCACG 59.608 45.833 0.00 0.00 0.00 4.35
4289 5103 5.482908 AGCAAGAAAACGAGACTGTATCAT 58.517 37.500 3.11 0.00 0.00 2.45
4461 5294 1.000163 TCACGCCACTCTCTTGTCTTC 60.000 52.381 0.00 0.00 0.00 2.87
4578 5423 2.031944 GGTCTTCTTGTTCGGCTTCAAC 60.032 50.000 0.00 0.00 0.00 3.18
4668 5520 1.004277 GGAGCCTTGTAACCCATGACA 59.996 52.381 0.00 0.00 0.00 3.58
4759 5614 2.224719 ACAGCAGCAGAAATGAGTTCCT 60.225 45.455 0.00 0.00 36.86 3.36
4846 5706 3.197790 CACGGCAGCATCGAAGGG 61.198 66.667 0.00 0.00 0.00 3.95
4849 5709 2.272146 GGCAGCATCGAAGGGGAA 59.728 61.111 0.00 0.00 0.00 3.97
4853 5713 1.879796 GCAGCATCGAAGGGGAATAGG 60.880 57.143 0.00 0.00 0.00 2.57
4872 5732 1.291132 GCTTCGTTCTAGGTCATGGC 58.709 55.000 0.00 0.00 0.00 4.40
4922 5785 3.618752 CGGTGACATATTCAGGTTCACCA 60.619 47.826 16.98 0.00 44.39 4.17
4941 5814 2.554032 CCATCCGTTTGAACTGCTTCTT 59.446 45.455 0.00 0.00 0.00 2.52
4970 5843 1.322442 ACCTGGCTCACTTTTGCTTC 58.678 50.000 0.00 0.00 0.00 3.86
4984 5857 2.879233 GCTTCGTGACCAGGGTGGA 61.879 63.158 0.00 0.00 40.96 4.02
4987 5860 0.834261 TTCGTGACCAGGGTGGATGA 60.834 55.000 0.00 0.00 40.96 2.92
4988 5861 1.079127 CGTGACCAGGGTGGATGAC 60.079 63.158 0.00 0.00 40.96 3.06
4989 5862 1.826340 CGTGACCAGGGTGGATGACA 61.826 60.000 0.00 0.00 40.96 3.58
4990 5863 0.620556 GTGACCAGGGTGGATGACAT 59.379 55.000 0.00 0.00 40.96 3.06
5015 5888 4.633175 GCTAGTTTCTTATCTGGGTAGGC 58.367 47.826 0.00 0.00 0.00 3.93
5017 5890 2.434702 AGTTTCTTATCTGGGTAGGCCG 59.565 50.000 0.00 0.00 34.97 6.13
5032 5905 2.956964 CCGGCGAGAATGCGAGAC 60.957 66.667 9.30 0.00 35.06 3.36
5055 5928 3.401182 CTGGCTATCTTCTTCATGCCTC 58.599 50.000 0.00 0.00 40.82 4.70
5083 5956 2.036089 GACCTCTTTAGCCATACTCGGG 59.964 54.545 0.00 0.00 0.00 5.14
5090 5963 5.533903 TCTTTAGCCATACTCGGGTTACTAG 59.466 44.000 0.00 0.00 37.99 2.57
5091 5964 1.962100 AGCCATACTCGGGTTACTAGC 59.038 52.381 0.00 0.00 30.88 3.42
5143 6045 4.514781 TCGATCTGAAATATACCGTGGG 57.485 45.455 0.00 0.00 0.00 4.61
5200 6113 9.760077 TCTTGGTATAGCTAACTTTATAGTTGC 57.240 33.333 8.63 9.62 44.22 4.17
5236 9205 2.655364 CATCGTCTGTAGGCGGCG 60.655 66.667 0.51 0.51 0.00 6.46
5237 9206 2.827190 ATCGTCTGTAGGCGGCGA 60.827 61.111 12.98 0.00 35.35 5.54
5238 9207 3.122250 ATCGTCTGTAGGCGGCGAC 62.122 63.158 12.98 8.50 34.35 5.19
5239 9208 4.111016 CGTCTGTAGGCGGCGACA 62.111 66.667 22.72 22.72 0.00 4.35
5240 9209 2.202623 GTCTGTAGGCGGCGACAG 60.203 66.667 35.72 35.72 43.70 3.51
5241 9210 4.129737 TCTGTAGGCGGCGACAGC 62.130 66.667 36.32 7.71 42.35 4.40
5253 9222 1.846541 GCGACAGCATCTCTCTTACC 58.153 55.000 0.00 0.00 44.35 2.85
5258 9227 2.437281 ACAGCATCTCTCTTACCATGGG 59.563 50.000 18.09 0.00 0.00 4.00
5381 9394 1.301874 CCCCGTTCGTTGGCAACTA 60.302 57.895 26.26 14.55 37.61 2.24
5382 9395 1.571215 CCCCGTTCGTTGGCAACTAC 61.571 60.000 26.26 21.27 39.08 2.73
5398 9411 3.610786 ACTACGTACTGCAGATGATCG 57.389 47.619 23.35 17.67 0.00 3.69
5425 9448 2.882777 CAGAGTGCGCGGCAGTAG 60.883 66.667 8.83 2.43 42.74 2.57
5426 9449 4.803426 AGAGTGCGCGGCAGTAGC 62.803 66.667 8.83 0.00 42.74 3.58
5442 9465 0.617935 TAGCCATGCCTGCAACAGTA 59.382 50.000 0.00 0.00 0.00 2.74
5461 9486 2.722487 CCGAGCTACTACCTGCCG 59.278 66.667 0.00 0.00 0.00 5.69
5512 9549 5.964958 TTCAAACCAAGGATGATGAAGAC 57.035 39.130 0.00 0.00 0.00 3.01
5573 9610 0.911769 TGTCGCCTTCCCTTCATCAT 59.088 50.000 0.00 0.00 0.00 2.45
5574 9611 1.134401 TGTCGCCTTCCCTTCATCATC 60.134 52.381 0.00 0.00 0.00 2.92
5575 9612 1.134401 GTCGCCTTCCCTTCATCATCA 60.134 52.381 0.00 0.00 0.00 3.07
5605 9642 7.916450 AGTAAAATAAGAATTCGACGGAGAGAG 59.084 37.037 0.00 0.00 0.00 3.20
5606 9643 5.838531 AATAAGAATTCGACGGAGAGAGT 57.161 39.130 0.00 0.00 0.00 3.24
5667 9720 5.618056 CATGTGTACTTCATGCTTTCTGT 57.382 39.130 14.85 0.00 36.68 3.41
5687 9740 2.885861 GCTCACGGACGGACTCAT 59.114 61.111 0.00 0.00 0.00 2.90
5713 9769 1.021390 GGACTCCACCGCACATTCAG 61.021 60.000 0.00 0.00 0.00 3.02
5714 9770 0.320771 GACTCCACCGCACATTCAGT 60.321 55.000 0.00 0.00 0.00 3.41
5727 9783 4.527509 ACATTCAGTGACTCGATTCAGT 57.472 40.909 5.61 6.50 0.00 3.41
5728 9784 4.240888 ACATTCAGTGACTCGATTCAGTG 58.759 43.478 26.44 26.44 45.03 3.66
5729 9785 2.354109 TCAGTGACTCGATTCAGTGC 57.646 50.000 27.16 9.14 43.84 4.40
5730 9786 1.889170 TCAGTGACTCGATTCAGTGCT 59.111 47.619 27.16 11.02 43.84 4.40
5731 9787 2.095008 TCAGTGACTCGATTCAGTGCTC 60.095 50.000 27.16 8.52 43.84 4.26
5732 9788 2.094803 CAGTGACTCGATTCAGTGCTCT 60.095 50.000 22.77 7.22 39.49 4.09
5733 9789 2.163412 AGTGACTCGATTCAGTGCTCTC 59.837 50.000 11.91 0.00 0.00 3.20
5734 9790 1.131315 TGACTCGATTCAGTGCTCTCG 59.869 52.381 0.65 3.36 0.00 4.04
5735 9791 0.179150 ACTCGATTCAGTGCTCTCGC 60.179 55.000 0.00 0.00 0.00 5.03
5736 9792 0.179153 CTCGATTCAGTGCTCTCGCA 60.179 55.000 0.00 0.00 45.60 5.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 0.614415 TGGCAATGGCGGAGGATTTT 60.614 50.000 1.51 0.00 42.47 1.82
49 50 2.109774 GACCCAATTTGGCATCATCCA 58.890 47.619 10.10 0.00 35.79 3.41
81 82 2.811317 CGACAAGCAGACGGGCTC 60.811 66.667 0.00 0.00 45.07 4.70
211 212 1.342374 GGAGCATTGGGATGGGAAGTT 60.342 52.381 0.00 0.00 33.72 2.66
322 323 0.108585 AGAGAAACCGGTGTGCACAT 59.891 50.000 24.69 5.25 0.00 3.21
486 487 9.814899 TCTCTCTTTCTTTTCTGCTCTATAATG 57.185 33.333 0.00 0.00 0.00 1.90
522 523 6.066690 CCCACATGTCATATCCATCTTCTTT 58.933 40.000 0.00 0.00 0.00 2.52
550 551 4.334203 ACACGCTTCTCTCACTGACTATAG 59.666 45.833 0.00 0.00 0.00 1.31
578 579 2.119495 GGAAAGGACTATCCCAGCTGA 58.881 52.381 17.39 0.00 37.19 4.26
652 653 4.072131 TGAAATTGGCACCTTGTACTCTC 58.928 43.478 0.00 0.00 0.00 3.20
690 691 3.756117 ACTCCAAGTCTGAATCAAACCC 58.244 45.455 0.00 0.00 0.00 4.11
744 745 2.344025 GTAGCGTTTCCCTAACCTGTG 58.656 52.381 0.00 0.00 32.92 3.66
745 746 1.277273 GGTAGCGTTTCCCTAACCTGT 59.723 52.381 0.00 0.00 32.92 4.00
746 747 1.276989 TGGTAGCGTTTCCCTAACCTG 59.723 52.381 0.00 0.00 32.92 4.00
747 748 1.648116 TGGTAGCGTTTCCCTAACCT 58.352 50.000 0.00 0.00 32.92 3.50
748 749 2.477845 TTGGTAGCGTTTCCCTAACC 57.522 50.000 0.00 0.00 32.92 2.85
749 750 3.376234 GGATTTGGTAGCGTTTCCCTAAC 59.624 47.826 0.00 0.00 0.00 2.34
750 751 3.613030 GGATTTGGTAGCGTTTCCCTAA 58.387 45.455 0.00 0.00 0.00 2.69
751 752 2.092807 GGGATTTGGTAGCGTTTCCCTA 60.093 50.000 15.09 0.00 39.79 3.53
752 753 1.340697 GGGATTTGGTAGCGTTTCCCT 60.341 52.381 15.09 0.00 39.79 4.20
753 754 1.100510 GGGATTTGGTAGCGTTTCCC 58.899 55.000 9.33 9.33 36.33 3.97
754 755 2.014857 GAGGGATTTGGTAGCGTTTCC 58.985 52.381 0.00 0.00 0.00 3.13
755 756 2.014857 GGAGGGATTTGGTAGCGTTTC 58.985 52.381 0.00 0.00 0.00 2.78
756 757 1.340697 GGGAGGGATTTGGTAGCGTTT 60.341 52.381 0.00 0.00 0.00 3.60
757 758 0.255033 GGGAGGGATTTGGTAGCGTT 59.745 55.000 0.00 0.00 0.00 4.84
758 759 0.620700 AGGGAGGGATTTGGTAGCGT 60.621 55.000 0.00 0.00 0.00 5.07
759 760 0.106894 GAGGGAGGGATTTGGTAGCG 59.893 60.000 0.00 0.00 0.00 4.26
760 761 0.474614 GGAGGGAGGGATTTGGTAGC 59.525 60.000 0.00 0.00 0.00 3.58
761 762 0.759346 CGGAGGGAGGGATTTGGTAG 59.241 60.000 0.00 0.00 0.00 3.18
762 763 1.342672 GCGGAGGGAGGGATTTGGTA 61.343 60.000 0.00 0.00 0.00 3.25
763 764 2.680370 GCGGAGGGAGGGATTTGGT 61.680 63.158 0.00 0.00 0.00 3.67
764 765 2.193248 GCGGAGGGAGGGATTTGG 59.807 66.667 0.00 0.00 0.00 3.28
765 766 1.147153 GAGCGGAGGGAGGGATTTG 59.853 63.158 0.00 0.00 0.00 2.32
766 767 1.003573 AGAGCGGAGGGAGGGATTT 59.996 57.895 0.00 0.00 0.00 2.17
767 768 1.458588 GAGAGCGGAGGGAGGGATT 60.459 63.158 0.00 0.00 0.00 3.01
768 769 1.955458 AAGAGAGCGGAGGGAGGGAT 61.955 60.000 0.00 0.00 0.00 3.85
769 770 2.575455 GAAGAGAGCGGAGGGAGGGA 62.575 65.000 0.00 0.00 0.00 4.20
770 771 2.042435 AAGAGAGCGGAGGGAGGG 60.042 66.667 0.00 0.00 0.00 4.30
771 772 0.686112 AAGAAGAGAGCGGAGGGAGG 60.686 60.000 0.00 0.00 0.00 4.30
772 773 0.744281 GAAGAAGAGAGCGGAGGGAG 59.256 60.000 0.00 0.00 0.00 4.30
773 774 0.684805 GGAAGAAGAGAGCGGAGGGA 60.685 60.000 0.00 0.00 0.00 4.20
774 775 0.686112 AGGAAGAAGAGAGCGGAGGG 60.686 60.000 0.00 0.00 0.00 4.30
775 776 0.744281 GAGGAAGAAGAGAGCGGAGG 59.256 60.000 0.00 0.00 0.00 4.30
776 777 0.380378 CGAGGAAGAAGAGAGCGGAG 59.620 60.000 0.00 0.00 0.00 4.63
777 778 1.658686 GCGAGGAAGAAGAGAGCGGA 61.659 60.000 0.00 0.00 0.00 5.54
778 779 1.226831 GCGAGGAAGAAGAGAGCGG 60.227 63.158 0.00 0.00 0.00 5.52
779 780 1.226831 GGCGAGGAAGAAGAGAGCG 60.227 63.158 0.00 0.00 0.00 5.03
780 781 1.226831 CGGCGAGGAAGAAGAGAGC 60.227 63.158 0.00 0.00 0.00 4.09
781 782 1.226831 GCGGCGAGGAAGAAGAGAG 60.227 63.158 12.98 0.00 0.00 3.20
800 801 2.356227 GGGGAGTGAGGAAAGAATCACC 60.356 54.545 1.90 0.00 45.61 4.02
836 837 0.460987 ATCAGTAGTGAGCAAGCGCC 60.461 55.000 2.29 0.00 39.83 6.53
915 916 1.379309 GAGTGAGAGGAGGAGGCGT 60.379 63.158 0.00 0.00 0.00 5.68
923 924 2.043852 GGCTCGGGAGTGAGAGGA 60.044 66.667 0.00 0.00 38.28 3.71
985 986 2.579201 CATTGCGTCCTCTCGGGT 59.421 61.111 0.00 0.00 36.25 5.28
1101 1102 3.794690 GCGGCAGCGATCTATTCTA 57.205 52.632 0.00 0.00 0.00 2.10
1145 1146 3.375922 GTGGGAGACAGAACAAACGAAAA 59.624 43.478 0.00 0.00 0.00 2.29
1149 1150 1.226746 GGTGGGAGACAGAACAAACG 58.773 55.000 0.00 0.00 0.00 3.60
1186 1187 5.268118 TGGAGAACATCAGCATGTACTAG 57.732 43.478 0.00 0.00 42.89 2.57
1205 1206 2.986355 GCCCCGGGTTACCAATGGA 61.986 63.158 21.85 0.00 36.13 3.41
1279 1286 4.986054 AAAGTACAGGTTCACCATACCA 57.014 40.909 0.00 0.00 38.16 3.25
1420 1427 8.645110 AGAGAAATTTCAACAATGAACCAAGAT 58.355 29.630 19.99 0.00 45.01 2.40
1526 1533 0.902531 CTTGCCCTTCGAACCTCCTA 59.097 55.000 0.00 0.00 0.00 2.94
1551 1558 5.757850 AACAGTCTTACTTTTGCTTCCAG 57.242 39.130 0.00 0.00 0.00 3.86
1754 1761 9.296400 CAGAAAACTTAAATTCTCACCGAAAAA 57.704 29.630 0.00 0.00 33.73 1.94
1780 1788 3.371965 TCCTGACCCTACTATCACCAAC 58.628 50.000 0.00 0.00 0.00 3.77
2413 2434 3.736126 GCTACATCATTTCAGCAAAGCCC 60.736 47.826 0.00 0.00 34.13 5.19
2414 2435 3.119388 TGCTACATCATTTCAGCAAAGCC 60.119 43.478 0.00 0.00 40.87 4.35
2442 2751 3.895232 TGAATACTTGGTGAGGAGCTC 57.105 47.619 4.71 4.71 0.00 4.09
2471 2780 3.690139 TGTTACATGTTTGTGTGGTCGTT 59.310 39.130 2.30 0.00 36.53 3.85
2536 2845 9.745018 AGAACACCATATAAATTATGATGGGAG 57.255 33.333 17.56 13.92 42.72 4.30
2820 3138 5.740290 TGAGGAAAGAATACCGAGAAAGT 57.260 39.130 0.00 0.00 0.00 2.66
2963 3282 1.202533 CCAAGTGACCAGACTGAACGT 60.203 52.381 3.32 0.00 0.00 3.99
3101 3420 5.749462 AGCAAGATACATAAGCAAAGAGGT 58.251 37.500 0.00 0.00 0.00 3.85
3379 3703 6.818644 TGACAGTCAGGTTAGAATAAGCAATC 59.181 38.462 0.00 0.00 0.00 2.67
3491 3815 8.370493 ACGATCGAATGTTAAATCAGATCAAT 57.630 30.769 24.34 0.00 34.40 2.57
3510 3834 6.558614 CGACATAAGTTCATCTCAAACGATCG 60.559 42.308 14.88 14.88 0.00 3.69
3541 3865 3.989817 GCCACTGCAAAGAATACCAAAAG 59.010 43.478 0.00 0.00 37.47 2.27
3655 3979 8.856153 TCTTGTAGCAAAGATGGTTATAACAA 57.144 30.769 17.16 6.54 38.46 2.83
3679 4003 6.597614 GCTACAGCTATTAGAATGTGCAATC 58.402 40.000 10.57 0.00 38.21 2.67
3711 4035 3.092301 AGTAGGGGTAACGTTAGGTGAC 58.908 50.000 8.60 0.00 37.60 3.67
3847 4431 1.877637 TGCACTGCAACGAGTATGTT 58.122 45.000 0.00 0.00 34.76 2.71
3862 4446 7.384115 AGCAATGCATGAATATTTCTAATGCAC 59.616 33.333 21.29 13.86 45.69 4.57
3897 4481 5.078411 ACGAGACAGCAATCTGAACTTAT 57.922 39.130 0.00 0.00 42.95 1.73
3909 4493 2.677836 GGCATAATTCAACGAGACAGCA 59.322 45.455 0.00 0.00 0.00 4.41
4037 4621 2.031870 AGCCACTGTTGAAAAAGGACC 58.968 47.619 0.00 0.00 0.00 4.46
4133 4719 4.142116 TGTGGACTGTCGAGTACTCAAAAA 60.142 41.667 22.37 4.49 34.28 1.94
4140 4851 3.502920 CAGAATGTGGACTGTCGAGTAC 58.497 50.000 1.07 0.00 32.92 2.73
4163 4874 5.641209 CCACTACTTTCCAGTTTCTCAGATG 59.359 44.000 0.00 0.00 34.06 2.90
4179 4890 8.769359 GGGTAATATAATAGGATGCCACTACTT 58.231 37.037 0.00 0.00 0.00 2.24
4180 4891 8.129656 AGGGTAATATAATAGGATGCCACTACT 58.870 37.037 0.00 0.00 0.00 2.57
4181 4892 8.320338 AGGGTAATATAATAGGATGCCACTAC 57.680 38.462 0.00 0.00 0.00 2.73
4183 4894 8.927059 TTAGGGTAATATAATAGGATGCCACT 57.073 34.615 0.00 0.00 0.00 4.00
4184 4895 8.211629 CCTTAGGGTAATATAATAGGATGCCAC 58.788 40.741 0.00 0.00 0.00 5.01
4185 4896 7.349859 CCCTTAGGGTAATATAATAGGATGCCA 59.650 40.741 9.64 0.00 38.25 4.92
4186 4897 7.746703 CCCTTAGGGTAATATAATAGGATGCC 58.253 42.308 9.64 0.00 38.25 4.40
4204 4915 6.314899 AGAGATTTCAACTTACCCCTTAGG 57.685 41.667 0.00 0.00 43.78 2.69
4205 4916 7.334671 GTGAAGAGATTTCAACTTACCCCTTAG 59.665 40.741 0.00 0.00 0.00 2.18
4206 4917 7.166167 GTGAAGAGATTTCAACTTACCCCTTA 58.834 38.462 0.00 0.00 0.00 2.69
4207 4918 6.004574 GTGAAGAGATTTCAACTTACCCCTT 58.995 40.000 0.00 0.00 0.00 3.95
4208 4919 5.561679 GTGAAGAGATTTCAACTTACCCCT 58.438 41.667 0.00 0.00 0.00 4.79
4209 4920 4.392138 CGTGAAGAGATTTCAACTTACCCC 59.608 45.833 0.00 0.00 0.00 4.95
4210 4921 5.235516 TCGTGAAGAGATTTCAACTTACCC 58.764 41.667 0.00 0.00 0.00 3.69
4211 4922 6.780706 TTCGTGAAGAGATTTCAACTTACC 57.219 37.500 0.00 0.00 0.00 2.85
4212 4923 7.627340 TGTTTCGTGAAGAGATTTCAACTTAC 58.373 34.615 0.00 0.00 0.00 2.34
4213 4924 7.780008 TGTTTCGTGAAGAGATTTCAACTTA 57.220 32.000 0.00 0.00 0.00 2.24
4214 4925 6.677781 TGTTTCGTGAAGAGATTTCAACTT 57.322 33.333 0.00 0.00 0.00 2.66
4215 4926 6.677781 TTGTTTCGTGAAGAGATTTCAACT 57.322 33.333 0.00 0.00 0.00 3.16
4216 4927 7.132213 TGATTGTTTCGTGAAGAGATTTCAAC 58.868 34.615 0.00 0.00 0.00 3.18
4217 4928 7.258022 TGATTGTTTCGTGAAGAGATTTCAA 57.742 32.000 0.00 0.00 0.00 2.69
4218 4929 6.859420 TGATTGTTTCGTGAAGAGATTTCA 57.141 33.333 0.00 0.00 0.00 2.69
4219 4930 7.132213 TGTTGATTGTTTCGTGAAGAGATTTC 58.868 34.615 0.00 0.00 0.00 2.17
4578 5423 3.749226 GAGGAAGAATGCAAGGGATAGG 58.251 50.000 0.00 0.00 0.00 2.57
4668 5520 1.135333 GTTAGCAGAGCTCGTTAGGCT 59.865 52.381 18.63 18.63 40.44 4.58
4803 5658 0.529119 ATAATCCGTTCCACGACGCC 60.529 55.000 0.00 0.00 46.05 5.68
4842 5702 2.197465 AGAACGAAGCCTATTCCCCTT 58.803 47.619 0.00 0.00 0.00 3.95
4846 5706 3.383825 TGACCTAGAACGAAGCCTATTCC 59.616 47.826 0.00 0.00 0.00 3.01
4849 5709 3.322254 CCATGACCTAGAACGAAGCCTAT 59.678 47.826 0.00 0.00 0.00 2.57
4853 5713 1.291132 GCCATGACCTAGAACGAAGC 58.709 55.000 0.00 0.00 0.00 3.86
4872 5732 0.031178 GCCTTGCCTCAACAACAGTG 59.969 55.000 0.00 0.00 0.00 3.66
4922 5785 3.004734 CCAAAGAAGCAGTTCAAACGGAT 59.995 43.478 0.00 0.00 34.82 4.18
4957 5830 1.939934 TGGTCACGAAGCAAAAGTGAG 59.060 47.619 4.90 0.00 44.32 3.51
4970 5843 1.079127 GTCATCCACCCTGGTCACG 60.079 63.158 0.00 0.00 39.03 4.35
4984 5857 7.148641 CCAGATAAGAAACTAGCGTATGTCAT 58.851 38.462 0.00 0.00 0.00 3.06
4987 5860 5.363005 ACCCAGATAAGAAACTAGCGTATGT 59.637 40.000 0.00 0.00 0.00 2.29
4988 5861 5.844004 ACCCAGATAAGAAACTAGCGTATG 58.156 41.667 0.00 0.00 0.00 2.39
4989 5862 6.208994 CCTACCCAGATAAGAAACTAGCGTAT 59.791 42.308 0.00 0.00 0.00 3.06
4990 5863 5.533903 CCTACCCAGATAAGAAACTAGCGTA 59.466 44.000 0.00 0.00 0.00 4.42
5015 5888 2.956964 GTCTCGCATTCTCGCCGG 60.957 66.667 0.00 0.00 0.00 6.13
5032 5905 1.530293 GCATGAAGAAGATAGCCAGCG 59.470 52.381 0.00 0.00 0.00 5.18
5042 5915 3.192212 GTCAAAAGGGAGGCATGAAGAAG 59.808 47.826 0.00 0.00 0.00 2.85
5055 5928 3.154827 TGGCTAAAGAGGTCAAAAGGG 57.845 47.619 0.00 0.00 0.00 3.95
5083 5956 3.508762 TCTGCGCAAGTTAGCTAGTAAC 58.491 45.455 13.05 6.96 41.39 2.50
5090 5963 0.375106 GGACATCTGCGCAAGTTAGC 59.625 55.000 13.05 0.00 41.68 3.09
5091 5964 1.725641 TGGACATCTGCGCAAGTTAG 58.274 50.000 13.05 0.00 41.68 2.34
5137 6039 1.449601 GCTGACACATACCCCACGG 60.450 63.158 0.00 0.00 0.00 4.94
5138 6040 0.821517 TAGCTGACACATACCCCACG 59.178 55.000 0.00 0.00 0.00 4.94
5139 6041 2.027561 TGTTAGCTGACACATACCCCAC 60.028 50.000 7.32 0.00 0.00 4.61
5140 6042 2.261729 TGTTAGCTGACACATACCCCA 58.738 47.619 7.32 0.00 0.00 4.96
5161 6063 2.738147 CCAAGAGTTCGTGGTAGCG 58.262 57.895 6.00 0.00 40.04 4.26
5200 6113 3.156511 TGCTCAGATTTCTCTACAGCG 57.843 47.619 0.00 0.00 38.56 5.18
5236 9205 3.494048 CCCATGGTAAGAGAGATGCTGTC 60.494 52.174 11.73 0.00 0.00 3.51
5237 9206 2.437281 CCCATGGTAAGAGAGATGCTGT 59.563 50.000 11.73 0.00 0.00 4.40
5238 9207 2.437281 ACCCATGGTAAGAGAGATGCTG 59.563 50.000 11.73 0.00 32.11 4.41
5239 9208 2.703007 GACCCATGGTAAGAGAGATGCT 59.297 50.000 11.73 0.00 35.25 3.79
5240 9209 2.435805 TGACCCATGGTAAGAGAGATGC 59.564 50.000 11.73 0.00 35.25 3.91
5241 9210 3.491619 CGTGACCCATGGTAAGAGAGATG 60.492 52.174 11.73 0.00 35.25 2.90
5242 9211 2.695666 CGTGACCCATGGTAAGAGAGAT 59.304 50.000 11.73 0.00 35.25 2.75
5243 9212 2.100197 CGTGACCCATGGTAAGAGAGA 58.900 52.381 11.73 0.00 35.25 3.10
5244 9213 1.137086 CCGTGACCCATGGTAAGAGAG 59.863 57.143 11.73 0.00 35.25 3.20
5245 9214 1.191535 CCGTGACCCATGGTAAGAGA 58.808 55.000 11.73 0.00 35.25 3.10
5246 9215 0.178068 CCCGTGACCCATGGTAAGAG 59.822 60.000 11.73 0.00 38.76 2.85
5247 9216 1.268992 CCCCGTGACCCATGGTAAGA 61.269 60.000 11.73 0.00 38.76 2.10
5248 9217 1.223487 CCCCGTGACCCATGGTAAG 59.777 63.158 11.73 0.00 38.76 2.34
5249 9218 2.974041 GCCCCGTGACCCATGGTAA 61.974 63.158 11.73 0.00 38.76 2.85
5250 9219 3.404438 GCCCCGTGACCCATGGTA 61.404 66.667 11.73 0.00 38.76 3.25
5308 9286 2.184579 GGCTCCTACGACACAGCC 59.815 66.667 0.00 0.00 44.63 4.85
5381 9394 1.268794 GCTCGATCATCTGCAGTACGT 60.269 52.381 14.67 0.00 0.00 3.57
5382 9395 1.403493 GCTCGATCATCTGCAGTACG 58.597 55.000 14.67 12.81 0.00 3.67
5383 9396 1.604185 GGGCTCGATCATCTGCAGTAC 60.604 57.143 14.67 1.37 0.00 2.73
5384 9397 0.676184 GGGCTCGATCATCTGCAGTA 59.324 55.000 14.67 0.48 0.00 2.74
5385 9398 1.445095 GGGCTCGATCATCTGCAGT 59.555 57.895 14.67 0.00 0.00 4.40
5421 9444 0.679002 CTGTTGCAGGCATGGCTACT 60.679 55.000 22.88 0.00 37.77 2.57
5422 9445 0.962356 ACTGTTGCAGGCATGGCTAC 60.962 55.000 22.88 17.43 35.51 3.58
5423 9446 0.617935 TACTGTTGCAGGCATGGCTA 59.382 50.000 22.88 4.25 35.51 3.93
5424 9447 0.679002 CTACTGTTGCAGGCATGGCT 60.679 55.000 17.44 17.44 35.51 4.75
5425 9448 1.805254 CTACTGTTGCAGGCATGGC 59.195 57.895 12.14 12.14 35.51 4.40
5426 9449 1.660560 GGCTACTGTTGCAGGCATGG 61.661 60.000 15.60 0.00 37.30 3.66
5433 9456 2.272923 TAGCTCGGCTACTGTTGCA 58.727 52.632 15.60 0.00 40.44 4.08
5442 9465 2.128507 GGCAGGTAGTAGCTCGGCT 61.129 63.158 10.45 3.87 43.41 5.52
5512 9549 1.389106 GGAAAGTTAGCGTACTGTGCG 59.611 52.381 14.01 14.01 37.44 5.34
5573 9610 8.653338 CCGTCGAATTCTTATTTTACTTTCTGA 58.347 33.333 3.52 0.00 0.00 3.27
5574 9611 8.653338 TCCGTCGAATTCTTATTTTACTTTCTG 58.347 33.333 3.52 0.00 0.00 3.02
5575 9612 8.767478 TCCGTCGAATTCTTATTTTACTTTCT 57.233 30.769 3.52 0.00 0.00 2.52
5606 9643 1.822990 GGCCAGCACAGTACTGTAGTA 59.177 52.381 27.48 0.00 42.83 1.82
5664 9717 2.202440 CCGTCCGTGAGCGTACAG 60.202 66.667 0.00 0.00 36.15 2.74
5667 9720 2.359107 AGTCCGTCCGTGAGCGTA 60.359 61.111 0.00 0.00 36.15 4.42
5687 9740 0.038599 TGCGGTGGAGTCCTACTACA 59.961 55.000 11.33 6.88 36.53 2.74
5713 9769 2.525055 GAGAGCACTGAATCGAGTCAC 58.475 52.381 12.21 2.47 0.00 3.67
5714 9770 1.131315 CGAGAGCACTGAATCGAGTCA 59.869 52.381 15.60 15.60 37.35 3.41
5715 9771 1.821336 CGAGAGCACTGAATCGAGTC 58.179 55.000 5.80 5.80 37.35 3.36


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

AutoCloner maintained by Alex Coulton.