Multiple sequence alignment - TraesCS2B01G587900

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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 TraesCS2B01G587900 chr2B 100.000 7872 0 0 1 7872 774960023 774952152 0.000000e+00 14537.0
1 TraesCS2B01G587900 chr2A 94.315 6350 220 65 705 7027 759970162 759963927 0.000000e+00 9596.0
2 TraesCS2B01G587900 chr2A 89.508 305 23 6 7419 7720 759963747 759963449 2.070000e-100 377.0
3 TraesCS2B01G587900 chr2A 89.610 77 2 3 7775 7851 760112149 760112219 8.410000e-15 93.5
4 TraesCS2B01G587900 chr2D 95.058 2246 83 7 3719 5959 631792754 631794976 0.000000e+00 3507.0
5 TraesCS2B01G587900 chr2D 93.440 1814 82 20 700 2487 631788971 631790773 0.000000e+00 2656.0
6 TraesCS2B01G587900 chr2D 97.949 1219 23 2 2485 3702 631791456 631792673 0.000000e+00 2111.0
7 TraesCS2B01G587900 chr2D 89.360 1485 74 30 5963 7385 631795086 631796548 0.000000e+00 1790.0
8 TraesCS2B01G587900 chr2D 87.921 505 38 13 7381 7872 631797799 631798293 2.460000e-159 573.0
9 TraesCS2B01G587900 chr2D 93.478 92 2 2 6175 6265 631795328 631795416 4.960000e-27 134.0
10 TraesCS2B01G587900 chr2D 82.353 136 6 9 7727 7851 631488177 631488049 1.400000e-17 102.0
11 TraesCS2B01G587900 chr5B 94.729 702 34 1 1 702 668102545 668101847 0.000000e+00 1088.0
12 TraesCS2B01G587900 chr5B 92.297 714 40 2 1 701 596640570 596639859 0.000000e+00 1000.0
13 TraesCS2B01G587900 chr5B 92.384 709 38 2 1 696 485447335 485448040 0.000000e+00 996.0
14 TraesCS2B01G587900 chr7B 92.384 709 38 4 1 696 103455197 103455902 0.000000e+00 996.0
15 TraesCS2B01G587900 chr7B 94.194 620 32 4 59 676 664802207 664801590 0.000000e+00 942.0
16 TraesCS2B01G587900 chr5D 91.888 715 42 5 1 701 386101525 386102237 0.000000e+00 985.0
17 TraesCS2B01G587900 chr3B 91.516 719 43 2 1 706 121574489 121573776 0.000000e+00 974.0
18 TraesCS2B01G587900 chr3B 90.385 104 4 6 600 701 820089496 820089397 1.780000e-26 132.0
19 TraesCS2B01G587900 chr3A 93.780 627 34 5 59 683 654801786 654801163 0.000000e+00 937.0
20 TraesCS2B01G587900 chr1A 93.780 627 34 5 59 683 552339935 552339312 0.000000e+00 937.0
21 TraesCS2B01G587900 chr1A 91.111 45 4 0 1320 1364 530600059 530600015 2.370000e-05 62.1
22 TraesCS2B01G587900 chr1D 91.111 45 4 0 1320 1364 432022826 432022782 2.370000e-05 62.1
23 TraesCS2B01G587900 chr1B 91.111 45 4 0 1320 1364 583450552 583450508 2.370000e-05 62.1
24 TraesCS2B01G587900 chr1B 92.500 40 3 0 1320 1359 583452740 583452701 3.070000e-04 58.4


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 TraesCS2B01G587900 chr2B 774952152 774960023 7871 True 14537.000000 14537 100.000000 1 7872 1 chr2B.!!$R1 7871
1 TraesCS2B01G587900 chr2A 759963449 759970162 6713 True 4986.500000 9596 91.911500 705 7720 2 chr2A.!!$R1 7015
2 TraesCS2B01G587900 chr2D 631788971 631798293 9322 False 1795.166667 3507 92.867667 700 7872 6 chr2D.!!$F1 7172
3 TraesCS2B01G587900 chr5B 668101847 668102545 698 True 1088.000000 1088 94.729000 1 702 1 chr5B.!!$R2 701
4 TraesCS2B01G587900 chr5B 596639859 596640570 711 True 1000.000000 1000 92.297000 1 701 1 chr5B.!!$R1 700
5 TraesCS2B01G587900 chr5B 485447335 485448040 705 False 996.000000 996 92.384000 1 696 1 chr5B.!!$F1 695
6 TraesCS2B01G587900 chr7B 103455197 103455902 705 False 996.000000 996 92.384000 1 696 1 chr7B.!!$F1 695
7 TraesCS2B01G587900 chr7B 664801590 664802207 617 True 942.000000 942 94.194000 59 676 1 chr7B.!!$R1 617
8 TraesCS2B01G587900 chr5D 386101525 386102237 712 False 985.000000 985 91.888000 1 701 1 chr5D.!!$F1 700
9 TraesCS2B01G587900 chr3B 121573776 121574489 713 True 974.000000 974 91.516000 1 706 1 chr3B.!!$R1 705
10 TraesCS2B01G587900 chr3A 654801163 654801786 623 True 937.000000 937 93.780000 59 683 1 chr3A.!!$R1 624
11 TraesCS2B01G587900 chr1A 552339312 552339935 623 True 937.000000 937 93.780000 59 683 1 chr1A.!!$R2 624

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
886 909 0.041926 GCGTCACGTAAACACCCAAC 60.042 55.000 0.00 0.00 0.00 3.77 F
1139 1178 0.474184 CGGATGAAACCCTAGCCCAT 59.526 55.000 0.00 0.00 0.00 4.00 F
1146 1185 0.578435 AACCCTAGCCCATATCCCCT 59.422 55.000 0.00 0.00 0.00 4.79 F
2704 3444 1.202710 TGCGGACAAAAGCAGGAGTTA 60.203 47.619 0.00 0.00 38.59 2.24 F
4246 5051 0.324614 TGGACGTGAGGAATGCATGT 59.675 50.000 0.00 0.00 38.14 3.21 F
5013 5822 0.036010 AGGGAGCAGTTGATCAACCG 60.036 55.000 30.34 23.35 42.06 4.44 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2332 2388 4.130118 CAACTGTAGCCTAATGGACATCC 58.870 47.826 0.00 0.00 34.57 3.51 R
3093 3833 4.074970 ACATAAAAGAAGACCAGGCTGTG 58.925 43.478 14.43 7.58 0.00 3.66 R
3195 3935 6.291377 ACTTGTGAGGCCATACATAACTATG 58.709 40.000 5.01 0.00 39.55 2.23 R
4646 5453 0.323725 AGGGTGGCATCATGACCAAC 60.324 55.000 11.18 11.18 43.31 3.77 R
5824 6636 0.031314 ACTGTATCAGCTCCATCGCG 59.969 55.000 0.00 0.00 34.37 5.87 R
6949 7921 0.110823 CAAACGGTTGTCTAGCACGC 60.111 55.000 4.63 0.00 0.00 5.34 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
152 155 2.194212 GTCCGAGCTCCGCCTGATA 61.194 63.158 8.47 0.00 36.84 2.15
241 244 4.336433 GCAGTGCCATTGAAGCTTTCTATA 59.664 41.667 2.85 0.00 0.00 1.31
304 307 2.446435 AGGTGACAGTTGCAACACTTT 58.554 42.857 30.11 11.72 34.28 2.66
400 404 2.521708 GCTTGTGGTGGCCCAGTT 60.522 61.111 0.00 0.00 42.94 3.16
401 405 2.133641 GCTTGTGGTGGCCCAGTTT 61.134 57.895 0.00 0.00 42.94 2.66
459 463 1.351017 CTTGAAGGCTGTAGGTTGGGA 59.649 52.381 0.00 0.00 0.00 4.37
696 715 4.258932 ACCGCGCCCAAACGTTTG 62.259 61.111 29.80 29.80 37.90 2.93
708 727 5.746721 GCCCAAACGTTTGCCTTAAATATAG 59.253 40.000 31.02 14.95 36.86 1.31
711 730 4.205323 ACGTTTGCCTTAAATATAGCGC 57.795 40.909 0.00 0.00 0.00 5.92
713 732 3.966218 CGTTTGCCTTAAATATAGCGCAC 59.034 43.478 11.47 0.00 0.00 5.34
719 738 4.748102 GCCTTAAATATAGCGCACACACTA 59.252 41.667 11.47 0.00 0.00 2.74
730 752 6.194796 AGCGCACACACTATATTTCATTTT 57.805 33.333 11.47 0.00 0.00 1.82
732 754 5.275881 GCGCACACACTATATTTCATTTTGC 60.276 40.000 0.30 0.00 0.00 3.68
738 760 5.363580 ACACTATATTTCATTTTGCAGGGGG 59.636 40.000 0.00 0.00 0.00 5.40
739 761 5.363580 CACTATATTTCATTTTGCAGGGGGT 59.636 40.000 0.00 0.00 0.00 4.95
740 762 6.549364 CACTATATTTCATTTTGCAGGGGGTA 59.451 38.462 0.00 0.00 0.00 3.69
741 763 7.233348 CACTATATTTCATTTTGCAGGGGGTAT 59.767 37.037 0.00 0.00 0.00 2.73
755 777 2.464582 GGTATCCCCACCAGATCCC 58.535 63.158 0.00 0.00 38.55 3.85
757 779 0.104409 GTATCCCCACCAGATCCCCT 60.104 60.000 0.00 0.00 0.00 4.79
764 786 0.972983 CACCAGATCCCCTCGTGTCT 60.973 60.000 0.00 0.00 30.65 3.41
834 857 2.832838 TCTACCTTCTCCAGCCAATCA 58.167 47.619 0.00 0.00 0.00 2.57
851 874 1.817099 CACCTGCTCCGATCCAAGC 60.817 63.158 6.97 6.97 39.02 4.01
852 875 2.203126 CCTGCTCCGATCCAAGCC 60.203 66.667 10.56 0.00 37.73 4.35
853 876 2.587194 CTGCTCCGATCCAAGCCG 60.587 66.667 10.56 2.16 37.73 5.52
854 877 3.074369 TGCTCCGATCCAAGCCGA 61.074 61.111 10.56 0.00 37.73 5.54
864 887 4.335647 CAAGCCGAGCCCACCACT 62.336 66.667 0.00 0.00 0.00 4.00
874 897 2.734723 CCACCACTCAGCGTCACG 60.735 66.667 0.00 0.00 0.00 4.35
880 903 1.483316 CACTCAGCGTCACGTAAACA 58.517 50.000 0.00 0.00 0.00 2.83
881 904 1.189446 CACTCAGCGTCACGTAAACAC 59.811 52.381 0.00 0.00 0.00 3.32
884 907 0.876777 CAGCGTCACGTAAACACCCA 60.877 55.000 0.00 0.00 0.00 4.51
885 908 0.179078 AGCGTCACGTAAACACCCAA 60.179 50.000 0.00 0.00 0.00 4.12
886 909 0.041926 GCGTCACGTAAACACCCAAC 60.042 55.000 0.00 0.00 0.00 3.77
914 938 1.227527 CACGTCAGTCAACTGCCCA 60.228 57.895 5.25 0.00 43.46 5.36
952 976 2.111669 CAGTCAGCAGCACACCCA 59.888 61.111 0.00 0.00 0.00 4.51
953 977 2.111878 AGTCAGCAGCACACCCAC 59.888 61.111 0.00 0.00 0.00 4.61
1057 1088 1.767036 CCAGATCCACCACCACCAA 59.233 57.895 0.00 0.00 0.00 3.67
1059 1090 0.609131 CAGATCCACCACCACCAACC 60.609 60.000 0.00 0.00 0.00 3.77
1079 1118 4.664677 ACACCACACGAGCTCCGC 62.665 66.667 8.47 0.00 43.32 5.54
1139 1178 0.474184 CGGATGAAACCCTAGCCCAT 59.526 55.000 0.00 0.00 0.00 4.00
1146 1185 0.578435 AACCCTAGCCCATATCCCCT 59.422 55.000 0.00 0.00 0.00 4.79
2053 2093 5.618561 CAGGTAGTTTCGCAAACATTACTC 58.381 41.667 12.28 4.48 43.79 2.59
2054 2094 5.178623 CAGGTAGTTTCGCAAACATTACTCA 59.821 40.000 12.28 0.00 43.79 3.41
2063 2103 4.916831 CGCAAACATTACTCAGAAATGCAA 59.083 37.500 0.00 0.00 37.77 4.08
2218 2266 6.703319 TCATTGACTTGGAAAATGCATTCAT 58.297 32.000 13.38 4.80 32.50 2.57
2284 2340 4.820284 AGAACAGCAAAGTTTGTCTAGC 57.180 40.909 16.70 2.24 0.00 3.42
2313 2369 5.242393 AGTTAAATGGCATGCTACATGATCC 59.758 40.000 18.92 4.77 0.00 3.36
2332 2388 5.820423 TGATCCGGTTGTTTATACCATTGAG 59.180 40.000 0.00 0.00 35.31 3.02
2348 2404 4.042062 CCATTGAGGATGTCCATTAGGCTA 59.958 45.833 1.30 0.00 41.22 3.93
2704 3444 1.202710 TGCGGACAAAAGCAGGAGTTA 60.203 47.619 0.00 0.00 38.59 2.24
2907 3647 6.204359 GGTGAAATACATGCTGAATGATGTC 58.796 40.000 1.75 0.00 38.72 3.06
3195 3935 4.025396 CGTCTGTCAGATGCCACAATATTC 60.025 45.833 9.12 0.00 0.00 1.75
3402 4143 4.137543 AGGCAGCTGCAAAGGTATTATAC 58.862 43.478 37.63 16.81 44.36 1.47
3628 4369 7.920682 GGCATAATGGTAAACAGTTGGATTTAG 59.079 37.037 0.00 0.00 0.00 1.85
3688 4429 6.310467 TGTTGAATGCGAGACTACTATTTGTC 59.690 38.462 0.00 0.00 0.00 3.18
3689 4430 6.208988 TGAATGCGAGACTACTATTTGTCT 57.791 37.500 0.00 0.00 45.06 3.41
3781 4586 4.158025 GGTATACCATGGTCTAGATCGGTG 59.842 50.000 23.76 6.96 35.64 4.94
3922 4727 8.634188 TCTGGATTATCATGATAGATGGGATT 57.366 34.615 14.86 0.00 0.00 3.01
4063 4868 9.813446 ACAGAAAATTAGTACGTAAAGGGATAG 57.187 33.333 0.00 0.00 0.00 2.08
4064 4869 9.813446 CAGAAAATTAGTACGTAAAGGGATAGT 57.187 33.333 0.00 0.00 0.00 2.12
4246 5051 0.324614 TGGACGTGAGGAATGCATGT 59.675 50.000 0.00 0.00 38.14 3.21
4273 5078 4.036027 AGCTTAATTGCGATCACCATCTTG 59.964 41.667 0.00 0.00 38.13 3.02
4439 5244 5.991328 ATTAGTTGATGTAATGAGTGCGG 57.009 39.130 0.00 0.00 0.00 5.69
4460 5266 7.378995 GTGCGGAACTATAGTATACTGAAACTG 59.621 40.741 15.90 8.00 0.00 3.16
4569 5375 4.714308 CCATCCCCTAGAGATATGAGGAAC 59.286 50.000 0.00 0.00 31.45 3.62
4645 5452 4.496336 GGGGAGCAGCGCAGGAAT 62.496 66.667 11.47 0.00 0.00 3.01
4646 5453 3.207669 GGGAGCAGCGCAGGAATG 61.208 66.667 11.47 0.00 0.00 2.67
4649 5456 1.136147 GAGCAGCGCAGGAATGTTG 59.864 57.895 11.47 0.00 0.00 3.33
4697 5504 1.562475 TGTTAATCCCTGTGCCTACCC 59.438 52.381 0.00 0.00 0.00 3.69
4790 5597 0.182775 GGTTGTGACAACCCACTCCT 59.817 55.000 31.94 0.00 37.89 3.69
4797 5604 4.780554 TGTGACAACCCACTCCTATGATAA 59.219 41.667 0.00 0.00 37.89 1.75
4894 5703 8.586570 TTGTTGACAAAATACAATTGCCTAAG 57.413 30.769 5.05 0.00 32.11 2.18
4925 5734 7.555087 ACTTGAATTGGACAAGAATTTTGTGA 58.445 30.769 13.34 0.03 44.92 3.58
4976 5785 2.945668 AGTTCCACTTTGCAACTGACTC 59.054 45.455 0.00 0.00 0.00 3.36
5013 5822 0.036010 AGGGAGCAGTTGATCAACCG 60.036 55.000 30.34 23.35 42.06 4.44
5103 5912 3.559171 CCATACACTGCACTTGGGTAACT 60.559 47.826 0.00 0.00 0.00 2.24
5253 6062 0.546122 TGTCATGGTGGGACTATGGC 59.454 55.000 0.00 0.00 41.32 4.40
5334 6143 2.229792 ACACACATAGCAACTGTTGGG 58.770 47.619 21.01 0.00 0.00 4.12
5349 6158 2.124151 GGGCGGGCAATGTCATCT 60.124 61.111 3.27 0.00 0.00 2.90
5370 6179 6.018589 TCTTATGAAGACGAGGCATATGAG 57.981 41.667 6.97 0.00 31.20 2.90
5383 6192 5.243981 AGGCATATGAGATAATGCAGTCAC 58.756 41.667 6.97 0.00 41.44 3.67
5424 6233 4.877378 TGTCGTATTTGGAGGTGTTACT 57.123 40.909 0.00 0.00 0.00 2.24
5439 6248 4.024670 GTGTTACTGGGTACTCCTCTGAT 58.975 47.826 0.00 0.00 36.20 2.90
5533 6342 2.968574 TGCTGGGGCAAGACAATTTTAA 59.031 40.909 0.00 0.00 46.36 1.52
5594 6403 4.503714 TTCCAGGTTCTTATGGATGGTC 57.496 45.455 0.00 0.00 44.87 4.02
5735 6544 8.401046 TGTTTACAAGTGAAGTAAATTTGTGC 57.599 30.769 0.00 0.00 41.74 4.57
5768 6578 3.632145 ACTGCTTTCTTTCATTGGTTCGT 59.368 39.130 0.00 0.00 0.00 3.85
5789 6599 9.944663 GTTCGTATGATAAATAAATTGCCAGAA 57.055 29.630 0.00 0.00 0.00 3.02
5803 6613 7.900782 AATTGCCAGAATGAGAAGAAAATTG 57.099 32.000 0.00 0.00 39.69 2.32
5806 6618 7.523293 TGCCAGAATGAGAAGAAAATTGTTA 57.477 32.000 0.00 0.00 39.69 2.41
5842 6654 0.312102 TCGCGATGGAGCTGATACAG 59.688 55.000 3.71 0.00 34.40 2.74
5931 6743 4.357918 AGGTCCCACAAGTGATATATGC 57.642 45.455 0.94 0.00 0.00 3.14
6000 6918 6.928979 TGGTATTGTCGAACTTCTGAAAAA 57.071 33.333 0.00 0.00 0.00 1.94
6051 6969 2.887152 GTGCCACCATTATCCTTCCATC 59.113 50.000 0.00 0.00 0.00 3.51
6227 7174 6.403866 TTTATGTGCCTGTTTCAAGTTCAT 57.596 33.333 0.00 0.00 0.00 2.57
6265 7212 6.950842 TGAATGGAGATGTCTGTACTTGATT 58.049 36.000 0.00 0.00 0.00 2.57
6266 7213 7.397221 TGAATGGAGATGTCTGTACTTGATTT 58.603 34.615 0.00 0.00 0.00 2.17
6267 7214 7.884877 TGAATGGAGATGTCTGTACTTGATTTT 59.115 33.333 0.00 0.00 0.00 1.82
6268 7215 7.621428 ATGGAGATGTCTGTACTTGATTTTG 57.379 36.000 0.00 0.00 0.00 2.44
6269 7216 5.412594 TGGAGATGTCTGTACTTGATTTTGC 59.587 40.000 0.00 0.00 0.00 3.68
6270 7217 5.163713 GGAGATGTCTGTACTTGATTTTGCC 60.164 44.000 0.00 0.00 0.00 4.52
6271 7218 4.393062 AGATGTCTGTACTTGATTTTGCCG 59.607 41.667 0.00 0.00 0.00 5.69
6272 7219 3.734463 TGTCTGTACTTGATTTTGCCGA 58.266 40.909 0.00 0.00 0.00 5.54
6273 7220 3.745975 TGTCTGTACTTGATTTTGCCGAG 59.254 43.478 0.00 0.00 0.00 4.63
6274 7221 3.125316 GTCTGTACTTGATTTTGCCGAGG 59.875 47.826 0.00 0.00 0.00 4.63
6275 7222 3.074412 CTGTACTTGATTTTGCCGAGGT 58.926 45.455 0.00 0.00 0.00 3.85
6276 7223 3.071479 TGTACTTGATTTTGCCGAGGTC 58.929 45.455 0.00 0.00 0.00 3.85
6277 7224 2.270352 ACTTGATTTTGCCGAGGTCA 57.730 45.000 0.00 0.00 0.00 4.02
6278 7225 2.795329 ACTTGATTTTGCCGAGGTCAT 58.205 42.857 0.00 0.00 0.00 3.06
6279 7226 3.157087 ACTTGATTTTGCCGAGGTCATT 58.843 40.909 0.00 0.00 0.00 2.57
6280 7227 3.057315 ACTTGATTTTGCCGAGGTCATTG 60.057 43.478 0.00 0.00 0.00 2.82
6281 7228 2.513753 TGATTTTGCCGAGGTCATTGT 58.486 42.857 0.00 0.00 0.00 2.71
6282 7229 2.890311 TGATTTTGCCGAGGTCATTGTT 59.110 40.909 0.00 0.00 0.00 2.83
6283 7230 2.791383 TTTTGCCGAGGTCATTGTTG 57.209 45.000 0.00 0.00 0.00 3.33
6284 7231 0.958091 TTTGCCGAGGTCATTGTTGG 59.042 50.000 0.00 0.00 0.00 3.77
6285 7232 0.179004 TTGCCGAGGTCATTGTTGGT 60.179 50.000 0.00 0.00 0.00 3.67
6286 7233 0.179004 TGCCGAGGTCATTGTTGGTT 60.179 50.000 0.00 0.00 0.00 3.67
6287 7234 0.958822 GCCGAGGTCATTGTTGGTTT 59.041 50.000 0.00 0.00 0.00 3.27
6288 7235 1.068541 GCCGAGGTCATTGTTGGTTTC 60.069 52.381 0.00 0.00 0.00 2.78
6289 7236 2.504367 CCGAGGTCATTGTTGGTTTCT 58.496 47.619 0.00 0.00 0.00 2.52
6290 7237 3.670625 CCGAGGTCATTGTTGGTTTCTA 58.329 45.455 0.00 0.00 0.00 2.10
6291 7238 3.684788 CCGAGGTCATTGTTGGTTTCTAG 59.315 47.826 0.00 0.00 0.00 2.43
6292 7239 4.562757 CCGAGGTCATTGTTGGTTTCTAGA 60.563 45.833 0.00 0.00 0.00 2.43
6293 7240 5.178797 CGAGGTCATTGTTGGTTTCTAGAT 58.821 41.667 0.00 0.00 0.00 1.98
6372 7319 7.297936 TCTTTTCTCATAACACCTGTAGACA 57.702 36.000 0.00 0.00 0.00 3.41
6397 7344 6.040504 AGACTTGTGTTTTCTTTCCAATACCC 59.959 38.462 0.00 0.00 0.00 3.69
6417 7364 9.490083 AATACCCTGTAGACTAGTGTTCTTATT 57.510 33.333 0.00 0.00 0.00 1.40
6420 7367 8.915036 ACCCTGTAGACTAGTGTTCTTATTATG 58.085 37.037 0.00 0.00 0.00 1.90
6421 7368 8.361139 CCCTGTAGACTAGTGTTCTTATTATGG 58.639 40.741 0.00 0.00 0.00 2.74
6422 7369 7.868415 CCTGTAGACTAGTGTTCTTATTATGGC 59.132 40.741 0.00 0.00 0.00 4.40
6423 7370 7.723324 TGTAGACTAGTGTTCTTATTATGGCC 58.277 38.462 0.00 0.00 0.00 5.36
6438 7385 0.529773 TGGCCGCAAGTGATCGATAC 60.530 55.000 0.00 0.00 0.00 2.24
6535 7482 7.308435 GCAACAAAGACATAAAGCTTGAGTAT 58.692 34.615 0.00 0.00 0.00 2.12
6619 7566 8.202137 CCAAAGAATAGATCCTAAGGTTTCGTA 58.798 37.037 0.00 0.00 0.00 3.43
6629 7576 1.600638 GGTTTCGTACCAGGAGGGG 59.399 63.158 0.00 0.00 46.92 4.79
6632 7579 1.262640 TTTCGTACCAGGAGGGGAGC 61.263 60.000 0.00 0.00 42.91 4.70
6645 7592 3.491652 GGAGCGGCAAAGCGAGAC 61.492 66.667 1.45 0.00 43.00 3.36
6895 7856 5.535030 GTGTTGGGGTGTAGAAGAAAAGAAT 59.465 40.000 0.00 0.00 0.00 2.40
6923 7884 0.101040 TGCTGTGACTGCTTGTTTGC 59.899 50.000 15.36 0.00 0.00 3.68
6939 7911 1.811645 TTGCTTTTGGGGGCGTTAGC 61.812 55.000 0.00 0.00 44.18 3.09
6940 7912 2.874751 CTTTTGGGGGCGTTAGCG 59.125 61.111 0.00 0.00 46.35 4.26
6941 7913 1.969589 CTTTTGGGGGCGTTAGCGT 60.970 57.895 0.00 0.00 46.35 5.07
6942 7914 2.195123 CTTTTGGGGGCGTTAGCGTG 62.195 60.000 0.00 0.00 46.35 5.34
6946 7918 4.752879 GGGGCGTTAGCGTGCTGA 62.753 66.667 4.25 0.00 46.35 4.26
6947 7919 2.511600 GGGCGTTAGCGTGCTGAT 60.512 61.111 4.25 0.00 46.35 2.90
6948 7920 2.703409 GGCGTTAGCGTGCTGATG 59.297 61.111 4.25 2.87 46.35 3.07
6949 7921 2.703409 GCGTTAGCGTGCTGATGG 59.297 61.111 4.25 0.00 40.81 3.51
7025 7997 3.643792 AGGACTGTTGTGCTCTAGAGTTT 59.356 43.478 20.75 0.00 41.03 2.66
7038 8010 4.072131 TCTAGAGTTTTGCAACATGGACC 58.928 43.478 0.00 0.00 35.05 4.46
7042 8014 2.102925 AGTTTTGCAACATGGACCTTGG 59.897 45.455 11.77 0.00 35.05 3.61
7043 8015 1.047002 TTTGCAACATGGACCTTGGG 58.953 50.000 11.77 4.94 0.00 4.12
7067 8039 2.173519 CTTGTGTCATGGGCCTTTGAT 58.826 47.619 4.53 0.00 0.00 2.57
7076 8048 0.743097 GGGCCTTTGATCACAGCATC 59.257 55.000 0.84 0.00 0.00 3.91
7077 8049 1.684248 GGGCCTTTGATCACAGCATCT 60.684 52.381 0.84 0.00 0.00 2.90
7078 8050 2.097825 GGCCTTTGATCACAGCATCTT 58.902 47.619 3.17 0.00 0.00 2.40
7114 8086 2.258013 AACGTGGACCATGTTGCGG 61.258 57.895 27.66 1.53 41.32 5.69
7123 8095 1.659233 CATGTTGCGGCACCTTCAA 59.341 52.632 0.05 0.00 0.00 2.69
7128 8100 1.733402 TTGCGGCACCTTCAACTTGG 61.733 55.000 0.05 0.00 0.00 3.61
7129 8101 2.919494 GCGGCACCTTCAACTTGGG 61.919 63.158 0.00 0.00 0.00 4.12
7130 8102 2.919494 CGGCACCTTCAACTTGGGC 61.919 63.158 0.00 0.00 0.00 5.36
7131 8103 2.574018 GGCACCTTCAACTTGGGCC 61.574 63.158 0.00 0.00 34.37 5.80
7169 8161 2.110967 CAATGAGTGCGGCCTCCTG 61.111 63.158 0.00 8.67 0.00 3.86
7180 8172 2.917933 CGGCCTCCTGATGTAAAATGA 58.082 47.619 0.00 0.00 0.00 2.57
7181 8173 2.614057 CGGCCTCCTGATGTAAAATGAC 59.386 50.000 0.00 0.00 0.00 3.06
7207 8199 9.511022 CAAGTTAAAAGTTTTTCTGTTTTCGTG 57.489 29.630 6.10 0.00 0.00 4.35
7320 8330 3.188492 TGAAAACTTGAGCGTACGAACA 58.812 40.909 21.65 14.75 0.00 3.18
7363 8373 2.661439 GCGAGACGGCGTACTATAACTC 60.661 54.545 14.74 12.56 0.00 3.01
7373 8383 7.391554 ACGGCGTACTATAACTCCATTTAGATA 59.608 37.037 12.58 0.00 0.00 1.98
7414 9679 7.836842 AGAAGAGGAAGATTTTGACTAGTCTC 58.163 38.462 23.01 12.39 0.00 3.36
7418 9683 8.601546 AGAGGAAGATTTTGACTAGTCTCATTT 58.398 33.333 23.01 10.22 0.00 2.32
7422 9687 9.959775 GAAGATTTTGACTAGTCTCATTTAACG 57.040 33.333 23.01 0.00 0.00 3.18
7423 9688 9.490379 AAGATTTTGACTAGTCTCATTTAACGT 57.510 29.630 23.01 4.10 0.00 3.99
7427 9692 5.888105 TGACTAGTCTCATTTAACGTAGCC 58.112 41.667 23.01 0.00 0.00 3.93
7428 9693 5.416639 TGACTAGTCTCATTTAACGTAGCCA 59.583 40.000 23.01 0.00 0.00 4.75
7429 9694 6.096423 TGACTAGTCTCATTTAACGTAGCCAT 59.904 38.462 23.01 0.00 0.00 4.40
7430 9695 6.273825 ACTAGTCTCATTTAACGTAGCCATG 58.726 40.000 0.00 0.00 0.00 3.66
7455 9720 4.260907 GGTACTTCAAGAAAACCCGACAAC 60.261 45.833 0.00 0.00 0.00 3.32
7459 9724 4.625972 TCAAGAAAACCCGACAACTTTC 57.374 40.909 0.00 0.00 0.00 2.62
7465 9730 5.359860 AGAAAACCCGACAACTTTCAGAAAT 59.640 36.000 0.00 0.00 31.56 2.17
7685 9954 8.613482 GGACTATTTCAATAGCCTAAAGTTGTC 58.387 37.037 6.49 0.00 41.62 3.18
7759 10030 2.335316 AAAAGAGTACACCCACGCAA 57.665 45.000 0.00 0.00 0.00 4.85
7777 10048 3.366719 GCAAGTCAAAAGACAGTGAAGC 58.633 45.455 0.00 0.00 0.00 3.86
7778 10049 3.181497 GCAAGTCAAAAGACAGTGAAGCA 60.181 43.478 0.00 0.00 0.00 3.91
7779 10050 4.595116 CAAGTCAAAAGACAGTGAAGCAG 58.405 43.478 0.00 0.00 0.00 4.24
7780 10051 3.878778 AGTCAAAAGACAGTGAAGCAGT 58.121 40.909 0.00 0.00 0.00 4.40
7781 10052 5.023533 AGTCAAAAGACAGTGAAGCAGTA 57.976 39.130 0.00 0.00 0.00 2.74
7782 10053 5.053145 AGTCAAAAGACAGTGAAGCAGTAG 58.947 41.667 0.00 0.00 0.00 2.57
7784 10055 3.475566 AAAGACAGTGAAGCAGTAGCA 57.524 42.857 0.00 0.00 45.49 3.49
7785 10056 2.447244 AGACAGTGAAGCAGTAGCAC 57.553 50.000 0.00 0.00 45.49 4.40
7786 10057 1.967066 AGACAGTGAAGCAGTAGCACT 59.033 47.619 0.00 0.00 45.49 4.40
7809 10087 3.503363 AGCAGCTTTGATCGGCGC 61.503 61.111 0.00 0.00 0.00 6.53
7845 10125 0.453390 CACGTACGTAACCTCCCCTC 59.547 60.000 22.34 0.00 0.00 4.30
7852 10132 1.082206 TAACCTCCCCTCCCCACTG 59.918 63.158 0.00 0.00 0.00 3.66
7865 10145 2.032223 CACTGCCACTCTGCTGCT 59.968 61.111 0.00 0.00 33.92 4.24
7866 10146 2.032223 ACTGCCACTCTGCTGCTG 59.968 61.111 0.00 0.00 33.92 4.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
69 70 5.806502 GGTTTTTGCTACTACGTTGGTTTTT 59.193 36.000 0.00 0.00 0.00 1.94
70 71 5.125900 AGGTTTTTGCTACTACGTTGGTTTT 59.874 36.000 0.00 0.00 0.00 2.43
71 72 4.641541 AGGTTTTTGCTACTACGTTGGTTT 59.358 37.500 0.00 0.00 0.00 3.27
170 173 3.060736 TGAATTTTGCTACTACCGGCA 57.939 42.857 0.00 0.00 36.62 5.69
304 307 1.661480 CGGATCCACCCGCGTATAA 59.339 57.895 13.41 0.00 43.25 0.98
400 404 3.984186 CTCCTCCTCCCGGGCAGAA 62.984 68.421 18.49 0.00 34.39 3.02
401 405 4.465446 CTCCTCCTCCCGGGCAGA 62.465 72.222 18.49 14.18 34.39 4.26
459 463 0.469331 CTGCCATGGCCAGATCCATT 60.469 55.000 33.44 0.00 44.04 3.16
562 566 3.411351 CTACGTGCGCGCACCTTT 61.411 61.111 46.98 35.58 43.49 3.11
696 715 3.560068 AGTGTGTGCGCTATATTTAAGGC 59.440 43.478 9.73 0.00 33.01 4.35
708 727 5.275881 GCAAAATGAAATATAGTGTGTGCGC 60.276 40.000 0.00 0.00 0.00 6.09
711 730 6.753279 CCCTGCAAAATGAAATATAGTGTGTG 59.247 38.462 0.00 0.00 0.00 3.82
713 732 6.275335 CCCCTGCAAAATGAAATATAGTGTG 58.725 40.000 0.00 0.00 0.00 3.82
719 738 5.543790 GGATACCCCCTGCAAAATGAAATAT 59.456 40.000 0.00 0.00 0.00 1.28
738 760 0.104409 AGGGGATCTGGTGGGGATAC 60.104 60.000 0.00 0.00 0.00 2.24
739 761 0.193574 GAGGGGATCTGGTGGGGATA 59.806 60.000 0.00 0.00 0.00 2.59
740 762 1.073397 GAGGGGATCTGGTGGGGAT 60.073 63.158 0.00 0.00 0.00 3.85
741 763 2.372688 GAGGGGATCTGGTGGGGA 59.627 66.667 0.00 0.00 0.00 4.81
755 777 1.374758 GGGTTCAGCAGACACGAGG 60.375 63.158 0.00 0.00 0.00 4.63
757 779 0.249868 CTTGGGTTCAGCAGACACGA 60.250 55.000 0.00 0.00 0.00 4.35
764 786 1.227823 CGTGGTCTTGGGTTCAGCA 60.228 57.895 0.00 0.00 0.00 4.41
790 812 0.763223 ACGTGGTCTTGGGTTCTCCT 60.763 55.000 0.00 0.00 36.20 3.69
791 813 0.602905 CACGTGGTCTTGGGTTCTCC 60.603 60.000 7.95 0.00 0.00 3.71
834 857 2.586792 GCTTGGATCGGAGCAGGT 59.413 61.111 12.51 0.00 38.73 4.00
851 874 4.767255 GCTGAGTGGTGGGCTCGG 62.767 72.222 0.00 0.00 41.11 4.63
853 876 3.941657 GACGCTGAGTGGTGGGCTC 62.942 68.421 0.00 0.00 0.00 4.70
854 877 4.008933 GACGCTGAGTGGTGGGCT 62.009 66.667 0.00 0.00 0.00 5.19
863 886 0.782384 GGTGTTTACGTGACGCTGAG 59.218 55.000 4.25 0.00 0.00 3.35
864 887 0.598158 GGGTGTTTACGTGACGCTGA 60.598 55.000 4.25 0.00 0.00 4.26
869 892 1.004715 CGTGTTGGGTGTTTACGTGAC 60.005 52.381 0.00 0.00 0.00 3.67
874 897 1.666054 TGGTCGTGTTGGGTGTTTAC 58.334 50.000 0.00 0.00 0.00 2.01
880 903 1.072505 GTGGATGGTCGTGTTGGGT 59.927 57.895 0.00 0.00 0.00 4.51
881 904 2.032634 CGTGGATGGTCGTGTTGGG 61.033 63.158 0.00 0.00 0.00 4.12
884 907 0.319555 CTGACGTGGATGGTCGTGTT 60.320 55.000 0.00 0.00 40.39 3.32
885 908 1.289066 CTGACGTGGATGGTCGTGT 59.711 57.895 0.00 0.00 40.39 4.49
886 909 0.732880 GACTGACGTGGATGGTCGTG 60.733 60.000 0.00 0.00 40.39 4.35
925 949 2.439156 GCTGACTGGTGGGGCATC 60.439 66.667 0.00 0.00 0.00 3.91
952 976 2.136026 GATATCTGTTTGGGAGGGGGT 58.864 52.381 0.00 0.00 0.00 4.95
953 977 1.425448 GGATATCTGTTTGGGAGGGGG 59.575 57.143 2.05 0.00 0.00 5.40
1013 1039 2.511600 GGAAGACGATGGTGGCGG 60.512 66.667 0.00 0.00 0.00 6.13
1014 1040 2.511600 GGGAAGACGATGGTGGCG 60.512 66.667 0.00 0.00 0.00 5.69
1015 1041 2.124695 GGGGAAGACGATGGTGGC 60.125 66.667 0.00 0.00 0.00 5.01
1016 1042 2.186903 CGGGGAAGACGATGGTGG 59.813 66.667 0.00 0.00 0.00 4.61
1057 1088 4.250305 GCTCGTGTGGTGTGGGGT 62.250 66.667 0.00 0.00 0.00 4.95
1059 1090 2.357517 GAGCTCGTGTGGTGTGGG 60.358 66.667 0.00 0.00 0.00 4.61
1079 1118 0.774908 TTAGTTTGGGGGAGTGGTGG 59.225 55.000 0.00 0.00 0.00 4.61
1080 1119 2.235891 GTTTAGTTTGGGGGAGTGGTG 58.764 52.381 0.00 0.00 0.00 4.17
1081 1120 1.146359 GGTTTAGTTTGGGGGAGTGGT 59.854 52.381 0.00 0.00 0.00 4.16
1175 1215 2.711922 GGGAGTCCAGCATCGTCGT 61.712 63.158 12.30 0.00 0.00 4.34
1274 1314 1.868251 CGAAGGCGAGCACGTAGAC 60.868 63.158 5.23 0.00 40.82 2.59
1666 1706 1.655329 GACGGAGCGGGAGATGTAG 59.345 63.158 0.00 0.00 0.00 2.74
2036 2076 6.398935 GCATTTCTGAGTAATGTTTGCGAAAC 60.399 38.462 12.38 0.00 41.73 2.78
2053 2093 8.723311 ACAACAAATATTTCCATTGCATTTCTG 58.277 29.630 12.89 0.00 0.00 3.02
2054 2094 8.723311 CACAACAAATATTTCCATTGCATTTCT 58.277 29.630 12.89 0.00 0.00 2.52
2164 2211 6.409524 ACAATTCATTAACAGGGCCATATG 57.590 37.500 6.18 2.11 0.00 1.78
2254 2310 9.516314 GACAAACTTTGCTGTTCTACTAATTTT 57.484 29.630 1.14 0.00 0.00 1.82
2284 2340 8.136800 TCATGTAGCATGCCATTTAACTTTATG 58.863 33.333 15.66 4.11 0.00 1.90
2313 2369 5.588648 ACATCCTCAATGGTATAAACAACCG 59.411 40.000 0.00 0.00 40.08 4.44
2332 2388 4.130118 CAACTGTAGCCTAATGGACATCC 58.870 47.826 0.00 0.00 34.57 3.51
2704 3444 6.887545 AGTACAGCAGTAGATCTACAGTTCTT 59.112 38.462 29.85 14.20 38.48 2.52
3093 3833 4.074970 ACATAAAAGAAGACCAGGCTGTG 58.925 43.478 14.43 7.58 0.00 3.66
3195 3935 6.291377 ACTTGTGAGGCCATACATAACTATG 58.709 40.000 5.01 0.00 39.55 2.23
3270 4010 4.104776 CAATGGCACTAATAAGGCAAACG 58.895 43.478 0.00 0.00 43.78 3.60
3402 4143 7.440523 AGCAAGTGTAAGTGAAAATAGAAGG 57.559 36.000 0.00 0.00 0.00 3.46
3628 4369 3.552890 GCCCAAAAATGTCAGGTCAGTTC 60.553 47.826 0.00 0.00 0.00 3.01
3740 4545 5.914898 ATACCATCTTTTGCCAAAGTACC 57.085 39.130 9.85 0.00 40.47 3.34
3781 4586 0.467804 ACATGTGGTTTTTGTGGGCC 59.532 50.000 0.00 0.00 0.00 5.80
3893 4698 8.954350 CCCATCTATCATGATAATCCAGAAAAC 58.046 37.037 16.08 0.00 0.00 2.43
3922 4727 0.473755 ACCACACACAGGCTTGATCA 59.526 50.000 1.40 0.00 0.00 2.92
3993 4798 3.010250 TCAGGTCTAGCTGGACTACTTCA 59.990 47.826 26.86 5.69 36.55 3.02
3994 4799 3.622630 TCAGGTCTAGCTGGACTACTTC 58.377 50.000 26.86 11.97 36.55 3.01
4212 5017 4.022068 TCACGTCCAGGAGTTTATAACGTT 60.022 41.667 5.88 5.88 39.58 3.99
4214 5019 4.100707 TCACGTCCAGGAGTTTATAACG 57.899 45.455 0.00 0.00 36.23 3.18
4246 5051 4.257731 TGGTGATCGCAATTAAGCTACAA 58.742 39.130 8.82 0.00 0.00 2.41
4273 5078 5.121611 TGAATGTTAACACATGGATCGACAC 59.878 40.000 11.22 0.00 43.34 3.67
4460 5266 6.183360 GGGGCAAAAATACTGAAATACCCTAC 60.183 42.308 0.00 0.00 33.95 3.18
4569 5375 4.261238 CCATACTAGTAAGTGAGTGAGGCG 60.261 50.000 6.70 0.00 36.36 5.52
4645 5452 0.611618 GGGTGGCATCATGACCAACA 60.612 55.000 19.13 5.18 46.01 3.33
4646 5453 0.323725 AGGGTGGCATCATGACCAAC 60.324 55.000 11.18 11.18 43.31 3.77
4649 5456 0.323725 AACAGGGTGGCATCATGACC 60.324 55.000 20.52 0.00 0.00 4.02
4697 5504 3.250744 ACTATGGTTGTCGACATCAACG 58.749 45.455 20.80 16.26 43.93 4.10
4785 5592 5.367937 AGCAATCTGTGGTTATCATAGGAGT 59.632 40.000 0.00 0.00 35.60 3.85
4790 5597 5.059161 GCTCAGCAATCTGTGGTTATCATA 58.941 41.667 0.00 0.00 41.10 2.15
4797 5604 0.403271 AAGGCTCAGCAATCTGTGGT 59.597 50.000 0.00 0.00 41.10 4.16
4824 5632 1.292541 CAGTCAGCAGAGCAGAGCA 59.707 57.895 0.00 0.00 0.00 4.26
4826 5634 0.889994 AGACAGTCAGCAGAGCAGAG 59.110 55.000 2.66 0.00 0.00 3.35
4886 5695 7.923878 GTCCAATTCAAGTTAAAACTTAGGCAA 59.076 33.333 7.73 0.77 46.89 4.52
4976 5785 3.623960 TCCCTGTTTTACACAAGAACACG 59.376 43.478 0.00 0.00 33.87 4.49
5013 5822 4.244862 CCACATTATGTTGGAAAGGCAAC 58.755 43.478 0.00 0.00 0.00 4.17
5103 5912 4.054359 AGGAGAAGAGTAAGCCTCAGAA 57.946 45.455 0.00 0.00 43.12 3.02
5253 6062 3.631250 ACCCATGGCTGTAATTTGGTAG 58.369 45.455 6.09 0.00 0.00 3.18
5334 6143 2.221169 TCATAAGATGACATTGCCCGC 58.779 47.619 0.00 0.00 33.59 6.13
5349 6158 6.596309 ATCTCATATGCCTCGTCTTCATAA 57.404 37.500 0.00 0.00 0.00 1.90
5383 6192 5.571784 ACAAGCACATAATTCACATCCAG 57.428 39.130 0.00 0.00 0.00 3.86
5424 6233 2.919772 TGTCATCAGAGGAGTACCCA 57.080 50.000 3.60 0.00 37.41 4.51
5491 6300 9.399797 CCAGCATCAAATTAGAGGCATATATAA 57.600 33.333 3.42 0.00 46.90 0.98
5492 6301 7.994911 CCCAGCATCAAATTAGAGGCATATATA 59.005 37.037 3.42 0.00 46.90 0.86
5493 6302 6.832384 CCCAGCATCAAATTAGAGGCATATAT 59.168 38.462 3.42 0.00 46.90 0.86
5513 6322 3.676291 TTAAAATTGTCTTGCCCCAGC 57.324 42.857 0.00 0.00 40.48 4.85
5514 6323 5.185635 TCAGATTAAAATTGTCTTGCCCCAG 59.814 40.000 0.00 0.00 0.00 4.45
5594 6403 2.781681 AAACTCCTCCACCAATACGG 57.218 50.000 0.00 0.00 42.50 4.02
5621 6430 5.189180 ACAAGGTAATCAGGCTCTTTGATC 58.811 41.667 2.67 0.00 34.30 2.92
5735 6544 4.732285 AAGAAAGCAGTATCACAACACG 57.268 40.909 0.00 0.00 0.00 4.49
5801 6611 9.644993 CGCGAATTTTGATTGATACTATAACAA 57.355 29.630 0.00 0.00 0.00 2.83
5806 6618 7.387673 TCCATCGCGAATTTTGATTGATACTAT 59.612 33.333 15.24 0.00 0.00 2.12
5816 6628 1.398041 CAGCTCCATCGCGAATTTTGA 59.602 47.619 15.24 4.54 34.40 2.69
5824 6636 0.031314 ACTGTATCAGCTCCATCGCG 59.969 55.000 0.00 0.00 34.37 5.87
5888 6700 6.071051 ACCTACCACAACAGAAACAAACAAAT 60.071 34.615 0.00 0.00 0.00 2.32
6000 6918 3.698040 GACATGCCAAATGTCCTGAGAAT 59.302 43.478 7.14 0.00 41.77 2.40
6051 6969 5.294552 GCAATGGGTAGCTTAACTCTAGTTG 59.705 44.000 5.62 0.00 38.90 3.16
6265 7212 0.958091 CCAACAATGACCTCGGCAAA 59.042 50.000 0.00 0.00 0.00 3.68
6266 7213 0.179004 ACCAACAATGACCTCGGCAA 60.179 50.000 0.00 0.00 0.00 4.52
6267 7214 0.179004 AACCAACAATGACCTCGGCA 60.179 50.000 0.00 0.00 0.00 5.69
6268 7215 0.958822 AAACCAACAATGACCTCGGC 59.041 50.000 0.00 0.00 0.00 5.54
6269 7216 2.504367 AGAAACCAACAATGACCTCGG 58.496 47.619 0.00 0.00 0.00 4.63
6270 7217 4.566004 TCTAGAAACCAACAATGACCTCG 58.434 43.478 0.00 0.00 0.00 4.63
6271 7218 7.201652 GCTTATCTAGAAACCAACAATGACCTC 60.202 40.741 0.00 0.00 0.00 3.85
6272 7219 6.599638 GCTTATCTAGAAACCAACAATGACCT 59.400 38.462 0.00 0.00 0.00 3.85
6273 7220 6.374333 TGCTTATCTAGAAACCAACAATGACC 59.626 38.462 0.00 0.00 0.00 4.02
6274 7221 7.377766 TGCTTATCTAGAAACCAACAATGAC 57.622 36.000 0.00 0.00 0.00 3.06
6275 7222 6.094048 GCTGCTTATCTAGAAACCAACAATGA 59.906 38.462 0.00 0.00 0.00 2.57
6276 7223 6.127925 TGCTGCTTATCTAGAAACCAACAATG 60.128 38.462 0.00 0.00 0.00 2.82
6277 7224 5.945784 TGCTGCTTATCTAGAAACCAACAAT 59.054 36.000 0.00 0.00 0.00 2.71
6278 7225 5.312895 TGCTGCTTATCTAGAAACCAACAA 58.687 37.500 0.00 0.00 0.00 2.83
6279 7226 4.905429 TGCTGCTTATCTAGAAACCAACA 58.095 39.130 0.00 0.00 0.00 3.33
6280 7227 7.227512 ACATATGCTGCTTATCTAGAAACCAAC 59.772 37.037 1.58 0.00 0.00 3.77
6281 7228 7.227314 CACATATGCTGCTTATCTAGAAACCAA 59.773 37.037 1.58 0.00 0.00 3.67
6282 7229 6.707608 CACATATGCTGCTTATCTAGAAACCA 59.292 38.462 1.58 0.00 0.00 3.67
6283 7230 7.126726 CACATATGCTGCTTATCTAGAAACC 57.873 40.000 1.58 0.00 0.00 3.27
6323 7270 2.909006 AGTCTGCAGGAGAAAGGATCAA 59.091 45.455 15.13 0.00 30.26 2.57
6372 7319 6.040504 GGGTATTGGAAAGAAAACACAAGTCT 59.959 38.462 0.00 0.00 0.00 3.24
6397 7344 7.868415 GGCCATAATAAGAACACTAGTCTACAG 59.132 40.741 0.00 0.00 0.00 2.74
6417 7364 0.392706 ATCGATCACTTGCGGCCATA 59.607 50.000 2.24 0.00 0.00 2.74
6418 7365 0.392706 TATCGATCACTTGCGGCCAT 59.607 50.000 0.00 0.00 0.00 4.40
6420 7367 0.249489 AGTATCGATCACTTGCGGCC 60.249 55.000 0.00 0.00 0.00 6.13
6421 7368 2.417339 TAGTATCGATCACTTGCGGC 57.583 50.000 0.00 0.00 0.00 6.53
6422 7369 3.486108 GTGTTAGTATCGATCACTTGCGG 59.514 47.826 0.00 0.00 0.00 5.69
6423 7370 4.352039 AGTGTTAGTATCGATCACTTGCG 58.648 43.478 0.00 0.00 36.17 4.85
6464 7411 5.952526 TCGTATCTGCACCGAGAATAATA 57.047 39.130 0.00 0.00 0.00 0.98
6465 7412 4.848562 TCGTATCTGCACCGAGAATAAT 57.151 40.909 0.00 0.00 0.00 1.28
6466 7413 4.848562 ATCGTATCTGCACCGAGAATAA 57.151 40.909 0.00 0.00 33.66 1.40
6535 7482 2.238521 GTTGTGAATGCCTCCTCCAAA 58.761 47.619 0.00 0.00 0.00 3.28
6629 7576 3.843240 CGTCTCGCTTTGCCGCTC 61.843 66.667 0.00 0.00 0.00 5.03
6632 7579 2.604174 AAACCGTCTCGCTTTGCCG 61.604 57.895 0.00 0.00 0.00 5.69
6636 7583 1.599797 CCCCAAACCGTCTCGCTTT 60.600 57.895 0.00 0.00 0.00 3.51
6645 7592 0.678950 AAAGCAATCACCCCAAACCG 59.321 50.000 0.00 0.00 0.00 4.44
6742 7689 4.573900 ACTACATGTCCTCAGCTTTCAAG 58.426 43.478 0.00 0.00 0.00 3.02
6898 7859 1.134753 CAAGCAGTCACAGCAACCAAA 59.865 47.619 0.00 0.00 0.00 3.28
6923 7884 1.969589 ACGCTAACGCCCCCAAAAG 60.970 57.895 0.00 0.00 45.53 2.27
6939 7911 2.509111 TAGCACGCCATCAGCACG 60.509 61.111 0.00 0.00 44.04 5.34
6940 7912 1.153568 TCTAGCACGCCATCAGCAC 60.154 57.895 0.00 0.00 44.04 4.40
6941 7913 1.153568 GTCTAGCACGCCATCAGCA 60.154 57.895 0.00 0.00 44.04 4.41
6942 7914 0.740868 TTGTCTAGCACGCCATCAGC 60.741 55.000 0.00 0.00 38.52 4.26
6943 7915 1.002366 GTTGTCTAGCACGCCATCAG 58.998 55.000 0.00 0.00 0.00 2.90
6944 7916 0.391130 GGTTGTCTAGCACGCCATCA 60.391 55.000 0.00 0.00 0.00 3.07
6945 7917 1.421410 CGGTTGTCTAGCACGCCATC 61.421 60.000 0.00 0.00 0.00 3.51
6946 7918 1.447838 CGGTTGTCTAGCACGCCAT 60.448 57.895 0.00 0.00 0.00 4.40
6947 7919 2.048597 CGGTTGTCTAGCACGCCA 60.049 61.111 0.00 0.00 0.00 5.69
6948 7920 1.226030 AAACGGTTGTCTAGCACGCC 61.226 55.000 0.00 0.00 0.00 5.68
6949 7921 0.110823 CAAACGGTTGTCTAGCACGC 60.111 55.000 4.63 0.00 0.00 5.34
6991 7963 4.037923 CACAACAGTCCTTATTGCAAAGGT 59.962 41.667 15.29 0.00 45.37 3.50
7025 7997 0.831288 CCCCAAGGTCCATGTTGCAA 60.831 55.000 0.00 0.00 0.00 4.08
7038 8010 1.973281 ATGACACAAGCGCCCCAAG 60.973 57.895 2.29 0.00 0.00 3.61
7042 8014 3.443045 CCCATGACACAAGCGCCC 61.443 66.667 2.29 0.00 0.00 6.13
7043 8015 4.120331 GCCCATGACACAAGCGCC 62.120 66.667 2.29 0.00 0.00 6.53
7076 8048 4.436050 CGTTGCAAAGGTATAGAGCACAAG 60.436 45.833 0.00 0.00 34.56 3.16
7077 8049 3.435327 CGTTGCAAAGGTATAGAGCACAA 59.565 43.478 0.00 0.00 34.56 3.33
7078 8050 3.000041 CGTTGCAAAGGTATAGAGCACA 59.000 45.455 0.00 0.00 34.56 4.57
7089 8061 0.039256 CATGGTCCACGTTGCAAAGG 60.039 55.000 16.80 11.78 37.79 3.11
7114 8086 1.187567 ATGGCCCAAGTTGAAGGTGC 61.188 55.000 3.87 0.00 0.00 5.01
7123 8095 2.441001 CTCTCCTCATTATGGCCCAAGT 59.559 50.000 0.00 0.00 0.00 3.16
7128 8100 2.975489 TCCTTCTCTCCTCATTATGGCC 59.025 50.000 0.00 0.00 0.00 5.36
7129 8101 4.285517 TGATCCTTCTCTCCTCATTATGGC 59.714 45.833 0.00 0.00 0.00 4.40
7130 8102 6.430962 TTGATCCTTCTCTCCTCATTATGG 57.569 41.667 0.00 0.00 0.00 2.74
7131 8103 7.677892 TCATTGATCCTTCTCTCCTCATTATG 58.322 38.462 0.00 0.00 0.00 1.90
7180 8172 9.251792 ACGAAAACAGAAAAACTTTTAACTTGT 57.748 25.926 0.00 0.00 0.00 3.16
7181 8173 9.511022 CACGAAAACAGAAAAACTTTTAACTTG 57.489 29.630 0.00 0.00 0.00 3.16
7207 8199 7.626452 GCTTTTATTAGTCTCCCATCACACAAC 60.626 40.741 0.00 0.00 0.00 3.32
7311 8321 1.284297 GAAACCCCCGTGTTCGTACG 61.284 60.000 9.53 9.53 43.35 3.67
7320 8330 1.269012 TCTACATTCGAAACCCCCGT 58.731 50.000 0.00 0.00 0.00 5.28
7373 8383 8.437274 TTCCTCTTCTCTTGTAAGAAACCTAT 57.563 34.615 0.00 0.00 34.95 2.57
7414 9679 2.650322 ACCCCATGGCTACGTTAAATG 58.350 47.619 6.09 0.00 33.59 2.32
7418 9683 2.163810 AGTACCCCATGGCTACGTTA 57.836 50.000 6.09 0.00 33.59 3.18
7420 9685 0.828677 GAAGTACCCCATGGCTACGT 59.171 55.000 6.09 6.11 33.59 3.57
7421 9686 0.828022 TGAAGTACCCCATGGCTACG 59.172 55.000 6.09 0.00 33.59 3.51
7422 9687 2.504175 TCTTGAAGTACCCCATGGCTAC 59.496 50.000 6.09 7.93 33.59 3.58
7423 9688 2.840511 TCTTGAAGTACCCCATGGCTA 58.159 47.619 6.09 0.00 33.59 3.93
7424 9689 1.668826 TCTTGAAGTACCCCATGGCT 58.331 50.000 6.09 0.00 33.59 4.75
7425 9690 2.507407 TTCTTGAAGTACCCCATGGC 57.493 50.000 6.09 0.00 33.59 4.40
7427 9692 3.509967 GGGTTTTCTTGAAGTACCCCATG 59.490 47.826 16.59 0.00 42.13 3.66
7428 9693 3.774734 GGGTTTTCTTGAAGTACCCCAT 58.225 45.455 16.59 0.00 42.13 4.00
7429 9694 2.487625 CGGGTTTTCTTGAAGTACCCCA 60.488 50.000 19.49 0.00 44.54 4.96
7430 9695 2.156917 CGGGTTTTCTTGAAGTACCCC 58.843 52.381 19.49 12.01 44.54 4.95
7439 9704 4.095782 TCTGAAAGTTGTCGGGTTTTCTTG 59.904 41.667 0.00 0.00 33.76 3.02
7550 9815 0.106116 ATGGGACGGAGGGAGTAGAC 60.106 60.000 0.00 0.00 0.00 2.59
7624 9892 8.287439 TCACAAACTTAATTCCACTCAAAAGA 57.713 30.769 0.00 0.00 0.00 2.52
7744 10013 0.032952 TGACTTGCGTGGGTGTACTC 59.967 55.000 0.00 0.00 0.00 2.59
7746 10015 1.301423 TTTGACTTGCGTGGGTGTAC 58.699 50.000 0.00 0.00 0.00 2.90
7747 10016 1.944024 CTTTTGACTTGCGTGGGTGTA 59.056 47.619 0.00 0.00 0.00 2.90
7748 10017 0.738389 CTTTTGACTTGCGTGGGTGT 59.262 50.000 0.00 0.00 0.00 4.16
7749 10018 1.021202 TCTTTTGACTTGCGTGGGTG 58.979 50.000 0.00 0.00 0.00 4.61
7750 10019 1.021968 GTCTTTTGACTTGCGTGGGT 58.978 50.000 0.00 0.00 45.55 4.51
7751 10020 3.845625 GTCTTTTGACTTGCGTGGG 57.154 52.632 0.00 0.00 45.55 4.61
7759 10030 6.479353 GCTACTGCTTCACTGTCTTTTGACT 61.479 44.000 0.00 0.00 42.00 3.41
7777 10048 2.331032 GCTGCTGCTACAGTGCTACTG 61.331 57.143 8.53 12.81 43.03 2.74
7778 10049 0.108424 GCTGCTGCTACAGTGCTACT 60.108 55.000 8.53 0.00 39.96 2.57
7779 10050 2.378028 GCTGCTGCTACAGTGCTAC 58.622 57.895 8.53 0.00 39.96 3.58
7780 10051 4.919653 GCTGCTGCTACAGTGCTA 57.080 55.556 8.53 0.00 39.96 3.49
7832 10110 2.039951 TGGGGAGGGGAGGTTACG 59.960 66.667 0.00 0.00 0.00 3.18
7845 10125 3.644606 AGCAGAGTGGCAGTGGGG 61.645 66.667 0.00 0.00 35.83 4.96
7852 10132 3.432588 CAGCAGCAGCAGAGTGGC 61.433 66.667 3.17 0.00 45.49 5.01


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

AutoCloner maintained by Alex Coulton.