Multiple sequence alignment - TraesCS2A01G187100

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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 TraesCS2A01G187100 chr2A 100.000 3248 0 0 1 3248 148857332 148860579 0.000000e+00 5999.0
1 TraesCS2A01G187100 chr2A 96.970 33 0 1 3184 3216 532162197 532162228 2.000000e-03 54.7
2 TraesCS2A01G187100 chr2B 93.110 2714 122 32 445 3119 210662904 210660217 0.000000e+00 3916.0
3 TraesCS2A01G187100 chr2B 89.686 446 30 8 1 434 210663436 210662995 3.660000e-154 555.0
4 TraesCS2A01G187100 chr2B 83.688 141 20 1 1448 1585 210661785 210661645 2.630000e-26 130.0
5 TraesCS2A01G187100 chr2B 78.986 138 14 8 1543 1674 210661834 210661706 2.690000e-11 80.5
6 TraesCS2A01G187100 chr2D 93.677 2404 111 17 445 2822 152656497 152654109 0.000000e+00 3559.0
7 TraesCS2A01G187100 chr2D 91.885 382 28 3 2867 3248 152634803 152634425 6.170000e-147 531.0
8 TraesCS2A01G187100 chr2D 93.574 249 15 1 1 248 152658665 152658417 1.420000e-98 370.0
9 TraesCS2A01G187100 chr2D 85.714 210 19 4 235 434 152656796 152656588 9.130000e-51 211.0
10 TraesCS2A01G187100 chr2D 84.328 134 12 2 1448 1572 152655382 152655249 4.400000e-24 122.0
11 TraesCS2A01G187100 chr2D 100.000 28 0 0 3184 3211 394249599 394249626 6.000000e-03 52.8
12 TraesCS2A01G187100 chr7D 96.970 33 0 1 3184 3216 524326922 524326953 2.000000e-03 54.7


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2A01G187100 chr2A 148857332 148860579 3247 False 5999.000 5999 100.00000 1 3248 1 chr2A.!!$F1 3247
1 TraesCS2A01G187100 chr2B 210660217 210663436 3219 True 1170.375 3916 86.36750 1 3119 4 chr2B.!!$R1 3118
2 TraesCS2A01G187100 chr2D 152654109 152658665 4556 True 1065.500 3559 89.32325 1 2822 4 chr2D.!!$R2 2821

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
162 165 0.534877 TGTGGAGAGCATTGCACGTT 60.535 50.0 11.91 0.0 41.69 3.99 F
1232 2965 0.252479 CAGCAGCTGGAGATTCCACT 59.748 55.0 17.12 0.0 42.67 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1902 3653 0.033504 GGGTCTTCTGCTTCGTGTCA 59.966 55.0 0.0 0.0 0.00 3.58 R
2355 4112 0.178990 GGTTTGCTGTGGAGTTCCCT 60.179 55.0 0.0 0.0 35.38 4.20 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
26 27 7.624360 TGTTCCAACATTACCAGTATCATTC 57.376 36.000 0.00 0.00 33.17 2.67
33 34 9.334947 CAACATTACCAGTATCATTCTCTGAAT 57.665 33.333 0.00 0.00 37.44 2.57
46 47 7.698912 TCATTCTCTGAATTTAGGAAAGGGAA 58.301 34.615 0.00 0.00 32.20 3.97
51 52 9.853177 TCTCTGAATTTAGGAAAGGGAATATTC 57.147 33.333 6.93 6.93 0.00 1.75
107 109 3.764237 TCGTTTCTACTGGAAAGCCTT 57.236 42.857 0.00 0.00 43.59 4.35
162 165 0.534877 TGTGGAGAGCATTGCACGTT 60.535 50.000 11.91 0.00 41.69 3.99
241 244 3.914426 TGCAAGATAGGGAGTCCTTTC 57.086 47.619 9.58 3.91 41.56 2.62
256 1893 6.094186 GGAGTCCTTTCTGCAACTAAATAAGG 59.906 42.308 0.41 0.00 33.61 2.69
316 1953 8.888579 AACCTGAGATATATAACGTTGGAAAG 57.111 34.615 11.99 0.00 0.00 2.62
317 1954 7.442656 ACCTGAGATATATAACGTTGGAAAGG 58.557 38.462 11.99 7.79 37.79 3.11
318 1955 7.289317 ACCTGAGATATATAACGTTGGAAAGGA 59.711 37.037 11.99 0.00 35.31 3.36
319 1956 8.314751 CCTGAGATATATAACGTTGGAAAGGAT 58.685 37.037 11.99 0.00 35.31 3.24
343 1980 7.320443 TCCAATACATTAATCTGAGTTGTGC 57.680 36.000 0.00 0.00 0.00 4.57
350 1987 7.765307 ACATTAATCTGAGTTGTGCCATAAAG 58.235 34.615 0.00 0.00 0.00 1.85
356 1993 4.397420 TGAGTTGTGCCATAAAGATGTGT 58.603 39.130 0.00 0.00 0.00 3.72
378 2024 9.539825 TGTGTTTGCATTATTTTGATGTTTAGT 57.460 25.926 0.00 0.00 0.00 2.24
383 2029 9.755804 TTGCATTATTTTGATGTTTAGTTGTGA 57.244 25.926 0.00 0.00 0.00 3.58
391 2037 6.403866 TGATGTTTAGTTGTGAAATTGGCT 57.596 33.333 0.00 0.00 0.00 4.75
394 2040 8.417106 TGATGTTTAGTTGTGAAATTGGCTTTA 58.583 29.630 0.00 0.00 0.00 1.85
407 2053 8.646900 TGAAATTGGCTTTAATGGTTTACTTCT 58.353 29.630 0.00 0.00 0.00 2.85
409 2055 7.775053 ATTGGCTTTAATGGTTTACTTCTCA 57.225 32.000 0.00 0.00 0.00 3.27
431 2077 8.768397 TCTCAAAGTTATCCCTAGCAATTCTTA 58.232 33.333 0.00 0.00 0.00 2.10
434 2080 9.178758 CAAAGTTATCCCTAGCAATTCTTAAGT 57.821 33.333 1.63 0.00 0.00 2.24
435 2081 9.755122 AAAGTTATCCCTAGCAATTCTTAAGTT 57.245 29.630 1.63 0.00 0.00 2.66
436 2082 8.966069 AGTTATCCCTAGCAATTCTTAAGTTC 57.034 34.615 1.63 0.00 0.00 3.01
437 2083 8.548877 AGTTATCCCTAGCAATTCTTAAGTTCA 58.451 33.333 1.63 0.00 0.00 3.18
438 2084 9.174166 GTTATCCCTAGCAATTCTTAAGTTCAA 57.826 33.333 1.63 0.00 0.00 2.69
439 2085 9.920946 TTATCCCTAGCAATTCTTAAGTTCAAT 57.079 29.630 1.63 0.00 0.00 2.57
441 2087 8.281212 TCCCTAGCAATTCTTAAGTTCAATTC 57.719 34.615 1.63 0.00 0.00 2.17
442 2088 8.109634 TCCCTAGCAATTCTTAAGTTCAATTCT 58.890 33.333 1.63 4.55 0.00 2.40
443 2089 8.186821 CCCTAGCAATTCTTAAGTTCAATTCTG 58.813 37.037 1.63 0.00 0.00 3.02
461 2187 2.622942 TCTGTGCCCACTTGATTTGTTC 59.377 45.455 0.00 0.00 0.00 3.18
462 2188 2.361757 CTGTGCCCACTTGATTTGTTCA 59.638 45.455 0.00 0.00 0.00 3.18
476 2204 6.821160 TTGATTTGTTCAAAGGGAAAAGTTCC 59.179 34.615 4.37 0.00 44.01 3.62
499 2227 5.160607 TGGTAGTATGGAAGTTTCAGTGG 57.839 43.478 0.00 0.00 0.00 4.00
506 2234 2.167487 TGGAAGTTTCAGTGGCCAAAAC 59.833 45.455 19.57 19.57 33.98 2.43
514 2242 1.555967 AGTGGCCAAAACACTGTTGT 58.444 45.000 7.24 0.00 46.67 3.32
714 2444 2.642427 TCCAACATAGTACGACCGCTA 58.358 47.619 0.00 0.00 0.00 4.26
722 2452 0.859232 GTACGACCGCTATGCAATGG 59.141 55.000 0.00 0.00 0.00 3.16
750 2480 7.017055 GCTGGACAAATATTTCAAATGTTTGC 58.983 34.615 24.55 18.53 38.05 3.68
832 2562 3.362870 AAGGCTACTACGACAGGTACT 57.637 47.619 0.00 0.00 43.88 2.73
1029 2762 2.480419 CGAGTGTGAGGTGAACAAATCC 59.520 50.000 0.00 0.00 0.00 3.01
1232 2965 0.252479 CAGCAGCTGGAGATTCCACT 59.748 55.000 17.12 0.00 42.67 4.00
1375 3108 3.387374 AGATGAGGAGCAGAACATACCAG 59.613 47.826 0.00 0.00 0.00 4.00
1403 3136 3.746792 TCAAGATGAGGAGGAGACAGA 57.253 47.619 0.00 0.00 0.00 3.41
1524 3269 2.421424 GGAGCAAAACATACCAGAGCAG 59.579 50.000 0.00 0.00 0.00 4.24
1532 3277 2.501723 ACATACCAGAGCAGTACCAAGG 59.498 50.000 0.00 0.00 0.00 3.61
1615 3366 3.739519 CGAGGAGGAGGAGCAAAACATAG 60.740 52.174 0.00 0.00 0.00 2.23
1616 3367 3.452627 GAGGAGGAGGAGCAAAACATAGA 59.547 47.826 0.00 0.00 0.00 1.98
1646 3397 0.820871 CAAGACGAGGAGGAGGAAGG 59.179 60.000 0.00 0.00 0.00 3.46
1764 3515 1.576421 GCAAACGGCACCAGAGAAG 59.424 57.895 0.00 0.00 43.97 2.85
1789 3540 3.127895 CGAAGACGAGGAAGAGAAGACAT 59.872 47.826 0.00 0.00 42.66 3.06
1819 3570 1.978454 CCAAGATGGGGATGAGAAGC 58.022 55.000 0.00 0.00 32.67 3.86
2018 3775 1.604593 GGGAGAAGCAGCTTGGCAA 60.605 57.895 13.91 0.00 35.83 4.52
2022 3779 1.447314 GAAGCAGCTTGGCAATGGC 60.447 57.895 13.91 1.13 40.13 4.40
2046 3803 0.600057 CAAAAGCTGGCAGGGACTTC 59.400 55.000 17.64 0.00 34.60 3.01
2115 3872 3.683937 GGCGGCACAACATTGGCT 61.684 61.111 3.07 0.00 39.89 4.75
2229 3986 0.036010 ATGGGTCCAAGAAGAGCGTG 60.036 55.000 0.00 0.00 35.06 5.34
2317 4074 4.168760 GCAAGATTGCGCAAAAACTAGAT 58.831 39.130 28.81 7.75 45.11 1.98
2321 4078 8.291591 GCAAGATTGCGCAAAAACTAGATTTTG 61.292 37.037 28.81 25.71 45.57 2.44
2330 4087 6.347644 GCAAAAACTAGATTTTGGGCAATGAC 60.348 38.462 28.79 13.26 45.83 3.06
2337 4094 3.883830 TTTTGGGCAATGACGCAATAT 57.116 38.095 7.64 0.00 41.44 1.28
2338 4095 2.867287 TTGGGCAATGACGCAATATG 57.133 45.000 3.86 0.00 37.54 1.78
2339 4096 2.049888 TGGGCAATGACGCAATATGA 57.950 45.000 0.00 0.00 0.00 2.15
2340 4097 2.585330 TGGGCAATGACGCAATATGAT 58.415 42.857 0.00 0.00 0.00 2.45
2341 4098 2.293955 TGGGCAATGACGCAATATGATG 59.706 45.455 0.00 0.00 0.00 3.07
2342 4099 2.553602 GGGCAATGACGCAATATGATGA 59.446 45.455 0.00 0.00 0.00 2.92
2343 4100 3.365666 GGGCAATGACGCAATATGATGAG 60.366 47.826 0.00 0.00 0.00 2.90
2351 4108 5.297527 TGACGCAATATGATGAGCAAATTCT 59.702 36.000 0.00 0.00 0.00 2.40
2376 4133 0.178990 GGAACTCCACAGCAAACCCT 60.179 55.000 0.00 0.00 35.64 4.34
2391 4153 2.463047 ACCCTGCCTTCTACCTAGAG 57.537 55.000 0.00 0.00 33.21 2.43
2446 4208 7.069950 TGGCATCTGATCAGTTATGTACTTACT 59.930 37.037 21.92 0.00 33.85 2.24
2461 4223 3.841643 ACTTACTCAAACGATGTACCGG 58.158 45.455 0.00 0.00 0.00 5.28
2484 4246 4.991153 TGAAACATCAGCGAGTCTATCT 57.009 40.909 0.00 0.00 0.00 1.98
2490 4252 7.987750 AACATCAGCGAGTCTATCTAGATAA 57.012 36.000 13.41 2.84 34.39 1.75
2493 4255 8.046708 ACATCAGCGAGTCTATCTAGATAATCT 58.953 37.037 13.41 13.20 34.39 2.40
2571 4333 3.248446 TTTCTCCCGGGTCGGCAAG 62.248 63.158 22.86 9.62 46.86 4.01
2755 4522 2.481854 CACATCACATAGCTCTGCTCC 58.518 52.381 0.00 0.00 40.44 4.70
2770 4537 5.684552 GCTCTGCTCCTTTTGTGATCTATCT 60.685 44.000 0.00 0.00 0.00 1.98
2771 4538 6.462207 GCTCTGCTCCTTTTGTGATCTATCTA 60.462 42.308 0.00 0.00 0.00 1.98
2772 4539 7.609097 TCTGCTCCTTTTGTGATCTATCTAT 57.391 36.000 0.00 0.00 0.00 1.98
2773 4540 7.665690 TCTGCTCCTTTTGTGATCTATCTATC 58.334 38.462 0.00 0.00 0.00 2.08
2795 4562 7.984422 ATCACAAGATTTGACATTGTCTACA 57.016 32.000 17.26 2.48 35.04 2.74
2802 4569 8.862325 AGATTTGACATTGTCTACAATTACCA 57.138 30.769 17.26 2.44 43.48 3.25
2812 4579 1.826385 ACAATTACCAGAGCAGGTGC 58.174 50.000 5.84 0.00 43.14 5.01
2827 4594 3.798878 GCAGGTGCTCTTTTCAAAAGAAC 59.201 43.478 13.61 9.89 38.21 3.01
2833 4600 4.097892 TGCTCTTTTCAAAAGAACAGGGTC 59.902 41.667 13.61 0.45 0.00 4.46
2835 4602 3.066203 TCTTTTCAAAAGAACAGGGTCGC 59.934 43.478 10.29 0.00 0.00 5.19
2864 4631 1.653151 GACAGAAATGTAGGGCCGAC 58.347 55.000 10.15 10.15 0.00 4.79
2883 4650 2.423892 GACGTGCACAGAATCTAGAGGA 59.576 50.000 18.64 0.00 0.00 3.71
2899 4666 1.137282 GAGGATCCCTCGGTTTCAGAC 59.863 57.143 8.55 0.00 41.08 3.51
2900 4667 0.178301 GGATCCCTCGGTTTCAGACC 59.822 60.000 0.00 0.00 45.55 3.85
2901 4668 1.196012 GATCCCTCGGTTTCAGACCT 58.804 55.000 0.00 0.00 46.92 3.85
2902 4669 2.385803 GATCCCTCGGTTTCAGACCTA 58.614 52.381 0.00 0.00 46.92 3.08
2939 4706 2.344535 AAAAATGCTGCACCGAGCT 58.655 47.368 3.57 0.00 45.94 4.09
2940 4707 1.533625 AAAAATGCTGCACCGAGCTA 58.466 45.000 3.57 0.00 45.94 3.32
2941 4708 1.755179 AAAATGCTGCACCGAGCTAT 58.245 45.000 3.57 0.00 45.94 2.97
2942 4709 1.303309 AAATGCTGCACCGAGCTATC 58.697 50.000 3.57 0.00 45.94 2.08
2944 4711 1.406065 ATGCTGCACCGAGCTATCCT 61.406 55.000 3.57 0.00 45.94 3.24
2945 4712 0.755327 TGCTGCACCGAGCTATCCTA 60.755 55.000 0.00 0.00 45.94 2.94
2946 4713 0.605589 GCTGCACCGAGCTATCCTAT 59.394 55.000 0.00 0.00 45.94 2.57
2947 4714 1.403514 GCTGCACCGAGCTATCCTATC 60.404 57.143 0.00 0.00 45.94 2.08
2948 4715 1.889170 CTGCACCGAGCTATCCTATCA 59.111 52.381 0.00 0.00 45.94 2.15
2949 4716 2.297315 CTGCACCGAGCTATCCTATCAA 59.703 50.000 0.00 0.00 45.94 2.57
2950 4717 2.899900 TGCACCGAGCTATCCTATCAAT 59.100 45.455 0.00 0.00 45.94 2.57
2973 4740 8.926710 CAATAGTACGGCTTAATTAGGATTCAG 58.073 37.037 0.00 0.00 0.00 3.02
3068 4837 8.237811 ACATGTGTTGTCTTATTTTCCTCTTT 57.762 30.769 0.00 0.00 30.89 2.52
3108 4877 5.928839 GCATGTCCATATAACTCACGAAGAT 59.071 40.000 0.00 0.00 0.00 2.40
3115 4884 9.297037 TCCATATAACTCACGAAGATCATTAGA 57.703 33.333 0.00 0.00 0.00 2.10
3118 4887 4.657436 ACTCACGAAGATCATTAGACCC 57.343 45.455 0.00 0.00 0.00 4.46
3119 4888 3.385111 ACTCACGAAGATCATTAGACCCC 59.615 47.826 0.00 0.00 0.00 4.95
3120 4889 3.371034 TCACGAAGATCATTAGACCCCA 58.629 45.455 0.00 0.00 0.00 4.96
3121 4890 3.772572 TCACGAAGATCATTAGACCCCAA 59.227 43.478 0.00 0.00 0.00 4.12
3122 4891 4.224147 TCACGAAGATCATTAGACCCCAAA 59.776 41.667 0.00 0.00 0.00 3.28
3123 4892 5.104527 TCACGAAGATCATTAGACCCCAAAT 60.105 40.000 0.00 0.00 0.00 2.32
3124 4893 5.237344 CACGAAGATCATTAGACCCCAAATC 59.763 44.000 0.00 0.00 0.00 2.17
3125 4894 5.104527 ACGAAGATCATTAGACCCCAAATCA 60.105 40.000 0.00 0.00 0.00 2.57
3126 4895 5.237344 CGAAGATCATTAGACCCCAAATCAC 59.763 44.000 0.00 0.00 0.00 3.06
3127 4896 5.983333 AGATCATTAGACCCCAAATCACT 57.017 39.130 0.00 0.00 0.00 3.41
3128 4897 6.332976 AGATCATTAGACCCCAAATCACTT 57.667 37.500 0.00 0.00 0.00 3.16
3129 4898 6.125029 AGATCATTAGACCCCAAATCACTTG 58.875 40.000 0.00 0.00 34.52 3.16
3130 4899 5.255397 TCATTAGACCCCAAATCACTTGT 57.745 39.130 0.00 0.00 32.65 3.16
3131 4900 5.253330 TCATTAGACCCCAAATCACTTGTC 58.747 41.667 0.00 0.00 32.65 3.18
3132 4901 4.715534 TTAGACCCCAAATCACTTGTCA 57.284 40.909 0.00 0.00 32.65 3.58
3133 4902 3.814504 AGACCCCAAATCACTTGTCAT 57.185 42.857 0.00 0.00 32.65 3.06
3134 4903 4.927267 AGACCCCAAATCACTTGTCATA 57.073 40.909 0.00 0.00 32.65 2.15
3135 4904 5.255397 AGACCCCAAATCACTTGTCATAA 57.745 39.130 0.00 0.00 32.65 1.90
3136 4905 5.640147 AGACCCCAAATCACTTGTCATAAA 58.360 37.500 0.00 0.00 32.65 1.40
3137 4906 5.476945 AGACCCCAAATCACTTGTCATAAAC 59.523 40.000 0.00 0.00 32.65 2.01
3138 4907 5.144100 ACCCCAAATCACTTGTCATAAACA 58.856 37.500 0.00 0.00 35.59 2.83
3139 4908 5.779771 ACCCCAAATCACTTGTCATAAACAT 59.220 36.000 0.00 0.00 37.82 2.71
3140 4909 6.071391 ACCCCAAATCACTTGTCATAAACATC 60.071 38.462 0.00 0.00 37.82 3.06
3141 4910 6.029607 CCCAAATCACTTGTCATAAACATCG 58.970 40.000 0.00 0.00 37.82 3.84
3142 4911 6.128035 CCCAAATCACTTGTCATAAACATCGA 60.128 38.462 0.00 0.00 37.82 3.59
3143 4912 6.742718 CCAAATCACTTGTCATAAACATCGAC 59.257 38.462 0.00 0.00 37.82 4.20
3144 4913 7.297391 CAAATCACTTGTCATAAACATCGACA 58.703 34.615 0.00 0.00 37.82 4.35
3145 4914 5.839262 TCACTTGTCATAAACATCGACAC 57.161 39.130 0.00 0.00 39.29 3.67
3146 4915 5.538118 TCACTTGTCATAAACATCGACACT 58.462 37.500 0.00 0.00 39.29 3.55
3147 4916 5.405269 TCACTTGTCATAAACATCGACACTG 59.595 40.000 0.00 0.00 39.29 3.66
3148 4917 5.405269 CACTTGTCATAAACATCGACACTGA 59.595 40.000 0.00 0.00 39.29 3.41
3149 4918 6.091305 CACTTGTCATAAACATCGACACTGAT 59.909 38.462 0.00 0.00 39.29 2.90
3151 4920 5.719173 TGTCATAAACATCGACACTGATGA 58.281 37.500 10.45 0.00 46.98 2.92
3152 4921 6.340522 TGTCATAAACATCGACACTGATGAT 58.659 36.000 10.45 0.00 46.98 2.45
3153 4922 6.256321 TGTCATAAACATCGACACTGATGATG 59.744 38.462 10.45 11.34 46.98 3.07
3154 4923 5.754890 TCATAAACATCGACACTGATGATGG 59.245 40.000 10.45 0.00 46.98 3.51
3155 4924 3.616956 AACATCGACACTGATGATGGT 57.383 42.857 10.45 9.02 46.98 3.55
3156 4925 2.897436 ACATCGACACTGATGATGGTG 58.103 47.619 10.45 0.00 46.98 4.17
3157 4926 2.234661 ACATCGACACTGATGATGGTGT 59.765 45.455 10.45 0.00 46.98 4.16
3158 4927 2.368655 TCGACACTGATGATGGTGTG 57.631 50.000 3.42 0.00 45.17 3.82
3159 4928 1.066929 TCGACACTGATGATGGTGTGG 60.067 52.381 3.42 3.02 45.17 4.17
3160 4929 1.742761 GACACTGATGATGGTGTGGG 58.257 55.000 3.42 0.00 45.17 4.61
3161 4930 1.278985 GACACTGATGATGGTGTGGGA 59.721 52.381 3.42 0.00 45.17 4.37
3162 4931 1.280133 ACACTGATGATGGTGTGGGAG 59.720 52.381 0.00 0.00 43.79 4.30
3163 4932 0.914644 ACTGATGATGGTGTGGGAGG 59.085 55.000 0.00 0.00 0.00 4.30
3164 4933 0.465097 CTGATGATGGTGTGGGAGGC 60.465 60.000 0.00 0.00 0.00 4.70
3165 4934 1.524621 GATGATGGTGTGGGAGGCG 60.525 63.158 0.00 0.00 0.00 5.52
3166 4935 2.257409 GATGATGGTGTGGGAGGCGT 62.257 60.000 0.00 0.00 0.00 5.68
3167 4936 0.980754 ATGATGGTGTGGGAGGCGTA 60.981 55.000 0.00 0.00 0.00 4.42
3168 4937 1.144057 GATGGTGTGGGAGGCGTAG 59.856 63.158 0.00 0.00 0.00 3.51
3169 4938 1.612442 ATGGTGTGGGAGGCGTAGT 60.612 57.895 0.00 0.00 0.00 2.73
3170 4939 1.198759 ATGGTGTGGGAGGCGTAGTT 61.199 55.000 0.00 0.00 0.00 2.24
3171 4940 1.373812 GGTGTGGGAGGCGTAGTTT 59.626 57.895 0.00 0.00 0.00 2.66
3172 4941 0.672711 GGTGTGGGAGGCGTAGTTTC 60.673 60.000 0.00 0.00 0.00 2.78
3173 4942 0.320697 GTGTGGGAGGCGTAGTTTCT 59.679 55.000 0.00 0.00 0.00 2.52
3174 4943 0.320374 TGTGGGAGGCGTAGTTTCTG 59.680 55.000 0.00 0.00 0.00 3.02
3175 4944 0.320697 GTGGGAGGCGTAGTTTCTGT 59.679 55.000 0.00 0.00 0.00 3.41
3176 4945 0.606604 TGGGAGGCGTAGTTTCTGTC 59.393 55.000 0.00 0.00 0.00 3.51
3177 4946 0.458025 GGGAGGCGTAGTTTCTGTCG 60.458 60.000 0.00 0.00 0.00 4.35
3178 4947 0.524862 GGAGGCGTAGTTTCTGTCGA 59.475 55.000 0.00 0.00 0.00 4.20
3179 4948 1.134560 GGAGGCGTAGTTTCTGTCGAT 59.865 52.381 0.00 0.00 0.00 3.59
3180 4949 2.357009 GGAGGCGTAGTTTCTGTCGATA 59.643 50.000 0.00 0.00 0.00 2.92
3181 4950 3.004524 GGAGGCGTAGTTTCTGTCGATAT 59.995 47.826 0.00 0.00 0.00 1.63
3182 4951 4.499357 GGAGGCGTAGTTTCTGTCGATATT 60.499 45.833 0.00 0.00 0.00 1.28
3183 4952 4.360563 AGGCGTAGTTTCTGTCGATATTG 58.639 43.478 0.00 0.00 0.00 1.90
3184 4953 4.097437 AGGCGTAGTTTCTGTCGATATTGA 59.903 41.667 0.00 0.00 0.00 2.57
3185 4954 4.441415 GGCGTAGTTTCTGTCGATATTGAG 59.559 45.833 0.00 0.00 0.00 3.02
3186 4955 4.441415 GCGTAGTTTCTGTCGATATTGAGG 59.559 45.833 0.00 0.00 0.00 3.86
3187 4956 4.441415 CGTAGTTTCTGTCGATATTGAGGC 59.559 45.833 0.00 0.00 0.00 4.70
3188 4957 3.448686 AGTTTCTGTCGATATTGAGGCG 58.551 45.455 0.00 0.00 0.00 5.52
3189 4958 3.119101 AGTTTCTGTCGATATTGAGGCGT 60.119 43.478 0.00 0.00 0.00 5.68
3190 4959 2.776312 TCTGTCGATATTGAGGCGTC 57.224 50.000 0.00 0.00 0.00 5.19
3191 4960 2.298610 TCTGTCGATATTGAGGCGTCT 58.701 47.619 8.06 0.00 0.00 4.18
3192 4961 2.033424 TCTGTCGATATTGAGGCGTCTG 59.967 50.000 8.06 0.00 0.00 3.51
3193 4962 1.749063 TGTCGATATTGAGGCGTCTGT 59.251 47.619 8.06 0.00 0.00 3.41
3194 4963 2.120232 GTCGATATTGAGGCGTCTGTG 58.880 52.381 8.06 0.00 0.00 3.66
3195 4964 2.021457 TCGATATTGAGGCGTCTGTGA 58.979 47.619 8.06 0.00 0.00 3.58
3196 4965 2.623416 TCGATATTGAGGCGTCTGTGAT 59.377 45.455 8.06 0.00 0.00 3.06
3197 4966 2.728318 CGATATTGAGGCGTCTGTGATG 59.272 50.000 8.06 0.00 0.00 3.07
3198 4967 3.550842 CGATATTGAGGCGTCTGTGATGA 60.551 47.826 8.06 0.00 0.00 2.92
3199 4968 2.015736 ATTGAGGCGTCTGTGATGAC 57.984 50.000 8.06 0.00 0.00 3.06
3200 4969 0.969149 TTGAGGCGTCTGTGATGACT 59.031 50.000 8.06 0.00 40.00 3.41
3201 4970 0.969149 TGAGGCGTCTGTGATGACTT 59.031 50.000 8.06 0.00 37.00 3.01
3202 4971 1.344438 TGAGGCGTCTGTGATGACTTT 59.656 47.619 8.06 0.00 37.00 2.66
3203 4972 1.728971 GAGGCGTCTGTGATGACTTTG 59.271 52.381 0.00 0.00 37.00 2.77
3204 4973 1.070758 AGGCGTCTGTGATGACTTTGT 59.929 47.619 0.00 0.00 32.18 2.83
3205 4974 1.461127 GGCGTCTGTGATGACTTTGTC 59.539 52.381 0.00 0.00 35.00 3.18
3206 4975 2.135139 GCGTCTGTGATGACTTTGTCA 58.865 47.619 2.77 2.77 46.90 3.58
3207 4976 2.543848 GCGTCTGTGATGACTTTGTCAA 59.456 45.455 4.46 0.00 45.96 3.18
3208 4977 3.187227 GCGTCTGTGATGACTTTGTCAAT 59.813 43.478 4.46 0.00 45.96 2.57
3209 4978 4.667668 GCGTCTGTGATGACTTTGTCAATC 60.668 45.833 4.46 4.44 45.96 2.67
3210 4979 4.687948 CGTCTGTGATGACTTTGTCAATCT 59.312 41.667 4.46 0.00 45.96 2.40
3211 4980 5.178252 CGTCTGTGATGACTTTGTCAATCTT 59.822 40.000 4.46 0.00 45.96 2.40
3212 4981 6.597614 GTCTGTGATGACTTTGTCAATCTTC 58.402 40.000 4.46 0.00 45.96 2.87
3213 4982 6.203530 GTCTGTGATGACTTTGTCAATCTTCA 59.796 38.462 4.46 1.71 45.96 3.02
3214 4983 6.767423 TCTGTGATGACTTTGTCAATCTTCAA 59.233 34.615 4.46 0.00 45.96 2.69
3215 4984 6.962686 TGTGATGACTTTGTCAATCTTCAAG 58.037 36.000 4.46 0.00 45.96 3.02
3216 4985 5.855395 GTGATGACTTTGTCAATCTTCAAGC 59.145 40.000 4.46 0.00 45.96 4.01
3217 4986 5.766670 TGATGACTTTGTCAATCTTCAAGCT 59.233 36.000 4.46 0.00 45.96 3.74
3218 4987 6.263842 TGATGACTTTGTCAATCTTCAAGCTT 59.736 34.615 4.46 0.00 45.96 3.74
3219 4988 6.064846 TGACTTTGTCAATCTTCAAGCTTC 57.935 37.500 0.00 0.00 39.78 3.86
3220 4989 5.589855 TGACTTTGTCAATCTTCAAGCTTCA 59.410 36.000 0.00 0.00 39.78 3.02
3221 4990 5.825507 ACTTTGTCAATCTTCAAGCTTCAC 58.174 37.500 0.00 0.00 0.00 3.18
3222 4991 4.472691 TTGTCAATCTTCAAGCTTCACG 57.527 40.909 0.00 0.00 0.00 4.35
3223 4992 3.727726 TGTCAATCTTCAAGCTTCACGA 58.272 40.909 0.00 0.00 0.00 4.35
3224 4993 4.126437 TGTCAATCTTCAAGCTTCACGAA 58.874 39.130 0.00 0.00 0.00 3.85
3225 4994 4.756642 TGTCAATCTTCAAGCTTCACGAAT 59.243 37.500 0.00 0.00 0.00 3.34
3226 4995 5.239306 TGTCAATCTTCAAGCTTCACGAATT 59.761 36.000 0.00 0.00 0.00 2.17
3227 4996 5.792468 GTCAATCTTCAAGCTTCACGAATTC 59.208 40.000 0.00 0.00 0.00 2.17
3228 4997 4.590400 ATCTTCAAGCTTCACGAATTCG 57.410 40.909 25.64 25.64 46.33 3.34
3229 4998 3.649073 TCTTCAAGCTTCACGAATTCGA 58.351 40.909 33.05 10.13 43.02 3.71
3230 4999 3.428870 TCTTCAAGCTTCACGAATTCGAC 59.571 43.478 33.05 16.03 43.02 4.20
3231 5000 2.066262 TCAAGCTTCACGAATTCGACC 58.934 47.619 33.05 15.28 43.02 4.79
3232 5001 2.069273 CAAGCTTCACGAATTCGACCT 58.931 47.619 33.05 17.05 43.02 3.85
3233 5002 1.714794 AGCTTCACGAATTCGACCTG 58.285 50.000 33.05 20.75 43.02 4.00
3234 5003 0.721718 GCTTCACGAATTCGACCTGG 59.278 55.000 33.05 18.21 43.02 4.45
3235 5004 1.939838 GCTTCACGAATTCGACCTGGT 60.940 52.381 33.05 7.74 43.02 4.00
3236 5005 1.993370 CTTCACGAATTCGACCTGGTC 59.007 52.381 33.05 16.99 43.02 4.02
3237 5006 1.254026 TCACGAATTCGACCTGGTCT 58.746 50.000 33.05 6.17 43.02 3.85
3238 5007 1.616865 TCACGAATTCGACCTGGTCTT 59.383 47.619 33.05 11.96 43.02 3.01
3239 5008 1.993370 CACGAATTCGACCTGGTCTTC 59.007 52.381 33.05 18.31 43.02 2.87
3240 5009 1.616865 ACGAATTCGACCTGGTCTTCA 59.383 47.619 33.05 8.41 43.02 3.02
3241 5010 2.036733 ACGAATTCGACCTGGTCTTCAA 59.963 45.455 33.05 13.79 43.02 2.69
3242 5011 3.262420 CGAATTCGACCTGGTCTTCAAT 58.738 45.455 23.29 15.25 43.02 2.57
3243 5012 4.081862 ACGAATTCGACCTGGTCTTCAATA 60.082 41.667 33.05 3.99 43.02 1.90
3244 5013 4.504461 CGAATTCGACCTGGTCTTCAATAG 59.496 45.833 23.29 7.23 43.02 1.73
3245 5014 3.887621 TTCGACCTGGTCTTCAATAGG 57.112 47.619 23.49 6.52 36.39 2.57
3246 5015 1.480954 TCGACCTGGTCTTCAATAGGC 59.519 52.381 23.49 0.00 33.57 3.93
3247 5016 1.802880 CGACCTGGTCTTCAATAGGCG 60.803 57.143 23.49 4.17 33.57 5.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 9.859152 AGAATATTCCCTTTCCTAAATTCAGAG 57.141 33.333 11.92 0.00 0.00 3.35
38 39 8.910351 ACAGCAGTATTAGAATATTCCCTTTC 57.090 34.615 11.92 1.36 0.00 2.62
59 61 7.043325 GCAACAACTATGTAGACACTATACAGC 60.043 40.741 0.00 0.00 39.40 4.40
107 109 7.390162 TCTGCACAGACAAAACATCATAATGTA 59.610 33.333 0.00 0.00 37.56 2.29
162 165 5.067936 GCTTAGCTCTATCAGTCAGGTACAA 59.932 44.000 0.00 0.00 0.00 2.41
241 244 9.346725 GAGTCAAATTTCCTTATTTAGTTGCAG 57.653 33.333 0.00 0.00 0.00 4.41
292 1929 7.289317 TCCTTTCCAACGTTATATATCTCAGGT 59.711 37.037 0.00 0.00 0.00 4.00
316 1953 8.562892 CACAACTCAGATTAATGTATTGGATCC 58.437 37.037 4.20 4.20 0.00 3.36
317 1954 8.072567 GCACAACTCAGATTAATGTATTGGATC 58.927 37.037 0.00 0.00 0.00 3.36
318 1955 7.013655 GGCACAACTCAGATTAATGTATTGGAT 59.986 37.037 0.00 0.00 0.00 3.41
319 1956 6.318648 GGCACAACTCAGATTAATGTATTGGA 59.681 38.462 0.00 0.00 0.00 3.53
343 1980 9.976255 CAAAATAATGCAAACACATCTTTATGG 57.024 29.630 0.00 0.00 37.43 2.74
378 2024 8.207545 AGTAAACCATTAAAGCCAATTTCACAA 58.792 29.630 0.00 0.00 32.01 3.33
381 2027 8.646900 AGAAGTAAACCATTAAAGCCAATTTCA 58.353 29.630 0.00 0.00 32.01 2.69
382 2028 9.140286 GAGAAGTAAACCATTAAAGCCAATTTC 57.860 33.333 0.00 0.00 32.01 2.17
383 2029 8.646900 TGAGAAGTAAACCATTAAAGCCAATTT 58.353 29.630 0.00 0.00 34.72 1.82
388 2034 7.658261 ACTTTGAGAAGTAAACCATTAAAGCC 58.342 34.615 0.00 0.00 44.13 4.35
394 2040 8.170730 AGGGATAACTTTGAGAAGTAAACCATT 58.829 33.333 0.00 0.00 45.18 3.16
407 2053 9.396022 CTTAAGAATTGCTAGGGATAACTTTGA 57.604 33.333 0.00 0.00 0.00 2.69
409 2055 9.755122 AACTTAAGAATTGCTAGGGATAACTTT 57.245 29.630 10.09 0.00 0.00 2.66
416 2062 8.109634 AGAATTGAACTTAAGAATTGCTAGGGA 58.890 33.333 10.09 0.00 0.00 4.20
431 2077 2.949447 AGTGGGCACAGAATTGAACTT 58.051 42.857 0.00 0.00 0.00 2.66
434 2080 2.942804 TCAAGTGGGCACAGAATTGAA 58.057 42.857 8.36 0.00 0.00 2.69
435 2081 2.655090 TCAAGTGGGCACAGAATTGA 57.345 45.000 7.01 7.01 0.00 2.57
436 2082 3.947910 AATCAAGTGGGCACAGAATTG 57.052 42.857 0.00 0.00 0.00 2.32
437 2083 3.642848 ACAAATCAAGTGGGCACAGAATT 59.357 39.130 0.00 0.00 0.00 2.17
438 2084 3.233507 ACAAATCAAGTGGGCACAGAAT 58.766 40.909 0.00 0.00 0.00 2.40
439 2085 2.665165 ACAAATCAAGTGGGCACAGAA 58.335 42.857 0.00 0.00 0.00 3.02
441 2087 2.361757 TGAACAAATCAAGTGGGCACAG 59.638 45.455 0.00 0.00 34.30 3.66
442 2088 2.382882 TGAACAAATCAAGTGGGCACA 58.617 42.857 0.00 0.00 34.30 4.57
443 2089 3.451141 TTGAACAAATCAAGTGGGCAC 57.549 42.857 0.00 0.00 43.08 5.01
476 2204 5.178797 CCACTGAAACTTCCATACTACCAG 58.821 45.833 0.00 0.00 0.00 4.00
479 2207 3.939592 GGCCACTGAAACTTCCATACTAC 59.060 47.826 0.00 0.00 0.00 2.73
485 2213 2.151502 TTTGGCCACTGAAACTTCCA 57.848 45.000 3.88 0.00 0.00 3.53
486 2214 2.167487 TGTTTTGGCCACTGAAACTTCC 59.833 45.455 24.79 6.47 35.04 3.46
499 2227 6.072728 TGACTGATATACAACAGTGTTTTGGC 60.073 38.462 5.57 0.00 45.54 4.52
506 2234 7.753580 TCGTAGTTTGACTGATATACAACAGTG 59.246 37.037 11.89 0.00 45.54 3.66
512 2240 7.277098 GCCTTTTCGTAGTTTGACTGATATACA 59.723 37.037 0.00 0.00 0.00 2.29
513 2241 7.254353 GGCCTTTTCGTAGTTTGACTGATATAC 60.254 40.741 0.00 0.00 0.00 1.47
514 2242 6.759827 GGCCTTTTCGTAGTTTGACTGATATA 59.240 38.462 0.00 0.00 0.00 0.86
637 2367 6.817765 TGATAAAAGGTAGGCAGAGTTTTG 57.182 37.500 0.00 0.00 0.00 2.44
639 2369 6.603599 GGAATGATAAAAGGTAGGCAGAGTTT 59.396 38.462 0.00 0.00 0.00 2.66
714 2444 1.927487 TTGTCCAGCTTCCATTGCAT 58.073 45.000 0.00 0.00 0.00 3.96
722 2452 8.538409 AACATTTGAAATATTTGTCCAGCTTC 57.462 30.769 5.17 0.00 0.00 3.86
750 2480 0.468029 AAGGGGCCAATATTCTGCCG 60.468 55.000 15.84 0.00 46.31 5.69
832 2562 8.324306 AGTCTGATTTGTCCATTTAGAAGATCA 58.676 33.333 0.00 0.00 0.00 2.92
833 2563 8.729805 AGTCTGATTTGTCCATTTAGAAGATC 57.270 34.615 0.00 0.00 0.00 2.75
846 2576 7.862873 CCTTTCAAAGGTTTAGTCTGATTTGTC 59.137 37.037 8.18 0.00 43.95 3.18
1232 2965 1.631071 TTCACACTCCTGTGGTGCCA 61.631 55.000 1.16 0.00 46.93 4.92
1375 3108 5.245751 TCTCCTCCTCATCTTGATATTGCTC 59.754 44.000 0.00 0.00 0.00 4.26
1403 3136 3.151554 TCATCATCTTGCTGTTGCTGTT 58.848 40.909 0.00 0.00 40.48 3.16
1465 3198 5.888161 CCAACTCCTTATCTTGGTATTGCTT 59.112 40.000 0.00 0.00 31.39 3.91
1524 3269 1.975680 TCCAACTCCTCACCTTGGTAC 59.024 52.381 0.00 0.00 36.57 3.34
1532 3277 1.760029 GATCCTCCTCCAACTCCTCAC 59.240 57.143 0.00 0.00 0.00 3.51
1615 3366 3.119101 TCCTCGTCTTGGTATTGCTCTTC 60.119 47.826 0.00 0.00 0.00 2.87
1616 3367 2.832129 TCCTCGTCTTGGTATTGCTCTT 59.168 45.455 0.00 0.00 0.00 2.85
1646 3397 1.676006 CCGGTATGTTTTGCTCATCCC 59.324 52.381 0.00 0.00 0.00 3.85
1764 3515 0.522180 TCTCTTCCTCGTCTTCGCAC 59.478 55.000 0.00 0.00 36.96 5.34
1768 3519 4.420168 CATGTCTTCTCTTCCTCGTCTTC 58.580 47.826 0.00 0.00 0.00 2.87
1819 3570 4.625028 TCGTCTTGATATTGCTCTGATGG 58.375 43.478 0.00 0.00 0.00 3.51
1901 3652 1.140816 GGTCTTCTGCTTCGTGTCAC 58.859 55.000 0.00 0.00 0.00 3.67
1902 3653 0.033504 GGGTCTTCTGCTTCGTGTCA 59.966 55.000 0.00 0.00 0.00 3.58
2046 3803 2.280186 GCATTCTCCCCGTAGCCG 60.280 66.667 0.00 0.00 0.00 5.52
2067 3824 4.024698 GCTGCTCTATGGTCAGCG 57.975 61.111 9.38 0.00 42.86 5.18
2115 3872 1.132977 TCGGGCCTCCTTATCACCATA 60.133 52.381 0.84 0.00 0.00 2.74
2229 3986 3.440522 GTGTTCATACCTCCTTGAAAGGC 59.559 47.826 4.08 0.00 46.06 4.35
2304 4061 3.648009 TGCCCAAAATCTAGTTTTTGCG 58.352 40.909 24.42 19.71 42.55 4.85
2317 4074 3.194329 TCATATTGCGTCATTGCCCAAAA 59.806 39.130 0.00 0.00 0.00 2.44
2321 4078 2.553602 TCATCATATTGCGTCATTGCCC 59.446 45.455 0.00 0.00 0.00 5.36
2324 4081 4.477302 TGCTCATCATATTGCGTCATTG 57.523 40.909 0.00 0.00 0.00 2.82
2325 4082 5.503662 TTTGCTCATCATATTGCGTCATT 57.496 34.783 0.00 0.00 0.00 2.57
2351 4108 3.160585 CTGTGGAGTTCCCTGGCA 58.839 61.111 0.00 0.00 35.38 4.92
2355 4112 0.178990 GGTTTGCTGTGGAGTTCCCT 60.179 55.000 0.00 0.00 35.38 4.20
2356 4113 1.179174 GGGTTTGCTGTGGAGTTCCC 61.179 60.000 0.00 0.00 34.29 3.97
2376 4133 2.828661 TCTGCTCTAGGTAGAAGGCA 57.171 50.000 0.00 2.11 33.85 4.75
2379 4136 7.446931 TGATAACAGATCTGCTCTAGGTAGAAG 59.553 40.741 22.83 0.00 39.92 2.85
2380 4137 7.290813 TGATAACAGATCTGCTCTAGGTAGAA 58.709 38.462 22.83 0.00 39.92 2.10
2381 4138 6.842676 TGATAACAGATCTGCTCTAGGTAGA 58.157 40.000 22.83 2.49 40.72 2.59
2407 4169 6.604396 TGATCAGATGCCATAAAACAACATCT 59.396 34.615 0.00 0.00 46.29 2.90
2446 4208 3.596310 TTCATCCGGTACATCGTTTGA 57.404 42.857 0.00 0.00 0.00 2.69
2461 4223 5.527951 AGATAGACTCGCTGATGTTTCATC 58.472 41.667 3.16 3.16 0.00 2.92
2525 4287 3.006967 GGTAGAACTGAGCAACTCCTTCA 59.993 47.826 0.00 0.00 0.00 3.02
2770 4537 9.500785 TTGTAGACAATGTCAAATCTTGTGATA 57.499 29.630 16.38 0.00 33.46 2.15
2771 4538 7.984422 TGTAGACAATGTCAAATCTTGTGAT 57.016 32.000 16.38 0.00 33.46 3.06
2772 4539 7.800155 TTGTAGACAATGTCAAATCTTGTGA 57.200 32.000 16.38 0.00 33.46 3.58
2785 4552 5.295292 CCTGCTCTGGTAATTGTAGACAATG 59.705 44.000 8.61 0.00 45.06 2.82
2788 4555 3.838317 ACCTGCTCTGGTAATTGTAGACA 59.162 43.478 0.00 0.00 38.79 3.41
2793 4560 1.826385 GCACCTGCTCTGGTAATTGT 58.174 50.000 0.00 0.00 38.45 2.71
2812 4579 4.789802 GCGACCCTGTTCTTTTGAAAAGAG 60.790 45.833 18.50 10.50 44.60 2.85
2814 4581 3.066760 AGCGACCCTGTTCTTTTGAAAAG 59.933 43.478 11.30 11.30 42.15 2.27
2827 4594 2.264794 GGTGTGGTAGCGACCCTG 59.735 66.667 13.95 0.00 46.32 4.45
2835 4602 3.040147 ACATTTCTGTCGGTGTGGTAG 57.960 47.619 0.00 0.00 0.00 3.18
2864 4631 3.551863 GGATCCTCTAGATTCTGTGCACG 60.552 52.174 13.13 7.36 34.42 5.34
2924 4691 0.533755 GGATAGCTCGGTGCAGCATT 60.534 55.000 17.33 0.26 45.94 3.56
2926 4693 0.755327 TAGGATAGCTCGGTGCAGCA 60.755 55.000 17.33 0.00 45.94 4.41
2927 4694 0.605589 ATAGGATAGCTCGGTGCAGC 59.394 55.000 5.64 5.64 45.94 5.25
2928 4695 1.889170 TGATAGGATAGCTCGGTGCAG 59.111 52.381 4.74 0.00 45.94 4.41
2929 4696 1.995376 TGATAGGATAGCTCGGTGCA 58.005 50.000 4.74 0.00 45.94 4.57
2930 4697 3.601443 ATTGATAGGATAGCTCGGTGC 57.399 47.619 0.00 0.00 43.29 5.01
2932 4699 5.585445 CGTACTATTGATAGGATAGCTCGGT 59.415 44.000 0.00 0.00 34.69 4.69
2934 4701 5.504337 GCCGTACTATTGATAGGATAGCTCG 60.504 48.000 0.00 0.00 34.69 5.03
2935 4702 5.591067 AGCCGTACTATTGATAGGATAGCTC 59.409 44.000 0.00 0.00 32.26 4.09
2936 4703 5.511363 AGCCGTACTATTGATAGGATAGCT 58.489 41.667 0.00 0.00 32.66 3.32
2937 4704 5.838531 AGCCGTACTATTGATAGGATAGC 57.161 43.478 3.30 2.18 34.69 2.97
2941 4708 8.746530 CCTAATTAAGCCGTACTATTGATAGGA 58.253 37.037 3.30 0.00 34.69 2.94
2942 4709 8.746530 TCCTAATTAAGCCGTACTATTGATAGG 58.253 37.037 3.30 0.00 34.69 2.57
2945 4712 9.654663 GAATCCTAATTAAGCCGTACTATTGAT 57.345 33.333 0.00 0.00 0.00 2.57
2946 4713 8.644216 TGAATCCTAATTAAGCCGTACTATTGA 58.356 33.333 0.00 0.00 0.00 2.57
2947 4714 8.827177 TGAATCCTAATTAAGCCGTACTATTG 57.173 34.615 0.00 0.00 0.00 1.90
2948 4715 8.648693 ACTGAATCCTAATTAAGCCGTACTATT 58.351 33.333 0.00 0.00 27.30 1.73
2949 4716 8.191534 ACTGAATCCTAATTAAGCCGTACTAT 57.808 34.615 0.00 0.00 27.30 2.12
2950 4717 7.521099 CGACTGAATCCTAATTAAGCCGTACTA 60.521 40.741 0.00 0.00 27.76 1.82
2997 4764 5.914898 TGATCGAGTCCTAGTGAAATCAA 57.085 39.130 0.00 0.00 0.00 2.57
3001 4768 5.914898 TTCATGATCGAGTCCTAGTGAAA 57.085 39.130 0.00 0.00 0.00 2.69
3039 4808 9.959749 GAGGAAAATAAGACAACACATGTAAAA 57.040 29.630 0.00 0.00 44.12 1.52
3050 4819 8.856103 CCCAAAGTAAAGAGGAAAATAAGACAA 58.144 33.333 0.00 0.00 0.00 3.18
3052 4821 7.668469 TCCCCAAAGTAAAGAGGAAAATAAGAC 59.332 37.037 0.00 0.00 0.00 3.01
3068 4837 1.284785 CATGCCCTCTTCCCCAAAGTA 59.715 52.381 0.00 0.00 36.31 2.24
3108 4877 5.222027 TGACAAGTGATTTGGGGTCTAATGA 60.222 40.000 0.00 0.00 41.25 2.57
3115 4884 5.144100 TGTTTATGACAAGTGATTTGGGGT 58.856 37.500 0.00 0.00 41.25 4.95
3118 4887 6.742718 GTCGATGTTTATGACAAGTGATTTGG 59.257 38.462 0.00 0.00 42.62 3.28
3119 4888 7.269084 GTGTCGATGTTTATGACAAGTGATTTG 59.731 37.037 0.00 0.00 43.58 2.32
3120 4889 7.173218 AGTGTCGATGTTTATGACAAGTGATTT 59.827 33.333 0.00 0.00 43.58 2.17
3121 4890 6.650807 AGTGTCGATGTTTATGACAAGTGATT 59.349 34.615 0.00 0.00 43.58 2.57
3122 4891 6.091305 CAGTGTCGATGTTTATGACAAGTGAT 59.909 38.462 0.00 0.00 43.58 3.06
3123 4892 5.405269 CAGTGTCGATGTTTATGACAAGTGA 59.595 40.000 0.00 0.00 43.58 3.41
3124 4893 5.405269 TCAGTGTCGATGTTTATGACAAGTG 59.595 40.000 0.00 0.00 43.58 3.16
3125 4894 5.538118 TCAGTGTCGATGTTTATGACAAGT 58.462 37.500 0.00 0.00 43.58 3.16
3126 4895 6.311200 TCATCAGTGTCGATGTTTATGACAAG 59.689 38.462 0.00 0.00 43.58 3.16
3127 4896 6.162777 TCATCAGTGTCGATGTTTATGACAA 58.837 36.000 0.00 0.00 43.58 3.18
3128 4897 5.719173 TCATCAGTGTCGATGTTTATGACA 58.281 37.500 0.00 0.00 42.82 3.58
3129 4898 6.292542 CCATCATCAGTGTCGATGTTTATGAC 60.293 42.308 17.48 0.00 42.82 3.06
3130 4899 5.754890 CCATCATCAGTGTCGATGTTTATGA 59.245 40.000 17.48 0.00 42.82 2.15
3131 4900 5.525012 ACCATCATCAGTGTCGATGTTTATG 59.475 40.000 17.48 8.73 42.82 1.90
3132 4901 5.525012 CACCATCATCAGTGTCGATGTTTAT 59.475 40.000 17.48 4.23 42.82 1.40
3133 4902 4.869861 CACCATCATCAGTGTCGATGTTTA 59.130 41.667 17.48 0.00 42.82 2.01
3134 4903 3.686241 CACCATCATCAGTGTCGATGTTT 59.314 43.478 17.48 6.82 42.82 2.83
3135 4904 3.264947 CACCATCATCAGTGTCGATGTT 58.735 45.455 17.48 6.37 42.82 2.71
3136 4905 2.234661 ACACCATCATCAGTGTCGATGT 59.765 45.455 17.48 7.98 43.62 3.06
3137 4906 2.606272 CACACCATCATCAGTGTCGATG 59.394 50.000 14.06 14.06 45.20 3.84
3138 4907 2.419159 CCACACCATCATCAGTGTCGAT 60.419 50.000 0.00 0.00 45.20 3.59
3139 4908 1.066929 CCACACCATCATCAGTGTCGA 60.067 52.381 0.00 0.00 45.20 4.20
3140 4909 1.362768 CCACACCATCATCAGTGTCG 58.637 55.000 0.00 0.00 45.20 4.35
3141 4910 1.278985 TCCCACACCATCATCAGTGTC 59.721 52.381 0.00 0.00 45.20 3.67
3143 4912 1.407851 CCTCCCACACCATCATCAGTG 60.408 57.143 0.00 0.00 39.93 3.66
3144 4913 0.914644 CCTCCCACACCATCATCAGT 59.085 55.000 0.00 0.00 0.00 3.41
3145 4914 0.465097 GCCTCCCACACCATCATCAG 60.465 60.000 0.00 0.00 0.00 2.90
3146 4915 1.609239 GCCTCCCACACCATCATCA 59.391 57.895 0.00 0.00 0.00 3.07
3147 4916 1.524621 CGCCTCCCACACCATCATC 60.525 63.158 0.00 0.00 0.00 2.92
3148 4917 0.980754 TACGCCTCCCACACCATCAT 60.981 55.000 0.00 0.00 0.00 2.45
3149 4918 1.610967 TACGCCTCCCACACCATCA 60.611 57.895 0.00 0.00 0.00 3.07
3150 4919 1.144057 CTACGCCTCCCACACCATC 59.856 63.158 0.00 0.00 0.00 3.51
3151 4920 1.198759 AACTACGCCTCCCACACCAT 61.199 55.000 0.00 0.00 0.00 3.55
3152 4921 1.412453 AAACTACGCCTCCCACACCA 61.412 55.000 0.00 0.00 0.00 4.17
3153 4922 0.672711 GAAACTACGCCTCCCACACC 60.673 60.000 0.00 0.00 0.00 4.16
3154 4923 0.320697 AGAAACTACGCCTCCCACAC 59.679 55.000 0.00 0.00 0.00 3.82
3155 4924 0.320374 CAGAAACTACGCCTCCCACA 59.680 55.000 0.00 0.00 0.00 4.17
3156 4925 0.320697 ACAGAAACTACGCCTCCCAC 59.679 55.000 0.00 0.00 0.00 4.61
3157 4926 0.606604 GACAGAAACTACGCCTCCCA 59.393 55.000 0.00 0.00 0.00 4.37
3158 4927 0.458025 CGACAGAAACTACGCCTCCC 60.458 60.000 0.00 0.00 0.00 4.30
3159 4928 0.524862 TCGACAGAAACTACGCCTCC 59.475 55.000 0.00 0.00 0.00 4.30
3160 4929 2.563471 ATCGACAGAAACTACGCCTC 57.437 50.000 0.00 0.00 0.00 4.70
3161 4930 4.097437 TCAATATCGACAGAAACTACGCCT 59.903 41.667 0.00 0.00 0.00 5.52
3162 4931 4.357142 TCAATATCGACAGAAACTACGCC 58.643 43.478 0.00 0.00 0.00 5.68
3163 4932 4.441415 CCTCAATATCGACAGAAACTACGC 59.559 45.833 0.00 0.00 0.00 4.42
3164 4933 4.441415 GCCTCAATATCGACAGAAACTACG 59.559 45.833 0.00 0.00 0.00 3.51
3165 4934 4.441415 CGCCTCAATATCGACAGAAACTAC 59.559 45.833 0.00 0.00 0.00 2.73
3166 4935 4.097437 ACGCCTCAATATCGACAGAAACTA 59.903 41.667 0.00 0.00 0.00 2.24
3167 4936 3.119101 ACGCCTCAATATCGACAGAAACT 60.119 43.478 0.00 0.00 0.00 2.66
3168 4937 3.187700 ACGCCTCAATATCGACAGAAAC 58.812 45.455 0.00 0.00 0.00 2.78
3169 4938 3.130516 AGACGCCTCAATATCGACAGAAA 59.869 43.478 0.00 0.00 0.00 2.52
3170 4939 2.688446 AGACGCCTCAATATCGACAGAA 59.312 45.455 0.00 0.00 0.00 3.02
3171 4940 2.033424 CAGACGCCTCAATATCGACAGA 59.967 50.000 0.00 0.00 0.00 3.41
3172 4941 2.223595 ACAGACGCCTCAATATCGACAG 60.224 50.000 0.00 0.00 0.00 3.51
3173 4942 1.749063 ACAGACGCCTCAATATCGACA 59.251 47.619 0.00 0.00 0.00 4.35
3174 4943 2.120232 CACAGACGCCTCAATATCGAC 58.880 52.381 0.00 0.00 0.00 4.20
3175 4944 2.021457 TCACAGACGCCTCAATATCGA 58.979 47.619 0.00 0.00 0.00 3.59
3176 4945 2.492019 TCACAGACGCCTCAATATCG 57.508 50.000 0.00 0.00 0.00 2.92
3177 4946 3.738282 GTCATCACAGACGCCTCAATATC 59.262 47.826 0.00 0.00 0.00 1.63
3178 4947 3.386078 AGTCATCACAGACGCCTCAATAT 59.614 43.478 0.00 0.00 43.24 1.28
3179 4948 2.760650 AGTCATCACAGACGCCTCAATA 59.239 45.455 0.00 0.00 43.24 1.90
3180 4949 1.552337 AGTCATCACAGACGCCTCAAT 59.448 47.619 0.00 0.00 43.24 2.57
3181 4950 0.969149 AGTCATCACAGACGCCTCAA 59.031 50.000 0.00 0.00 43.24 3.02
3182 4951 0.969149 AAGTCATCACAGACGCCTCA 59.031 50.000 0.00 0.00 43.24 3.86
3183 4952 1.728971 CAAAGTCATCACAGACGCCTC 59.271 52.381 0.00 0.00 43.24 4.70
3184 4953 1.070758 ACAAAGTCATCACAGACGCCT 59.929 47.619 0.00 0.00 43.24 5.52
3185 4954 1.461127 GACAAAGTCATCACAGACGCC 59.539 52.381 0.00 0.00 43.24 5.68
3186 4955 2.135139 TGACAAAGTCATCACAGACGC 58.865 47.619 0.00 0.00 43.24 5.19
3187 4956 4.687948 AGATTGACAAAGTCATCACAGACG 59.312 41.667 0.12 0.00 42.40 4.18
3188 4957 6.203530 TGAAGATTGACAAAGTCATCACAGAC 59.796 38.462 0.12 0.00 42.40 3.51
3189 4958 6.290605 TGAAGATTGACAAAGTCATCACAGA 58.709 36.000 0.12 0.00 42.40 3.41
3190 4959 6.549912 TGAAGATTGACAAAGTCATCACAG 57.450 37.500 0.12 0.00 42.40 3.66
3191 4960 6.513884 GCTTGAAGATTGACAAAGTCATCACA 60.514 38.462 0.00 4.09 42.40 3.58
3192 4961 5.855395 GCTTGAAGATTGACAAAGTCATCAC 59.145 40.000 0.00 0.00 42.40 3.06
3193 4962 5.766670 AGCTTGAAGATTGACAAAGTCATCA 59.233 36.000 0.00 0.00 42.40 3.07
3194 4963 6.251655 AGCTTGAAGATTGACAAAGTCATC 57.748 37.500 0.00 2.00 42.40 2.92
3195 4964 6.263842 TGAAGCTTGAAGATTGACAAAGTCAT 59.736 34.615 2.10 0.00 42.40 3.06
3196 4965 5.589855 TGAAGCTTGAAGATTGACAAAGTCA 59.410 36.000 2.10 0.00 41.09 3.41
3197 4966 5.911838 GTGAAGCTTGAAGATTGACAAAGTC 59.088 40.000 2.10 0.00 28.33 3.01
3198 4967 5.504665 CGTGAAGCTTGAAGATTGACAAAGT 60.505 40.000 12.76 0.00 26.95 2.66
3199 4968 4.908156 CGTGAAGCTTGAAGATTGACAAAG 59.092 41.667 12.76 0.00 26.95 2.77
3200 4969 4.574421 TCGTGAAGCTTGAAGATTGACAAA 59.426 37.500 12.76 0.00 26.95 2.83
3201 4970 4.126437 TCGTGAAGCTTGAAGATTGACAA 58.874 39.130 12.76 0.00 26.95 3.18
3202 4971 3.727726 TCGTGAAGCTTGAAGATTGACA 58.272 40.909 12.76 0.00 26.95 3.58
3203 4972 4.732285 TTCGTGAAGCTTGAAGATTGAC 57.268 40.909 2.10 0.80 0.00 3.18
3204 4973 5.389830 CGAATTCGTGAAGCTTGAAGATTGA 60.390 40.000 19.67 0.00 34.11 2.57
3205 4974 4.785055 CGAATTCGTGAAGCTTGAAGATTG 59.215 41.667 19.67 0.00 34.11 2.67
3206 4975 4.690748 TCGAATTCGTGAAGCTTGAAGATT 59.309 37.500 25.93 0.00 40.80 2.40
3207 4976 4.092091 GTCGAATTCGTGAAGCTTGAAGAT 59.908 41.667 25.93 0.00 40.80 2.40
3208 4977 3.428870 GTCGAATTCGTGAAGCTTGAAGA 59.571 43.478 25.93 0.00 40.80 2.87
3209 4978 3.423645 GGTCGAATTCGTGAAGCTTGAAG 60.424 47.826 25.93 0.00 40.80 3.02
3210 4979 2.478894 GGTCGAATTCGTGAAGCTTGAA 59.521 45.455 25.93 1.21 40.80 2.69
3211 4980 2.066262 GGTCGAATTCGTGAAGCTTGA 58.934 47.619 25.93 0.00 40.80 3.02
3212 4981 2.069273 AGGTCGAATTCGTGAAGCTTG 58.931 47.619 25.93 0.00 40.80 4.01
3213 4982 2.069273 CAGGTCGAATTCGTGAAGCTT 58.931 47.619 25.93 0.00 40.80 3.74
3214 4983 1.673033 CCAGGTCGAATTCGTGAAGCT 60.673 52.381 25.93 18.66 40.80 3.74
3215 4984 0.721718 CCAGGTCGAATTCGTGAAGC 59.278 55.000 25.93 16.80 40.80 3.86
3216 4985 1.993370 GACCAGGTCGAATTCGTGAAG 59.007 52.381 25.93 14.88 40.80 3.02
3217 4986 1.616865 AGACCAGGTCGAATTCGTGAA 59.383 47.619 25.93 5.67 40.80 3.18
3218 4987 1.254026 AGACCAGGTCGAATTCGTGA 58.746 50.000 25.93 6.44 40.80 4.35
3219 4988 1.993370 GAAGACCAGGTCGAATTCGTG 59.007 52.381 25.93 17.16 40.80 4.35
3220 4989 1.616865 TGAAGACCAGGTCGAATTCGT 59.383 47.619 25.93 6.92 40.80 3.85
3221 4990 2.363788 TGAAGACCAGGTCGAATTCG 57.636 50.000 21.78 21.78 37.67 3.34
3222 4991 4.811557 CCTATTGAAGACCAGGTCGAATTC 59.188 45.833 14.32 12.72 37.67 2.17
3223 4992 4.770795 CCTATTGAAGACCAGGTCGAATT 58.229 43.478 14.32 2.95 37.67 2.17
3224 4993 3.432326 GCCTATTGAAGACCAGGTCGAAT 60.432 47.826 14.32 14.85 37.67 3.34
3225 4994 2.093658 GCCTATTGAAGACCAGGTCGAA 60.094 50.000 14.32 8.85 37.67 3.71
3226 4995 1.480954 GCCTATTGAAGACCAGGTCGA 59.519 52.381 14.32 2.40 37.67 4.20
3227 4996 1.802880 CGCCTATTGAAGACCAGGTCG 60.803 57.143 14.32 0.00 37.67 4.79
3228 4997 1.941325 CGCCTATTGAAGACCAGGTC 58.059 55.000 12.25 12.25 0.00 3.85


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

AutoCloner maintained by Alex Coulton.