Multiple sequence alignment - TraesCS3B01G246600

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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 TraesCS3B01G246600 chr3B 100.000 4626 0 0 836 5461 392301457 392296832 0.000000e+00 8543
1 TraesCS3B01G246600 chr3B 100.000 451 0 0 1 451 392302292 392301842 0.000000e+00 833
2 TraesCS3B01G246600 chr3A 95.283 4685 123 36 836 5461 391469429 391474074 0.000000e+00 7337
3 TraesCS3B01G246600 chr3A 89.892 465 14 13 1 451 391468927 391469372 7.940000e-158 568
4 TraesCS3B01G246600 chr3D 97.189 3558 85 3 836 4387 297498961 297495413 0.000000e+00 6002
5 TraesCS3B01G246600 chr3D 94.703 1095 39 8 4385 5461 297495368 297494275 0.000000e+00 1683
6 TraesCS3B01G246600 chr3D 94.539 293 6 4 168 451 297499313 297499022 1.400000e-120 444
7 TraesCS3B01G246600 chr3D 95.833 168 5 2 1 168 297499617 297499452 2.510000e-68 270
8 TraesCS3B01G246600 chr3D 91.753 97 7 1 2856 2952 341550550 341550645 3.430000e-27 134
9 TraesCS3B01G246600 chr6A 78.873 284 40 11 4837 5104 52719720 52719441 2.020000e-39 174
10 TraesCS3B01G246600 chr6D 93.617 94 6 0 2861 2954 168293748 168293841 2.050000e-29 141
11 TraesCS3B01G246600 chr2D 92.708 96 5 2 2860 2954 619321001 619321095 2.650000e-28 137
12 TraesCS3B01G246600 chr1D 91.089 101 7 2 2853 2952 440050343 440050442 9.540000e-28 135
13 TraesCS3B01G246600 chr7D 92.553 94 6 1 2860 2952 443416024 443416117 3.430000e-27 134
14 TraesCS3B01G246600 chr5D 93.407 91 4 2 2863 2952 267846686 267846597 3.430000e-27 134
15 TraesCS3B01G246600 chr4B 91.753 97 6 2 2868 2964 159603873 159603779 3.430000e-27 134
16 TraesCS3B01G246600 chr5A 76.451 293 39 14 4837 5104 452925628 452925341 1.230000e-26 132


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 TraesCS3B01G246600 chr3B 392296832 392302292 5460 True 4688.00 8543 100.0000 1 5461 2 chr3B.!!$R1 5460
1 TraesCS3B01G246600 chr3A 391468927 391474074 5147 False 3952.50 7337 92.5875 1 5461 2 chr3A.!!$F1 5460
2 TraesCS3B01G246600 chr3D 297494275 297499617 5342 True 2099.75 6002 95.5660 1 5461 4 chr3D.!!$R1 5460

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
198 352 0.249155 GCGGTCATCATGCCCAAATG 60.249 55.000 0.00 0.00 0.00 2.32 F
216 370 1.024046 TGGACGCACCATCGAATTGG 61.024 55.000 3.43 3.43 44.64 3.16 F
1299 1464 1.153939 CAGGGACGAGAACGCTCAG 60.154 63.158 0.00 0.00 41.36 3.35 F
1644 1818 0.179026 CAGGGAGCAGGATCATGGTG 60.179 60.000 17.82 0.00 0.00 4.17 F
2347 2534 0.695803 CAGGGGCTGGGAAGACCTAT 60.696 60.000 0.00 0.00 41.11 2.57 F
3151 3338 1.440938 CTGAAAAACACGGTCCCGCA 61.441 55.000 5.47 0.00 44.19 5.69 F
4226 4413 1.362224 CCTTCTGGGACTTTGGAGGA 58.638 55.000 0.00 0.00 37.23 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1298 1463 0.998945 CTCCTCCTCCTCCTCCTCCT 60.999 65.000 0.00 0.0 0.00 3.69 R
1591 1765 1.151721 CAGCCCCCATCTCCCCTAT 60.152 63.158 0.00 0.0 0.00 2.57 R
2347 2534 0.180171 CCATGGTCCCGAGCATTGTA 59.820 55.000 2.57 0.0 46.20 2.41 R
2941 3128 1.354031 TGCAAAGCAATACTCCCTCCA 59.646 47.619 0.00 0.0 34.76 3.86 R
4016 4203 1.676384 GTCCCTCTGCTTGAGCTGT 59.324 57.895 4.44 0.0 41.35 4.40 R
4422 4664 0.603065 AATCCCGGCTGAAACAAAGC 59.397 50.000 0.00 0.0 40.06 3.51 R
5030 5298 1.890979 GATGGAGACCATGCGGCAG 60.891 63.158 9.25 0.0 45.26 4.85 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
30 31 6.474102 GCACCAATTTTCGTTTTACTTTCTCA 59.526 34.615 0.00 0.00 0.00 3.27
85 86 5.175127 CGGGCAATTAAAGGCACTATTTTT 58.825 37.500 7.07 0.00 38.49 1.94
120 124 9.753674 ATTCACATCTTCTTTTGGGAGTTATAA 57.246 29.630 0.00 0.00 0.00 0.98
166 320 9.693739 ATAAACTTGTATTCAGAGAGAGAGAGA 57.306 33.333 0.00 0.00 0.00 3.10
167 321 7.630242 AACTTGTATTCAGAGAGAGAGAGAG 57.370 40.000 0.00 0.00 0.00 3.20
168 322 6.957631 ACTTGTATTCAGAGAGAGAGAGAGA 58.042 40.000 0.00 0.00 0.00 3.10
169 323 7.050377 ACTTGTATTCAGAGAGAGAGAGAGAG 58.950 42.308 0.00 0.00 0.00 3.20
170 324 6.806668 TGTATTCAGAGAGAGAGAGAGAGA 57.193 41.667 0.00 0.00 0.00 3.10
198 352 0.249155 GCGGTCATCATGCCCAAATG 60.249 55.000 0.00 0.00 0.00 2.32
216 370 1.024046 TGGACGCACCATCGAATTGG 61.024 55.000 3.43 3.43 44.64 3.16
873 1038 3.742433 ATTTCGAGATCTTGCTCCGAT 57.258 42.857 4.94 0.00 0.00 4.18
911 1076 1.351017 TCTCTCTTGCCGGGATTTTGT 59.649 47.619 2.18 0.00 0.00 2.83
989 1154 3.378742 GTCGAGCTTCTGACCAGATCTTA 59.621 47.826 0.01 0.00 37.29 2.10
995 1160 4.558496 GCTTCTGACCAGATCTTATCCGAG 60.558 50.000 0.01 0.00 37.29 4.63
1221 1386 2.420890 CAGATGCTCGCCTCCTCC 59.579 66.667 0.00 0.00 0.00 4.30
1298 1463 1.863662 GACAGGGACGAGAACGCTCA 61.864 60.000 0.00 0.00 41.36 4.26
1299 1464 1.153939 CAGGGACGAGAACGCTCAG 60.154 63.158 0.00 0.00 41.36 3.35
1300 1465 2.182030 GGGACGAGAACGCTCAGG 59.818 66.667 0.00 0.00 41.36 3.86
1301 1466 2.341101 GGGACGAGAACGCTCAGGA 61.341 63.158 0.00 0.00 41.36 3.86
1582 1756 4.838152 GAGGCATCGGCGGCAAGA 62.838 66.667 10.53 0.00 42.47 3.02
1591 1765 1.153168 GGCGGCAAGATCAAGGCTA 60.153 57.895 3.07 0.00 0.00 3.93
1633 1807 4.680237 CCGACGCAACAGGGAGCA 62.680 66.667 0.00 0.00 0.00 4.26
1644 1818 0.179026 CAGGGAGCAGGATCATGGTG 60.179 60.000 17.82 0.00 0.00 4.17
1905 2079 9.142515 TCAATCAATTTCTTTACAATGCACATC 57.857 29.630 0.00 0.00 0.00 3.06
2026 2213 8.651588 GCATACATCTTTTATGACTAGATTCGG 58.348 37.037 0.00 0.00 0.00 4.30
2077 2264 7.121315 AGTTGAGAAATTGGTTATAGAAGTGGC 59.879 37.037 0.00 0.00 0.00 5.01
2212 2399 5.050644 TGTATTGCTCAATTGCACTTCTG 57.949 39.130 0.00 0.00 43.20 3.02
2263 2450 6.152323 CCAATCCTCCATTCTTATATTGCAGG 59.848 42.308 0.00 0.00 0.00 4.85
2347 2534 0.695803 CAGGGGCTGGGAAGACCTAT 60.696 60.000 0.00 0.00 41.11 2.57
2439 2626 1.608542 GCAGAGGAGCTATGATGGCAG 60.609 57.143 3.02 0.00 0.00 4.85
2910 3097 2.833794 AGAGCGTTTTTGACACTAGCA 58.166 42.857 0.00 0.00 0.00 3.49
3111 3298 5.420725 TGCAATACTACAGGTGAATGTCT 57.579 39.130 0.00 0.00 34.56 3.41
3149 3336 1.796459 CTACTGAAAAACACGGTCCCG 59.204 52.381 3.76 3.76 46.03 5.14
3151 3338 1.440938 CTGAAAAACACGGTCCCGCA 61.441 55.000 5.47 0.00 44.19 5.69
3246 3433 3.537580 TGTAACACGAGTTGGAAAGCTT 58.462 40.909 8.59 0.00 38.69 3.74
3330 3517 2.096013 GCTGGAAGGAGCGAACATAAAC 59.904 50.000 0.00 0.00 0.00 2.01
3471 3658 5.963176 ACACTGTCATGATTGCAAACATA 57.037 34.783 20.27 6.23 0.00 2.29
3607 3794 4.866508 ACATTCTACCGAACAGAACTCA 57.133 40.909 0.00 0.00 34.96 3.41
3809 3996 2.747855 CTTGCTCCCAACGGCTCC 60.748 66.667 0.00 0.00 0.00 4.70
3939 4126 3.374764 TCTAAGAGGCCAGCAGACAATA 58.625 45.455 5.01 0.00 0.00 1.90
3953 4140 2.093128 AGACAATACAATGGTCCGGGAC 60.093 50.000 19.06 19.06 31.99 4.46
3979 4166 1.700186 GAGGAAAGTGAAGACCCTGGT 59.300 52.381 0.00 0.00 0.00 4.00
4016 4203 7.967908 AGAAGATGAAGAAGGAACACTTTCTA 58.032 34.615 0.00 0.00 40.21 2.10
4185 4372 1.661480 CACCGGTTCACGTCACCTA 59.339 57.895 2.97 0.00 42.24 3.08
4226 4413 1.362224 CCTTCTGGGACTTTGGAGGA 58.638 55.000 0.00 0.00 37.23 3.71
4422 4664 1.819632 GGCCTCACCCTGCATTACG 60.820 63.158 0.00 0.00 0.00 3.18
4493 4741 1.857217 CTCAGGAGACGAATGAATGCG 59.143 52.381 0.00 0.00 0.00 4.73
4552 4802 6.538742 TGTCAGCTATGCTAATTGGAGTTTAC 59.461 38.462 0.00 0.00 36.40 2.01
4560 4810 6.905736 TGCTAATTGGAGTTTACCATATCCA 58.094 36.000 0.00 0.00 40.04 3.41
4576 4826 8.400184 ACCATATCCATGTATTCTGTTGATTG 57.600 34.615 0.00 0.00 0.00 2.67
4691 4945 6.015940 CAGGGGAGAGAACATTTATATTTGGC 60.016 42.308 0.00 0.00 0.00 4.52
4719 4973 2.226437 AGCAGCTGTTACACATTTTCCG 59.774 45.455 16.64 0.00 0.00 4.30
4723 4977 4.688879 CAGCTGTTACACATTTTCCGTCTA 59.311 41.667 5.25 0.00 0.00 2.59
4734 4988 5.942872 CATTTTCCGTCTAAATGTTGCTCT 58.057 37.500 0.00 0.00 37.90 4.09
4736 4990 7.697691 CATTTTCCGTCTAAATGTTGCTCTAT 58.302 34.615 0.00 0.00 37.90 1.98
4760 5014 6.566197 TTTGGCAAAACAAAATGACAAGTT 57.434 29.167 10.83 0.00 44.80 2.66
4762 5016 5.936054 TGGCAAAACAAAATGACAAGTTTG 58.064 33.333 11.49 11.49 44.80 2.93
4770 5024 5.798910 CAAAATGACAAGTTTGTTCAAGGC 58.201 37.500 0.00 0.00 42.43 4.35
4772 5026 4.942761 ATGACAAGTTTGTTCAAGGCAT 57.057 36.364 0.00 0.00 42.43 4.40
4773 5027 6.403866 AATGACAAGTTTGTTCAAGGCATA 57.596 33.333 0.00 0.00 42.43 3.14
4774 5028 6.594788 ATGACAAGTTTGTTCAAGGCATAT 57.405 33.333 0.00 0.00 42.43 1.78
4775 5029 7.701539 ATGACAAGTTTGTTCAAGGCATATA 57.298 32.000 0.00 0.00 42.43 0.86
4777 5031 7.946207 TGACAAGTTTGTTCAAGGCATATAAA 58.054 30.769 0.00 0.00 42.43 1.40
4781 5049 8.915654 CAAGTTTGTTCAAGGCATATAAAGTTC 58.084 33.333 0.00 0.00 0.00 3.01
4894 5162 9.874205 AAATGAACCACAATAAATAACATCCTG 57.126 29.630 0.00 0.00 0.00 3.86
4953 5221 8.743085 AGCAAGCTAAATCTTCATCTAATTCA 57.257 30.769 0.00 0.00 0.00 2.57
5030 5298 1.815003 CTCTTGGTTGGTGCAAGATCC 59.185 52.381 0.00 0.00 34.87 3.36
5108 5376 1.346395 TCTCCTTGCACATACAACGGT 59.654 47.619 0.00 0.00 0.00 4.83
5120 5388 6.321717 CACATACAACGGTTTCATAAATGCT 58.678 36.000 0.00 0.00 0.00 3.79
5126 5394 7.598278 ACAACGGTTTCATAAATGCTTGATAA 58.402 30.769 0.00 0.00 0.00 1.75
5135 5403 8.398878 TCATAAATGCTTGATAAGATGATGCA 57.601 30.769 0.00 0.00 31.87 3.96
5214 5482 4.183101 CTCTTCTGCTGACTTGGATCTTC 58.817 47.826 0.00 0.00 0.00 2.87
5216 5484 3.883830 TCTGCTGACTTGGATCTTCTC 57.116 47.619 0.00 0.00 0.00 2.87
5354 5622 0.036483 TGCTTTCTCTATGTGCGCCA 60.036 50.000 4.18 2.31 0.00 5.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
30 31 5.464030 AAAACTTGCTGATTCTCTTGCAT 57.536 34.783 0.00 0.00 35.27 3.96
85 86 4.160642 AGAAGATGTGAATGCAGCCATA 57.839 40.909 0.00 0.00 0.00 2.74
152 156 4.871822 TCTCTCTCTCTCTCTCTCTCTGA 58.128 47.826 0.00 0.00 0.00 3.27
159 313 3.551863 CGCTCTCTCTCTCTCTCTCTCTC 60.552 56.522 0.00 0.00 0.00 3.20
160 314 2.363680 CGCTCTCTCTCTCTCTCTCTCT 59.636 54.545 0.00 0.00 0.00 3.10
161 315 2.546795 CCGCTCTCTCTCTCTCTCTCTC 60.547 59.091 0.00 0.00 0.00 3.20
162 316 1.414181 CCGCTCTCTCTCTCTCTCTCT 59.586 57.143 0.00 0.00 0.00 3.10
163 317 1.139058 ACCGCTCTCTCTCTCTCTCTC 59.861 57.143 0.00 0.00 0.00 3.20
164 318 1.139058 GACCGCTCTCTCTCTCTCTCT 59.861 57.143 0.00 0.00 0.00 3.10
165 319 1.134521 TGACCGCTCTCTCTCTCTCTC 60.135 57.143 0.00 0.00 0.00 3.20
166 320 0.908910 TGACCGCTCTCTCTCTCTCT 59.091 55.000 0.00 0.00 0.00 3.10
167 321 1.873591 GATGACCGCTCTCTCTCTCTC 59.126 57.143 0.00 0.00 0.00 3.20
168 322 1.211703 TGATGACCGCTCTCTCTCTCT 59.788 52.381 0.00 0.00 0.00 3.10
169 323 1.674359 TGATGACCGCTCTCTCTCTC 58.326 55.000 0.00 0.00 0.00 3.20
170 324 1.955778 CATGATGACCGCTCTCTCTCT 59.044 52.381 0.00 0.00 0.00 3.10
198 352 1.721487 CCAATTCGATGGTGCGTCC 59.279 57.895 0.00 0.00 35.65 4.79
216 370 1.661112 GCAGGTTATCAGCGAGTCAAC 59.339 52.381 0.00 0.00 0.00 3.18
873 1038 1.003112 ATGCACTAACGGGCCGAAA 60.003 52.632 35.78 18.71 0.00 3.46
879 1044 2.544685 CAAGAGAGATGCACTAACGGG 58.455 52.381 0.00 0.00 0.00 5.28
911 1076 1.153568 CGGCTCGCTGGAAATCTCA 60.154 57.895 0.00 0.00 0.00 3.27
933 1098 4.421515 CCAGCAGCTCCCCCACTG 62.422 72.222 0.00 0.00 36.96 3.66
989 1154 1.749334 GACCGGCATCTTCCTCGGAT 61.749 60.000 0.00 0.00 44.69 4.18
995 1160 1.153349 GTGGAGACCGGCATCTTCC 60.153 63.158 0.00 2.04 0.00 3.46
1298 1463 0.998945 CTCCTCCTCCTCCTCCTCCT 60.999 65.000 0.00 0.00 0.00 3.69
1299 1464 1.541672 CTCCTCCTCCTCCTCCTCC 59.458 68.421 0.00 0.00 0.00 4.30
1300 1465 1.541672 CCTCCTCCTCCTCCTCCTC 59.458 68.421 0.00 0.00 0.00 3.71
1301 1466 2.018086 CCCTCCTCCTCCTCCTCCT 61.018 68.421 0.00 0.00 0.00 3.69
1582 1756 3.458831 CCATCTCCCCTATAGCCTTGAT 58.541 50.000 0.00 0.00 0.00 2.57
1591 1765 1.151721 CAGCCCCCATCTCCCCTAT 60.152 63.158 0.00 0.00 0.00 2.57
1633 1807 1.208052 CCTGACGAACACCATGATCCT 59.792 52.381 0.00 0.00 0.00 3.24
1662 1836 2.433970 CTCCTTCTCCTTCCTGGACATC 59.566 54.545 0.00 0.00 40.56 3.06
1877 2051 9.322773 TGTGCATTGTAAAGAAATTGATTGAAA 57.677 25.926 0.00 0.00 0.00 2.69
1936 2110 8.547069 GCACAAACAACTGCAATTATTTCTAAA 58.453 29.630 0.00 0.00 33.31 1.85
1944 2118 4.916983 AGAGCACAAACAACTGCAATTA 57.083 36.364 0.00 0.00 35.73 1.40
1947 2121 2.491298 TCAAGAGCACAAACAACTGCAA 59.509 40.909 0.00 0.00 35.73 4.08
2026 2213 9.469807 CTATCATGAAAATGTGTCTCCTACTAC 57.530 37.037 0.00 0.00 0.00 2.73
2077 2264 3.919804 CGCCCAACATTTCACAAATACTG 59.080 43.478 0.00 0.00 0.00 2.74
2212 2399 1.892474 TGTTAAATGCCAGGGAAGTGC 59.108 47.619 0.00 0.00 0.00 4.40
2263 2450 2.289945 ACCTTCCACAAGATCTGCTGTC 60.290 50.000 0.00 0.00 0.00 3.51
2347 2534 0.180171 CCATGGTCCCGAGCATTGTA 59.820 55.000 2.57 0.00 46.20 2.41
2439 2626 1.416813 CGACAGCTGAATCGAGTGGC 61.417 60.000 23.35 0.00 40.86 5.01
2941 3128 1.354031 TGCAAAGCAATACTCCCTCCA 59.646 47.619 0.00 0.00 34.76 3.86
2993 3180 6.513806 TTCATAACCTGTGATGAACAATGG 57.486 37.500 6.04 0.00 38.67 3.16
3111 3298 7.404671 TCAGTAGTAGTGAAAGTGCATGATA 57.595 36.000 5.15 0.00 0.00 2.15
3246 3433 4.290711 TCCAGCAAGATCAATGAGTGAA 57.709 40.909 0.00 0.00 40.50 3.18
3330 3517 2.752238 AGTGCGAGGAGAGACCGG 60.752 66.667 0.00 0.00 44.74 5.28
3471 3658 3.441500 AAGGAAAGATTCGAAGGGCTT 57.558 42.857 3.35 4.51 0.00 4.35
3595 3782 5.989249 TCATTTTGTCATGAGTTCTGTTCG 58.011 37.500 0.00 0.00 0.00 3.95
3953 4140 2.421619 GTCTTCACTTTCCTCTGCAGG 58.578 52.381 15.13 4.45 42.01 4.85
3979 4166 3.018423 TCATCTTCTCCATCTCGGACA 57.982 47.619 0.00 0.00 39.64 4.02
4016 4203 1.676384 GTCCCTCTGCTTGAGCTGT 59.324 57.895 4.44 0.00 41.35 4.40
4163 4350 2.280592 GACGTGAACCGGTGGCTT 60.281 61.111 8.52 0.00 42.24 4.35
4226 4413 2.158549 AGCAAGAACTGAAGGGCTTTCT 60.159 45.455 10.86 0.00 36.71 2.52
4357 4544 2.936919 TGCTGCCCATATAGAACTGG 57.063 50.000 0.00 0.00 0.00 4.00
4358 4545 8.743085 ATTTATATGCTGCCCATATAGAACTG 57.257 34.615 11.64 0.00 45.42 3.16
4422 4664 0.603065 AATCCCGGCTGAAACAAAGC 59.397 50.000 0.00 0.00 40.06 3.51
4493 4741 9.030452 AGTAAGATATGAACATGTCTATCCTCC 57.970 37.037 12.87 0.00 38.15 4.30
4552 4802 8.625786 TCAATCAACAGAATACATGGATATGG 57.374 34.615 7.72 0.00 38.66 2.74
4650 4904 4.850680 TCCCCTGACCAAATATTGTACAC 58.149 43.478 0.00 0.00 0.00 2.90
4691 4945 1.532868 GTGTAACAGCTGCTCCAGTTG 59.467 52.381 15.27 7.40 45.77 3.16
4719 4973 6.620678 TGCCAAAATAGAGCAACATTTAGAC 58.379 36.000 0.00 0.00 32.56 2.59
4723 4977 6.541641 TGTTTTGCCAAAATAGAGCAACATTT 59.458 30.769 5.81 0.00 45.57 2.32
4736 4990 6.566197 ACTTGTCATTTTGTTTTGCCAAAA 57.434 29.167 0.00 0.00 45.43 2.44
4757 5011 7.040686 ACGAACTTTATATGCCTTGAACAAACT 60.041 33.333 0.00 0.00 0.00 2.66
4760 5014 6.811253 ACGAACTTTATATGCCTTGAACAA 57.189 33.333 0.00 0.00 0.00 2.83
4762 5016 6.851330 GCATACGAACTTTATATGCCTTGAAC 59.149 38.462 4.47 0.00 43.50 3.18
4764 5018 6.052360 TGCATACGAACTTTATATGCCTTGA 58.948 36.000 11.74 0.00 46.99 3.02
4765 5019 6.299023 TGCATACGAACTTTATATGCCTTG 57.701 37.500 11.74 0.00 46.99 3.61
4767 5021 6.936900 AGATTGCATACGAACTTTATATGCCT 59.063 34.615 11.74 1.34 46.99 4.75
4768 5022 7.017645 CAGATTGCATACGAACTTTATATGCC 58.982 38.462 11.74 0.00 46.99 4.40
4772 5026 9.541143 TGATTCAGATTGCATACGAACTTTATA 57.459 29.630 0.00 0.00 0.00 0.98
4773 5027 8.437360 TGATTCAGATTGCATACGAACTTTAT 57.563 30.769 0.00 0.00 0.00 1.40
4774 5028 7.841915 TGATTCAGATTGCATACGAACTTTA 57.158 32.000 0.00 0.00 0.00 1.85
4775 5029 6.741992 TGATTCAGATTGCATACGAACTTT 57.258 33.333 0.00 0.00 0.00 2.66
4777 5031 6.741992 TTTGATTCAGATTGCATACGAACT 57.258 33.333 0.00 0.00 0.00 3.01
4781 5049 7.974243 TTCATTTTGATTCAGATTGCATACG 57.026 32.000 0.00 0.00 0.00 3.06
4915 5183 2.703416 AGCTTGCTTGATTGTCGATGA 58.297 42.857 0.00 0.00 0.00 2.92
4957 5225 7.936847 TGTCCTCAACAAACTGATATGTAACTT 59.063 33.333 0.00 0.00 34.03 2.66
5030 5298 1.890979 GATGGAGACCATGCGGCAG 60.891 63.158 9.25 0.00 45.26 4.85
5067 5335 2.185004 AGCAGTAGCAAATCACCGTT 57.815 45.000 0.00 0.00 45.49 4.44
5108 5376 9.687210 GCATCATCTTATCAAGCATTTATGAAA 57.313 29.630 0.00 0.00 0.00 2.69
5120 5388 7.496920 CCAGTAGAAGTTGCATCATCTTATCAA 59.503 37.037 7.75 0.00 0.00 2.57
5126 5394 3.054875 TGCCAGTAGAAGTTGCATCATCT 60.055 43.478 7.59 7.59 0.00 2.90
5135 5403 5.827797 TCAAGACAAATTGCCAGTAGAAGTT 59.172 36.000 0.00 0.00 0.00 2.66
5214 5482 5.335504 GCTTTGAAGAAATGGAACTGGAGAG 60.336 44.000 0.00 0.00 0.00 3.20
5216 5484 4.522022 AGCTTTGAAGAAATGGAACTGGAG 59.478 41.667 0.00 0.00 0.00 3.86
5354 5622 4.649692 AGCACAAGAGTCACTCATTTCAT 58.350 39.130 7.77 0.00 32.06 2.57


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

AutoCloner maintained by Alex Coulton.