Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 790,778 G→A 100% intergenic (+277/‑197) USA300HOU_0741 → / → USA300HOU_0742 possible allophanate hydrolase subunit 2/possible phosphatidylglycerol‑‑membrane‑oligosaccharide glycerophosphotransferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP000730790,7780GA100.0% 60.7 / NA 22intergenic (+277/‑197)USA300HOU_0741/USA300HOU_0742possible allophanate hydrolase subunit 2/possible phosphatidylglycerol‑‑membrane‑oligosaccharide glycerophosphotransferase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (11/11);  total (11/11)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

AATTACTCTATATTTATTAATTGAGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTGTAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCACTTATTAATTA  >  CP000730/790660‑790899
                                                                                                                      |                                                                                                                         
aaTTACTCTATATTTATGAATTGAGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTaaa                                                                                                      <  1:131476/140‑1 (MQ=255)
           atttattAATTGAGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAAGAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGaa                                                                                           >  1:196514/1‑140 (MQ=255)
              tattaATTGATCTATGATTAGTAGTACAATGGTATTACAATTTTTCAATCAGCTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGc                                                                                        <  1:66170/140‑1 (MQ=255)
                 taATTGAGCTATGCTTATTATTACAATTTGATTACAAATTTTAACTTTGTTAATGGAATAATACTATTAAATAAAGAAACTTACACAAACAAATACGCATTATAGCCCAAAATACTTGTTAAAACAAAgcggaacggaaa                                                                                     >  2:172401/1‑129 (MQ=255)
                 taATTGAGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTAc                                                                                     >  2:32126/1‑140 (MQ=255)
                 taATTGAGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTAc                                                                                     <  2:259011/140‑1 (MQ=255)
                        gCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAAc                                                                              <  2:239751/140‑1 (MQ=255)
                           aTGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGaa                                                                           >  1:269412/1‑140 (MQ=255)
                                              gATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCGCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTg                                                        >  1:195516/1‑140 (MQ=255)
                                                           aaaTTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAAATTGAATCTGAAAGTAATTACta                                           >  2:145071/1‑140 (MQ=255)
                                                           aaaTTTGATAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACta                                           <  2:130759/140‑1 (MQ=255)
                                                             aTTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTAATTGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAGAATTATACACTTGAATCTGACAGTAAttcgtatc                                         >  2:65081/1‑134 (MQ=255)
                                                                tGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACAAAAATTATAAACTTGAATCTGAAAGTAATTACTATAAtt                                      >  2:168417/1‑140 (MQ=255)
                                                                       tGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACaa                               <  2:5921/140‑1 (MQ=255)
                                                                           ttataataTTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGtt                           <  1:11119/138‑1 (MQ=255)
                                                                            gATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTa                          <  1:116051/140‑1 (MQ=255)
                                                                             ataataTTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTaa                         >  1:169722/1‑140 (MQ=255)
                                                                                atatTAAATAAATAAACTTACACAAGCAAAGATTAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACtt                      <  2:178627/140‑1 (MQ=255)
                                                                                 tatGAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACttt                     >  2:50048/1‑140 (MQ=255)
                                                                                   ttAAATAAAAAAACTTACACAAGCAAATATGAGTTATAGCTCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTa                   <  1:111342/140‑1 (MQ=255)
                                                                                         aaaGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCa             <  2:202449/140‑1 (MQ=255)
                                                                                                    cacaAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCACTTattaatta  >  2:155772/1‑140 (MQ=255)
                                                                                                                      |                                                                                                                         
AATTACTCTATATTTATTAATTGAGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTGTAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCACTTATTAATTA  >  CP000730/790660‑790899

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: