Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 367,644 G→T 100% intergenic (‑96/‑20) nanA ← / → USA300HOU_0336 N‑acetylneuraminate lyase/possible transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP000730367,6440GT100.0% 88.4 / ‑6.5 30intergenic (‑96/‑20)nanA/USA300HOU_0336N‑acetylneuraminate lyase/possible transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base G (0/0);  major base T (17/12);  minor base C (0/1);  total (17/13)
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

ACGAGTAACGCTGCATATAAACCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTAGTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAGCAATTGAATAT  >  CP000730/367508‑367776
                                                                                                                                        |                                                                                                                                    
aCGAGTAACGCTGCATATAAACCTTTTAAATCTATGTTCATTATGAAGTCACTCCGAAAATCATTTGATAATATAGTTTACAACTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCa                                                                                                                                   >  2:235077/1‑140 (MQ=255)
   aGTAACGCTGCATATAAACCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCatat                                                                                                                                >  2:144228/1‑140 (MQ=255)
       aCGCTTCATATAATCGTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTAt                                                                                                                            <  1:6271/140‑1 (MQ=255)
        cGCTGCATATAAACCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCATAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATg                                                                                                                           <  1:275874/140‑1 (MQ=255)
          cTGCATATAAACCTTTTAAATCTTTGTTCATTATGAAGTCCCTCAAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTGTTTGAAAATAGTATTCATATTTTTGta                                                                                                                         >  1:201258/1‑140 (MQ=255)
                          tAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTTTATTCATCTTTATGTATAATTAATGAAAATGt                                                                                                         >  2:13004/1‑140 (MQ=255)
                            aaTCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATGATAAAATGTAACAATATCTTTTTAGAAGTTATATTCATATTTATGTATAATTTATGAAAATGttt                                                                                                       >  2:107810/1‑140 (MQ=255)
                            aaTCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGttt                                                                                                       >  2:269535/1‑140 (MQ=255)
                                        ttATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAAt                                                                                           <  1:126758/140‑1 (MQ=255)
                                        atATGAAGGCCCTCAAAAAATCATTTTATTATATAGTATAAAGCTATATTTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAAt                                                                                           <  2:127861/139‑1 (MQ=255)
                                              aGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAAt                                                                                     <  2:241162/140‑1 (MQ=255)
                                                    tCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGgagtg                                                                               <  1:269535/140‑1 (MQ=255)
                                                         aaaTCATTTGATAATATAGTTTACAGCTATAATTGTAGACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTaa                                                                          >  2:193667/1‑140 (MQ=255)
                                                             cATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGAATAATTAATAAAAATGTTTTTAAAAATCAATAGAAATGGAGTGAGTAAggag                                                                      >  1:6465/1‑138 (MQ=255)
                                                                ttGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCACTAGAAATGGAGTGAGTAAGGTGTAt                                                                   >  1:91380/1‑140 (MQ=255)
                                                                                          tGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTAAATCGTAATCGTTATTGGAGGTAc                                         >  1:307514/1‑140 (MQ=255)
                                                                                          tGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTCATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCAc                                         >  1:237493/1‑140 (MQ=255)
                                                                                            tAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTc                                       <  2:118299/140‑1 (MQ=255)
                                                                                             aaaCGCTATCATAAAATGTAACAATATCTTTTTTAAATTTTTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGCAGACACTCa                                      >  2:33938/1‑140 (MQ=255)
                                                                                               aCGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATGAATATAAATGGAGTGAGTAAGGGGTATTACATCGCAATAGATATTGGAGGCAcactaa                                    >  1:82976/1‑135 (MQ=255)
                                                                                                cGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAAt                                   <  1:144324/140‑1 (MQ=255)
                                                                                                     tCATAAAATGTAACAATATCTTTTTGAAAATGGTATTCATCTTTCTGTATAATTCATGAAAATGTTTTTCAAAATCAATAGAAATGAAGTGAGTAAGGTGTATTACATCGCAATCGATATTGAAGACACTCAAATTAAAt                              >  1:69246/1‑140 (MQ=255)
                                                                                                       aTAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAAAAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGAAGGCACTCAAATTAAATCg                            >  1:34203/1‑140 (MQ=255)
                                                                                                          aaaTGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCggaa                         >  1:91015/1‑138 (MQ=255)
                                                                                                            aTGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCATAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGt                       <  2:305118/140‑1 (MQ=255)
                                                                                                              taaataaTATCTTTTTGAAAATTATATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTa                     <  1:107810/135‑1 (MQ=255)
                                                                                                                   aaTATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGAt                <  1:144228/140‑1 (MQ=255)
                                                                                                                            tttaaaaTTGTACTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCTCAATCGATATTGGAGGCCCTCAAATTAAATCGGCAGTTATTGATAAGCAATTg       <  2:185652/137‑1 (MQ=255)
                                                                                                                              gAAATTTTTATTTATATTTATTTATAATTAATGAAAATGTTTTTCACAATCCATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAGCAATTGaa     <  2:201183/140‑1 (MQ=255)
                                                                                                                                 aaTTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGCTAAGCAATTGAatat  >  2:171678/1‑140 (MQ=255)
                                                                                                                                        |                                                                                                                                    
ACGAGTAACGCTGCATATAAACCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTAGTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAGCAATTGAATAT  >  CP000730/367508‑367776

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: ‑