Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 1,646,189 G→C 100% A155G (GCA→GGA)  ypdF ← Aminopeptidase YpdF

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE1,646,1890GC100.0% 184.9 / NA 56A155G (GCA→GGA) ypdFAminopeptidase YpdF
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base C (21/35);  total (21/35)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TCACTTGCAACACCATGTGGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTGCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAATGATATACGG  >  USA300TCH1516_ALE/1646057‑1646326
                                                                                                                                    |                                                                                                                                         
tCACTTGCAACACCATGTGGTAATGCACCTCTATGACCAGATGCTACAATCGTATTGCATGATCGTCCATCTGCTCCTAACTCTTGCCTTTTGCTTTCTGATATTGCCTTTACTTCTTTTTCCGCCATGCCTCCTTTTaca                                                                                                                                   >  2:237221/1‑141 (MQ=255)
tCACTTGCAACACCATGTGGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATAGTCCATCTGCTACTAAATCTATCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCGGTCATGCCTCCTTTTata                                                                                                                                   >  1:154270/1‑139 (MQ=255)
     ttcAACACAATGGAGTAATGCACCCCTATAACCAGATGCTACAATCGTATCAAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGt                                                                                                                              <  1:135678/139‑1 (MQ=255)
     tGCAACATCAGGTGGTAATTCACCTCTATGACCACATTCTACAATCGTATCCAATGATGGTCCAGCTGCTCCTAAGTTGATCTGTTTGCTTTCTAATATTGCCTTTAATTCTCTTGCAGTCATGCCTCCTTTTACAACAGt                                                                                                                              <  2:74889/141‑1 (MQ=255)
        aaCACCATTCGGTAATGCCCCTCAATGTCCAGATGCTACAAGCGGATCGAATGATCGTTCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTaa                                                                                                                           <  2:628392/141‑1 (MQ=255)
        aaCACCATGTGGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTaa                                                                                                                           <  2:44260/141‑1 (MQ=255)
         acacCATGTGGTAATGCACCTCTATGCCCAGCTGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTaaa                                                                                                                          >  2:503883/1‑141 (MQ=255)
         acacCATGTGGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTaaa                                                                                                                          >  1:482320/1‑141 (MQ=255)
           acCATGTTGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAat                                                                                                                        <  1:158557/141‑1 (MQ=255)
           acCATGTGGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAat                                                                                                                        <  1:63295/141‑1 (MQ=255)
               tgtgGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGTATAAGGGGCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCCGTCATGCCTCCTTTTACCACAGTTCAAagatat                                                                                                                    >  1:36624/1‑141 (MQ=255)
                        gCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGtt                                                                                                           >  1:625682/1‑141 (MQ=255)
                              ctATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTtcatca                                                                                                     <  1:636476/141‑1 (MQ=255)
                                 tGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATcaaca                                                                                                  <  1:7184/141‑1 (MQ=255)
                                 tGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGGTTCATcaaca                                                                                                  >  1:163338/1‑141 (MQ=255)
                                      aGATGCTACAATCGTATCGAGTGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCCTTTTCAGTCATGACTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATAtt                                                                                             <  1:627415/141‑1 (MQ=255)
                                        aTGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAg                                                                                           <  2:218781/141‑1 (MQ=255)
                                           ttACGATCGTATCGAATGATGGTCCATCTGCTCCTACTTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAgctg                                                                                        <  2:560521/140‑1 (MQ=255)
                                           cTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAgctg                                                                                        <  2:424337/141‑1 (MQ=255)
                                              cAATCGTATCGAATGATGGTCCATCTACTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCATTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCtt                                                                                     >  2:480340/1‑141 (MQ=255)
                                               aaTCGTTTCGAATTCTGGTCCATCTGTTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCttt                                                                                    <  2:36624/141‑1 (MQ=255)
                                                aTCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCtttt                                                                                   >  2:338424/1‑141 (MQ=255)
                                                aTCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCtttt                                                                                   >  2:128207/1‑141 (MQ=255)
                                                aTCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCtttt                                                                                   <  1:608367/141‑1 (MQ=255)
                                                aTCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCtttt                                                                                   <  1:536835/141‑1 (MQ=255)
                                                 tCGTTTCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACTACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGGtttta                                                                                  >  2:404239/1‑140 (MQ=255)
                                                 tCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCttttt                                                                                  >  1:566876/1‑141 (MQ=255)
                                                 tCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCttttt                                                                                  <  1:500772/141‑1 (MQ=255)
                                                    gaTCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGTTGCTTTTTGaa                                                                               >  2:390227/2‑141 (MQ=255)
                                                           tgatgGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATGTTAGCTGCTTTTTGAATTAAAGc                                                                        >  1:181806/1‑141 (MQ=255)
                                                           tgatgGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGc                                                                        >  1:617072/1‑141 (MQ=255)
                                                           tgatgGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTAATATGTTTCATCAACAATATTAGCTGATTTtttaatttaaac                                                                        >  2:127305/1‑139 (MQ=255)
                                                                      cTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAg                                                             <  2:530427/141‑1 (MQ=255)
                                                                         cTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCAt                                                          <  1:532135/141‑1 (MQ=255)
                                                                         cTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCAt                                                          <  1:172694/141‑1 (MQ=255)
                                                                          tCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATc                                                         <  1:4847/141‑1 (MQ=255)
                                                                           ccTAATTCTTGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCt                                                        <  1:435838/141‑1 (MQ=255)
                                                                            cTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCtt                                                       <  1:610848/141‑1 (MQ=255)
                                                                            cTAAGTCTAGCAGTTGGCTTTCTCATATTGTGTGTTACCCCTTTTCAGTCATTCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTTCTTTTTGAATTAAAGCAATTTCGTCAGCATCtt                                                       <  1:345226/141‑1 (MQ=255)
                                                                                    aGCCTTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTGTGAATTAAAGCAATTTCGTCAGCATCTTTGACGtct                                               <  2:333038/141‑1 (MQ=255)
                                                                                     gCATTTTGCCTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGtctc                                              <  1:102169/141‑1 (MQ=255)
                                                                                                   aaTATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACa                                >  2:478841/1‑141 (MQ=255)
                                                                                                    atatTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCCACAATATTAGCTGCTTTTTGATTTAAAGCAATTTCGTCAGCCTCGTAGACGCTTCGAATTTTATATACAg                               >  2:50951/1‑141 (MQ=255)
                                                                                                         gCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTa                          >  1:508348/1‑141 (MQ=255)
                                                                                                          ccTTTAATTCTTTTTTAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAg                         <  2:206870/141‑1 (MQ=255)
                                                                                                             ttAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGaaa                      >  1:509925/1‑141 (MQ=255)
                                                                                                               taTTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATg                    <  1:440794/140‑1 (MQ=255)
                                                                                                               aaTTCTTTTTCAGTCATGCCTCCTTTTACCACCGTTACGAGGTAGTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATg                    <  1:182408/141‑1 (MQ=255)
                                                                                                                       ttcacgcATGCCTCCTTTTAAAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTaa            <  2:279634/135‑1 (MQ=255)
                                                                                                                       ttCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTaa            <  2:92815/141‑1 (MQ=255)
                                                                                                                          aGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAATGa         <  2:625682/141‑1 (MQ=255)
                                                                                                                           gTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTTGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAATGat        >  2:107811/1‑141 (MQ=255)
                                                                                                                             cATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAATGatat      <  2:647202/141‑1 (MQ=255)
                                                                                                                              ctGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTAATGCATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAATGAtata     <  1:155091/140‑1 (MQ=255)
                                                                                                                               tGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAATGATATAc    <  2:556881/141‑1 (MQ=255)
                                                                                                                               tGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAATGATATAc    <  2:636101/141‑1 (MQ=255)
                                                                                                                                 cctcctTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTGTCTACAGTATTAGAAATGCTTATTAATGATATACgg  <  2:482320/141‑1 (MQ=255)
                                                                                                                                 cctcctTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAATGATATACgg  <  1:235973/141‑1 (MQ=255)
                                                                                                                                    |                                                                                                                                         
TCACTTGCAACACCATGTGGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTGCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAATGATATACGG  >  USA300TCH1516_ALE/1646057‑1646326

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: ‑