Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 1,196,508 C→A 100% S338Y (TCT→TAT)  ftsZ → Cell division protein FtsZ

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE1,196,5080CA100.0% 98.3 / NA 36S338Y (TCT→TAT) ftsZCell division protein FtsZ
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base A (22/14);  total (22/14)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

ATTTTCGGTACAGTTATTAATCCTGAATTACAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGAACAAGCGTAAATACTTCTAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACAACTAAAGAAGATGATATTCCTAGCTTCATTAGAAATAGAGAAG  >  USA300TCH1516_ALE/1196372‑1196639
                                                                                                                                        |                                                                                                                                   
aTTTTCGGTACAGTTATTAATCCTGAATTACAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGAACAAGCGTAAATACTTATAGc                                                                                                                                 <  1:336144/141‑1 (MQ=255)
     cGGTACAGTTATTAATCCTGAATTACAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGAAAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGAACAAGCGTAAATACTTACAGCAATGc                                                                                                                            >  2:220748/1‑141 (MQ=255)
      gtcaCAGTTATTAATCCTGAATTACAAGATGAGATTGCTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGAACAAGCGTAAATACTTATAGCAATGCa                                                                                                                           <  1:257439/138‑1 (MQ=255)
              ccataATCTTCAATTACCACTTGCGATTATTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAAGCTGGTAGCACTGGACTCGGAACAAGCGTAAATACTTATAGCAATGCAACTTCTaa                                                                                                                   <  2:308856/138‑1 (MQ=255)
                     ccTGAATTACAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGAACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGaa                                                                                                            >  1:31606/1‑141 (MQ=255)
                            tACAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGAACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCa                                                                                                     >  2:225715/1‑141 (MQ=255)
                            tACAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACAGGGTCGTAAATCTGGTAGCACTGGATTCGGAACAAGCGAAAATACTTATAGCAATCCACCTTCTAAAGATGAATCATTCa                                                                                                     >  2:111418/1‑141 (MQ=255)
                             aCAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGAACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCAc                                                                                                    <  2:118263/141‑1 (MQ=255)
                              cAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGAACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACt                                                                                                   >  2:313686/1‑141 (MQ=255)
                               aaGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTAGTAAATCTGGTAGCACTGGATTCGGAACAAGCGTAAATAATTATAGCAATGCAACTTCTAAAGATGAATTATTCACtt                                                                                                  >  2:135822/1‑141 (MQ=255)
                                        ttgttgTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGAACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATtcat                                                                                         >  1:321946/1‑141 (MQ=255)
                                              tAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGAACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATg                                                                                   >  1:104145/1‑141 (MQ=255)
                                              tAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGAACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATg                                                                                   >  1:96478/1‑141 (MQ=255)
                                                        tGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGAACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAAc                                                                         <  2:131537/141‑1 (MQ=255)
                                                         gCAACTGGTTTTAATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGAACAAGCGTAACTACTTATAGCAATGAAACTTCTCTGGAAGGATCATTCGCTTCAAATTCATCAAATGCACAAGCAACt                                                                        >  1:193147/1‑141 (MQ=255)
                                                           aaCTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGAACAAGCGTAAATACTTATAGCAATTCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCCAATGCGCAAGCAACTGa                                                                      >  2:93795/1‑141 (MQ=255)
                                                           aaCTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGAACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGa                                                                      >  1:240257/1‑141 (MQ=255)
                                                                gTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGAACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAgtg                                                                 <  1:330921/141‑1 (MQ=255)
                                                                    tgatgaCTAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGAACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAg                                                             <  2:314893/141‑1 (MQ=255)
                                                                    tgatgaCAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGAACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGCTGAATCATTCACTTGAAATTCATCAAATGCACAAGCAACTGATAGTGTAAg                                                             >  1:152468/1‑141 (MQ=255)
                                                                     tatgaCAAACCAAGATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGAACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGt                                                            <  1:37553/140‑1 (MQ=255)
                                                                      atgaCAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGAACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTg                                                           >  1:359541/1‑141 (MQ=255)
                                                                       tgaCAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGAACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGa                                                          <  2:18409/141‑1 (MQ=255)
                                                                            aaCCAACATACAATGGACGTAACTCAGGGTGACCTGGATTCGGAACTAGCGCAAATACTTAAAGCTATGCAACATTTAAAGATGAATCATTAACTCAAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGaa                                                     >  2:165996/1‑141 (MQ=255)
                                                                             aCCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGAACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAac                                                    >  1:20707/1‑141 (MQ=255)
                                                                              ccAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGAACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAaca                                                   >  2:304417/1‑141 (MQ=255)
                                                                                  cATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGAACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATa                                               >  1:353878/1‑141 (MQ=255)
                                                                                    tCACATGGTCGTAAATCTGGTAGCACTGGATTCGGAACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATCGTGTAAGTGAAAGAACACATACa                                             >  2:92437/1‑141 (MQ=255)
                                                                                          ggccctAAATCCTGTAGCACTGTATTCTGAACAACCGTAAATTCCTATAGCAATGCAACTTCTAAAGATGAATCAGTCACTTCAAATTCATCAAATGCACAAGAAACTTATGCTGTAAGTGAAAGAACACATACAACTaaa                                       <  2:62132/136‑1 (MQ=255)
                                                                                                 aaTCTGGTAGCACTGGATTCGGAACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACAACTAAAGAAgatg                                >  1:133159/1‑141 (MQ=255)
                                                                                                         aGCACTGGATTCGGAACAAGCGTAAATAGTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACAACTAAAGAAGATGATATTCCt                        >  1:240634/1‑141 (MQ=255)
                                                                                                              tgtaTTCGGAACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACAACTAAAGAAGATGATATTCCTAGCtt                   <  2:130000/138‑1 (MQ=255)
                                                                                                                gATTCGGAACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACAACTAAAGAAGATGATATTCCTAGCTTCa                 <  1:313686/141‑1 (MQ=255)
                                                                                                                         cAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACAACTAAAGAAGATGATATTCCTAGCTTCATTAGAAATa        <  2:368507/141‑1 (MQ=255)
                                                                                                                          aaGCGTAAATACTTATAGAAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTTATAGTGTAAGTGAAAGAACACATACAACTAAAGAAGATGATATTCCTAGCTTCATTAGAAATag       <  2:278407/141‑1 (MQ=255)
                                                                                                                               tAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACAACTAAAGAAGATGATATTCCTAGCTTCATTAGAAATAGagaag  >  2:370351/1‑141 (MQ=255)
                                                                                                                                        |                                                                                                                                   
ATTTTCGGTACAGTTATTAATCCTGAATTACAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGAACAAGCGTAAATACTTCTAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACAACTAAAGAAGATGATATTCCTAGCTTCATTAGAAATAGAGAAG  >  USA300TCH1516_ALE/1196372‑1196639

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: ‑