Predicted mutation
evidence seq id position mutation annotation gene description
RA USA300TCH1516_ALE 1,513,930 A→T L413F (TTA→TTT USA300HOU_RS07375 → hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE1,513,9300AT100.0% 128.7 / NA 40L413F (TTA→TTTUSA300HOU_RS07375hypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base T (13/27);  total (13/27)

TGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTAATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAATTT  >  USA300TCH1516_ALE/1513801‑1514062
                                                                                                                                 |                                                                                                                                    
tgtatgtaTCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAgg                                                                                                                           <  1:141370/141‑1 (MQ=255)
  tatgtatCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGat                                                                                                                         <  2:29611/141‑1 (MQ=255)
  gatgtatCGCATTTTTAGTATGTATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGat                                                                                                                         <  2:83871/140‑1 (MQ=255)
        tCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTaa                                                                                                                   <  1:49092/141‑1 (MQ=255)
          gcgttattaGTAGCCATTGGCATGGGGTTTGTCTATTGGATAAAGCATACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATg                                                                                                                 <  2:68972/138‑1 (MQ=255)
          aatttATTAGTAGCCATTAGCATGGGGTTTGTCACTTGGATAAAGCGGACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATg                                                                                                                 <  2:280380/139‑1 (MQ=255)
            tttATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGCAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGcc                                                                                                               <  2:307961/141‑1 (MQ=255)
               attaGTAGCCATTGGCATGGGGTTTGAATCTTGGATAAAGCGTACAAAAAATAATGCAATAAAAGTACCACATCGCGTAAAAAAAACAGCATCTATATCACTAATAATATGATTTATTGTATTAGTATTATTAATCCCata                                                                                                            >  2:117484/1‑140 (MQ=255)
                    aagCAATAGGCATGGGGTTTGTATCTTGGATAAAGCGTAAAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTg                                                                                                       <  2:253045/140‑1 (MQ=255)
                       ccATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACAACGCGTAAAAAACCCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATTCCATTATTTTGAt                                                                                                    >  2:260549/1‑141 (MQ=255)
                           tgggagggggTTTGTCTCTTGGATAAAGCGTAGAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATc                                                                                                <  2:89799/135‑1 (MQ=255)
                           tGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATc                                                                                                >  2:215762/1‑141 (MQ=255)
                             gCATGGGGTTTGTCTCCTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCAc                                                                                              <  1:61949/141‑1 (MQ=255)
                                 ggggTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTAt                                                                                          >  2:344511/1‑141 (MQ=255)
                                 ggggTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTAt                                                                                          >  2:67388/1‑141 (MQ=255)
                                   ggTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATcc                                                                                        <  1:334063/141‑1 (MQ=255)
                                            ctTGGATAAAGCGTACCTGAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTta                                                                               <  1:129738/141‑1 (MQ=255)
                                             ttGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTtat                                                                              <  1:157063/141‑1 (MQ=255)
                                                aaTAAAGCGTACAAAAAATACTGAAATAAAAGTACCAAATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTtatact                                                                           <  2:341164/140‑3 (MQ=255)
                                                   aaaGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGa                                                                        <  1:1445/141‑1 (MQ=255)
                                                   aaaGCATACAAAAAATACTGTAATAAAATAACCACATCGCGTAAAAAAAACAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATTCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGa                                                                        <  1:124267/141‑1 (MQ=255)
                                                      gCGTACAAAAAATACTGCACTAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAAtt                                                                     <  1:192956/141‑1 (MQ=255)
                                                      gCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTa                                                                    <  1:301636/141‑1 (MQ=255)
                                                      gCGTAAAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAAtt                                                                     <  1:23003/141‑1 (MQ=255)
                                                       agTAAAAAAAATACCGCAATAAAAGTAAAAAAAAAAAAAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTa                                                                    <  2:192922/140‑1 (MQ=255)
                                                               aaaTACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATtata                                                            >  1:205542/1‑141 (MQ=255)
                                                                      gCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTaaa                                                     <  1:194933/141‑1 (MQ=255)
                                                                                      aTCGCGTAAAAAAACTATCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAAc                                     <  2:61717/141‑1 (MQ=255)
                                                                                        ggcgTAAAAGAACCAGAATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACaa                                   <  2:105509/140‑1 (MQ=255)
                                                                                        agcgTAAAAAAAACAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAATATCGTCGTGCTAAACaa                                   <  2:231322/140‑1 (MQ=255)
                                                                                                    ccAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTaa                       >  2:206916/1‑141 (MQ=255)
                                                                                                     cAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTaaa                      >  2:17951/1‑141 (MQ=255)
                                                                                                               atCACTCATAATATGTTTTATTGTATTAGGATTCTTGAAGCCATTATTTGGATTATCACTTATCCTTGTATTTATACTTGAATTAATATTCTATATTAAAGATCATAGTTCTAAAAAATAATGCACTTAAAGTTTTTAACt            >  2:192394/1‑141 (MQ=255)
                                                                                                               atCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGATTTAATATTATATATTAAAGATCTTCGTGCTAAACTATAATGCACTTAAAGTTTTGAACt            >  2:21971/1‑141 (MQ=255)
                                                                                                                       taataTGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGCACTGACGAAAt    >  2:162192/1‑141 (MQ=255)
                                                                                                                       taataTGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAAt    >  1:69186/1‑141 (MQ=255)
                                                                                                                        aataTGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAAtt   >  1:50644/1‑141 (MQ=255)
                                                                                                                         atatGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAAttt  <  1:335733/141‑1 (MQ=255)
                                                                                                                         atatGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAAttt  <  2:160183/141‑1 (MQ=255)
                                                                                                                         atatGTTTTATTGTATTAGGATTATTAATGCAATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTTCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAAttt  <  2:153268/141‑1 (MQ=255)
                                                                                                                                 |                                                                                                                                    
TGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTAATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAATTT  >  USA300TCH1516_ALE/1513801‑1514062

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: