Predicted mutation
evidence seq id position mutation annotation gene description
RA USA300TCH1516_ALE 1,932,853 T→C I799V (ATT→GTT)  USA300HOU_RS09605 ← hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE1,932,8530TC100.0% 131.6 / NA 35I799V (ATT→GTT) USA300HOU_RS09605hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (20/15);  total (20/15)

ATTAGATATATCTTTTGATAAACTAATATATTCAATTGTTTGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAATGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAATTTTAATAAACCAATAATTTTAGTTGGAAATGTTTTGAATAATTTTACTAAAGATTTAGTAC  >  USA300TCH1516_ALE/1932713‑1932993
                                                                                                                                            |                                                                                                                                            
atTAGATATATCTTTTGATAAACTAATATATTCAATTGTTTGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGAtt                                                                                                                                       <  3:120430/148‑1 (MQ=255)
atTAGATATATCTTTTGATAAACTAATATATTCAATTGTTTGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGAtt                                                                                                                                       <  3:319766/148‑1 (MQ=255)
        tatCTTTTGATAAACTAATATATTCAATTGTTTGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAgtgt                                                                                                                               <  4:43169/148‑1 (MQ=255)
          tCTTTTGATAAACTAATATATTCAATTGTTTGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCg                                                                                                                             >  3:170721/1‑148 (MQ=255)
          tCTTTTGATAAACTAATATATTCAATTGTTTGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCg                                                                                                                             >  3:400278/1‑148 (MQ=255)
          tCTTTTGATAAACTAATATATTCAATTGTTTGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCg                                                                                                                             >  4:236312/1‑148 (MQ=255)
                      cTAATATATTCAATTGTTTGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAg                                                                                                                 <  4:109603/148‑1 (MQ=255)
                       tAATATATTCAATTGTTTGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGa                                                                                                                <  3:262602/148‑1 (MQ=255)
                               tCAATTGTTTGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCAtata                                                                                                        <  4:153340/148‑1 (MQ=255)
                               tCAATTGTTTGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCAtata                                                                                                        <  4:135779/148‑1 (MQ=255)
                               tCAATTGTTTGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCAtata                                                                                                        <  3:380351/148‑1 (MQ=255)
                                   ttGTTTGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCt                                                                                                    <  3:384391/148‑1 (MQ=255)
                                                                 tatGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTGGAGTCGAGGTGGCGCACCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTc                                                                      >  3:248344/1‑148 (MQ=255)
                                                                 tatGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTc                                                                      >  3:348931/1‑148 (MQ=255)
                                                                 tatGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCACCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTc                                                                      >  3:248368/1‑148 (MQ=255)
                                                                  atGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAGACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCa                                                                     >  3:179994/1‑148 (MQ=255)
                                                                  atGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCa                                                                     >  3:344198/1‑148 (MQ=255)
                                                                         tataCCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAAtt                                                              >  4:382941/1‑148 (MQ=255)
                                                                         tataCCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAAtt                                                              <  4:74853/148‑1 (MQ=255)
                                                                               aTTTCTTTATCAAATATTTCTTCATAAATATAATTAGCACTCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGTATCATTGTTATTTTCAAATAATTTtaata                                                        >  4:137129/1‑148 (MQ=255)
                                                                                   cTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAATTTTAATAAAcc                                                    <  4:176686/148‑1 (MQ=255)
                                                                                        tCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAATTTTAATAAACCaataa                                               <  3:71359/148‑1 (MQ=255)
                                                                                                        aaaTATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAATTTTAATAAACCAATAATTTTAGTTGGAAATGt                               <  3:403969/148‑1 (MQ=255)
                                                                                                        aaaTATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAATTTTAATAAACCAATAATTTTAGTTGGAAATGt                               <  4:191720/148‑1 (MQ=255)
                                                                                                               aTTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAATTTTAATAAACCAATAATTTTAGTTGGAAATGTTTTGaat                        >  4:368242/1‑148 (MQ=255)
                                                                                                               aTTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAATTTTAATAAACCAATAATTTTAGTTGGAAATGTTTTGaat                        >  4:9434/1‑148 (MQ=255)
                                                                                                                 tAGCAATCTCTATATGTATTGCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAATTTTAATAAACCAATAATTTTAGTTGGAAATGTTTTGaataa                      <  4:28163/148‑1 (MQ=255)
                                                                                                                    cAATCACTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAATTTTAATAAACCAATAATTTTAGTTGGAACTGTTTTGAATAAttt                   >  3:345663/1‑148 (MQ=255)
                                                                                                                      aTCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAATTTTAATAAACCAATAATTTTAGTTGGAAATGTTTTGAATAATTTTa                 >  3:306237/1‑148 (MQ=255)
                                                                                                                      aTCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAATTTTAATAAACCAATAATTTTAGTTGGAAATGTTTTGAATAATTTTa                 >  3:275562/1‑148 (MQ=255)
                                                                                                                                gTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAATTTTAATAAACCAATAATTTTAGTTGGAAATGTTTTGAATAATTTTACTAAAGAttt       >  4:47984/1‑148 (MQ=255)
                                                                                                                                gTATTTCACAAACGTCCATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAATTTTAATAAACCAATAATTTTAGTTGGAAATGTTTTGAATAATTTTACTAAAGAttt       >  3:365839/1‑148 (MQ=255)
                                                                                                                                   tttCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAATTTTAATAAACCAATAATTTTAGTTGGAAATGTTTTGAATAATTTTACTAAAGATTTAGt    >  4:360176/1‑148 (MQ=255)
                                                                                                                                   tttCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAATTTTAATAAACCAATAATTTTAGTTGGAAATGTTTTGAATAATTTTACTAAAGATTTAGt    >  4:75883/1‑148 (MQ=255)
                                                                                                                                     tCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAATTTTAATAAACCAATAATTTTAGTTGGAAATGTTTTGAATAATTTTACTAAAGATTTAGTAc  >  4:32791/1‑148 (MQ=255)
                                                                                                                                            |                                                                                                                                            
ATTAGATATATCTTTTGATAAACTAATATATTCAATTGTTTGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAATGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAATTTTAATAAACCAATAATTTTAGTTGGAAATGTTTTGAATAATTTTACTAAAGATTTAGTAC  >  USA300TCH1516_ALE/1932713‑1932993

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑