Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 1,513,930 A→T 100% L413F (TTA→TTT)  USA300HOU_1379 → hypothetical membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007301,513,9300AT100.0% 101.5 / NA 33L413F (TTA→TTT) USA300HOU_1379hypothetical membrane protein
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base T (14/19);  total (14/19)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TTGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTAATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACT  >  CP000730/1513800‑1514052
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ttGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAg                                                                                                                  >  2:80987/1‑141 (MQ=255)
 tgtatgtaTCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAgg                                                                                                                 <  2:33709/141‑1 (MQ=255)
   tttgaatCCCTTTATTAGTAGCCATTGGCATAGGCTTTGTCTCTAGTAAAAAAAAAAAAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAATCCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGat                                                                                                               <  2:421793/136‑1 (MQ=255)
   tatgtatCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGAGAACAAAAAATACTGCAATAAAAGTACCACATCGCGTAACAAAACTAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGat                                                                                                               <  2:421800/141‑1 (MQ=255)
       tatCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGattatt                                                                                                           >  1:22012/1‑141 (MQ=255)
               tattaGTAACCATTGGCATGGGGTTTGTTCCTTGGATAAAGCGTACAAAACATACTGCCATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATCTGTTTTATTGTATTGCGATTATTAATGCCat                                                                                                   <  2:202706/141‑1 (MQ=255)
                 ttaGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCattt                                                                                                 >  1:370926/1‑140 (MQ=255)
                  cagtagCCATTGGCATGGGGTTTGTCTATTGTATTCCGCGTACAAACCATAATGCAATAAATATAACACATCGCGAAAAAAAACCGGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATgacgttct                                                                                                >  2:53693/2‑134 (MQ=255)
                   agtagCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCattatt                                                                                               >  1:242608/1‑141 (MQ=255)
                    atagCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTAGAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATTGTTTATTGTATTAGGATTATTAATGCCATTAttt                                                                                              <  2:362278/140‑1 (MQ=255)
                      agCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCACCATCTATATCACTCATAATATGTTTTATTGTATTACGATTATTAATGCCATTATTTgg                                                                                            >  2:305146/1‑141 (MQ=255)
                         cATTGGCAGGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAACAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGAtt                                                                                         <  1:150895/141‑1 (MQ=255)
                               cATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACt                                                                                   <  1:250866/141‑1 (MQ=255)
                                aTGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACtt                                                                                  <  1:258377/141‑1 (MQ=255)
                                 tGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTa                                                                                 >  1:159217/1‑141 (MQ=255)
                                                       gCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATATATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAAtt                                                           <  1:176069/141‑1 (MQ=255)
                                                                  aTACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCCCTCATAATATGTTTTATTGTATTAGGATTATTAATGACTTTCTGTGGAGTATCCCTTAGCCTTGTATTTATAATTGAATTAATATtatata                                                <  2:444457/141‑1 (MQ=255)
                                                                    aCTGCAATAAAAGTACAACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTCTATTTATCATTGAATTATTATTATATAtt                                              >  2:365693/1‑141 (MQ=255)
                                                                                gTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATcgtcgt                                  <  1:80987/141‑1 (MQ=255)
                                                                                     acaTCGCGTAAAAAAACCAGCATCTTTATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTaa                             <  2:180410/141‑1 (MQ=255)
                                                                                      caTCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTCATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATAGTCGTGCTaaa                            >  2:447472/1‑141 (MQ=255)
                                                                                      caTCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTaaa                            <  2:459147/141‑1 (MQ=255)
                                                                                      caTCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTaaa                            >  1:262391/1‑141 (MQ=255)
                                                                                       aTCGCGTAAAAAAATCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATTGTCGTGCTAAAc                           <  1:54798/141‑1 (MQ=255)
                                                                                       aTCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAAc                           <  1:348363/141‑1 (MQ=255)
                                                                                        tCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACa                          <  1:368672/141‑1 (MQ=255)
                                                                                         cgcgTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACaa                         >  1:91693/1‑141 (MQ=255)
                                                                                          gcgTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACaat                        >  1:246342/1‑141 (MQ=255)
                                                                                               aaaaaaCCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAATCAATAATGc                   <  1:338966/141‑1 (MQ=255)
                                                                                                   aaCCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAAATCGTCGTGCTAAACAATAATGCAAtt               >  2:86396/1‑141 (MQ=255)
                                                                                                    aCCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTAGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGATAAACAATAATACACTTa              >  1:97268/1‑141 (MQ=255)
                                                                                                     cccgCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTaa             <  1:121284/138‑1 (MQ=255)
                                                                                                                atCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACt  <  1:394111/141‑1 (MQ=255)
                                                                                                                                  |                                                                                                                          
TTGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTAATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACT  >  CP000730/1513800‑1514052

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: ‑