Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 2,298,218 G→A 14.8% S343L (TCG→TTG)  salA ← Iron‑sulfur cluster carrier protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE2,298,2180GA14.8% 67.6 / 4.2 32S343L (TCG→TTG) salAIron‑sulfur cluster carrier protein
Reads supporting (aligned to +/- strand):  ref base G (10/17);  new base A (3/2);  total (13/19)
Fisher's exact test for biased strand distribution p-value = 3.74e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.83e-01

CTTAACACAAGAACTTATTTTACCAGCATTCCAAAACAAATCAACATAAAAACGTACAAAATAAAAGTAATTTTGTACGTTTAGCATATATTATACCTATTTATTTGTAGCAGCTATAACTTTTTGTGCAATCGAGCTATAAATTTTACCTAGACGATCATCTGATTGATATATTGACGGTGCAAAATCTTTTGGATTCCAAGATGGTTGCTCTAAAGGTAATTCCCCAAGTAATTGAGTATTAAGTTCATCAGCTAACTTAGTACCGC  >  USA300TCH1516_ALE/2298085‑2298353
                                                                                                                                     |                                                                                                                                       
cTTAACACAAGAACTTATTTTACCAGCAGTCCAAAACGAATCCACATAAAAACGGACAAAATAAAAGTAATTTTGTACGTTTAGCATATATTATACCTATTTATTTGTAGCAGCTATAACTTTTTGTGCAATCGAGCtat                                                                                                                                   <  1:42445/140‑1 (MQ=255)
     cacaAGAACTTATTTTACCAGCATTCCAAAACAAATCAACATAAAAACGTACAAAATAAAAGTAATTTTGTACGTTTAGCATATATTATACCTATTTATTTGTAGCAGCTATAACTTTTTGTGCAATCGAGCtatacctt                                                                                                                              >  2:157332/1‑136 (MQ=255)
     cacaAGAACTTATTTTACCAGCATTCCAAAACAAATCAACATAAAAACGTACAAAATAAAAGTAATTTTGTACGTTTAGCATATATTATACCTATTTATTTGTAGCAGCTATAACTTTTTGTGCAATCGAGCTATAAAtt                                                                                                                              >  2:273991/1‑140 (MQ=255)
            aCTTATTTTACCAGCATTCCAAAACAAATCAACATAAAAACGTACAAAATAAAAGTAATTTTGTACGTTTAGCATATATTATACCTATTTATTTGTAGCAGCTATAACTTTTTGTGCAATCGAGCTATAAATTTTACCTa                                                                                                                       <  2:300045/140‑1 (MQ=255)
                  tttACCAGCATGCCAAAACAAATCAACATAAAAACGTACAAAATAAAAGTAATTTTGTACGTTTAGCATATATTATACCTATTTATTTGTAGCAGCTATAACTTTTTGTGCAATCGAGCTATAAATTTTACCTAGACGat                                                                                                                 <  1:297333/140‑1 (MQ=255)
                      ccAGCATTCCAAAACAAATCCACCTTACAGCCTACAAAATAAAAGTAATTTTGTACGTTTAGCATATATTATACCTATTTATTTGTAGCAGCTATAACTTTTTGTGCAATCGAGCTATAAATTTTACCTAGACGatcatc                                                                                                             <  2:208498/140‑1 (MQ=255)
                        aGCATTCCAAAACAAATCAACATAAACACGTACAAAATAAAAGTAATTTTGTACGTTTAGCATATACAAAACATATTCAAATGTACCAGCAATAACATTCAATGCAATCAAGCAATAAAATTAACCTAGACGATCATCtg                                                                                                           >  1:183759/1‑140 (MQ=255)
                                aaaaCAAATCAACATAAAAACGTACAAAATAAAAGTAATTTTGTACGTTTAGCATATATTATACCTATTTATTTGTAGCAGCTATAACTTTTTGTGCAATCGAGCTATAAATTTTACCTAGACGATCATCTGATTGatat                                                                                                   >  2:249173/1‑140 (MQ=255)
                                         cAACATAAAAACGTACAAAATAAAAGTAATTTTGTACGTTTAGCATATATTATACCTATTTATTTGTAGCAGCTATAACTTTTTGTGCAATCGAGCTATAAATTTTACCTAGACGATCATCTGATTGATATATTGACGGt                                                                                          >  1:163126/1‑140 (MQ=255)
                                             aTAAAAACGTACAAAATAAAAGTAATTTTGTACGTTTAGCATATATTATACCTATTTATTTGTAGCAGCTATAACTTTTTGTGCAATCGAGCTATAAATTTTACCTAGACGATCATCTGATTGATATATTGACGGTGCaa                                                                                      <  1:57121/140‑1 (MQ=255)
                                                  aaCGTACAAAATAAAAGTAATTTTGTACGTTTAGCATATATTATACCTATTTATTTGTAGCAGCTATAACTTTTTGTGCAATCGAGCTATATATTTTACCTAGACGATCATCTGATTGATATATTGACGGTGCAAAATCt                                                                                 <  2:290636/140‑1 (MQ=255)
                                                  aaCGTACAAAATAAAAGTAATTTTGTACGTTTAGCATATATTATACCTATTTATTTGTAGCAGCTATAACTTTTTGTGCAATCGAGCTATAAATTTTACCTAGACGATCATCTGATTGATATATTGACGGTGCAAAATCt                                                                                 <  1:280667/140‑1 (MQ=255)
                                                       aCAAAATAAAAGTAATTTTGTACGTTTAGCATATATTATACCTATTTATTTGTAGCAGCTATAACTTTTTGTGCAATCGAGCTATAAATTTTACCTAGACGATCATCTGATTGATATATTGACGGTGCAAAATCTTTTgg                                                                            <  1:295993/140‑1 (MQ=255)
                                                           aaTAAAAGTAATTTTGTACGTTAAGCATATATTATACCTATTTATTTGTAGCAGCTATAACTTTTTGTGCAATCGAGCTATAAATTTTACCTAGACGATCATCTGATTGATATATTGACGGTGCAAAATCTTTTGGATTc                                                                        <  2:73447/140‑1 (MQ=255)
                                                              tacttttaTTTTGTACGTTTAGCATATATTATACCTATTTATTTGTAGCAGCTATAACTTTTTGTGCAATCAAGCTATAAATTTTACCTAGACGATCATCTGATTGATATATTGACGGTGCAAAATCTTTTGGATTCCaa                                                                     >  1:309098/8‑140 (MQ=255)
                                                              tacttttaTTTTGTACGTTTAGCATATATTATACCTATTTATTTGTAGCAGCTATAACTTTTTGTGCAATCAAGCTATAAATTTTACCTAGACGATCATCTGATTGATATATTGACGGTGCAAAATCTTTTGGATTCCaa                                                                     >  2:258707/8‑140 (MQ=255)
                                                               aaaGTAATTTTGTACGTTTAGCATATATTATACCTATTTATTTGTAGCAGCTATAACTTTTTGTGCAATCGAGCTATAAATTTTACCTAGACGATCATCTGATTGATATATTGACGGTGCAAAATCTTTTGGATTCCAAg                                                                    <  1:249173/140‑1 (MQ=255)
                                                                      ttttGTACGTTTAGCATATATTATACCTATTTATTTGTAGCAGCTATAACTTTTTGTGCAATCGAGCTATAAATCTTACCTAGACGATCATCTGATTGATATATTGCCGGTGCAAAATCTTTTGGATTCCAAGATGGTTg                                                             <  1:222072/140‑1 (MQ=255)
                                                                               tttAGCATTTATTATACCTATTTATTTGTAGCAGCTATAACTTTTTGTGCAATCGAGCTATAAATTTTACCTAGACGATCATCTGATTGATATATTGACGGTGCAAAATCTTTTGGATTCCAAGATGGTTGCTCTAAAgg                                                    <  2:204676/140‑1 (MQ=255)
                                                                                ctAGCATATATTATACCTCTTCATTTGTAGCAGCTATAACTTTTTGTGCAATCGAGCTATAAATTTTACCTAGACGATCATCTGATTGATATATTGACGGTGCAAAATCTTTTGGATTCCAAGATGGTTGCTCTAAAGGt                                                   <  1:131899/139‑1 (MQ=255)
                                                                                   gCATATATTATACCTATTTATTTGTAGCAGCTATAACTTTTTGTGCAATCGAGCTATAAATTTTACCTAGACGATCATCTGATTGATATATTGACGGTGCAAAATCTTTTGGATTCCAAGATGGTTGCTCTAAAGGTAAt                                                >  1:236601/1‑140 (MQ=255)
                                                                                       atatTATACCTATTTATTTGTAGCAGCTATAACTTTTTGTGCAATCGAGCTATAAATTTTACCTAGACGATCATCTGATTGATATATTGACGGTGCAAAATCTTTTGGATTCCAAGATGGTTGCTCTAAAGGTAATTccc                                            >  1:62131/1‑140 (MQ=255)
                                                                                                     tatttGTAGCAGCTATAACTTTTTGTGCAATCGAGCTATAAATTTTACCTAGACGATCATCTGATTGATATATTGACGGTGCAAAATCTTTTGGATTCCAAGATGGTTGCTTTAAAGGTAATTCTCCATGTAATTGAGTa                              >  2:15849/1‑140 (MQ=255)
                                                                                                     tatttGTAGCAGCTATAACTTTTTGTGCAATCGAGCTATAAATTTTACCTAGACGATCATCTGATTGATATATTGACGGTGCAAAATCTTTTGGATTCCAAGATGGTTGCTCTAAAGGTAATTCCCCACGTAATTGAGTa                              >  1:126597/1‑140 (MQ=255)
                                                                                                       tttGTAGCAGCTATAACTTTTTGTGCAATCGAGCTATAAATTTTACCTAGACGATCATCTGATTGATATATTGACGGTGCAAAATCTTTTGGATTCCAAGATGGTTGCTCTAAAGGTAATTCCCCAAGTAATTGAGTAtt                            <  1:258527/140‑1 (MQ=255)
                                                                                                         tGTAGCAGCTATAACTTTTTGTGCAATCGAGCTATAAATTTTACCTAGACGATCATCTGATTGATATATTGACGGTGCAAAATCTTTTGGATTCCAAGATGGTTGCTCTAAAGGTAATTCCCCAAGTAATTGAGTATTaa                          >  1:83951/1‑140 (MQ=255)
                                                                                                                   ataACTTTTTGTGCAATCGAGCTATAAATTTTACCTAGACGATCATCTGATTGATATATTGACGGTGCAAAATCTTTTGGATTCCAAGATGGTTGCTCTAAAGGTAATTCCCCAAGTAATTGAGTATTAAGTTCATCAGc                >  2:172807/1‑140 (MQ=255)
                                                                                                                      aCTTTTTGTGCAATCAAGCTATAAATTTTACCTAGACGATCATCTGATTGATATATTGACGGTGCAAAATCTTTTGGATTCCAAGATGGTTGCTCTAAAGGTAATTCCCCAAGTCATTGAGTATTAAGTTCATCAGCTaa             <  2:309098/140‑1 (MQ=255)
                                                                                                                      aCTTTTTGTGCAATCAAGCTATAAATTTTACCTAGACGATCATCTGATTGATATATTGACGGTGCAAAATCTTTTGGATTCCAAGATGGTTGCTCTAAAGGTAATTCCCCAAGTAATTGAGTATTAAGTTCATCAGCTaa             <  1:258707/140‑1 (MQ=255)
                                                                                                                              tgCAATCGAGCTATAAATTTTACCTAGACGATCATCTTATTGATATATTGACGGTGCAAAATCTTTTGGATTCCAAGATGGTTGCTCTAAAGGTAATTCCCCAAGTAATTGAGTATTAAGTTCATCAGCTAACTTAGTAc     <  1:273991/140‑1 (MQ=255)
                                                                                                                              ggCAATCGAGCTATAAATTTTACCTAGACGATCATCTGATTGATATATTGACGGTGCAAAATCTTTTGGATTCCAAGATGGTTGCTCTAAAGGTAATTCCCCAAGTAATTGAGTATTAAGTTCATCAGCTAACTTAGTAc     <  1:157332/139‑1 (MQ=255)
                                                                                                                                 aaTCGAGCTATAAATTTTACCTAGACGATCATCTGATTGATATATTGACGGTGCAAAATCTTTTGGATTCCAAGATGGTTGCTCTAAAGGTAATTCCCCAAGTAATTGAGTATTAAGTTCATCAGCTAACTTAGTACCGc  <  1:66271/140‑1 (MQ=255)
                                                                                                                                     |                                                                                                                                       
CTTAACACAAGAACTTATTTTACCAGCATTCCAAAACAAATCAACATAAAAACGTACAAAATAAAAGTAATTTTGTACGTTTAGCATATATTATACCTATTTATTTGTAGCAGCTATAACTTTTTGTGCAATCGAGCTATAAATTTTACCTAGACGATCATCTGATTGATATATTGACGGTGCAAAATCTTTTGGATTCCAAGATGGTTGCTCTAAAGGTAATTCCCCAAGTAATTGAGTATTAAGTTCATCAGCTAACTTAGTACCGC  >  USA300TCH1516_ALE/2298085‑2298353

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑