Predicted mutation
evidence seq id position mutation annotation gene description
RA USA300TCH1516_ALE 1,416,458 A→T I216N (ATT→AAT)  oppD_4 ← Oligopeptide transport ATP‑binding protein OppD

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE1,416,4580AT97.7% 145.3 / NA 45I216N (ATT→AAT) oppD_4Oligopeptide transport ATP‑binding protein OppD
Reads supporting (aligned to +/- strand):  ref base A (0/0);  major base T (19/24);  minor base G (0/1);  total (19/26)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CTCAATCATAGTAATCCCTCTTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAAATGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCAATGATGCA  >  USA300TCH1516_ALE/1416327‑1416586
                                                                                                                                   |                                                                                                                                
cTCAATTAGAGTAATCCCTCTTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGt                                                                                                                               <  2:320043/135‑1 (MQ=255)
                         ttGTTTTCTATATTTAATTAGACTTTCAGTATACGGATTCAACTACACATGCGTGAACAGGTTTATTTTGTATTATTCAATGATTTGACCTTCTTTTAAATCATAATTGTACTGACAATATTTCAATACATGAca                                                                                                      <  2:181802/135‑2 (MQ=255)
                          tgtgTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACtt                                                                                                     >  1:262177/1‑135 (MQ=255)
                           gtgtTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTa                                                                                                    <  2:57680/135‑1 (MQ=255)
                            tgtTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATAACTTaa                                                                                                   <  2:632272/135‑1 (MQ=255)
                             gtTCTATCTTTAGTTAGACGTTCAGTATACGTATGCAAATGCTCATACTTGAAATGCTTAATATTCCCTCGTTCAATGATTTGATCTTCCGTCAAAATATAATTGTGCTGACAATATTTCAATACATGACTTAAg                                                                                                  <  2:315568/135‑1 (MQ=255)
                             gtTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAg                                                                                                  >  2:554845/1‑135 (MQ=255)
                                cTATCTTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTa                                                                                               >  1:34469/1‑135 (MQ=255)
                                cTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTa                                                                                               >  2:438460/1‑135 (MQ=255)
                                 tataTTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAATCATAATTGTACTGACAATATTTCAATACATGACTTAAGTTAt                                                                                              <  1:468919/135‑1 (MQ=255)
                                   tatTTAATTAGACGTTCAGTATACGGATGCAAATTCTCATTCTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTAtgt                                                                                            <  2:499618/135‑1 (MQ=255)
                                    atTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTAtgtg                                                                                           <  1:360447/135‑1 (MQ=255)
                                       tAATTTGACGTTCAGTATACAAATGCAAATACTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGa                                                                                        >  1:526015/1‑135 (MQ=255)
                                       tAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGa                                                                                        >  2:144696/1‑135 (MQ=255)
                                         aTTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGcta                                                                                      <  1:363391/135‑1 (MQ=255)
                                         aTTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGata                                                                                      <  2:26009/135‑1 (MQ=255)
                                           tAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGataat                                                                                    <  1:319873/135‑1 (MQ=255)
                                           tAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGataat                                                                                    <  2:26858/135‑1 (MQ=255)
                                           tAGACGGTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGataat                                                                                    <  2:65821/135‑1 (MQ=255)
                                            aGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGataata                                                                                   <  1:318981/135‑1 (MQ=255)
                                                  tCAGTATACGTATACAAATGCTCATACTTTAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAaataat                                                                             <  2:74414/135‑1 (MQ=255)
                                                   cAGTACAAGCATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATg                                                                            >  2:647187/1‑135 (MQ=255)
                                                      tataCGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGttt                                                                         >  2:680760/1‑135 (MQ=255)
                                                      tacaCGGATGCAAATGCTCATACTTGAAATGATTAATATAACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTCCAGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGttt                                                                         >  1:361942/4‑135 (MQ=255)
                                                        taCGGATGCAAAGGCTCATACTTGAAATGATTAATATGACCTCGTTCATGGATTGGTCTTTCTTTTAAAACATAAGTGTACTGACAATATTTCAGTACAGGACTTAAGTTATGTGTGATAATAAATAATGTTTGa                                                                       <  2:54131/135‑1 (MQ=255)
                                                          cGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGAcc                                                                     >  2:401543/1‑135 (MQ=255)
                                                          cGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGAcc                                                                     >  1:94563/1‑135 (MQ=255)
                                                          cGGATGCAAATGCTCAGACTTGAAAGGATTAATATTACCTCGTTAAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTAAATACATGAGTTAAGTTAATGGTGATAATAAATACTGTTTAAca                                                                     >  2:85603/1‑134 (MQ=255)
                                                              tGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGt                                                                 <  2:645213/135‑1 (MQ=255)
                                                               gCAAATGCTCATTCTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGtt                                                                <  1:241762/135‑1 (MQ=255)
                                                                           aCTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATATATAATGTTTGACCATGTTCTAATACAatat                                                    <  1:649220/135‑1 (MQ=255)
                                                                           aCTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAatat                                                    <  1:624871/135‑1 (MQ=255)
                                                                           aCTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATAGTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAatat                                                    <  2:345289/135‑1 (MQ=255)
                                                                                  aTGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGtaa                                             <  1:29574/135‑1 (MQ=255)
                                                                                       tAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAAt                                        >  2:445880/1‑135 (MQ=255)
                                                                                          tatTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCa                                     >  2:159991/1‑135 (MQ=255)
                                                                                           atTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCAt                                    >  1:90465/1‑135 (MQ=255)
                                                                                              aCCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCAc                                 <  1:643584/135‑1 (MQ=255)
                                                                                                   gTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGAt                            <  1:680760/135‑1 (MQ=255)
                                                                                                          gATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTAAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGtt                     >  1:496530/1‑135 (MQ=255)
                                                                                                            tttgctcttcttTTAAATCATAACTGGACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGTCCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGGTCa                   <  1:262685/129‑1 (MQ=255)
                                                                                                               gACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAg                >  2:157678/1‑135 (MQ=255)
                                                                                                               gACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCCTTCAAAg                >  2:52243/1‑135 (MQ=255)
                                                                                                                 ccTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCa              >  1:408794/1‑135 (MQ=255)
                                                                                                                             aCATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCAATGATGCa  <  2:262177/135‑1 (MQ=255)
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CTCAATCATAGTAATCCCTCTTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAAATGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCAATGATGCA  >  USA300TCH1516_ALE/1416327‑1416586

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: ‑