Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 707,879 A→T 100% L11I (TTA→ATA)  znuC_1 ← High‑affinity zinc uptake system ATP‑binding protein ZnuC

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE707,8790AT100.0% 94.2 / NA 35L11I (TTA→ATA) znuC_1High‑affinity zinc uptake system ATP‑binding protein ZnuC
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base T (18/17);  total (18/17)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GCATTAAATTCACCAATTAAAGACTTGATAAGGGAAGATTTACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTAAAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGATATAATATAGACAATG  >  USA300TCH1516_ALE/707749‑708014
                                                                                                                                  |                                                                                                                                       
gCATTACATTCACCAATTAAAGACTTGGGAAGGGGAGATTTACCAGCACCATTCGGGCTCATGATACCAATTATTTCGCGGCGTACTGGTATCGATAAGGAAATGTTTTGAAGTACATGCTTATTACCTATAAACAAAtt                                                                                                                                >  2:207866/1‑140 (MQ=255)
gCATTAAATTCACCAATTAGAGACTTGATAAGGGAAGATTTACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGAtt                                                                                                                                >  1:189193/1‑140 (MQ=255)
       aTTCACCAATTAAAGCCTTGATAAGGGAAGATTTACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCt                                                                                                                         <  2:63256/140‑1 (MQ=255)
       aTTCACCAATTAAAGACTTGATAAGGGAAGATTTACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCt                                                                                                                         <  1:309092/140‑1 (MQ=255)
             cAATTAAAGACTTAATAAGGGAAGATTTACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTAGTATCGAAAAGGAAATGTTTTCAAGCACATGCTTATTACCTATAAACAGATTTAAATCTTTTGtt                                                                                                                   <  2:120475/140‑1 (MQ=255)
                         tGATAAGGGAAGATTTACCAGCACCATTCGTGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGt                                                                                                       <  2:15088/140‑1 (MQ=255)
                         gtaTAAGGGGAGATTTACCAGCACCCTTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATGTAAATCTTTTGTTTCTAACAAACGt                                                                                                       <  1:120727/138‑1 (MQ=255)
                          gATAAGGGAAGATTTACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGAATTAAATCTTTTATTTCTAACAAACGtt                                                                                                      >  1:11336/1‑140 (MQ=255)
                             aaGGGAAGATTTACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTtat                                                                                                   <  1:308197/140‑1 (MQ=255)
                               gggAAGATTTACCAGCGCCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATGGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTGGTTTCTAACAAACGTTTATAc                                                                                                 >  2:135783/1‑140 (MQ=255)
                               gggAAGATTTACCAGCACCATTCGGGCCCATGATACCAATTATTTCGACGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATAc                                                                                                 >  2:64484/1‑140 (MQ=255)
                                  aaGATTTACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCTTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATTTTTTGTTTCTAACAAACGTTTATAcctc                                                                                              <  2:6840/140‑1 (MQ=255)
                                        tACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAAtt                                                                                        >  2:263042/1‑140 (MQ=255)
                                          ccAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGAACTGGTATCGATGAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAAAGTTTATCCCCCCTAATTaa                                                                                      >  2:25255/1‑140 (MQ=255)
                                               aCCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTCAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCAAACAAACGTTTATACCTCCTAATTAAAAGtt                                                                                 >  1:117349/1‑140 (MQ=255)
                                                         cccATGATACCAATTATTTCGCCGCGTTCTGGTATCGATAAGGATATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAAcc                                                                       <  1:187836/140‑1 (MQ=255)
                                                         cccATGATACCAATTATTTCGCCGCGTACTGGTAGCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAAcc                                                                       <  1:20303/140‑1 (MQ=255)
                                                                tACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCtaattaa                                                                <  1:263042/140‑1 (MQ=255)
                                                                    aaTTATTTCGCCGCGTACTGGTCTCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACTTCCTAATTAAAAGTTTAGGATAACATCATCAATTGt                                                            >  2:134590/1‑140 (MQ=255)
                                                                      ttattTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTACTAATTAAAAGTTTAGGCTAACCTAATTAAATGtat                                                          >  1:114972/1‑140 (MQ=255)
                                                                       tattTCGCCGCGTACTGGTATCGATGAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGtata                                                         <  2:355267/140‑1 (MQ=255)
                                                                        attTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATAGTataa                                                        >  1:127426/1‑140 (MQ=255)
                                                                           tCGCCGCGTACTGGTAACGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTAtaataa                                                     >  1:176871/1‑140 (MQ=255)
                                                                            cgccgcGTACTGGTATCGATCAGGAAATGTTTTTAAGTACCTGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTACTTGCCTAATaaa                                                    >  2:307333/1‑140 (MQ=255)
                                                                            cgccgcGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATTCTTATTTTCTTTTAATAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGTCTAACCTAATTAATTGTATAATaaa                                                    >  2:104472/1‑140 (MQ=255)
                                                                                         tATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTa                                       <  2:330732/140‑1 (MQ=255)
                                                                                                 aGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTAAATAATAAACTAAGAATATTTATCATGTCa                               >  1:290930/1‑140 (MQ=255)
                                                                                                    aaaTGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGt                            <  1:225587/140‑1 (MQ=255)
                                                                                                          ttttAAGTACATGTTTATTACCTTTAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCTTAAGTAAAAGTTTACGCTGACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTc                      <  1:352034/140‑1 (MQ=255)
                                                                                                          ttttAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAATCTGAGAATATTTATCATGTCACGTAAATTc                      >  2:215631/1‑140 (MQ=255)
                                                                                                          ttttAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTc                      <  1:45364/140‑1 (MQ=255)
                                                                                                              aattACATTCTTATTACCTATACACATAATTAAATCTAAACTTCCTAAAAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGa                  <  1:47229/137‑1 (MQ=255)
                                                                                                                         tattaCCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGATATAATATAGa       >  2:332018/1‑140 (MQ=255)
                                                                                                                         tattaCCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTAGTGATATAATATAGa       >  2:142739/1‑140 (MQ=255)
                                                                                                                              ccTATAAACATATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGATATAATATAGACAatg  <  1:64484/140‑1 (MQ=255)
                                                                                                                                  |                                                                                                                                       
GCATTAAATTCACCAATTAAAGACTTGATAAGGGAAGATTTACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTAAAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGATATAATATAGACAATG  >  USA300TCH1516_ALE/707749‑708014

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑