Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	USA300TCH1516_ALE	707,879	A→T	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_ALE	707,879	0	A	T	100.0%	222.6 / NA	59	L11I (TTA→ATA)	znuC_1	High‑affinity zinc uptake system ATP‑binding protein ZnuC
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base T (34/25);  total (34/25)

TACCGGTAGCATTAAATTCACCAATTAAAGACTTGATAAGGGAAGATTTACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTAAAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGATATAATATAGACAATGTATGTGAGGTG  >  USA300TCH1516_ALE/707741‑708025                                                                                                                                           |                                                                                                                                                   tACCGGTAGCATTAAATTCACCAATTAAAGACTTGATAAGGGAAGATTTACCAGCACCATTCGGGCCCATGATACCAACTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTaa                                                                                                                                        >  2:69999/1‑151 (MQ=255)   ccGGTAGCATTAAATTCACCAATTAAAGACTTGATAAGGGAAGATTTACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAAt                                                                                                                                      >  1:103476/1‑151 (MQ=255)      gTAGCATTAAATTCACCAATTAAAGACTTGATAAGGGAAGATTTACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCtt                                                                                                                                   <  2:213327/151‑1 (MQ=255)           aTTAAATTCACCAATTAAAGACTTGATAAGGGAAGATTTACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGtt                                                                                                                              >  2:90455/1‑151 (MQ=255)           aTTAAATTCACCAATTAAAGACTTGATAAGGGAAGATTTACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGtt                                                                                                                              >  2:89108/1‑151 (MQ=255)                 ttCACCAATTAAAGACTTGATAAGGGAAGATTTACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAAc                                                                                                                        >  2:139951/1‑151 (MQ=255)                 ttCACCAATTAAAGACTTGATAAGGGAAGATTTACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAAc                                                                                                                        <  1:341069/151‑1 (MQ=255)                                     tAAGGGAAGATTTACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAAt                                                                                                    >  2:319016/1‑151 (MQ=255)                                      aaGGGAAGATTTACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGTTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAAtt                                                                                                   <  2:449049/151‑1 (MQ=255)                                       aGGGAAGATTTACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTa                                                                                                  <  2:230598/151‑1 (MQ=255)                                           aaGATTTACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAg                                                                                              <  1:43284/151‑1 (MQ=255)                                              aTTTACCAGCACCATTCGGGCCCATGATACCAATTCTTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTGCATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACGTCCTCATTACAAGttt                                                                                           >  1:79327/1‑151 (MQ=255)                                              aTTTACCAGCACCATTCGGGCCCATGATACCAATTATTTCGTCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGttt                                                                                           >  2:324844/1‑151 (MQ=255)                                              aTTTACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGttt                                                                                           <  1:11629/151‑1 (MQ=255)                                              aTTTACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGttt                                                                                           >  2:301324/1‑151 (MQ=255)                                               tttACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTa                                                                                          >  1:195068/1‑151 (MQ=255)                                                ttACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAg                                                                                         >  2:43410/1‑151 (MQ=255)                                                ttACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAg                                                                                         >  2:14810/1‑151 (MQ=255)                                                ttACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTAGATCTCCTAGTTAAAAGtttcg                                                                                         >  2:251581/1‑149 (MQ=255)                                                     aGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTaa                                                                                    >  1:306700/1‑151 (MQ=255)                                                     aGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTaa                                                                                    >  1:421652/1‑151 (MQ=255)                                                       cACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAAcc                                                                                  <  1:227774/151‑1 (MQ=255)                                                         ccATTCGGGCCCATGATACCAAGTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCta                                                                                <  2:30539/151‑1 (MQ=255)                                                                  cccATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGt                                                                       <  1:287109/151‑1 (MQ=255)                                                                            cAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACt                                                             <  1:170657/151‑1 (MQ=255)                                                                                tattTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTGTAACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATATTTAACTgaga                                                         >  1:33954/1‑151 (MQ=255)                                                                                tattTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTgaga                                                         <  1:200617/151‑1 (MQ=255)                                                                                 attTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACACACGTTTATACATACTAACTCCAACTCTACGCCAAACTAGTTAATTGAATAATAAACTGAGaa                                                        >  1:440604/1‑151 (MQ=255)                                                                                 attTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGaa                                                        <  1:193232/151‑1 (MQ=255)                                                                                                 gTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAg                                        >  2:275273/1‑151 (MQ=255)                                                                                                         aaGGAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCg                                >  2:340625/1‑151 (MQ=255)                                                                                                            gAAATGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGa                             <  2:194036/151‑1 (MQ=255)                                                                                                             aaaTGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGat                            <  1:292899/151‑1 (MQ=255)                                                                                                                tGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGatata                         <  2:26754/151‑1 (MQ=255)                                                                                                                tGTTTTTAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGatata                         <  1:351832/151‑1 (MQ=255)                                                                                                                  tttttAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGatataat                       >  2:335399/1‑151 (MQ=255)                                                                                                                  tttttAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGatataat                       >  1:289812/1‑151 (MQ=255)                                                                                                                     ttAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGatataatata                    <  1:267885/151‑1 (MQ=255)                                                                                                                     ttAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGatataatata                    <  1:155201/151‑1 (MQ=255)                                                                                                                     ttAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGatataatata                    <  1:131352/151‑1 (MQ=255)                                                                                                                     ttAAGTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGatataatata                    <  1:349277/151‑1 (MQ=255)                                                                                                                         gTACATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGATATAATATAGACa                <  2:103476/151‑1 (MQ=255)                                                                                                                            cATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAAGGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGATATAATATAGACAatg             >  1:335014/1‑151 (MQ=255)                                                                                                                            cATGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGATATAATATAGACAatg             >  2:16125/1‑151 (MQ=255)                                                                                                                             aTGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGATATAATATAGACAatgt            <  2:273269/151‑1 (MQ=255)                                                                                                                             aTGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGATATAATATAGACAatgt            <  1:215674/151‑1 (MQ=255)                                                                                                                              tGCTTATTACCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGATATAATATAGACAatgta           <  2:142874/151‑1 (MQ=255)                                                                                                                                   attaCCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGATATAATATAGACAATGTATGTGa      >  2:273618/1‑151 (MQ=255)                                                                                                                                   attaCCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGATATAATATAGACAATGTATGTGa      >  2:273617/1‑151 (MQ=255)                                                                                                                                   attaCCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGATATAATATAGACAATGTATGTGa      >  1:189596/1‑151 (MQ=255)                                                                                                                                   attaCCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGATATAATATAGACAATGTATGTGa      >  1:186688/1‑151 (MQ=255)                                                                                                                                   attaCCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGATATAATATAGACAATGTATGTGa      >  2:327735/1‑151 (MQ=255)                                                                                                                                   attaCCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGATATAATATAGACAATGTATGTGa      >  2:425881/1‑151 (MQ=255)                                                                                                                                   attaCCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGATATAATATAGACAATGTATGTGa      >  2:67508/1‑151 (MQ=255)                                                                                                                                     taCCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGATATAATATAGACAATGTATGTGAgg    >  1:264393/1‑151 (MQ=255)                                                                                                                                     taCCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGATATAATATAGACAATGTATGTGAgg    >  1:431852/1‑151 (MQ=255)                                                                                                                                     taCCTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGATATAATATAGACAATGTATGTGAgg    >  1:116389/1‑151 (MQ=255)                                                                                                                                       ccTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGATATAATATAGACAATGTATGTGAGGTg  <  1:193287/151‑1 (MQ=255)                                                                                                                                       ccTATAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGATATAATATAGACAATGTATGTGAGGTg  >  1:447163/1‑151 (MQ=255)                                                                                                                                           |                                                                                                                                                   TACCGGTAGCATTAAATTCACCAATTAAAGACTTGATAAGGGAAGATTTACCAGCACCATTCGGGCCCATGATACCAATTATTTCGCCGCGTACTGGTATCGATAAGGAAATGTTTTTAAGTACATGCTTATTACCTAAAAACAGATTTAAATCTTTTGTTTCTAACAAACGTTTATACCTCCTAATTAAAAGTTTAGGCTAACCTAATTAATTGTATAATAAACTGAGAATATTTATCATGTCAAGTAAATTCGTGATATAATATAGACAATGTATGTGAGGTG  >  USA300TCH1516_ALE/707741‑708025

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: ‑