Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	USA300TCH1516_ALE	790,778	G→A	intergenic (+277/‑197)	kipA_1 → / → ltaS	KipI antagonist/Lipoteichoic acid synthase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	790,778	0	G	A	100.0%	281.6 / NA	82	intergenic (+277/‑197)	kipA_1/ltaS	KipI antagonist/Lipoteichoic acid synthase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (49/33);  total (49/33)

TTACTTGAATTTTGACTAAAATTACTCTATATTTATTAATTGAGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTGTAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCACTTATTAATTAACTACATAATGTTAA  >  USA300TCH1516_ALE/790641‑790914                                                                                                                                          |                                                                                                                                         ttACTTGAATTTTGACTAAAATTACTCTATATTTATTAATTGAGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAg                                                                                                                                       <  1:1011773/141‑1 (MQ=255) ttACTTGAATTTTGACTAAAATTACTCTATATTTATTAATTGAGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAg                                                                                                                                       <  1:1104446/141‑1 (MQ=255)  tatttGAATTTTCACTAAAATTACTCTATATTTATTAATTGAGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAGGAAACTTACACAAGCAAATATGAGTTATAGc                                                                                                                                      <  1:661916/138‑1 (MQ=255)   aCTTGAATTTTGACTAAAATTACTCTATATTTATTAATTGAGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGcc                                                                                                                                     <  1:1017359/141‑1 (MQ=255)    cTTGAATTTTGACTAAAATTACTCTATATTTATTAATTGAGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGccc                                                                                                                                    <  2:511505/141‑1 (MQ=255)            ttGACTAAAATTACTCTATATTTAGTAATTGAGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACt                                                                                                                            <  2:775665/141‑1 (MQ=255)              gACTAAAATTACTCTATATTTATTAATTGAGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTg                                                                                                                          >  1:958651/1‑141 (MQ=255)                     aTTACTCTATATTTATTAATTGAGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATc                                                                                                                   >  2:1075012/1‑141 (MQ=255)                        aCTCTATATATATTAATTGAGCTAAGATAATTGTTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCaaa                                                                                                                >  1:885691/1‑141 (MQ=255)                          tctATATTTATTAATTGAGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGt                                                                                                              >  2:599955/1‑141 (MQ=255)                           ctATATTTATTAATTGAGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGtt                                                                                                             <  2:656126/141‑1 (MQ=255)                              tatttattAATTGATCTATGCTTATTATTAAAATTTGATTAAAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGaa                                                                                                          <  2:876082/141‑1 (MQ=255)                                tttattAATTGATATATGCTTATTATTACTATTTGATTACAAATCTTAAATTTGAAAACTGAATGATCATATTAAGTAAATAAGCTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCTAAGTTGCAAg                                                                                                        <  2:559798/141‑1 (MQ=255)                                   attaATTGAGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTa                                                                                                     >  1:851757/1‑141 (MQ=255)                                    ttaATTGAGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAACGCTAc                                                                                                    >  2:877180/1‑141 (MQ=255)                                      aaTTGAGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATATAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTAcca                                                                                                  >  2:271773/1‑139 (MQ=255)                                       aTTGAGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAATGATGAGTTATAGCCCAAAATACGTGTTAAATCAAAGTTGAAAGCTACaaa                                                                                                 <  2:432669/141‑1 (MQ=255)                                        ttGAGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTCATTGCATCATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAAt                                                                                                <  1:890426/141‑1 (MQ=255)                                        ttGAGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAAt                                                                                                <  1:591614/141‑1 (MQ=255)                                        ttGAGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAAGCAAAGTTGAAAGCTACAAAt                                                                                                >  2:226261/1‑141 (MQ=255)                                         tGAGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATa                                                                                               <  1:446655/141‑1 (MQ=255)                                           aGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAAc                                                                                             <  1:790706/141‑1 (MQ=255)                                           aGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAAc                                                                                             <  1:677252/141‑1 (MQ=255)                                                   ttattattaCAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATta                                                                                     >  2:537640/1‑141 (MQ=255)                                                          taCAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGGTACAAATAACGAAAATTATAAACtt                                                                              >  1:620940/1‑141 (MQ=255)                                                          taCAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATACCGAAAATTATAAACtt                                                                              >  1:228183/1‑141 (MQ=255)                                                           aCAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTATATAAAGAAACTTACACAAGCAAATATGAGTTATAGCACAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTg                                                                             >  2:780847/1‑141 (MQ=255)                                                           aCAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTg                                                                             >  2:409227/1‑141 (MQ=255)                                                            cAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGa                                                                            >  2:394353/1‑141 (MQ=255)                                                              aTTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAAt                                                                          <  1:792425/141‑1 (MQ=255)                                                               tttGATTAGAAATTTTAAATTTGATAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATc                                                                         <  2:1092811/141‑1 (MQ=255)                                                               tttGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAAAAACGAAAATTATAAACTTGacat                                                                         >  2:182547/1‑138 (MQ=255)                                                                  gATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGa                                                                      >  1:1103159/1‑141 (MQ=255)                                                                   aTTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGaa                                                                     <  1:394353/141‑1 (MQ=255)                                                                     tACAAATTTTAAATTTGTTAATTGAATGATAATATTCAATAAAGAACCTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAg                                                                   <  1:1156369/141‑1 (MQ=255)                                                                       cAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTa                                                                 >  1:1128094/1‑141 (MQ=255)                                                                       cAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTa                                                                 >  1:382801/1‑141 (MQ=255)                                                                        aaaTTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTaa                                                                >  2:693119/1‑141 (MQ=255)                                                                         aaTTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAAt                                                               <  1:24971/141‑1 (MQ=255)                                                                         aaTTTTAAATTTGTTAATGGAATGATAATAGTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAAt                                                               <  1:244948/141‑1 (MQ=255)                                                                            tttAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTACAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAGGTAATTAc                                                            >  1:496267/1‑141 (MQ=255)                                                                                aaTTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACtata                                                        >  1:273090/1‑141 (MQ=255)                                                                                 aTTTGTTAATTGAATGATAATATTAAATAAATAAACTTACACAAGCAAATATGAGTTATAGTCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACtatat                                                       >  2:1058873/1‑140 (MQ=255)                                                                                        aaTTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAGGGAGGGAAATGATAAACTTGAATCTGAAAGTAATTACTATAATTATGAc                                                >  1:91567/1‑141 (MQ=255)                                                                                         aTTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGCAGATTATAGACTCGAATCTGAATGTAATTGCTATAATTATTACa                                               >  2:935428/1‑141 (MQ=255)                                                                                         aTTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTAAATCTGAAAGTAATTACTATAATTATGACa                                               >  2:595279/1‑141 (MQ=255)                                                                                            gAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATg                                            <  1:917749/141‑1 (MQ=255)                                                                                               tGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTa                                         >  2:206767/1‑141 (MQ=255)                                                                                                   aataTTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTCATTACTATAATTATGACAATGTTAACtt                                     >  1:157920/1‑141 (MQ=255)                                                                                                   aataTTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACtt                                     >  2:153042/1‑141 (MQ=255)                                                                                                   aataTTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACtt                                     >  2:589528/1‑141 (MQ=255)                                                                                                    atatTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACttt                                    <  1:409227/141‑1 (MQ=255)                                                                                                     tatTAAATAAAGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAGGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACtctt                                   >  2:243487/1‑141 (MQ=255)                                                                                                         aaataaaGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAAc                               <  1:409837/141‑1 (MQ=255)                                                                                                          aataaaGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACg                              >  1:1124301/1‑141 (MQ=255)                                                                                                             aaaGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACACTATTAACTTTTAAACGCAc                           >  2:798542/1‑141 (MQ=255)                                                                                                             aaaGAAACTTACACAAGCAAATATGAGTTATAGACCGCAATCGTTGTTAAAGCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTTTGACATTGTTAACTGCTAAACTCat                           >  1:1015965/1‑140 (MQ=255)                                                                                                               aGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCACtt                         <  2:1128094/141‑1 (MQ=255)                                                                                                               aGAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCACtt                         <  1:253055/141‑1 (MQ=255)                                                                                                                gAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAACATTTTAAGCTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCACtta                        >  1:572048/1‑141 (MQ=255)                                                                                                                gAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCACtta                        >  1:266124/1‑141 (MQ=255)                                                                                                                gAAACTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATAAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACAATAATTATGACAATGTTAACTTTTAAACGCACtta                        >  2:556473/1‑141 (MQ=255)                                                                                                                 aaaCTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAGTGTTAACTTTTAAACGCACttat                       >  1:249039/1‑141 (MQ=255)                                                                                                                 aaaCTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCACttat                       <  2:958651/141‑1 (MQ=255)                                                                                                                 aaaCTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCACttat                       <  2:242295/141‑1 (MQ=255)                                                                                                                 aaaCTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCACttat                       >  2:76446/1‑141 (MQ=255)                                                                                                                 aaaCTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACCTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCACttat                       <  2:242026/141‑1 (MQ=255)                                                                                                                  aaCTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCACttatt                      >  1:939169/1‑141 (MQ=255)                                                                                                                   aCTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCACttatta                     >  1:42954/1‑141 (MQ=255)                                                                                                                   aCTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCACttatta                     >  1:335337/1‑141 (MQ=255)                                                                                                                   aCTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCACttatta                     <  1:198260/141‑1 (MQ=255)                                                                                                                   aCTTACACAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCACttatta                     <  1:1045238/141‑1 (MQ=255)                                                                                                                       acacAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCACTTattaatta                 >  1:992404/1‑141 (MQ=255)                                                                                                                       acacAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCACTTattaatta                 >  2:485575/1‑141 (MQ=255)                                                                                                                       acacAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCACTTattaatta                 >  2:1145110/1‑141 (MQ=255)                                                                                                                       acacAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCACTTattaatta                 >  2:139331/1‑141 (MQ=255)                                                                                                                       acacAAGCAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCACTTattaatta                 <  2:851757/141‑1 (MQ=255)                                                                                                                              cAAATATGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCACTTATTAATTAACTACAt          >  1:1207684/1‑141 (MQ=255)                                                                                                                                   atGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCACTTATTAATTAACTACATAATGt     >  1:155797/1‑141 (MQ=255)                                                                                                                                    tgtgTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAGCGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCACTTATTAATTAACTACATAATGtt    <  2:823347/138‑1 (MQ=255)                                                                                                                                    tGAGTTATAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCACTTATTAATTAACTACATAATGtt    >  1:1164446/1‑141 (MQ=255)                                                                                                                                      aGTTATAGCCCAAAATACCTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATATTGGCAATATTAACTTTCTAAGGCACCTATTACTTCACTCCCTAACGTTat  >  1:1155013/1‑140 (MQ=255)                                                                                                                                          |                                                                                                                                         TTACTTGAATTTTGACTAAAATTACTCTATATTTATTAATTGAGCTATGCTTATTATTACAATTTGATTACAAATTTTAAATTTGTTAATTGAATGATAATATTAAATAAAGAAACTTACACAAGCAAATATGAGTTGTAGCCCAAAATACTTGTTAAATCAAAGTTGAAAGCTACAAATAACGAAAATTATAAACTTGAATCTGAAAGTAATTACTATAATTATGACAATGTTAACTTTTAAACGCACTTATTAATTAACTACATAATGTTAA  >  USA300TCH1516_ALE/790641‑790914

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑