Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 962,324 G→A 7.1% intergenic (+28/‑132) spsB_2 → / → addB Signal peptidase IB/ATP‑dependent helicase/deoxyribonuclease subunit B

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE962,3240GA 7.1% 373.7 / 12.7 114intergenic (+28/‑132)spsB_2/addBSignal peptidase IB/ATP‑dependent helicase/deoxyribonuclease subunit B
Reads supporting (aligned to +/- strand):  ref base G (45/59);  new base A (4/4);  total (50/64)
Fisher's exact test for biased strand distribution p-value = 7.28e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.88e-01

Only 100 of 115 total aligned reads displayed.

TTAGGTTCTGGCCATTTAGTGAATTTAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGAAATGAACTTATAATAAATCAATCACAATC  >  USA300TCH1516_ALE/962235‑962413
                                                                                         |                                                                                         
ttAGGTTCTGGCCATTTAGTGAATTTAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCgg                                                                                          <  1:2280481/91‑1 (MQ=255)
  aGGTTCTGGCCATTTAGTGAATTTAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGtt                                                                                        <  1:941416/91‑1 (MQ=255)
  aGGTTCTGGCCATTTAGTGAATTTAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGtt                                                                                        <  1:1116561/91‑1 (MQ=255)
    gTTCTGGCCATTTAGTGAATTTAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGtttt                                                                                      <  1:337319/91‑1 (MQ=255)
       cTGGCCATTTAGTGAATTTAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAAt                                                                                   >  1:200037/1‑91 (MQ=255)
       cTGGCCATTTAGTGAATTTAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAAt                                                                                   <  1:1056523/91‑1 (MQ=255)
       cTGGCCATTTAGTGAATTTAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAAt                                                                                   <  1:2591020/91‑1 (MQ=255)
       cTGGCCATTTAGTGAATTTAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAAt                                                                                   <  1:3806064/91‑1 (MQ=255)
       cTGGCCATTTAGTGAATTTAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAAt                                                                                   <  1:1443608/91‑1 (MQ=255)
          gCCATTTAGTGAATTTAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACt                                                                                >  1:3876438/1‑91 (MQ=255)
          gCCATTTAGTGAATTTAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACt                                                                                >  1:3876420/1‑91 (MQ=255)
          gCCATTTAGTGAATTTAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACt                                                                                <  1:2637128/91‑1 (MQ=255)
           ccATTTAGTGAATTTAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTg                                                                               >  1:101780/1‑91 (MQ=255)
           ccATTTAGTGAATTTAAACATAATGTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATAAAACATCGTTTATCAGTATTAAAAccg                                                                               <  1:1582668/91‑3 (MQ=25)
              tttAGTGAATTTAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATa                                                                            >  1:2774868/1‑91 (MQ=255)
              tttAGTGAATTTAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATa                                                                            >  1:2774367/1‑91 (MQ=255)
              tttAGTGAATTTAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATa                                                                            >  1:900638/1‑91 (MQ=255)
                tAGTGAATTTAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATaaa                                                                          <  1:2662405/91‑1 (MQ=255)
                 aGTGAATTTAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAAc                                                                         >  1:510585/1‑91 (MQ=255)
                  gTGAATTTAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACg                                                                        <  1:356379/91‑1 (MQ=255)
                  gTGAATTTAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACg                                                                        <  1:2241377/91‑1 (MQ=255)
                  gTGAATTTAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACg                                                                        <  1:1016794/91‑1 (MQ=255)
                   tGAATTTAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGa                                                                       <  1:1833661/91‑1 (MQ=255)
                   tGAATTTAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGa                                                                       <  1:1849993/91‑1 (MQ=255)
                    gAATTTAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTATCAGTATTAAAACCGACAAACGAt                                                                      <  1:1811360/91‑1 (MQ=21)
                       tttAAACATCATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGtt                                                                   <  1:3904351/91‑1 (MQ=255)
                       tttAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGtt                                                                   <  1:708920/91‑1 (MQ=255)
                       tttAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGtt                                                                   <  1:709640/91‑1 (MQ=255)
                       tttAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGtt                                                                   <  1:899516/91‑1 (MQ=255)
                        ttAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGttt                                                                  <  1:1232550/91‑1 (MQ=255)
                         tAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGtttt                                                                 <  1:2884851/91‑1 (MQ=255)
                         tAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGtttt                                                                 <  1:2991357/91‑1 (MQ=255)
                            aCATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATCTTTTAtt                                                              >  1:2070280/1‑91 (MQ=255)
                            aCATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATATTTTAtt                                                              >  1:2070170/1‑91 (MQ=255)
                             cATAATTTCAATCCTGAAAATACTATAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTAttt                                                             <  1:3875613/91‑1 (MQ=255)
                             cATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACCACATCGTTTGTCGGTTTTAATACTGATAAGCGATGTTTTAttt                                                             >  1:4153646/1‑91 (MQ=255)
                             cATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACCACATCGTTTGTCGGTTTTAATACTGATAAGCGATGTTTTAttt                                                             >  1:4153589/1‑91 (MQ=255)
                                aaTTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGt                                                          >  1:3661975/1‑91 (MQ=255)
                                 aTTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATAAAACATCGTTTATCAGTATTAAAACCGACAAACGATGTTGTAtttgttt                                                         <  1:2996262/91‑5 (MQ=2)
                                 aTTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATAAAACATCGTTTATCAGTATTAAAACCGACAAACGATGTTGTAtttgttt                                                         <  1:2867024/91‑5 (MQ=2)
                                   ttCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAg                                                       <  1:4059980/91‑1 (MQ=255)
                                     cAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTa                                                     >  1:700272/1‑91 (MQ=255)
                                     cAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTa                                                     >  1:701139/1‑91 (MQ=255)
                                       aTCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTAcc                                                   <  1:1200724/91‑1 (MQ=255)
                                       aTCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTAcc                                                   <  1:578937/91‑1 (MQ=255)
                                       aTCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTAcc                                                   <  1:578854/91‑1 (MQ=255)
                                        tCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACca                                                  >  1:425641/1‑91 (MQ=255)
                                        tCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACca                                                  >  1:426048/1‑91 (MQ=255)
                                            gAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAAt                                              >  1:87159/1‑91 (MQ=255)
                                            gAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAAt                                              >  1:1850896/1‑91 (MQ=255)
                                            gAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAAt                                              <  1:3804002/91‑1 (MQ=255)
                                            gAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAAt                                              <  1:510869/91‑1 (MQ=255)
                                              aaaTACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATaa                                            <  1:1812934/91‑1 (MQ=255)
                                                aTACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATaaaa                                          >  1:1271017/1‑91 (MQ=255)
                                                aTACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATaaaa                                          >  1:1267726/1‑91 (MQ=255)
                                                 tACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAg                                         <  1:2310791/91‑1 (MQ=255)
                                                   cTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCt                                       <  1:3627356/91‑1 (MQ=255)
                                                    tAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTa                                      <  1:466858/91‑1 (MQ=255)
                                                    tAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTa                                      >  1:1956067/1‑91 (MQ=255)
                                                    tAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTa                                      <  1:3818663/91‑1 (MQ=255)
                                                    tAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTa                                      >  1:1600577/1‑91 (MQ=255)
                                                    tAAAAATTAATATGAAACAAATACAACATCGTTTGTCCGTTTTAATACTGACAAACGATGTTTTAGTTTGTTAGTACCACAATAACAGCTa                                      >  1:3861976/1‑91 (MQ=255)
                                                       aaaTTAATATGAAACAAATACAACATCGTTTGTCTGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGt                                   <  1:756104/91‑1 (MQ=255)
                                                       aaaTTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGt                                   <  1:756073/91‑1 (MQ=255)
                                                        aaTTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGtt                                  <  1:3358280/91‑1 (MQ=255)
                                                        aaTTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGtt                                  <  1:1660082/91‑1 (MQ=255)
                                                         aTTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTc                                 <  1:1142369/91‑1 (MQ=255)
                                                         aTTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTc                                 <  1:1140391/91‑1 (MQ=255)
                                                            aaTATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGaa                              <  1:1299908/91‑1 (MQ=255)
                                                            aaTATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGaa                              >  1:1441699/1‑91 (MQ=255)
                                                            aaTATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGaa                              >  1:1441625/1‑91 (MQ=255)
                                                             atatGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTcattt                             <  1:4055642/91‑5 (MQ=255)
                                                             atatGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGaaa                             <  1:2507486/91‑1 (MQ=255)
                                                             atatGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGaaa                             <  1:1027944/91‑1 (MQ=255)
                                                             atatGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGaaa                             >  1:2095850/1‑91 (MQ=255)
                                                              tatGAAACACATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGAAAt                            <  1:3964368/91‑1 (MQ=255)
                                                              tatGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGAAAt                            >  1:524220/1‑91 (MQ=255)
                                                               atGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGAAATg                           >  1:943777/1‑91 (MQ=255)
                                                               atGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGAAATg                           >  1:3806860/1‑91 (MQ=255)
                                                               atGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGAAATg                           >  1:3807276/1‑91 (MQ=255)
                                                               atGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGAAATg                           <  1:3571518/91‑1 (MQ=255)
                                                               atGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGAAATg                           >  1:3244578/1‑91 (MQ=255)
                                                                tGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGAAATGa                          >  1:1729415/1‑91 (MQ=255)
                                                                  aaaCAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGAAATGAAc                        <  1:34937/91‑1 (MQ=255)
                                                                    aCAAATGCAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGAAATGAACtt                      >  1:1013211/1‑91 (MQ=255)
                                                                     cAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGAAATGAACTta                     <  1:753074/91‑1 (MQ=255)
                                                                         tACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGAAATGAACTTataat                 >  1:580379/1‑91 (MQ=255)
                                                                          acaacaTCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGAAATGAACTTataata                <  1:1857396/91‑1 (MQ=255)
                                                                          acaacaTCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGAAATGAACTTataata                <  1:829996/91‑1 (MQ=255)
                                                                           caacaTCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGAAATGAACTTAtaataa               >  1:3189508/1‑91 (MQ=255)
                                                                           caacaTCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGAAATGAACTTAtaataa               >  1:3428707/1‑91 (MQ=255)
                                                                           aaacaTCGTTTATCAGTATTAAAACCGACAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGAAATGAACTTAtaataa               >  1:3141644/2‑91 (MQ=18)
                                                                           aaacaTCGTTTATCAGTATTAAAACCGACAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGAAATGAACTTAtaataa               >  1:3140967/2‑91 (MQ=18)
                                                                            aacaTCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGAAATGAACTTATAATaaa              <  1:2730822/91‑1 (MQ=255)
                                                                            aacaTCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGAAATGAACTTATAATaaa              >  1:1853407/1‑91 (MQ=255)
                                                                                 cGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGAAATGAACTTATAATAaatcaat         <  1:2117156/91‑1 (MQ=255)
                                                                                    ttGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGAAATGAACTTATAATAAATcaatcac      <  1:113692/91‑1 (MQ=255)
                                                                                    ttGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGAAATGAACTTATAATAAATcaatcac      <  1:3689991/91‑1 (MQ=255)
                                                                                     tGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGAAATGAACTTATAATAAATcaatcaca     >  1:2580117/1‑91 (MQ=255)
                                                                                        cGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGAAATGAACTTATAATAAATcaatcacaatc  >  1:1034843/1‑91 (MQ=255)
                                                                                         |                                                                                         
TTAGGTTCTGGCCATTTAGTGAATTTAAACATAATTTCAATCCTGAAAATACTAAAAATTAATATGAAACAAATACAACATCGTTTGTCGGTTTTAATACTGATAAACGATGTTTTATTTTGTTAGTACCACAATAAAAGCTAAGTTCGAAATGAACTTATAATAAATCAATCACAATC  >  USA300TCH1516_ALE/962235‑962413

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