Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 2,744,213 T→A 5.8% intergenic (+150/+43) fda → / ← mqo2 Fructose‑bisphosphate aldolase class 1/putative malate:quinone oxidoreductase 2

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE2,744,2130TA 5.8% 804.9 / 26.8 236intergenic (+150/+43)fda/mqo2Fructose‑bisphosphate aldolase class 1/putative malate:quinone oxidoreductase 2
Reads supporting (aligned to +/- strand):  ref base T (118/103);  new base A (8/6);  total (127/109)
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

Only 100 of 246 total aligned reads displayed.

TAAACTATTTTTTGATATAAACTACTAAAAAGGACTCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTCGTCTTCAATTAATGATTCACCGTATGATG  >  USA300TCH1516_ALE/2744073‑2744353
                                                                                                                                               |                                                                                                                                             
tAAACTATTTTTTGATATAAACTACTAAAAAGGACTCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCttt                                                                                                                                               <  2:616176/141‑1 (MQ=255)
tAAACTATTTTTTGATATAAACTACTAAAAAGGACTCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCttt                                                                                                                                               <  1:125706/141‑1 (MQ=255)
tAAACTATTTTTTGATATAAACTACTAAAAAGGACTCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCttt                                                                                                                                               >  3:422561/1‑141 (MQ=255)
       ttttttGATATAAACTACTAAAAAGGACTCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGAttt                                                                                                                                        >  1:545326/1‑141 (MQ=255)
        tttttGATATAAACTACTAAAAAGGACTCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTtc                                                                                                                                      <  2:1311519/141‑1 (MQ=255)
         ttttGATATAAACTACTAAAAAGGACTCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTtct                                                                                                                                     <  1:1177706/141‑1 (MQ=255)
            tGATATAAACTACTAAAAAGGACTCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAg                                                                                                                                  <  1:76589/141‑1 (MQ=255)
              atatAAACTACTAAAAAGGACTCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTTTTTTTTTTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGtt                                                                                                                                >  2:1152038/1‑141 (MQ=255)
              atatAAACTACTAAAAAGGACTCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGtt                                                                                                                                <  3:564919/141‑1 (MQ=255)
               tataAACTACTAAAAAGGACTCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTg                                                                                                                               <  2:519694/141‑1 (MQ=255)
                 taAACTACTAAAAAGGACTCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTc                                                                                                                             <  2:748733/141‑1 (MQ=255)
                  taaCTACTAAAAAGGACTCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAACTGAGAAATCTTAAAGATTTTTCAGCTGTcc                                                                                                                            <  1:1648845/140‑1 (MQ=38)
                   aaCTACTAAAAAGGACTCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCg                                                                                                                           >  2:1044268/1‑141 (MQ=255)
                    actactAAAAAGGACTCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGa                                                                                                                          >  1:69282/1‑141 (MQ=255)
                      tactaAAAAGGACTCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGAtt                                                                                                                        <  2:835809/141‑1 (MQ=255)
                       actaAAAAGGACTCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGAttt                                                                                                                       <  2:1216180/141‑1 (MQ=255)
                         taAAAAGGACTCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTCAACTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTa                                                                                                                     <  1:158243/141‑1 (MQ=255)
                         taAAAAGGACTCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTaa                                                                                                                                             <  2:332295/118‑1 (MQ=255)
                         taAAAAGGACTCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTa                                                                                                                     <  1:191199/141‑1 (MQ=255)
                           aaaaGGACTCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTaaa                                                                                                                   <  1:973434/141‑1 (MQ=255)
                                gACTCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAg                                                                                                              <  2:1618620/141‑1 (MQ=255)
                                 aCTCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTTTTTTTTTTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGc                                                                                                             >  2:584765/1‑141 (MQ=255)
                                 aCTCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGc                                                                                                             <  1:1015641/141‑1 (MQ=255)
                                  cTCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCt                                                                                                            >  1:1505285/1‑141 (MQ=255)
                                  cTCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCt                                                                                                            >  1:750640/1‑141 (MQ=255)
                                   tCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTa                                                                                                           >  3:215744/1‑141 (MQ=255)
                                    cATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTATTTTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTAt                                                                                                          >  2:1035468/1‑141 (MQ=255)
                                    cATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGATAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTAt                                                                                                          <  3:543998/141‑1 (MQ=255)
                                    cATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTTCGATTTTAAATATAGCTAt                                                                                                          <  1:988456/141‑1 (MQ=255)
                                    cATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTAt                                                                                                          >  1:723711/1‑141 (MQ=255)
                                    cATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTAt                                                                                                          <  4:614161/141‑1 (MQ=255)
                                    cATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTAt                                                                                                          >  4:702903/1‑141 (MQ=255)
                                    aatatatGTGCTTTAAATGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGAAAAAGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTAt                                                                                                          <  2:813372/140‑1 (MQ=255)
                                              cTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAg                                                                                                >  3:611025/1‑141 (MQ=255)
                                                 tAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGttt                                                                                             <  2:1118589/141‑1 (MQ=255)
                                                  aaaGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATATTAAAGCTTTCCTCATTATCTGCATTTTATTTTTTCTATTAGAAATTAGtttt                                                                                            >  1:1562504/1‑141 (MQ=255)
                                                   aaGGCATTGTGTATGAGTCTTTTTTTTTTTTTGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTc                                                                                           >  4:186298/1‑141 (MQ=255)
                                                    aGGCATTGTGTATGAGTCTTTTTTGATTTAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCg                                                                                          >  2:1483821/1‑141 (MQ=255)
                                                     ggCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCgt                                                                                         >  1:1041783/1‑141 (MQ=255)
                                                        aTTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCgtagt                                                                                      >  1:1190497/1‑141 (MQ=255)
                                                        aTTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGGTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCgtagt                                                                                      >  1:1306073/1‑141 (MQ=255)
                                                            tgtATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAAcc                                                                                  <  1:1080169/141‑1 (MQ=255)
                                                            tgtATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAAcc                                                                                  <  2:546931/141‑1 (MQ=255)
                                                            tgtATGAGTCTTATTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAAcc                                                                                  <  4:673121/141‑1 (MQ=255)
                                                               aTGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTaa                                                                               >  1:996016/1‑141 (MQ=255)
                                                                   gTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCt                                                                           >  2:192216/1‑141 (MQ=255)
                                                                    tCTTTTTTGATTAAAGTTGATTTTGCCGCATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTa                                                                          <  3:629281/141‑1 (MQ=255)
                                                                      ttttttGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAg                                                                        <  3:118814/141‑1 (MQ=255)
                                                                      ttttttGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAg                                                                        <  2:146319/141‑1 (MQ=255)
                                                                         tttGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCt                                                                     <  2:165568/141‑1 (MQ=255)
                                                                          ttGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCtt                                                                    >  2:1543274/1‑141 (MQ=255)
                                                                            gATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCtttt                                                                  <  1:1109747/141‑1 (MQ=255)
                                                                             aTTAATGTTGATTTTGCCGGATGTAGTAGTTTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTTGTAGTAACCTAATTCTAAGTCTTTTg                                                                 >  4:174947/1‑141 (MQ=255)
                                                                              ttAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTgt                                                                >  2:1359450/1‑140 (MQ=255)
                                                                               tAAAGTTGATTTTGTCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGaa                                                               >  4:327616/1‑141 (MQ=255)
                                                                               tAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTATGTCTTTTGaa                                                               >  3:489330/1‑141 (MQ=255)
                                                                               tAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGaa                                                               >  3:96739/1‑141 (MQ=255)
                                                                                aaaGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAg                                                              >  1:1432574/1‑141 (MQ=255)
                                                                                aaaGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAg                                                              <  4:289061/141‑1 (MQ=255)
                                                                                  aGTTGATTTTGCCGTATGTATTAGATTACGTAAAAAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGaa                                                               <  3:551239/141‑1 (MQ=255)
                                                                                  aGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAgtt                                                            >  4:369542/1‑141 (MQ=255)
                                                                                        ttttGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTa                                                      <  4:544732/141‑1 (MQ=255)
                                                                                           tGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACgg                                                   <  2:1378565/141‑1 (MQ=255)
                                                                                            gCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGa                                                  <  1:385398/141‑1 (MQ=255)
                                                                                            gCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGa                                                  >  3:442623/1‑141 (MQ=255)
                                                                                             ccGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGAt                                                 >  3:178963/1‑141 (MQ=255)
                                                                                                    tatTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTtctc                                          <  1:324630/141‑1 (MQ=255)
                                                                                                         gATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTaa                                     >  1:669750/1‑141 (MQ=255)
                                                                                                            tACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAAttt                                  >  2:69516/1‑141 (MQ=255)
                                                                                                             aCGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAAtttt                                 >  2:1442637/1‑141 (MQ=255)
                                                                                                               gT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTc                               >  1:934678/1‑141 (MQ=255)
                                                                                                               gT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTc                               <  3:243448/141‑1 (MQ=255)
                                                                                                               gT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTc                               >  2:1506258/1‑141 (MQ=255)
                                                                                                               gT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTc                               >  2:222272/1‑141 (MQ=255)
                                                                                                                     aaaaaaTCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTCGTTTTCGTAGTAACCTAATTTTAAGTATTTTGGAGTTTGTTTATGGATTTTTTTCATTAATTTTTTGTc                            >  1:322834/1‑141 (MQ=255)
                                                                                                                      aaaaaTCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTCGTCt                           <  1:341153/141‑1 (MQ=255)
                                                                                                                      aaaaaTCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTCGTCt                           <  1:1133357/141‑1 (MQ=255)
                                                                                                                      aaaaaTCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTCGTCt                           <  1:572201/141‑1 (MQ=255)
                                                                                                                        aaaTCGGACAACTGAGAAATCTTAAAGATTTTTCAGCTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTCGTCTTc                         >  1:418798/1‑141 (MQ=37)
                                                                                                                         aaTCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTCGTCTTCa                        <  3:375867/141‑1 (MQ=255)
                                                                                                                           tCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTCGTCTTCAAt                      >  2:1250812/1‑141 (MQ=255)
                                                                                                                           tCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTCGTCTTCAAt                      >  1:1266554/1‑141 (MQ=255)
                                                                                                                             ggACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTCGTCTTCAATTa                    <  3:570611/141‑1 (MQ=255)
                                                                                                                             ggACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTCGTCTTCAATTa                    >  1:435602/1‑141 (MQ=255)
                                                                                                                                 aacTGAGAAATCTTAAAGATTTTTCAGCTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTCGTCTTCAATTAATGa                >  1:1381579/3‑141 (MQ=38)
                                                                                                                                  gCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTCGTCTTGAATTCATGAt               >  2:1396080/1‑141 (MQ=255)
                                                                                                                                    tGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTCGTCTTCAATTAATGATTc             <  4:407515/141‑1 (MQ=255)
                                                                                                                                     gAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTCGTCTTCAATTAATGATTCa            >  4:376828/1‑141 (MQ=255)
                                                                                                                                     gAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTCGTCTTCAATTAATGATTCa            <  1:863805/141‑1 (MQ=255)
                                                                                                                                     gAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTCGTCTTCAATTAATGATTCa            <  3:239144/141‑1 (MQ=255)
                                                                                                                                        aaaTCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTCGTCTTCAATTAATGATTCACCg         <  4:704846/141‑1 (MQ=255)
                                                                                                                                        aaaTCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTCGTCTTCAATTAATGATTCACCg         <  1:605033/141‑1 (MQ=255)
                                                                                                                                        aaaTCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTCGTCTTCAATTAATGATTCACCg         >  1:145400/1‑141 (MQ=255)
                                                                                                                                         aaTCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTCGTCTTCAATTAATGATTCACCGt        >  2:862718/1‑141 (MQ=255)
                                                                                                                                            cTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTCGTCTTCAATTAATGATTCACCGTatg     >  2:260102/1‑141 (MQ=255)
                                                                                                                                            cTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTCGTCTTCAATTAATGATTCACCGTatg     >  4:600460/1‑141 (MQ=255)
                                                                                                                                            cTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTCGTCTTCAATTAATGATTCACCGTatg     >  1:632356/1‑141 (MQ=255)
                                                                                                                                            cTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTCGTCTTCAATTAATGATTCACCGTatg     >  2:98744/1‑141 (MQ=255)
                                                                                                                                              ttAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTCGTCTTCAATTAATGATTCACCGTatgat   >  4:651385/1‑141 (MQ=255)
                                                                                                                                               tAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTCGTCTTCAATTAATGATTCACCGTatgatg  >  4:505469/1‑141 (MQ=255)
                                                                                                                                               |                                                                                                                                             
TAAACTATTTTTTGATATAAACTACTAAAAAGGACTCATACATGTGCTTTAAAGGCATTGTGTATGAGTCTTTTTTGATTAAAGTTGATTTTGCCGTATGTATTAGATTACGT‑‑‑AAAAAAATCGGACAGCTGAAAAATCTTTAAGATTTCTCAGTTGTCCGATTTTAAATATAGCTATTAGAATTTAGTTTTCGTAGTAACCTAATTCTAAGTCTTTTGAAGTTTGTTTACGGATTTTTCTCATTAATTTTTCGTCTTCAATTAATGATTCACCGTATGATG  >  USA300TCH1516_ALE/2744073‑2744353

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: