Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A3 F121 I1 R1 14 130.3 2998436 96.1% 2881496 139.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA USA300TCH1516_ALE 1,000,948 C→T T11I (ACA→ATA)  spxA → Regulatory protein Spx

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE1,000,9480CT75.0% 157.1 / 57.7 88T11I (ACA→ATA) spxARegulatory protein Spx
Reads supporting (aligned to +/- strand):  ref base C (12/10);  new base T (29/37);  total (41/47)
Fisher's exact test for biased strand distribution p-value = 4.63e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.70e-01

TTATAATAAATAGTAACGATTAAGAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATGACTGAAGACGGTACTGATGAAATCA  >  USA300TCH1516_ALE/1000808‑1001085
                                                                                                                                            |                                                                                                                                         
ttATAATAAATAGTAACGATTAAGAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGcac                                                                                                                                           >  4:353647/1‑141 (MQ=255)
    aataaataGTAACGATTAAGAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCt                                                                                                                                       <  2:659069/141‑1 (MQ=255)
         ataGTAACGATTAAGAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCg                                                                                                                                  >  1:196775/1‑141 (MQ=255)
             tAACGATTAAGAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTaaa                                                                                                                              >  2:909913/1‑141 (MQ=255)
              aaCGATTAAGAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAg                                                                                                                             <  1:203468/141‑1 (MQ=255)
              aaCGATTAAGAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAg                                                                                                                             >  1:804880/1‑141 (MQ=255)
               aCGATTAAGAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGc                                                                                                                            >  3:75242/1‑141 (MQ=255)
               aCGATTAAGAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGc                                                                                                                            <  1:585512/141‑1 (MQ=255)
               aCGATTAAGAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGc                                                                                                                            >  1:136849/1‑141 (MQ=255)
               aCGATTAAGAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGc                                                                                                                            >  1:758859/1‑141 (MQ=255)
                cGATTAAGAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCg                                                                                                                           <  3:366298/141‑1 (MQ=255)
                   ttAAGAATTTTAGAAAAAAATGTTTTTTTTTTTTTTTTAACTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGaaa                                                                                                                        >  2:692527/1‑141 (MQ=255)
                     aaGAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGc                                                                                                                      >  1:96977/1‑141 (MQ=255)
                      aGAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCa                                                                                                                     <  1:251560/141‑1 (MQ=255)
                        aaTTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAATATGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATg                                                                                                                   <  2:1027032/141‑1 (MQ=255)
                          ttttAGAAAAAAATGTTTTTTTTTTTTTTTTTACTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGt                                                                                                                 >  2:516546/1‑141 (MQ=255)
                          ttttAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGt                                                                                                                 <  4:118971/141‑1 (MQ=255)
                          ttttAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGt                                                                                                                 <  2:112839/141‑1 (MQ=255)
                          ttttAGAAAAAAATGTTGTTTCTTGATCTATACTGAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGACATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTCGCCGTAAAGCGAAAGCATGGt                                                                                                                 <  2:285185/141‑1 (MQ=255)
                          tgttAGAAAAAAATGAGATTTCTTGATCGATAACTAAATTTTAAGCAAAGAAAATTATTCATTAAAATAGGAGAGTGAGATGTATGGTAACATTAAGTACTTCACAAAGATGAATATCTAGCCGTAAAGCGAAAGCATGGt                                                                                                                 >  2:678947/3‑141 (MQ=255)
                           tttAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGtt                                                                                                                >  3:69978/1‑141 (MQ=255)
                           tttAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGtt                                                                                                                <  4:14260/141‑1 (MQ=255)
                             tAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTAc                                                                                                              <  1:135054/141‑1 (MQ=255)
                               gAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACaa                                                                                                            >  3:61308/1‑141 (MQ=255)
                                         ttttttCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACa                                                                                                  >  3:448054/1‑141 (MQ=255)
                                           ttttCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACAtt                                                                                                <  1:759868/141‑1 (MQ=255)
                                             ttCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTcc                                                                                              <  2:737428/141‑1 (MQ=255)
                                              tCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCg                                                                                             <  3:118704/141‑1 (MQ=255)
                                                          aCTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGt                                                                                 >  1:1019526/1‑141 (MQ=255)
                                                          aCTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGt                                                                                 <  4:392201/141‑1 (MQ=255)
                                                           cTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTa                                                                                >  4:349367/1‑141 (MQ=255)
                                                           cTAAATTTTAAGCAATGAATTTTATTCATTCAAAGAGGACAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTGGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTa                                                                                <  1:645398/141‑1 (MQ=255)
                                                            tAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTaa                                                                               <  4:208504/141‑1 (MQ=255)
                                                               aTTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAatat                                                                            >  2:253041/1‑141 (MQ=255)
                                                                ttttAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATAtt                                                                           >  2:796524/1‑141 (MQ=255)
                                                                    aaGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATAtttttt                                                                       <  1:97780/141‑1 (MQ=255)
                                                                    aaGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATAtttttt                                                                       <  2:804880/141‑1 (MQ=255)
                                                                     aGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTc                                                                      >  1:700985/1‑141 (MQ=255)
                                                                     aGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCAGTATACGGAGCGTAATCTTTTTTc                                                                      >  1:933422/1‑141 (MQ=255)
                                                                       cAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTg                                                                    >  1:507107/1‑141 (MQ=255)
                                                                       cAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTg                                                                    <  1:242647/141‑1 (MQ=255)
                                                                         aTGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGaa                                                                  <  2:1008935/141‑1 (MQ=255)
                                                                           gAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACa                                                                <  3:58469/141‑1 (MQ=255)
                                                                             aTTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACAtt                                                              <  2:18429/141‑1 (MQ=255)
                                                                             aTTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACAtt                                                              >  2:245225/1‑141 (MQ=255)
                                                                               tttATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTa                                                            <  1:179309/141‑1 (MQ=255)
                                                                               tttATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTa                                                            <  2:726971/141‑1 (MQ=255)
                                                                                  attcattcAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACa                                                         >  4:357770/1‑141 (MQ=255)
                                                                                  attcattcAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACa                                                         <  2:507107/141‑1 (MQ=255)
                                                                                  attcattcAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACa                                                         <  2:618454/141‑1 (MQ=255)
                                                                                   ttcattcaAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACaa                                                        >  2:513022/1‑141 (MQ=255)
                                                                                   ttcattcaAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACaa                                                        >  2:528424/1‑141 (MQ=255)
                                                                                     cattcaAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAAtt                                                      <  4:269308/141‑1 (MQ=255)
                                                                                      attcaAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTATGAACATTTAACAATtg                                                     <  1:513119/141‑1 (MQ=255)
                                                                                             tAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAAt                                              <  2:592976/141‑1 (MQ=255)
                                                                                                gagaGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTaa                                           >  1:545029/1‑141 (MQ=255)
                                                                                                 agagTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAg                                          <  1:364980/141‑1 (MQ=255)
                                                                                                 agagTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAg                                          <  3:209350/141‑1 (MQ=255)
                                                                                                  gagTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCTAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGCAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGc                                         <  2:898428/141‑1 (MQ=255)
                                                                                                  gagTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATtgat                                                   <  2:518330/131‑1 (MQ=255)
                                                                                                  gagTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATtgat                                                   >  1:518330/1‑131 (MQ=255)
                                                                                                  gagTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGc                                         <  1:219188/141‑1 (MQ=255)
                                                                                                   agTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCa                                        >  3:393863/1‑141 (MQ=255)
                                                                                                     tGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCaaa                                      >  2:391203/1‑141 (MQ=255)
                                                                                                      gagaTGTAGGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCaaaa                                     <  2:349231/141‑2 (MQ=255)
                                                                                                        gaTGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAatat                                   >  4:99907/1‑141 (MQ=255)
                                                                                                        gaTGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAatat                                   <  1:516546/141‑1 (MQ=255)
                                                                                                         aTGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATAtt                                  >  3:202385/1‑141 (MQ=255)
                                                                                                         aTGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATAtt                                  <  2:697381/141‑1 (MQ=255)
                                                                                                          tGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTa                                 >  2:398528/1‑141 (MQ=255)
                                                                                                           gTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTaa                                >  4:178100/1‑141 (MQ=255)
                                                                                                               ggTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAAt                            >  4:297800/1‑141 (MQ=255)
                                                                                                                gTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATg                           >  2:230721/1‑141 (MQ=255)
                                                                                                                gTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATg                           >  1:977684/1‑141 (MQ=255)
                                                                                                                    cATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATGACTg                       >  2:837350/1‑141 (MQ=255)
                                                                                                                     attattTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATGACTGa                      <  3:29724/141‑1 (MQ=255)
                                                                                                                        attTACTTCACCAAGTTGCACAGCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATGACTGAAGa                   <  2:497075/141‑1 (MQ=255)
                                                                                                                         tttACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATGACTGAAGAc                  >  4:198841/1‑141 (MQ=255)
                                                                                                                         tttACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATGACTGAAGAc                  <  4:263554/141‑1 (MQ=255)
                                                                                                                         tttACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATGACTGAAGAc                  >  3:419928/1‑141 (MQ=255)
                                                                                                                              ttCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATGACTGAAGACGGTAc             >  2:249748/1‑141 (MQ=255)
                                                                                                                              ttCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATGACTGAAGACGGTAc             >  2:578610/1‑141 (MQ=255)
                                                                                                                               tCACCAAGTTGCATATCTTGCCGTACAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGCGCGTCCTATTTTTTCTGCAAATTTAACAATTGATGAACTTAAGCAAATTGTAAAAATGATTGAAGACGGTACt            <  1:678947/141‑1 (MQ=255)
                                                                                                                               tCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATGACTGAAGACGGTACt            <  4:303657/141‑1 (MQ=255)
                                                                                                                                 aCCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATGACTGAAGACGGTACtga          <  3:54991/141‑1 (MQ=255)
                                                                                                                                 aCCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATGACTGAAGACGGTACtga          <  1:263231/141‑1 (MQ=255)
                                                                                                                                    aaGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATGACTGAAGACGGTACtgatga       <  1:289910/141‑1 (MQ=255)
                                                                                                                                       ttGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATGACTGAAGACGGTACTGATGAAAt    >  3:109760/1‑141 (MQ=255)
                                                                                                                                         gCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATGACTGAAGACGGTACTGATGAAATCa  <  2:390350/141‑1 (MQ=255)
                                                                                                                                            |                                                                                                                                         
TTATAATAAATAGTAACGATTAAGAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAATAGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATGACTGAAGACGGTACTGATGAAATCA  >  USA300TCH1516_ALE/1000808‑1001085

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: ‑

GATK/CNVnator alignment

N/A