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 F67 I0 R1 44 83.9 1894234 96.6% 1829830 141.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 2,532,298 A→T 100% T15T (ACA→ACT)  femA_3 → Aminoacyltransferase FemA

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE2,532,2980AT100.0% 293.1 / NA 90T15T (ACA→ACT) femA_3Aminoacyltransferase FemA
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base T (36/54);  total (36/54)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TGTATTTGTAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACAACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGATGCTTATTGACAGAAGCA  >  USA300TCH1516_ALE/2532163‑2532433
                                                                                                                                       |                                                                                                                                       
tgtATTTGTAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAGTTGAAAAATTATAGTTCAATTCAGAGAGGGTTGGGTTAAAATGAACTTTGTAACGTTGAGTTTGGATGAGTTTAATGCGTTTACTGCaaa                                                                                                                                    >  1:903366/1‑141 (MQ=255)
tgtATTTGTAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACaaa                                                                                                                                    >  1:862386/1‑141 (MQ=255)
tgtATTTGTAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACaaa                                                                                                                                    >  1:862716/1‑141 (MQ=255)
 gtATTTGTAATCAGTTTTTGATAAAATAAAAAAATAGCCTTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGACAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAg                                                                                                                                   <  1:610796/141‑1 (MQ=255)
 gtATTTGTAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAg                                                                                                                                   <  1:208950/141‑1 (MQ=255)
 gtATTTGTAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAg                                                                                                                                   <  1:36732/141‑1 (MQ=255)
 gtATTTGTAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGACGAGTTCAATGCGTTTACTACAAAg                                                                                                                                   <  1:605151/141‑1 (MQ=255)
  tATTTGTAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGc                                                                                                                                  <  2:847479/141‑1 (MQ=255)
   tgttGCAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATTAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCa                                                                                                                                 <  2:599040/139‑1 (MQ=255)
     ttGTAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCAtt                                                                                                                               >  2:213968/1‑141 (MQ=255)
        tAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCAttttt                                                                                                                            <  1:413419/141‑1 (MQ=255)
         aaTCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTc                                                                                                                           >  1:111301/1‑141 (MQ=255)
         aaTCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTAAAAATCATTTTTc                                                                                                                           >  1:353171/1‑141 (MQ=255)
          aTCAGTTTTTGATAAAATAAAAAAATAGCATTGTTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGAT‑GGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTcaa                                                                                                                         >  1:300847/1‑140 (MQ=255)
                ttttGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTac                                                                                                                    >  1:256540/1‑141 (MQ=255)
                 tttGATAAAATAAAACAAAAGCCTTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTaca                                                                                                                   >  1:936879/1‑141 (MQ=255)
                  ttcctaaaaaaaaaAAATAGCAATATTAATCAAGTCAAAAATTATAGTTCACTTCAGAGAGGGATGGGATAAAATGCACGTTCAAATTTCGACTTTGGATGAGTTCAATGCGTTTACTTCAAAGCATTTTTCACATTacac                                                                                                                  <  1:28224/137‑1 (MQ=255)
                  ttGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTacac                                                                                                                  <  1:205373/141‑1 (MQ=255)
                  ttGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGAATTTTTCACATTacac                                                                                                                  <  1:470114/141‑1 (MQ=255)
                    aataaaataaaAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCACTTTTTGGAGGGTTGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTacacac                                                                                                                <  1:925691/140‑1 (MQ=255)
                     ataaaaaaaaAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTAcacaca                                                                                                               <  2:442108/141‑1 (MQ=255)
                      taaaataaaaAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACaa                                                                                                              >  2:627007/1‑141 (MQ=255)
                      taaaataaaaAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGAATGGGATAAAATGAACTTTGTAACATTGCCTTCGGATGAGTTCAATGAGATTCCTACAAAGCATTTTTCACATTATACACaa                                                                                                              >  2:223457/1‑141 (MQ=255)
                       aaaataaaaAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAAt                                                                                                             <  1:373185/141‑1 (MQ=255)
                         aaaaaaaaaaTAGCATAATTAATAAATTCAAAAATTAAAGTACATCACAGAGAGCGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGACTTCAATGCGTTTACTACAAAGCATTATCCACATCACACACAATCa                                                                                                           <  2:903366/138‑1 (MQ=255)
                           taaaaAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGc                                                                                                         <  1:855298/141‑1 (MQ=255)
                           taaaaAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGc                                                                                                         <  2:111301/141‑1 (MQ=255)
                           aaaaaaaaTAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGACGGATGGGATAAAATAAACTTGGTAACTTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGc                                                                                                         <  2:335923/140‑1 (MQ=255)
                              aaaaaTAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGAAAATTATGAGTCTTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTAt                                                                                                      >  1:444483/1‑141 (MQ=255)
                               aaaaTAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTAtt                                                                                                     <  1:805843/141‑1 (MQ=255)
                                   tAGCATTATTAATAAATTCAAACATCATTTGTTAATTCCGAGAGGGGTGTTTAATAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCAtt                                                                                                 <  1:443981/141‑1 (MQ=255)
                                   tAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAAAGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACAAACAATCAGCTATTCAtt                                                                                                 >  2:386174/1‑141 (MQ=255)
                                   tAGCATTATGAATAAATTCAAAAATTATAGTTCAATTCGGAGAGGTCTGGGATAAAATGAATGGTGTGACTTTGTCGTCGTATGTGTTCAATGCGTTTACTAGAAAGCATTTTTCACATTACACACAATCAGCTATTCAtt                                                                                                 <  2:336448/141‑1 (MQ=255)
                                       attattAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGAAAGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGCTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCAtaccaa                                                                                             >  1:497502/1‑136 (MQ=255)
                                          attaATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACCTTTCCAACAAGCAGCTATTCATTACAATCa                                                                                          <  1:936354/141‑1 (MQ=255)
                                             aaaaaaTTCAAAAATTATAATTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATag                                                                                       <  2:412569/138‑1 (MQ=255)
                                               taaATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATagag                                                                                     >  2:602434/1‑141 (MQ=255)
                                                aaaTTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGATATTCATTACAATCATAGAGt                                                                                    <  2:391363/141‑1 (MQ=255)
                                                aaaTTCAAAAATTATAGCTCAATTCAGAGAGGGATGTGATAATATGAACTTTGCAACGTTTACTTCGTATGAGTTCAATGCGTTTACTACAAAGCATTTGTCACATTACACACAATCAGCTATTCATTACAATCATAGAGt                                                                                    <  2:730850/141‑1 (MQ=255)
                                                    tCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGAt                                                                                <  1:166007/141‑1 (MQ=255)
                                                     cAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCCGCAATTCATTACAATCATAGAGTTGAtt                                                                               >  2:721661/1‑141 (MQ=255)
                                                        aaaTTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCAGTACAATCATAGAGTTGATTTaa                                                                            <  2:689780/141‑1 (MQ=255)
                                                        aaaTTATAGTTCAATTCAGAGAGGGAAGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTaa                                                                            <  2:363533/141‑1 (MQ=255)
                                                         aaTTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTaaa                                                                           <  2:699353/141‑1 (MQ=255)
                                                           ttATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAg                                                                         <  2:120863/141‑1 (MQ=255)
                                                           ttATAGGTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAg                                                                         <  2:281840/141‑1 (MQ=255)
                                                            tataGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATCTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAgg                                                                        >  1:444790/1‑141 (MQ=255)
                                                             ataGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGc                                                                       <  1:347197/141‑1 (MQ=255)
                                                                 ttCAATTCAGAGATGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGAtg                                                                   <  2:709193/141‑1 (MQ=255)
                                                                  tCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGAtgt                                                                  <  1:588210/141‑1 (MQ=255)
                                                                  tCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGAtgt                                                                  <  2:365204/141‑1 (MQ=255)
                                                                  tCAATGCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGAtgt                                                                  <  2:675150/141‑1 (MQ=255)
                                                                         agagagGGAGGGGATAAAATGAACTTCGAATGGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCtt                                                           >  1:693086/1‑141 (MQ=255)
                                                                          gagagGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTg                                                          >  1:77889/1‑141 (MQ=255)
                                                                            gggggatgggctAAAATGAACTGTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTa                                                        <  2:889494/139‑1 (MQ=255)
                                                                            gagGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTa                                                        <  2:833217/141‑1 (MQ=255)
                                                                             agGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAGTGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTATAAGGCAATGTGCATCTCGTAg                                                       >  1:723605/1‑141 (MQ=255)
                                                                             agGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAg                                                       >  2:229334/1‑141 (MQ=255)
                                                                             agGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGGTCAATGCGTCAACTACCAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGATGATTTAAAAGGCGATGTGCAGCCTGTAg                                                       >  2:721639/1‑141 (MQ=255)
                                                                                         aaaTGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATg                                           <  2:819849/141‑1 (MQ=255)
                                                                                         aaaTGAACTTTGTAACGTCGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATg                                           <  1:239027/141‑1 (MQ=255)
                                                                                           aTGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGAc                                         <  1:234206/141‑1 (MQ=255)
                                                                                             gAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTCAAAAGGCGAGGGTCAGCTTGTAGGGGGAGAAGATAACaa                                       >  2:736649/1‑141 (MQ=255)
                                                                                               aCTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTCTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATg                                     >  1:752970/1‑141 (MQ=255)
                                                                                                cTTTGAAACGTTGACTACGGATTAGTTCAATGCGTTTACTAGAAAGCAATTTGCACACTACACACAACCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTGAAAGAGGACTATgt                                    <  2:111233/141‑2 (MQ=255)
                                                                                                   tGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCa                                 <  2:772900/141‑1 (MQ=255)
                                                                                                      aaCGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATACTGGCGTAAATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAGGATGACAATGGTCAAgg                              >  1:926406/1‑140 (MQ=255)
                                                                                                      aaCGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTAGTCATTACCAACAACCGGATGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGt                              >  1:926411/1‑141 (MQ=255)
                                                                                                       aCGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTg                             <  2:256540/141‑1 (MQ=255)
                                                                                                         gTTGACTTCGGATGAGTTCAATGCGTTTACTACAAATCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTTCATCTTGTAGGGGTTAAAGATTACAATGGTCAAGTGAt                           <  1:524836/141‑1 (MQ=255)
                                                                                                         gTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGAt                           <  2:714610/141‑1 (MQ=255)
                                                                                                          tttaCTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTACAGATGACAATGGTCAAGTGAtt                          <  2:688968/138‑1 (MQ=255)
                                                                                                          ttGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGAtt                          <  2:733117/141‑1 (MQ=255)
                                                                                                           tGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTg                         <  2:862386/141‑1 (MQ=255)
                                                                                                           tGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTg                         <  2:862716/141‑1 (MQ=255)
                                                                                                             aCTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCa                       >  1:402175/1‑141 (MQ=255)
                                                                                                                tCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAGGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGa                    >  1:429414/1‑141 (MQ=255)
                                                                                                                  ggATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGATg                  >  1:143940/1‑141 (MQ=255)
                                                                                                                    aTGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGATGCt                <  2:538619/141‑1 (MQ=255)
                                                                                                                    aTGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGATGCt                <  2:886201/141‑1 (MQ=255)
                                                                                                                    aTGAGATCAATGCGTTTACTACAAAGCTTTTTTCACATTACACAAAATCAGCTATTCATTACAATCATAGAGTTGATTAAAAAGGCGATGTGCATCTTGTAGGGGGTAAAGATGACAATAGTAAAGGGATTGCAGGAGGCt                >  2:790640/1‑141 (MQ=255)
                                                                                                                     tGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTAATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGATGCtt               >  2:449539/1‑141 (MQ=255)
                                                                                                                     tGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTAATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGAGGCtt               >  2:539832/1‑141 (MQ=255)
                                                                                                                       aGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGATGCTTAt             >  1:255512/1‑141 (MQ=255)
                                                                                                                        gTTCAATGCGTTTACTACAAAGCATTTTTTACATTATATACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTTGCGGCTCGACATGACAATGGTCAAGTGATTGCGGGATGCTTAtt            >  2:661410/1‑141 (MQ=255)
                                                                                                                        gTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGCTCAAGTGATTGCAGGATGCTTAtt            <  1:602434/141‑1 (MQ=255)
                                                                                                                          tCAATGCGTTTACTACAAAGCTTTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGATGCTTATTGa          <  1:716519/141‑1 (MQ=255)
                                                                                                                           cAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGATGATTTAAAAGGCGATGTGCATCTTTTAGGGGTTAAAGATGACAATGTTCAAGTGATTGCAGGATGCTTATTGaa         >  1:660110/1‑140 (MQ=255)
                                                                                                                               gCGTTTGCTACAAAGTATTTTTAAAATTACATACATTTAGGTATTCATTACAATGATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGATGCTTATTGACAGaa     <  2:497502/141‑1 (MQ=255)
                                                                                                                                  tttACTACAAAGCATTTTTCACATTACACACAATCAGCTATTAATTACAATCATCGAGTTGATTAAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGAGATTGCAGGATGCTTATTGATAAAAgca  >  2:730997/1‑141 (MQ=255)
                                                                                                                                       |                                                                                                                                       
TGTATTTGTAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACAACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGATGCTTATTGACAGAAGCA  >  USA300TCH1516_ALE/2532163‑2532433

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A