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
A9 F13 I0 R1 203 11425.2 8793538 98.4% 8652841 135.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NZ_CP022686 2,408,861 Δ1 bp 100% pseudogene (1097/3115 nt) mdtF → multidrug efflux pump RND permease MdtF

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0226862,408,8610T.97.6% 923.6 / 9.7 207pseudogene (1097/3115 nt)mdtFmultidrug efflux pump RND permease MdtF
Reads supporting (aligned to +/- strand):  ref base T (0/1);  major base . (95/107);  minor base A (2/1);  total (98/109)
Fisher's exact test for biased strand distribution p-value = 6.04e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.
Rejected as polymorphism: Polymorphic indel expands or contracts a homopolymer stretch.

Only 100 of 209 total aligned reads displayed.

GCCTGAAGACGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAATTCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCATCG  >  NZ_CP022686/2408723‑2408996
                                                                                                                                          |                                                                                                                                       
     aaGACGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTAAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCAGGGTAATGTATCTGATTTTTCAGAATTTACGCGCCACAA‑TCATccc                                                                                                                                  >  6:85175/1‑140 (MQ=255)
        aCGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCcgac                                                                                                                               <  2:399852/140‑1 (MQ=255)
          ggTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCCGGAAGTTTTCAAACCGCTGGTTGAGGCTAGCATCTTCTTCTTCCTGGTCATGTATCTGTTTTTGCAGACTTTCCGCGCCACAA‑TCATCCcgacga                                                                                                                             >  8:606670/1‑140 (MQ=255)
          ggTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCcgacga                                                                                                                             >  1:1100310/1‑140 (MQ=255)
           gTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAt                                                                                                                            <  5:346179/140‑1 (MQ=255)
           gTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAt                                                                                                                            <  8:717581/140‑1 (MQ=255)
            tttATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAtt                                                                                                                           >  7:242904/1‑140 (MQ=255)
            tttATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCAGCGCCACAA‑TCATCCcgacga                                                                                                                             >  3:109259/1‑138 (MQ=255)
            tttATCCTTACGACACCACACCGTTTATCAAAATTTCTAATCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCACGACGAtt                                                                                                                           >  2:380996/1‑140 (MQ=255)
             ttATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAt                                                                                                                            >  3:940617/1‑138 (MQ=255)
              tATCCTTACGACCCAACAACGTTTATCAAAATTTATATTCTGTTAGTTTTCAAAACGCTGGTGGAGGCTATCTTCCGCGTCTTCCTGGTCATGTATGTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGc                                                                                                                         <  6:153305/140‑1 (MQ=255)
                  cTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTa                                                                                                                     <  5:62167/140‑1 (MQ=255)
                    tACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTTGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTAcc                                                                                                                   <  7:1008520/140‑1 (MQ=255)
                    tACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTAcc                                                                                                                   <  6:190726/140‑1 (MQ=255)
                    tACGACACCACACCGTTAATCAAAATTTCTATTCAGGATGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATATACGCGCCACAA‑TCATCACGACGATTGCCGTAcc                                                                                                                   >  7:335409/1‑140 (MQ=255)
                    tACGACACCACACCGTATATCAAAAATACTATTCAGGAAGTTTTCAAAACGCTGGATGAGGCTATAATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCACTACTATTGCCGTAcg                                                                                                                   >  2:130663/1‑139 (MQ=255)
                    tACGACACCACACCGGTTATCAAAATTTCTATTCAGGAAGTTTTCACAACGCTGGTTGAGTCTATCATCCTCGTCTTCCTGGTCATGTATATGTTTTTGCTGATTTTCCTCGCCACCA‑TCATCCCGACGATTGCCGTAcc                                                                                                                   >  5:793598/1‑140 (MQ=255)
                     aCGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCg                                                                                                                  <  8:781525/140‑1 (MQ=255)
                     aCGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCg                                                                                                                  <  7:317911/140‑1 (MQ=255)
                      cGACACAACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCGGGTTGAGGCTATCATCCTCGTCTGCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGCTTGCCGTAcc                                                                                                                   >  4:598345/1‑138 (MQ=255)
                        acaccacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCgg                                                                                                                 >  3:740738/1‑138 (MQ=255)
                         caccacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCggtgg                                                                                                              >  2:825387/1‑140 (MQ=255)
                          accacaccTTTTATCAAAATTTCTATTCAGTAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCggtggt                                                                                                             <  1:267582/140‑1 (MQ=255)
                           ccacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGtt                                                                                                            >  7:913489/1‑140 (MQ=255)
                           ccacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGtt                                                                                                            >  5:950128/1‑140 (MQ=255)
                            cccacaGTTTATCAAAATTTCTATTCAGCAAGTTTTCAAAACGCTGGTTGATGCTATCATCCTACTATACCTGTTCAATTAAATGATTATGAAGAATTTCCTCGCCA‑AAATCCTCCAGACGATTGACGTACCTGTGGTTa                                                                                                           >  8:906117/3‑140 (MQ=255)
                            cacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACTCTGGTTGAGGCTATAATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTa                                                                                                           >  8:763886/1‑140 (MQ=255)
                            cacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCggtggt                                                                                                             <  4:333060/138‑1 (MQ=255)
                            cacaccGTTTATCAAAATTTCTATTAAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTATTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTa                                                                                                           >  7:1028799/1‑140 (MQ=255)
                              caccGTTTATCAAAATTTCTTTTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACCA‑TCATCCCGACGATTGCCGTACCGGTGGTTagt                                                                                                         >  2:548447/1‑138 (MQ=255)
                              caccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATccc                                                                                                                                  >  2:557681/1‑115 (MQ=255)
                              caccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTAtt                                                                                                         >  2:26393/1‑140 (MQ=255)
                              caccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCACGACGATTGCAGTACCGTTGGTTAtt                                                                                                         >  6:107368/1‑140 (MQ=255)
                                ccGTTTATCAAAATTTATATTCATTAAGTTATCAAAACCCTGGATGAGGCTATCATCCACGACATCCTGGTCATGTAACTCTATTAGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATAGCCGTACCGGTGGATaat                                                                                                         >  4:527033/1‑136 (MQ=255)
                                 cGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATtctc                                                                                                      >  6:872521/1‑140 (MQ=255)
                                   tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGCGGCTATCCTCCGAGTCTTCCTGGGCATGGATCTGTTTTTGCAGATTTTCCGCGCCACAA‑TCCTCCCGACGAGTGCCGTACCGGGGGTTATTCTCgg                                                                                                    >  8:465052/1‑140 (MQ=255)
                                   tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  1:915319/1‑140 (MQ=255)
                                   tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  1:302620/1‑140 (MQ=255)
                                   tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  1:1121486/1‑140 (MQ=255)
                                   tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCAGTACCGGTGGTTATTCTCgg                                                                                                    >  2:440837/1‑140 (MQ=255)
                                   tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATACCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  1:249549/1‑140 (MQ=255)
                                   tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGGTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  5:106296/1‑140 (MQ=255)
                                     tATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGCCGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  3:864043/1‑138 (MQ=255)
                                     tATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  3:420871/1‑138 (MQ=255)
                                     tATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTACGCGCCACAA‑TCATCCCGACGATTGCCGTACCGTTGGTTATTCACgg                                                                                                    >  3:782437/1‑138 (MQ=255)
                                     tATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCGATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGa                                                                                                  <  8:350135/140‑1 (MQ=255)
                                      aTCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgggcc                                                                                                 >  1:1040410/1‑138 (MQ=255)
                                             tttCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCTGGACGTTTGCg                                                                                          >  2:1123675/1‑140 (MQ=255)
                                             tttCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCg                                                                                          <  2:633927/140‑1 (MQ=255)
                                               tCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCg                                                                                          <  4:839462/138‑1 (MQ=255)
                                                         aaGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTcggcg                                                                              <  8:518931/140‑1 (MQ=255)
                                                           gTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGGCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAATGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGcggt                                                                            <  8:1032613/140‑1 (MQ=255)
                                                           gTTTGCAAACCGCTGGGTGAGGCTATAATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCTGGACGTTTGCGATCTTGTcggcg                                                                              <  3:627305/138‑1 (MQ=255)
                                                             tttCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGcggtcg                                                                          >  1:81119/1‑140 (MQ=255)
                                                             tttCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATACCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTAGGcggtcg                                                                          >  1:50329/1‑140 (MQ=255)
                                                                 aaaaCGCTGGTTGAGGCTATCATCCTAGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGttt                                                                      <  2:77644/140‑1 (MQ=255)
                                                                   atcGCTGTTTGAGGCTATCATCCTCGTGTTCCTGGTCTTGTATCTGTTTTTGCTGATTTTCCGCGCGACTA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCa                                                                    <  2:22828/138‑1 (MQ=25)
                                                                        tGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                               <  5:164734/140‑1 (MQ=255)
                                                                          gTTGTGGCTATCATCCTCGTCTTGCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGACA‑AAATCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCTGCGGTCGGTTTCACCATCaa                                                             <  5:184625/140‑1 (MQ=255)
                                                                          gTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTGTCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCaa                                                             <  6:505012/140‑1 (MQ=255)
                                                                          gTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCACGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCaa                                                             <  6:715666/140‑1 (MQ=255)
                                                                               ggCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAacac                                                          <  3:203443/138‑1 (MQ=255)
                                                                                    tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTaa                                                     <  4:1040983/138‑1 (MQ=255)
                                                                                    tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACt                                                   <  5:244076/140‑1 (MQ=255)
                                                                                      atcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTTTTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACt                                                   >  3:1014801/1‑138 (MQ=255)
                                                                                         cTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATg                                                <  3:442877/138‑1 (MQ=255)
                                                                                           cGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCA‑AAATCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGAAGTTTGCGCTCTTGTCTGCGGGCTGGTTCACCATCAACACGTTAACTAttttag                                            >  6:475837/1‑138 (MQ=255)
                                                                                              cTTCCTGGTCATGTTTCTGTTTTTGCAGAATTTCCGCGGCACTA‑TCATCCCGTCGATTGCCGTTCCGGTGGTTTTTCTCGGGACGTTTGCGTTCTTGTCGGCGGTCGGTTTCACGATCAACACGTTAACTATGTTCGGGa                                         <  1:577482/140‑1 (MQ=255)
                                                                                              cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCgg                                           <  4:289847/138‑1 (MQ=255)
                                                                                              cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  6:336186/140‑1 (MQ=255)
                                                                                              cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  7:551791/140‑1 (MQ=255)
                                                                                              cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATCGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  2:1014894/140‑1 (MQ=255)
                                                                                              cTTCCTGGTCATGAATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGCCGATTGCCGTACCGGTGGTTATTCTATGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  2:1109380/140‑1 (MQ=255)
                                                                                              cTTCCTGGGCAGGTATCTGTTTTTGCAGAAGTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  6:56426/140‑1 (MQ=255)
                                                                                                 ccTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATgg                                      >  7:328346/1‑140 (MQ=255)
                                                                                                 ccTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGGGGTTATTCTCGGGACGTTTCCGATCGTGTCGTCGTTCGGTTTCACCTAAAACACGTTAACTATGTTCGTGATgg                                      >  7:81134/1‑140 (MQ=255)
                                                                                                   tGGTCATGTATCAGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTTCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATgg                                      <  3:601138/138‑1 (MQ=255)
                                                                                                    ggTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGt                                     <  3:793229/138‑1 (MQ=255)
                                                                                                    ggTCATGAATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGCTTGCCGTACCGGTGGTTATTCTCGGGACGGTTGCGAGCTTGTCGGCGGTCGGTTTCACCATCAACACGTTACCTATGTTCGGGATGGTGc                                   <  6:820097/140‑1 (MQ=255)
                                                                                                      tCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGCACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGAGCTg                                 >  6:683816/1‑140 (MQ=255)
                                                                                                          gTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTaa                                                     <  3:520753/116‑1 (MQ=255)
                                                                                                          gTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTaa                                                     >  4:520753/1‑116 (MQ=255)
                                                                                                          gTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGa                             >  7:418392/1‑140 (MQ=255)
                                                                                                           tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTGTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGAt                            <  8:435776/140‑1 (MQ=255)
                                                                                                           tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCg                              <  3:548547/138‑1 (MQ=255)
                                                                                                           tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTAGGGACGTTTGCGATCTTGTCGGCGGTCTGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGAt                            >  8:922922/1‑140 (MQ=255)
                                                                                                            aTCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGa                             >  4:947134/1‑138 (MQ=255)
                                                                                                               tGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAGTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTGGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAggg                        >  7:712056/1‑140 (MQ=255)
                                                                                                                 tttttGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTg                                                                                                                          >  3:916393/1‑40 (MQ=255)
                                                                                                                 tttttGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAggg                        >  4:812447/1‑138 (MQ=255)
                                                                                                                 tttttGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGtt                      <  5:405546/140‑1 (MQ=255)
                                                                                                                 tttttGCAGAATTTCCGCGCCACAA‑TCATCCAGACGATTGCCGTACCCGTGGTTATTCTAGGGACGTTTGAGATCTTGTCGGCGGTCTGTTTCACCATCAACACGTTAACTATATTCGGGATGGTGATGGCGATAggg                        >  3:756970/1‑138 (MQ=255)
                                                                                                                  ttttGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGGGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTGTCACCAACAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTa                     <  5:207776/140‑1 (MQ=255)
                                                                                                                   tttGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGATAACTATGTTCGGGATGGTGCTGGCGATAGGGTTAc                    >  5:1042040/1‑140 (MQ=255)
                                                                                                                   tttGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTAATTCTCGGGACGTTTGCGATCTTGTCGGCGGACGGTTACCACATCAACACGTTAACTATGTTCGGGATGGTGCTGGCTATAGGGTTAc                    >  1:455321/1‑140 (MQ=255)
                                                                                                                     tGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATAAACACGTTAACTATGTACGGGATGGTGCTGGCGATAGGGTTACtg                  >  5:635061/1‑140 (MQ=255)
                                                                                                                      gCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGGCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACtgg                 <  7:639132/140‑1 (MQ=255)
                                                                                                                          aaTTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGa             <  8:39066/140‑1 (MQ=255)
                                                                                                                                cgcgCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGc       <  5:882215/140‑1 (MQ=255)
                                                                                                                                     cacaA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGGTTCACCATCAAAACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCAt    <  4:111914/138‑1 (MQ=255)
                                                                                                                                          |                                                                                                                                       
GCCTGAAGACGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAATTCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCATCG  >  NZ_CP022686/2408723‑2408996

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A