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
A7 F13 I0 R1 230 5035.0 9125430 98.4% 8979423 135.8

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.97.8% 975.0 / 4.2 217pseudogene (1097/3115 nt)mdtFmultidrug efflux pump RND permease MdtF
Reads supporting (aligned to +/- strand):  ref base T (0/2);  new base . (94/118);  total (96/121)
Fisher's exact test for biased strand distribution p-value = 5.05e-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.

Only 100 of 223 total aligned reads displayed.

AGCCTGAAGACGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAATTCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCATCG  >  NZ_CP022686/2408722‑2408996
                                                                                                                                           |                                                                                                                                       
 gCCTGAAGACGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAAtc                                                                                                                                        >  4:595597/1‑139 (MQ=255)
     gAAGACGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTTGTTGAGGCTATCATCCTCGTCTTCCTGCTCATGTATCAGATTTTGCTGAATTTCCGCGCCACAAtcat                                                                                                                                      >  7:900078/1‑135 (MQ=255)
            gTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCcgacg                                                                                                                              <  7:640526/138‑1 (MQ=255)
             tttATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAtt                                                                                                                           >  2:93343/1‑140 (MQ=255)
             tttATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAtt                                                                                                                           >  1:441207/1‑140 (MQ=255)
             tttATCCTTACGACACCACACCGTATATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATAATCCTGGACTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACTAtt                                                                                                                           >  5:577880/1‑140 (MQ=255)
                aTCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCCCAA‑TCATCCCGACGAGTGcc                                                                                                                        >  3:20795/1‑140 (MQ=255)
                   cTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCg                                                                                                                       <  7:928381/138‑1 (MQ=255)
                     tACGACACCACAGCGTTTATCAAAAATTCTATTCAGGAAGTTTTCATAACGCTGGTTGAGGCTATCTTCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGATTTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTAcc                                                                                                                   <  6:892800/140‑1 (MQ=255)
                     tACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGGCTTCCAGGTCATGTATCCGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTAcc                                                                                                                   <  2:330116/140‑1 (MQ=255)
                           accacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCggtggt                                                                                                             >  5:243815/1‑140 (MQ=255)
                           accacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTATTCCTGGTCATTTATCTGTTTTTGAAGAAGTTCCGCGCCACAA‑TCCTCCCGACGATTGCCGTACCggtggg                                                                                                             >  6:293096/1‑139 (MQ=255)
                            ccacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGtt                                                                                                            >  2:442678/1‑140 (MQ=255)
                            ccacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGtt                                                                                                            >  6:670920/1‑140 (MQ=255)
                             cacaccGGTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTTGTTa                                                                                                           >  5:666356/1‑140 (MQ=255)
                               caccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGCCGATTGCCGTACCGGTGGTTAtt                                                                                                         >  2:693412/1‑140 (MQ=255)
                               caccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTAtt                                                                                                         >  4:36097/1‑140 (MQ=255)
                               caccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCGGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACAGGTGGTTAtt                                                                                                         >  2:310757/1‑140 (MQ=255)
                                    tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATtctc                                                                                                      >  8:1030979/1‑138 (MQ=255)
                                    tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  1:1544/1‑140 (MQ=255)
                                    tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTATCgg                                                                                                    >  2:251096/1‑140 (MQ=255)
                                    tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TAATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  2:1114530/1‑140 (MQ=255)
                                    tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATACTCGTCTTCCTGGTAATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACTATTGCCGTACCGGTTGTTATtctctg                                                                                                    >  5:805428/1‑138 (MQ=25)
                                     ttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCggg                                                                                                   <  1:1007373/140‑1 (MQ=255)
                                      tATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCAACCTCGTCTTCCTGGTCATGTATCTTATTTTGAAGAATTTACGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  7:886101/1‑138 (MQ=255)
                                      tATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGCTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGa                                                                                                  <  5:563408/140‑1 (MQ=255)
                                         cAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGt                                                                                               >  4:544400/1‑140 (MQ=255)
                                         cAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCC‑CCACTCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGTCGt                                                                                               >  4:715083/1‑140 (MQ=255)
                                         cAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGGATCTGTGTGTGCAGAATTTCCGCGCCCCAA‑TCATCCCGCCGATTGCCGACCCGGTGGTTATTCTCGGGACGt                                                                                               >  4:197511/1‑140 (MQ=255)
                                            aaTTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTg                                                                                            >  4:773335/1‑140 (MQ=255)
                                              tttCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTg                                                                                            <  7:235044/138‑1 (MQ=255)
                                                         gAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTcggc                                                                               >  5:725995/1‑140 (MQ=255)
                                                         gAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTcggc                                                                               >  4:103995/1‑140 (MQ=255)
                                                            gTTTTCACAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCAGGTATCTGTTTTTGCAGAATTTCCGCGCCCCAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGcggt                                                                            <  6:1044403/140‑1 (MQ=255)
                                                            gTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGcggt                                                                            <  1:772558/140‑1 (MQ=255)
                                                                  aaaaCGCTGGTTGAGGCTATCATCCTCGTCATCCTGGTCATGTATCTGTTTTTGCCGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGcggtcggt                                                                        <  7:692304/138‑1 (MQ=255)
                                                                   aaaCGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTc                                                                     <  4:1085924/140‑1 (MQ=255)
                                                                         tGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCa                                                                 <  7:769051/138‑1 (MQ=255)
                                                                         tGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCa                                                                 <  7:1066597/138‑1 (MQ=255)
                                                                         tGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                               <  5:400666/140‑1 (MQ=255)
                                                                         tGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                               <  5:718208/140‑1 (MQ=255)
                                                                         tGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                               <  6:1074186/140‑1 (MQ=255)
                                                                         tGGTTCAGGCTATCATCCTCGTCTTCCTGTTCATGTATATGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                               <  4:278511/140‑1 (MQ=255)
                                                                         gggTTGAGGCTATCCTCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTTCCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCa                                                                 <  8:1079518/137‑1 (MQ=255)
                                                                           ggtGATGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCGACTA‑TCATCACGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCaa                                                             <  6:300357/138‑1 (MQ=255)
                                                                           ggtGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGAGCCACAA‑TAATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCaa                                                             <  1:112998/138‑1 (MQ=255)
                                                                           gTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCaa                                                             <  3:243730/140‑1 (MQ=255)
                                                                           gTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGGCGGTTTCACCATCaa                                                             <  5:1112433/140‑1 (MQ=255)
                                                                               cggCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGGCGGTTTCACCATCAACACg                                                         <  2:528984/139‑1 (MQ=255)
                                                                                   tATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTaa                                                     <  4:553768/140‑1 (MQ=255)
                                                                                   tATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTaa                                                     <  3:773335/140‑1 (MQ=255)
                                                                                     tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTaa                                                     <  7:710964/138‑1 (MQ=255)
                                                                                     tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACt                                                   >  5:971570/1‑140 (MQ=255)
                                                                                     tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACt                                                   <  6:60036/140‑1 (MQ=255)
                                                                                     tcatcCTCGTCTGCCTGGTCATTTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCTGTTTCAACATAAACACGTTAACt                                                   <  2:873004/140‑1 (MQ=255)
                                                                                          cTCGTCTTCCTGGTCTAGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGATTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGtt                                              <  1:944446/140‑1 (MQ=255)
                                                                                           tCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACCA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCTGTTTCCCCATCAACACGTTAACTATGTTc                                             >  6:185225/1‑140 (MQ=255)
                                                                                           tCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGCCGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTc                                             >  5:154383/1‑140 (MQ=255)
                                                                                           tCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTc                                             >  3:1164234/1‑140 (MQ=255)
                                                                                             gTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCAAACCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGATCgg                                           >  1:1162679/1‑140 (MQ=255)
                                                                                              tcttctTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTcgg                                                                                <  8:5956/102‑1 (MQ=255)
                                                                                              tcttctTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTcgg                                                                                >  7:5956/1‑102 (MQ=255)
                                                                                              tCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCTTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCg                                            >  8:298098/1‑138 (MQ=255)
                                                                                               cTTCCTGGTCATGTCTCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCgg                                           <  8:726280/138‑1 (MQ=255)
                                                                                               cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACTA‑TCATCCCGACGATTGCCGTACCGGTGGTTATGCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCATCACGTTAACTATGTTCGGGa                                         <  1:365426/140‑1 (MQ=255)
                                                                                               cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCgg                                           <  8:236806/138‑1 (MQ=255)
                                                                                               cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  6:426602/140‑1 (MQ=255)
                                                                                               cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTAACGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  6:153096/140‑1 (MQ=255)
                                                                                               cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCAGCGCCAC‑ACTCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGGCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  6:575334/140‑1 (MQ=255)
                                                                                               cTTCCTGGTCATGTATCGGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGGACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  4:507139/140‑1 (MQ=255)
                                                                                                  ccTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGCCGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCCCCATCAACACGGTAACTATGTTCGGGATgg                                      >  6:352800/1‑140 (MQ=255)
                                                                                                   cTGGTCATGTATCTGATTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGGTTGCGATCTTGTCGGCGGTCGGTTTAACCATCAACACGTTAACTATGTTCGGGATg                                       >  7:968193/1‑138 (MQ=255)
                                                                                                    ttgTCATGTATCTGTTTTTGAAGAATTTCCGCGCCACAA‑TCATCCCGACTATTGCCGTACCGGTGGTTTTTCTCGGGACGTTTGCGAGCTTGTCGGCGGTCGGTTTCACCATCATCACGTTAACTATGTTCGGGATGGTg                                    <  1:1100784/138‑1 (MQ=255)
                                                                                                    tGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCAGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATgg                                      >  7:278849/1‑138 (MQ=255)
                                                                                                    gggTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATgg                                      <  8:407308/137‑1 (MQ=255)
                                                                                                     tgTCATGTCTCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATACCGACGATTGCCGTACCGGTGGTTTTTCTCGTGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGc                                   <  3:701363/139‑1 (MQ=255)
                                                                                                     ggTCATGTATCTGTTTTTGCATAATTTCCGCGCCACAA‑TCATCCCGAAGATTGCCGTACCGGTGGTTAATCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTTACCTTCAACACGTTAACTATGTTCGGGATGGt                                     <  7:548332/138‑1 (MQ=255)
                                                                                                     ggTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGt                                     >  8:693560/1‑138 (MQ=255)
                                                                                                      gTCATGTATCTGTTAGTGCAGAATTTCCGAGCCACAA‑TCATCCCGTCGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGGTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCt                                  <  5:846364/140‑1 (MQ=255)
                                                                                                         aTGTATCTGTTTTAGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTAACGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGCCGGTCGCTTTCACAATCAACACGTTAACTATGTTCGGGATGGTGCTggg                               >  6:691531/1‑139 (MQ=255)
                                                                                                           gTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCggtgg                                                                                                              >  2:1102886/1‑59 (MQ=255)
                                                                                                           gTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGa                             <  6:258809/140‑1 (MQ=255)
                                                                                                           gTATCTGTTTTTGCAGAAATTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTGATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTACACCATCACCACATTAACTATGTTCGGGATGGTGCTGTCGa                             >  2:830003/1‑140 (MQ=255)
                                                                                                            tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGAt                            <  3:980738/140‑1 (MQ=255)
                                                                                                            tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGAt                            <  4:137167/140‑1 (MQ=255)
                                                                                                               cTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATa                           <  7:64823/138‑1 (MQ=255)
                                                                                                                 gTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCTACGATTGCCGTAGCGGTGGTTATTCTCGGGACTTTTGCGATCTTGACGGCGGTCGGTTTCACACTCTACACGTTAACTATGTTCGGGTTGGTGCTGGCGATAGGGt                       >  2:106246/1‑140 (MQ=255)
                                                                                                                 gTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCTGTCGGTTTCACCATCAACACGTTACCTATGTTCGGGATGGTGCTGGCGATAGGGt                       <  1:793739/140‑1 (MQ=255)
                                                                                                                 gTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGATTGCGATCTTGTCGGCGGTCGGTTTCACCATCACCACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGt                       >  6:508171/1‑140 (MQ=255)
                                                                                                                   ttttGCAGAATTTCCGCGCAACAA‑GCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTa                     <  6:796980/140‑1 (MQ=255)
                                                                                                                    tttGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTAc                    >  3:807877/1‑140 (MQ=255)
                                                                                                                      tGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGa                                                                                                  <  3:414578/60‑1 (MQ=255)
                                                                                                                      tGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGa                                                                                                  >  4:414578/1‑60 (MQ=255)
                                                                                                                      tGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGGGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTAc                    <  7:38235/138‑1 (MQ=255)
                                                                                                                          gAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTTGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACtggt                >  8:452737/1‑138 (MQ=255)
                                                                                                                           aaTTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGa             <  3:60092/140‑1 (MQ=255)
                                                                                                                              ttCCGCGACACAA‑TCATCCCGTCGATTGCCGTACAGGTGGTTATTCTCGGGACGTTTGCGATGTTGTCGGCGGTCGGTTTCACCATCTACTCGTTATCTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGAt            <  8:340941/138‑1 (MQ=255)
                                                                                                                                    gcCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCAt    <  1:990128/140‑1 (MQ=255)
                                                                                                                                    gcCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCAt    <  6:988292/140‑1 (MQ=255)
                                                                                                                                      cacaA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGGCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCATCg  <  3:910956/140‑1 (MQ=255)
                                                                                                                                           |                                                                                                                                       
AGCCTGAAGACGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAATTCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCATCG  >  NZ_CP022686/2408722‑2408996

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