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
A8 F35 I0 R1 304 9232.4 10623078 98.3% 10442485 135.6

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.98.9% 1118.3 / 0.3 242pseudogene (1097/3115 nt)mdtFmultidrug efflux pump RND permease MdtF
Reads supporting (aligned to +/- strand):  ref base T (1/0);  major base . (117/122);  minor base A (1/0);  total (120/122)
Fisher's exact test for biased strand distribution p-value = 4.92e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.40e-01
Rejected as polymorphism: E-value score below prediction cutoff.
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 244 total aligned reads displayed.

TGAAGACGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAATTCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCATC  >  NZ_CP022686/2408726‑2408995
                                                                                                                                       |                                                                                                                                      
  aaGACGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATccc                                                                                                                                 <  1:1134678/140‑1 (MQ=255)
  aaGACGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATccc                                                                                                                                 >  7:1228516/1‑140 (MQ=255)
  aaGACGGTTTATCCTTACGACACCACACCGTTTATCAAAAAATCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGCCTATCATCCTCGTCTTCCTGGTCATGTATCTGTATTTGCAGAATTTCCGCGCCACAAtcatcac                                                                                                                                  >  1:285019/1‑134 (MQ=255)
     aCGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCcgac                                                                                                                              <  5:1172674/140‑1 (MQ=255)
     aCGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCcg                                                                                                                                <  3:843131/138‑1 (MQ=255)
       ggTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCAGGTATCTGTTTTTGCAGAATTTCCGCGCCAC‑ACTCATCCcgacga                                                                                                                            >  5:396360/1‑140 (MQ=255)
        gTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCcgacg                                                                                                                             <  3:1309238/138‑1 (MQ=255)
         tttATCCTTACGACACCACAACGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCCGAATTTCCGCGCCACAA‑TCATCCcgactctt                                                                                                                          >  6:292991/1‑136 (MQ=255)
          ttATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAt                                                                                                                           >  3:549562/1‑138 (MQ=255)
           tATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAtt                                                                                                                          >  3:1099340/1‑138 (MQ=255)
           tATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAtt                                                                                                                          <  4:952317/138‑1 (MQ=255)
                 tacgcaaccacaacGTTTATCAAAAATTCTATGCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGGAATCATGGTCATGTATCTGTTTTTTCAGAATTTCCTCGCCACAA‑TCAACCCGACGATTGCCGTAcc                                                                                                                  >  6:532329/7‑140 (MQ=255)
                 tACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTAcc                                                                                                                  >  8:382463/1‑140 (MQ=255)
                 tACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTAcc                                                                                                                  >  1:90714/1‑140 (MQ=255)
                 tACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTAcc                                                                                                                  >  2:453509/1‑140 (MQ=255)
                 tACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTGTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTa                                                                                                                    <  3:408229/138‑1 (MQ=255)
                 tACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGATTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTAcc                                                                                                                  <  6:865217/140‑1 (MQ=255)
                   cGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATAATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGCCGATTGCCGTAcc                                                                                                                  >  4:1188038/1‑138 (MQ=255)
                       accacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCggtggt                                                                                                            >  8:209637/1‑140 (MQ=255)
                         cacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCTGTGGTTa                                                                                                          >  7:1175298/1‑140 (MQ=255)
                         cacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTa                                                                                                          >  1:128125/1‑140 (MQ=255)
                          acaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAGTGCCGTACCGGTGGtt                                                                                                           >  3:21639/1‑138 (MQ=255)
                           caccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTAtt                                                                                                        <  2:3512/140‑1 (MQ=255)
                              cGTTTATCAAAATTTCTATTCAGGAAGTATTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTCGTCATGTATATGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATtatc                                                                                                     >  8:272266/1‑140 (MQ=255)
                                tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGATGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTATCgg                                                                                                   >  8:286409/1‑140 (MQ=255)
                                tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCTCGCCACAA‑TCATCCCGACGATTTCCTTACCGGTGGTTATTATCgg                                                                                                   >  2:689367/1‑140 (MQ=255)
                                tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATtctc                                                                                                     <  4:809445/138‑1 (MQ=255)
                                tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                   >  5:406731/1‑140 (MQ=255)
                                tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTAATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                   >  2:134823/1‑140 (MQ=255)
                                tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCGATCATCCTCGTCTGCCTGGTCATGTATCTGTTTTTGAAGAATTTCCGCTCCACAA‑TCATCCCGACGATTGACGTACCGGTGGTTATTCTCgg                                                                                                   >  6:102858/1‑140 (MQ=255)
                                tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGATGGTTGAGGCTATCATCCTCGTCTTCCTGGTCTTGTATCTGTTTTTGCAGAATTTCCGAGCCACAA‑TCATCCCGACGATTTCCGTACCGGTGGTTATTCTAgg                                                                                                   >  6:974180/1‑140 (MQ=255)
                                  tATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                   >  4:137227/1‑138 (MQ=255)
                                  tATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGa                                                                                                 <  2:604566/140‑1 (MQ=255)
                                  tATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGGCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGa                                                                                                 <  8:115994/140‑1 (MQ=255)
                                    tCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCATGGTAATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCTGGa                                                                                                 >  3:1110262/1‑138 (MQ=255)
                                    acAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCATCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGAGGATATTCTCGGGa                                                                                                 >  3:1347019/2‑138 (MQ=255)
                                        aaTTTCTATTCAGGAATTTTTCAAAACTCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCTCCACAA‑TCATCCCGACGATTGCCGTACAGGGGGTTATTCTCGGTCCGTTTg                                                                                           >  2:761600/1‑140 (MQ=255)
                                          tttCTATTCAGGAAGTTTTCAAAACGCTGGTGGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCg                                                                                         <  5:794994/140‑1 (MQ=255)
                                               aTTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATACTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTgagagg                                                                                      >  4:1233904/1‑136 (MQ=255)
                                                      aaGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTcggcg                                                                             <  2:855606/140‑1 (MQ=255)
                                                        gTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCTGTGGTTATTCTCGGGAAGTTTGCGATCTTGTcggcg                                                                             <  3:894197/138‑1 (MQ=255)
                                                        gTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGcggt                                                                           <  7:283278/140‑1 (MQ=255)
                                                          tttCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGcggtcg                                                                         >  6:678296/1‑140 (MQ=255)
                                                              aaaaCGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCTGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGttt                                                                     <  6:1132274/140‑1 (MQ=255)
                                                              aaaaCGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGcggtcggt                                                                       <  3:100592/138‑1 (MQ=255)
                                                              aaaaAGCTTGTTGAGGCTATCATCCTCGTCTTCATTGTCATTTATCTGTTTTTGCAGAATTTCCTCGACACAA‑TCATCCCGCCGATTGCAGTACAGGTTGTTATTCTCGGGACTTTTGCGATCTTGTCGGCGGTCGGttt                                                                     <  8:348521/140‑1 (MQ=255)
                                                                   gCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCa                                                                >  6:873430/1‑140 (MQ=255)
                                                                     tGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                              <  1:714774/140‑1 (MQ=255)
                                                                     tGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGAGATCTTGTCGGCGGTCGGTTTCACCATc                                                              <  1:994194/140‑1 (MQ=255)
                                                                     tGGTTGAGGCGATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGGCGGTTTCACCa                                                                <  3:585884/138‑1 (MQ=255)
                                                                     tGGGTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                              <  6:435272/140‑1 (MQ=255)
                                                                     gggTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                              <  2:1311367/139‑1 (MQ=255)
                                                                       gTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCaa                                                            <  6:468301/140‑1 (MQ=255)
                                                                            ggCTATCATCCTCGTCTTCCTGGTCATGTAGCTGTTTTTGCAGAATTTCCGCGCCTCAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGt                                                       <  1:1087050/140‑1 (MQ=255)
                                                                               tATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGtt                                                      >  4:695284/1‑138 (MQ=255)
                                                                               tATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTaa                                                    <  1:404851/140‑1 (MQ=255)
                                                                               tATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGAAGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGAGATCTTGGAGGAGGTAGTTATCACCATCAACAAGtt                                                      >  4:462418/1‑138 (MQ=255)
                                                                                 tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACt                                                  <  7:376211/140‑1 (MQ=255)
                                                                                  catcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTa                                                 >  8:1125734/1‑140 (MQ=255)
                                                                                   atcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACt                                                  >  4:497618/1‑138 (MQ=255)
                                                                                      cTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATg                                               <  3:959340/138‑1 (MQ=255)
                                                                                      cTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGtt                                             <  8:1175298/140‑1 (MQ=255)
                                                                                      cTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGtt                                             <  6:1228591/140‑1 (MQ=255)
                                                                                      cTCGTCTTCCTGGGCATGTATCTGTTTTTGACGAATTTCCGCGCTACAA‑TCATCCCGACGATTGGCGTACCGGTGGGTTTTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCAACATCAACACGTTAACTATg                                               <  4:325165/138‑1 (MQ=255)
                                                                                      atCGTCTTCCTGGGCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑GCATCCCGACGATTGCAGTACCGGTGGTTATTCTCGGGAAGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGtt                                             <  1:258156/139‑1 (MQ=255)
                                                                                        cGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCg                                           >  1:297525/1‑140 (MQ=255)
                                                                                         gTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGGTTCACCATCAACACGTTAACTATGTTCgg                                          >  8:43235/1‑140 (MQ=255)
                                                                                          tCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCg                                           >  3:1280861/1‑138 (MQ=255)
                                                                                           cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTGGGCGCCTCAA‑TCATCCCGACGATTGACTTACTGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTAGGTTTCACAATCAACAATTTAACTATGTTCGGGa                                        <  2:717831/140‑1 (MQ=255)
                                                                                           cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCgg                                          <  4:1299195/138‑1 (MQ=255)
                                                                                           cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCgg                                          <  4:516086/138‑1 (MQ=255)
                                                                                           cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                        <  5:153052/140‑1 (MQ=255)
                                                                                           cTTCCTGGTCACGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTAAACTATGATCGGGa                                        <  5:1013981/140‑1 (MQ=255)
                                                                                             tCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGGTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATg                                      <  1:191509/140‑1 (MQ=255)
                                                                                              ccTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATgg                                     >  5:616721/1‑140 (MQ=255)
                                                                                              ccTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGACACAA‑TCATCACGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATAAACACGTTAACTATGTTCGGGATgg                                     >  7:647737/1‑140 (MQ=255)
                                                                                              ccTGGTCATGTATCTGTTTTTGCAGAATTTACGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGAGGTCGGGTTCACCATCAACACGTTAACTATGTTCGGGCTgg                                     >  1:575358/1‑140 (MQ=255)
                                                                                                tGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATgg                                     <  3:425840/138‑1 (MQ=255)
                                                                                                tGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTg                                   <  7:510556/140‑1 (MQ=255)
                                                                                                 ggTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGc                                  <  5:553414/140‑1 (MQ=255)
                                                                                                 ggTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGc                                  <  8:821868/140‑1 (MQ=255)
                                                                                                   tCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTg                                >  1:1334960/1‑140 (MQ=255)
                                                                                                        tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCg                             <  3:1227758/138‑1 (MQ=255)
                                                                                                        tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCg                             <  4:24887/138‑1 (MQ=255)
                                                                                                        tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGAt                           <  1:1033993/140‑1 (MQ=255)
                                                                                                        tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGAt                           <  1:681966/140‑1 (MQ=255)
                                                                                                        tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGAt                           <  6:396360/140‑1 (MQ=255)
                                                                                                        tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATAAACACGTTAACTATGTTCGGTATGGTGCTTGCTAt                           >  7:728659/1‑140 (MQ=255)
                                                                                                        tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCAGACGCTTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGAt                           <  5:129725/140‑1 (MQ=255)
                                                                                                        tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TAATCCCGACGATAGCCGTAGCGGAGGTTATTCTCGGGACGGTTGCGATCTTGTCGGCGGTCGGTTTCACCATCCACACGTTAACTATGTTCGGGATTGTGCTGGCGAt                           >  7:1208718/1‑140 (MQ=255)
                                                                                                            tGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTAGGGATGGTGCTGGCGATAggg                       >  1:87835/1‑140 (MQ=255)
                                                                                                            tGTTTTTGCAGAAATTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACTTTTGCGATCTTGTAGGCGGTAGGTTACACAATCAACACGTTAACTATGTTCGTGAAGGTGATGGCGATAggg                       >  2:590692/1‑140 (MQ=255)
                                                                                                                  tGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACtg                 >  7:351240/1‑140 (MQ=255)
                                                                                                                      gAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCACCACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACtggtgg             >  8:1065231/1‑140 (MQ=255)
                                                                                                                        aTTTCCGCGCCACAA‑TCATCCCGCCGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGCAt           >  8:527061/1‑140 (MQ=255)
                                                                                                                          ttCCGCGCCACAA‑TCATCCCGACGATTGCCGGACCGGTGGTTATTCTCGGGACGTTAGCGATCTTATCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGAGGGTGCTGGCGATAGGGTTACTGGTGGATGa         <  2:186833/140‑1 (MQ=255)
                                                                                                                             cgcgCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGc      <  2:1141095/140‑1 (MQ=255)
                                                                                                                             cgcgACACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATATTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGGTACTGGTGGATGACGc      <  1:440397/140‑1 (MQ=255)
                                                                                                                                gcCACAA‑TCATCCCGACTATTGCCTTACCGGTGGTTATTCTAGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCAt   <  6:136508/140‑1 (MQ=255)
                                                                                                                                 ccACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCATc  >  8:716481/1‑140 (MQ=255)
                                                                                                                                       |                                                                                                                                      
TGAAGACGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAATTCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCATC  >  NZ_CP022686/2408726‑2408995

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