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
A28 F35 I0 R1 174 9808.2 8488800 98.4% 8352979 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.98.6% 877.4 / 1.2 192pseudogene (1097/3115 nt)mdtFmultidrug efflux pump RND permease MdtF
Reads supporting (aligned to +/- strand):  ref base T (0/1);  major base . (84/105);  minor base C (2/0);  total (86/106)
Fisher's exact test for biased strand distribution p-value = 2.01e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
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.

Only 100 of 193 total aligned reads displayed.

TGAAGACGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAATTCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCATCG  >  NZ_CP022686/2408726‑2408996
                                                                                                                                       |                                                                                                                                       
  aaGACGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATccc                                                                                                                                  >  4:90915/1‑140 (MQ=255)
     aCGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCcgac                                                                                                                               <  6:749667/140‑1 (MQ=255)
     aCGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCcg                                                                                                                                 <  2:376274/138‑1 (MQ=255)
       ggTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCcgacgc                                                                                                                             >  7:973456/1‑139 (MQ=255)
       ggTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCcgacga                                                                                                                             >  5:406191/1‑140 (MQ=255)
         tttATCCTTACGCCACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCAGCGCCACAA‑TCATCCcgacga                                                                                                                             >  1:1052012/1‑138 (MQ=255)
         tttATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAtt                                                                                                                           >  5:41786/1‑140 (MQ=255)
         ttaaTCCTTACGACACCACACAGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGATTTTGCAGAATTTCAGCGCCACAA‑TCATCCCGACGAtt                                                                                                                           >  3:98322/4‑140 (MQ=255)
           tATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAtt                                                                                                                           >  2:321486/1‑138 (MQ=255)
            aTCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGcc                                                                                                                        >  3:338471/1‑140 (MQ=255)
            aTCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCATCGGCTTCCTGGTCTTGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATCGcc                                                                                                                        >  7:971579/1‑140 (MQ=255)
                 tACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTAcc                                                                                                                   >  4:209176/1‑140 (MQ=255)
                 tACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTAcc                                                                                                                   <  7:53318/140‑1 (MQ=255)
                 tACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTGGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTAcc                                                                                                                   <  8:156859/140‑1 (MQ=255)
                 tACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCGGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCCTCCCGACGATTGCCGTAcc                                                                                                                   <  5:573784/140‑1 (MQ=255)
                  aCGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCg                                                                                                                  >  3:1074507/1‑140 (MQ=255)
                   cGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTAcc                                                                                                                   >  2:378036/1‑138 (MQ=255)
                   cGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGAGCCACAA‑TCATCCCGACGATTGCCGTaac                                                                                                                   >  1:633224/1‑136 (MQ=255)
                    gACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCg                                                                                                                  >  1:680310/1‑138 (MQ=255)
                       accacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTGTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCggtggt                                                                                                             >  5:754337/1‑140 (MQ=255)
                       accacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCggtggt                                                                                                             <  3:519432/140‑1 (MQ=255)
                         cacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGTGTGAGGCTATCATCATCTTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGTTGGTTa                                                                                                           <  8:50348/140‑1 (MQ=255)
                         cacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCggtggt                                                                                                             >  1:523189/1‑138 (MQ=255)
                         cacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCggtggt                                                                                                             >  1:586169/1‑138 (MQ=255)
                              cGTTTATCAAAAATTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGCTTATtctc                                                                                                      >  4:466519/1‑140 (MQ=255)
                                tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATtctc                                                                                                      >  2:574398/1‑138 (MQ=255)
                                tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  8:217549/1‑140 (MQ=255)
                                tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  8:35218/1‑140 (MQ=255)
                                tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  6:354057/1‑140 (MQ=255)
                                tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCGGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  4:397954/1‑140 (MQ=255)
                                tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCATCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATGTCCGCGCCAC‑ACTCATCCCGACGATTGCCGTAGAGGTGGTTATTCTCgg                                                                                                    >  8:512793/1‑140 (MQ=255)
                                tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGATATCATCCTCGTCTTCCTGTTCATGTATCTGTTTTTGAAGAATATCCGCGCCACAA‑TCATCCCGACGATTGCAGTACCGGTGGTTATtctctg                                                                                                    >  3:684172/1‑138 (MQ=255)
                                tttATCAAAATTTCTATTCAGGAAGTTTTCAAAAAGCTGGTTGAGGCTATCATCCTCGTATTCCTGGTAATGTATCTGTTTTTGCAGAATATACGCGCCACAA‑TCATCCCGACGAGTGCGCTACCGGGGGTTATtctctg                                                                                                    >  3:29001/1‑138 (MQ=25)
                                 ttATCAAACTTTCTAATCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGGCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCggg                                                                                                   <  6:681974/140‑1 (MQ=255)
                                  tATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGCCGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  2:494101/1‑138 (MQ=255)
                                  tATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTCCCGGTGGTTATTCTAgg                                                                                                    >  2:144268/1‑138 (MQ=255)
                                  tATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  1:817712/1‑138 (MQ=255)
                                  tATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  2:104581/1‑138 (MQ=255)
                                  tATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGa                                                                                                  <  4:3074/140‑1 (MQ=255)
                                  tATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTAGCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGGTATTCTCgg                                                                                                    >  2:869696/1‑138 (MQ=255)
                                     aaaaaTTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTTTCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGAc                                                                                                 <  1:30046/137‑1 (MQ=255)
                                                    ggAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTcgg                                                                                <  4:350542/140‑1 (MQ=255)
                                                       aGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTcggc                                                                               >  1:898939/1‑138 (MQ=255)
                                                        gTTTTCAAACCGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGcggt                                                                            <  6:121235/140‑1 (MQ=255)
                                                          tttCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGAAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTGATTCTCGGGACGTGTGCGATGTTGGCGGcggtcg                                                                          >  4:962202/1‑140 (MQ=255)
                                                           ttCAAAACGCTGGTTGAGGCTAGCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAATGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGcggtcgg                                                                         <  3:54748/140‑1 (MQ=255)
                                                             cataaCGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCTCGCAACAA‑TCATCCCGACGATTGCCGTACAGGTGGTTATTCTAGGGAAGTTTGAGATCTTGTCGGcggtcgg                                                                         <  2:88496/135‑1 (MQ=255)
                                                             cAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGtt                                                                       <  4:573263/140‑1 (MQ=255)
                                                                 aCGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCAc                                                                   <  7:645170/140‑1 (MQ=255)
                                                                  cGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCAcc                                                                  <  4:482812/140‑1 (MQ=255)
                                                                     tGGTTGAGGCTATGATCCTAGTCTTCCTGGTCATGTATCTGTTTTAGCATAATTTCCGCGCCACAA‑TCATCCCGACGATTGCAGTACCGGTTGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTAACCa                                                                 <  1:941718/138‑1 (MQ=255)
                                                                     tGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                               <  4:601034/140‑1 (MQ=255)
                                                                     tGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                               <  3:47052/140‑1 (MQ=255)
                                                                       gtggAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAAGTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATGaa                                                             <  6:173988/137‑1 (MQ=255)
                                                                       gTTGTGGCTATCATCCTCGTCTTCCTGGTCATGTATCTTTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGACGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTATCGGCGGTCGGTTTCACCATCaa                                                             <  6:1019521/140‑1 (MQ=255)
                                                                       gTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGGTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCaa                                                             <  4:518029/140‑1 (MQ=255)
                                                                       gTTGAGGCTATCATCCTCGGCTTCCTGGTCATGAATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                               <  2:266113/138‑1 (MQ=255)
                                                                       gTTGAGGCTATCATCCGCGTCTTCCTGGTCCTGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                               <  1:991592/138‑1 (MQ=255)
                                                                            ggCTATCATCCTCGTCTTCCTGGGCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGt                                                        <  7:91055/140‑1 (MQ=255)
                                                                               tATCATCCTCGTCTTCCTGGTCATGTATCTTTTTTTGCAGAATTTCCGAGCCACAA‑TCATCCCGACTATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGTTCGGTTTCAACATCAACACGtt                                                       <  1:239504/138‑1 (MQ=255)
                                                                               tATCATCCTCGTCTTCCTGGTCATGTAGCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTaa                                                     <  8:105407/140‑1 (MQ=255)
                                                                               tATCATCCTCGTCTTCCTGGGCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTaa                                                     <  7:483885/140‑1 (MQ=255)
                                                                                 tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGTTGGTTATTCTCGGGACGTTTGCGAGCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACt                                                   >  4:691459/1‑140 (MQ=255)
                                                                                 tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGTTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTaaat                                                   >  7:435445/1‑138 (MQ=255)
                                                                                 tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACt                                                   <  8:313140/140‑1 (MQ=255)
                                                                                 tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACt                                                   <  5:890547/140‑1 (MQ=255)
                                                                                 tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACt                                                   <  5:315247/140‑1 (MQ=255)
                                                                                 tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACt                                                   <  6:830142/140‑1 (MQ=255)
                                                                                   atacTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGCTTGCCGTACCGGAGGTTATTCTCGGGACGTTTTCGATCTTGTCGGAGGTCGCTTTCACCATCACCACGATAACt                                                   >  1:427250/4‑138 (MQ=255)
                                                                                    tcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATg                                                <  7:353582/140‑1 (MQ=255)
                                                                                     ccTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATCGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTAt                                                 <  2:30088/138‑1 (MQ=255)
                                                                                       tCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGTTGGTTTTTCTCGGGACGTTTGCGATCTTTTCGGCTGTCGGTTTCACAATAAACACGTTAAATATGTTc                                             >  4:257076/1‑140 (MQ=255)
                                                                                         gTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTAcc                                                                                                                   <  5:251527/68‑1 (MQ=255)
                                                                                         gTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTAcc                                                                                                                   >  6:251527/1‑68 (MQ=255)
                                                                                           catCCTGGTCATGTATCTGTTTTTTCAGAATTTCCGCGACACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGGTTGCGATCTTGTCGGCTGGCGGTTTCACCATCATCCCGGTATCTATGTGCGGGa                                         <  6:909476/138‑1 (MQ=255)
                                                                                           cTTGCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCCCCACAA‑TCATCCCGACGATTGCCGTAACGGTGGGTATTCTGGGGTCGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCTACACGTTAACTATGTTCGGGa                                         <  5:642453/140‑1 (MQ=255)
                                                                                           cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACTTTAACTATGTTCgg                                           <  2:582513/138‑1 (MQ=255)
                                                                                           cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCgg                                           <  2:931800/138‑1 (MQ=255)
                                                                                           cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  7:580758/140‑1 (MQ=255)
                                                                                           cTTCCTGGTCATGTATCTGTGTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  8:858502/140‑1 (MQ=255)
                                                                                              ccTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTAATCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACAATCAACAAGTTAACTATGTTCGGGATgg                                      >  7:315393/1‑140 (MQ=255)
                                                                                                 ggTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGt                                     <  1:53715/138‑1 (MQ=255)
                                                                                                 ggTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGc                                   <  8:420658/140‑1 (MQ=255)
                                                                                                     aTGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAaca                                                           <  8:721450/112‑1 (MQ=255)
                                                                                                     aTGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAaca                                                           >  7:721450/1‑112 (MQ=255)
                                                                                                       gTATCTGTTTTTGCATAATTTCCGCGCCACAA‑TCATCCCGACGATTTCCGTACCGGGGGTTTTTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGa                             <  5:856213/140‑1 (MQ=255)
                                                                                                        tATCTGTTTTTTCAGAATTTCCTCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTATCTGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACTATAACTATTTTCGGGATGTTGATGGCGAt                            >  8:477693/1‑140 (MQ=255)
                                                                                                        tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCGCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGGCGGTTTCACCATCAACACGTTAACTATTTTCGGGATGGTGCTGGCGAt                            <  5:617129/140‑1 (MQ=255)
                                                                                                        tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGAt                            <  4:617939/140‑1 (MQ=255)
                                                                                                        tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGAt                            <  5:133348/140‑1 (MQ=255)
                                                                                                         aTCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGa                             >  2:466094/1‑138 (MQ=255)
                                                                                                          tCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTATCGGGACGTTTGCGATATTGTCGGCGGTCGGTTTCACCATCAACACTTTAACTATGTTCGGGATGGTGCTGTCGAt                            >  1:116199/1‑138 (MQ=255)
                                                                                                             gTTTTTGCATCATTTCCGCGCAACAATAC‑TCCCGACGATTGCATTTCCGGTGGGTATTCTCGGGACGTTTGCGATCGTGTCGGCGGTCGGGATCACCATCTCCACTTTAACTTTTTTCGGGATGGTGGTGGCGATAGGGt                       <  8:800206/140‑1 (MQ=255)
                                                                                                             gTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCTGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGt                       <  6:938295/140‑1 (MQ=255)
                                                                                                             gTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAgg                         <  1:785539/138‑1 (MQ=255)
                                                                                                                 ttGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTTCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGAGGGCGATAGGGGTACt                   >  3:958864/1‑140 (MQ=255)
                                                                                                                  tGCAGAATTTCCGCGCCACAA‑TCAACCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGAACTTGTCGGCGGTCGGTTTCACCATCAACAAGTTAACTAAGTTCGGGATGGTGCAGCCGATAGTGTTAc                    >  2:18423/1‑138 (MQ=255)
                                                                                                                    cAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGTTTACtg                  >  2:733562/1‑138 (MQ=255)
                                                                                                                          ttCCGCGCCACAA‑TCATCCCGACGATTGCCGTCCCGGTGGTTATGCTCGGGACGTTTGCGATCTTGTCGGCTGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCGGGCGATAGGGTTACTGGTGGATGa          <  7:152215/140‑1 (MQ=255)
                                                                                                                                 ccACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCTGTCGGTTTCACCATCCACACGTTAACTATGTTCGGGATGGTGCTGGGGATAGGGTTACTGGTGGATGACGCCATc   >  5:53940/1‑140 (MQ=255)
                                                                                                                                       |                                                                                                                                       
TGAAGACGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAATTCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCATCG  >  NZ_CP022686/2408726‑2408996

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