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
A30 F36 I0 R1 275 10897.2 10515506 98.4% 10347257 135.1

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.96.9% 1124.5 / 20.9 255pseudogene (1097/3115 nt)mdtFmultidrug efflux pump RND permease MdtF
Reads supporting (aligned to +/- strand):  ref base T (0/1);  major base . (111/136);  minor base A (3/2);  total (114/141)
Fisher's exact test for biased strand distribution p-value = 6.61e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.25e-01
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Polymorphic indel expands or contracts a homopolymer stretch.

Only 100 of 257 total aligned reads displayed.

TGAAGACGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAATTCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCATCG  >  NZ_CP022686/2408726‑2408996
                                                                                                                                       |                                                                                                                                       
        gtgtATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGCTATCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCcgacg                                                                                                                              <  1:416446/135‑1 (MQ=255)
        gTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCcgacg                                                                                                                              <  2:758128/138‑1 (MQ=255)
         tttATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCcgacga                                                                                                                             >  3:21208/1‑138 (MQ=255)
         tttATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAtt                                                                                                                           >  8:390590/1‑140 (MQ=255)
           tATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAtt                                                                                                                           <  4:53340/138‑1 (MQ=255)
           tATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAtt                                                                                                                           >  2:304506/1‑138 (MQ=255)
             tCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGc                                                                                                                         <  1:713993/138‑1 (MQ=255)
                  aCGATACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGGCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCCCAA‑TCATCCCGACGCTTGCCGTACCg                                                                                                                  >  6:861759/1‑140 (MQ=255)
                  aCGACACCACCCCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTACGGGTCATTTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCAGTACCg                                                                                                                  >  8:32713/1‑140 (MQ=255)
                   cGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTAcc                                                                                                                   >  2:956698/1‑138 (MQ=255)
                   cGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCgg                                                                                                                 <  7:1081941/140‑1 (MQ=255)
                   cGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCgg                                                                                                                 >  6:198305/1‑140 (MQ=255)
                    gACACCACACCGTTTATCAAAATTTCTATTCAGGAATTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCg                                                                                                                  >  1:395309/1‑138 (MQ=255)
                       accacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCggtggt                                                                                                             >  8:103051/1‑140 (MQ=255)
                         cacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCggtggt                                                                                                             >  1:602627/1‑138 (MQ=255)
                         cacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCCTCCTGGTCATGTATCTGTTTTTTCAGAATTTCCGCGCCA‑AAATCATCCCGACGATTGCCGTACCgggggg                                                                                                             >  4:1157108/1‑137 (MQ=255)
                          acacaGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGACTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGtt                                                                                                            >  3:175114/1‑138 (MQ=255)
                           caccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTAtt                                                                                                         >  8:682523/1‑140 (MQ=255)
                                tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTTAGGGTATCATCCTCGGCTTCCTGGTCATGTATCTGTTTTTGCAGAAATTCCGCGCCACAA‑TCATCCCGACGATTGCCGTAACGGTGGTTATTCTAgg                                                                                                    >  7:943431/1‑140 (MQ=255)
                                tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  5:1047408/1‑140 (MQ=255)
                                tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTACCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAGAGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  5:179974/1‑140 (MQ=255)
                                  tataAAAATTTCTATTCATGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATATCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGa                                                                                                  <  7:86829/140‑1 (MQ=255)
                                  tATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGCGTCTATCATCATCGTCTTCCTGGTCATTTATATGTTTTTGAAGAATTTCCGCTCCACAA‑TCATCCCGACGATTGACGTACAGGTGGTTATTCTAgg                                                                                                    >  4:16572/1‑138 (MQ=255)
                                  tATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGATTTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  2:1245769/1‑138 (MQ=255)
                                  tATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  4:1070442/1‑138 (MQ=255)
                                  tATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  3:1031804/1‑138 (MQ=255)
                                  tATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGAATAATTTCCGCGCCACAA‑TCATCCCGACGATTTCAGTAACGGTGGGTATTCTAgg                                                                                                    >  4:226918/1‑138 (MQ=255)
                                     cAAAATTTCTATTCAGGAAGTTTTCAAACCGCTGGTTGAGCCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGAc                                                                                                 <  2:362304/138‑1 (MQ=255)
                                     cAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTGATTCTCGGGAc                                                                                                 >  3:385228/1‑138 (MQ=255)
                                     aaaaaTTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGTCTATCATCCTGGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTTGTTATTCTCGTGAc                                                                                                 <  2:583106/137‑1 (MQ=255)
                                          tttCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCGTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTg                                                                                            >  3:1244302/1‑138 (MQ=255)
                                          tttCTATTCAGGAAGTTCTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCg                                                                                          <  6:634195/140‑1 (MQ=255)
                                                          tttCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGcggtcg                                                                          >  6:767769/1‑140 (MQ=255)
                                                          tttCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGcggt                                                                            <  1:956698/138‑1 (MQ=255)
                                                             cAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGtt                                                                       >  6:696888/1‑140 (MQ=255)
                                                              aaaaCGCTGGGTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGttt                                                                      <  6:1063191/140‑1 (MQ=255)
                                                                     tGGTTGAGGCTATCATCCTCGGCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                               <  7:1173037/140‑1 (MQ=255)
                                                                       gTTGAGTCTATCATCTTGGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGGCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                               <  4:1339181/138‑1 (MQ=255)
                                                                       gTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                               <  3:1233106/138‑1 (MQ=255)
                                                                       gTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCaa                                                             <  5:989256/140‑1 (MQ=255)
                                                                       gTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCaa                                                             <  8:436886/140‑1 (MQ=255)
                                                                           aGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAaca                                                           <  1:101262/138‑1 (MQ=255)
                                                                           aGGCTATCATCCGCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAaca                                                           <  4:839223/138‑1 (MQ=255)
                                                                            ggCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAacac                                                          <  3:261229/138‑1 (MQ=255)
                                                                            ggCTATCATCCTCGTCTTCCTGGTCAGGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAacac                                                          <  4:1017972/138‑1 (MQ=255)
                                                                               tATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGGTATTCTCTGGACGTTTGCGATCTTGTCGGCGGTCGGGTTCACCATCAACACGTTaa                                                     <  7:513477/140‑1 (MQ=255)
                                                                               tATCATCCGCGTCTTCCTCGTCATGTATCTGTTTTTGCAGAATATCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTaa                                                     <  8:176868/140‑1 (MQ=255)
                                                                                atcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTa                                                      >  3:435692/1‑138 (MQ=255)
                                                                                 tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACTA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCTGTCGGTTTCACCATCAACACGTTAACt                                                   <  6:30878/140‑1 (MQ=255)
                                                                                 tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACt                                                   <  8:476647/140‑1 (MQ=255)
                                                                                 tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACATTAACt                                                   >  7:755662/1‑140 (MQ=255)
                                                                                 tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGACGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACt                                                   >  5:917241/1‑140 (MQ=255)
                                                                                      cTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATg                                                <  3:686054/138‑1 (MQ=255)
                                                                                      cTCGTCTTACTGGGCATGTATCTGTTTTTGCAGAATTTCCGAGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTTTTCTCGGGACGTTTGCGATCTTGTCTGCGGTCGGTTTCACCATCAACACGTTAACTATGtt                                              <  7:246435/140‑1 (MQ=255)
                                                                                        cGTCTTCCTGGTCATGTATCTGTTTTTTCAGAATTTCCGCGCCACAA‑TCAACCCGACGATTGCCGTACCGCTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTAACCAACAACACGTAAAATATGTTCg                                            >  8:731607/1‑140 (MQ=255)
                                                                                        cGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCaa                                                             <  8:814393/123‑1 (MQ=255)
                                                                                          tCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTCGTCGGCGGTCGGTTTCACCATc                                                               <  4:620561/119‑1 (MQ=255)
                                                                                           cTTCCTGTTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TAATCCCGACGATTGCCGTACCGTTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGTTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  5:235648/140‑1 (MQ=255)
                                                                                           cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATg                                                <  2:1359958/133‑1 (MQ=255)
                                                                                           cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCgg                                           <  4:434189/138‑1 (MQ=255)
                                                                                           cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  5:115629/140‑1 (MQ=255)
                                                                                           cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  6:1247513/140‑1 (MQ=255)
                                                                                           cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  6:964893/140‑1 (MQ=255)
                                                                                           cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTCGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  6:1084715/140‑1 (MQ=255)
                                                                                           cTTCCTGGTCATGTATCTGTTTTAGCAGAATTTCGGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCCGGACGTGTGCGATCTTGTCGGCGGGCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  7:1249786/140‑1 (MQ=255)
                                                                                           cTTCCTGGTCATGTATCTGTTTATGCATAATTTCCGCGCCACAA‑TCATCCCGACGATATCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  7:585995/140‑1 (MQ=255)
                                                                                           cTTCCGTGTCATGTATCTGTTTTTTCATAATTTCCGCGCCACAA‑TCATCCCGACGATTGACGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  8:594683/140‑1 (MQ=255)
                                                                                                tGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATgg                                      <  2:1142876/138‑1 (MQ=255)
                                                                                                tGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATgg                                      >  2:486820/1‑138 (MQ=255)
                                                                                                tGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATgg                                      >  3:1120205/1‑138 (MQ=255)
                                                                                                tGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTATCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATgg                                      >  1:142710/1‑138 (MQ=255)
                                                                                                 ggTCATGTATCTGTTTTTGCATAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTTTTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGt                                     <  4:1097678/138‑1 (MQ=255)
                                                                                                   tCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGc                                   >  4:230751/1‑138 (MQ=255)
                                                                                                   tCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGAGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGc                                   >  4:813092/1‑138 (MQ=255)
                                                                                                        tagatGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGAGCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGAt                            <  5:835450/136‑1 (MQ=255)
                                                                                                        tATCTGTTTTTGCAGACTTTCCGCGCCACCA‑TCATCCCGACGATTGCCGTACCGGGGGTTATTCGCGGGACGTTTGCGATCTTGTCGGCGGTCGGGTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCg                              <  1:786084/138‑1 (MQ=255)
                                                                                                        tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCg                              <  4:1277244/138‑1 (MQ=255)
                                                                                                        tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCg                              <  2:79562/138‑1 (MQ=255)
                                                                                                        tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCg                              <  4:703755/138‑1 (MQ=255)
                                                                                                        tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGAt                            <  5:550832/140‑1 (MQ=255)
                                                                                                        tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGAt                            >  7:867312/1‑140 (MQ=255)
                                                                                                        tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGAt                            <  7:323557/140‑1 (MQ=255)
                                                                                                        tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATACCTACTATTGCCGTACCGTTGGTTATTCTCGGGACGTTTTCGAGCTTGTCTGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGTGATGGTGCTTGCGAt                            <  5:828962/140‑1 (MQ=255)
                                                                                                         aTCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGAGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGa                             >  1:1333638/1‑138 (MQ=255)
                                                                                                            tGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGTCGTACCGGTGGGTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAggg                        >  5:317711/1‑140 (MQ=255)
                                                                                                            tGTTTTTGCAGAAATTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAggg                        <  5:436386/140‑1 (MQ=255)
                                                                                                             gattttGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAgg                         <  2:990560/136‑1 (MQ=255)
                                                                                                             gTTTTTGCAGAATTTCCGCGCCACAA‑TGATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAgg                         <  2:222003/138‑1 (MQ=255)
                                                                                                             gTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGTCGTACCGGTGGGTATTCTCGGGACGTTTCCGATCTTGTCGGCGGTCGGTTTCACCATCAACCCGTTAACTATGTTCGGGATGGTGCTGGCGAAAgggg                       >  5:1211153/1‑139 (MQ=255)
                                                                                                              tttttGCAGAATTTCCGCTCCTCAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCTGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCTGGATGGTGCTGGCGATAGGGtt                      <  6:582301/140‑1 (MQ=255)
                                                                                                              tttttGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAggg                        >  2:1071705/1‑138 (MQ=255)
                                                                                                                  tGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACtg                  >  8:1194383/1‑140 (MQ=255)
                                                                                                                    cAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACtg                  >  3:916940/1‑138 (MQ=255)
                                                                                                                    cAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACtg                  >  1:975806/1‑138 (MQ=255)
                                                                                                                          ttCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGAt            >  3:767367/1‑138 (MQ=255)
                                                                                                                          ttCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGGTACTGGTGGAt            >  1:1114973/1‑138 (MQ=255)
                                                                                                                             cgcgGCACAA‑TCATCACGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCATCACGTTAACTATTTTCGGGTTGGTTCTGGCGATAGGGTTACTGGTGGATGAc         <  3:870081/138‑1 (MQ=255)
                                                                                                                                  cacaA‑TCATCCCTCCGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCATCg  <  6:444483/140‑1 (MQ=255)
                                                                                                                                  cacaA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCAt    <  2:829347/138‑1 (MQ=255)
                                                                                                                                  cacaA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCAt    <  3:570336/138‑1 (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