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
A29 F2 I0 R1 207 10827.9 9263290 98.4% 9115077 135.4

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.98.0% 1111.3 / 12.1 247pseudogene (1097/3115 nt)mdtFmultidrug efflux pump RND permease MdtF
Reads supporting (aligned to +/- strand):  ref base T (0/0);  major base . (105/137);  minor base A (3/1);  total (108/139)
Fisher's exact test for biased strand distribution p-value = 3.22e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.
Rejected as polymorphism: Polymorphic indel expands or contracts a homopolymer stretch.

Only 100 of 253 total aligned reads displayed.

AGCCTGAAGACGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAATTCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCATCG  >  NZ_CP022686/2408722‑2408996
                                                                                                                                           |                                                                                                                                       
aGCCTGAAGACGGTTTATCCTTACGACACCACCCCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAAt                                                                                                                                         >  4:973465/1‑140 (MQ=255)
 gCCTGAAGACGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAAtc                                                                                                                                        >  3:925878/1‑139 (MQ=255)
   cTGAAGACGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGATGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCTGAATTTCCGCGCCACAAtc                                                                                                                                        >  5:948041/1‑137 (MQ=255)
    tGAAGACGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCATAATTTCCGCGCCACAAtcatc                                                                                                                                     <  1:393823/140‑5 (MQ=255)
           ggTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCTCCACAA‑TCATCCcgacga                                                                                                                             >  1:686903/1‑140 (MQ=255)
            gTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCcgacg                                                                                                                              <  7:319299/138‑1 (MQ=255)
            gTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCAGACGAt                                                                                                                            >  2:196835/1‑140 (MQ=255)
               tATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTTGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAtt                                                                                                                           >  6:362444/1‑138 (MQ=255)
               tATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAtt                                                                                                                           <  7:766729/138‑1 (MQ=255)
                aTCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGcc                                                                                                                        >  2:984474/1‑140 (MQ=255)
                 tCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGc                                                                                                                         <  5:1093764/138‑1 (MQ=255)
                  ccTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGGCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGcc                                                                                                                        >  6:973365/1‑138 (MQ=255)
                     tACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCTCCACAA‑TCATCCCGACGATTGCCGTa                                                                                                                     <  8:886545/138‑1 (MQ=255)
                     tACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTAcc                                                                                                                   >  3:690069/1‑140 (MQ=255)
                      aCGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCg                                                                                                                  <  4:1152692/140‑1 (MQ=255)
                      aCGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCg                                                                                                                  <  4:491295/140‑1 (MQ=255)
                       cGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTGCGGGTCATGTATCTGTTTTTGCAGCATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTAcc                                                                                                                   >  7:541575/1‑138 (MQ=255)
                       cGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTAcc                                                                                                                   >  8:310795/1‑138 (MQ=255)
                           accacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCggtggt                                                                                                             >  2:507396/1‑140 (MQ=255)
                             cacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGttt                                                                                                           >  4:1031137/1‑139 (MQ=255)
                               caccTTTTATCAAAATTTCTATTCATGAAGTTTTCAAAACGCTGGTTGAGGGTATCATCCTCTTCTTCCTGGTCATGTATCTGTTTTTACATAATTTCCTCGCCACAA‑ACATCCCGACTATTGCCGTACATGTTGTTa                                                                                                           >  8:81693/1‑138 (MQ=255)
                               caccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTCGTAGAGGCTATCATCCACGTCTTCCTGGTCATGTATCTGTATTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAATGCCGTACCGGTGGTTa                                                                                                           >  5:715194/1‑138 (MQ=255)
                                 ccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAt                                                                                                                            <  5:824526/119‑1 (MQ=255)
                                    tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  3:811587/1‑140 (MQ=255)
                                    tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    <  3:1113188/140‑1 (MQ=255)
                                    tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  1:339752/1‑140 (MQ=255)
                                    tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTCGGAATTCTCgg                                                                                                    >  2:63480/1‑140 (MQ=255)
                                    tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCA‑AAATCATCCCGACGATTGCCGTACAGGTGGTTATTCTCgg                                                                                                    >  2:1150377/1‑140 (MQ=255)
                                    tttATCAAAATTTCTATTCAGGAAGTTATCAAAACGCTGGTTGAGGCTATCATCAGCGTCTTACTGGTCATGTATCTGTGTTTGCTGAATTTCCGCGCC‑CAAATCATCACGACGATTGACGTACCGGTGGTGAttgtg                                                                                                      >  6:489128/1‑135 (MQ=255)
                                    tttATAAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGTTTGAGGCTATCATCCTCGTCTTGCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATACCGCCGATTGCCGTCCAGGTGGTTATTCTCgg                                                                                                    >  3:509911/1‑140 (MQ=255)
                                      tATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  5:487467/1‑138 (MQ=255)
                                         cAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTTCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGt                                                                                               <  1:23997/140‑1 (MQ=255)
                                         cAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGAc                                                                                                 <  5:921473/138‑1 (MQ=255)
                                         cAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGAGCCACAA‑TCATCCCGACGATTGCCGTTCCGGTGGTTTTTCTCGGGAc                                                                                                 >  6:841908/1‑138 (MQ=255)
                                            aaTTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAAATTCAGCGCCACAA‑ACATCCCGACCATTGCCGTAACGGTGGTTATTCTCGGGCCGTTTg                                                                                            >  1:1021041/1‑140 (MQ=255)
                                              tttCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCAGCCTCGTCGTCCTGGTCATGTATCGGTTTATGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGGGGGTATTCTCGGGCCGTGTGCg                                                                                          >  2:732109/1‑140 (MQ=255)
                                                            tttttCAAAACGCTGGTTGAGGATATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGcggt                                                                            <  2:287887/139‑1 (MQ=255)
                                                             ttttCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTcggcgg                                                                             <  8:669875/138‑1 (MQ=255)
                                                              tttCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGCCGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGcggtcg                                                                          >  2:613104/1‑140 (MQ=255)
                                                                 cAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGcggtcgg                                                                         <  6:43814/138‑1 (MQ=255)
                                                                  aaaaCGCTTGTTGAGGCTATAATACTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCAGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTAGGttt                                                                      <  4:275913/140‑1 (MQ=255)
                                                                  aaaaCGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGttt                                                                      <  3:394939/140‑1 (MQ=255)
                                                                   aaaCGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGtt                                                                       <  6:686195/138‑1 (MQ=255)
                                                                       gCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGGGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCAccc                                                                 >  1:1099488/1‑139 (MQ=255)
                                                                         tGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCa                                                                 <  5:1051383/138‑1 (MQ=255)
                                                                         tGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                               <  1:802450/140‑1 (MQ=255)
                                                                         tGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                               <  1:805092/140‑1 (MQ=255)
                                                                         tGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCACGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                               <  3:704316/140‑1 (MQ=255)
                                                                         tGGTTGAGGCTATCATAATCGTCTGCCTGGTCATGTATCTTTTTTTGCAGATTTTCCGAGCCACTA‑TCATCCCGACGATTGAATTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGAGGTCGGTTTCACCATc                                                               <  4:182632/140‑1 (MQ=255)
                                                                         tGGATGAGGCTATCATCCTCGTATTCCTGGTCATGTATCTTTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCTACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCa                                                                 <  7:899611/138‑1 (MQ=255)
                                                                         gggTTGAGGCTATCTTCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGATTTTGCGAGCCACAA‑TAATCCCGACGATTGCCGTACCGGTGGTTATTCTCGTGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                               <  4:751384/139‑1 (MQ=255)
                                                                           ggtGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGGACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                               <  6:102883/136‑1 (MQ=255)
                                                                           ggtGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGAAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCTGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                               <  8:392896/136‑1 (MQ=255)
                                                                           gTTGAGGCTATGATCCTCGTCTTCCTGTTCATGTATCTGTTTTTGCAGAATTTCCGCGCCAC‑ACTCATGCCGACGATTGCCGTAGCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCaa                                                             <  4:711603/140‑1 (MQ=255)
                                                                           gTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGGGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCaa                                                             <  1:978721/140‑1 (MQ=255)
                                                                                  cTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCAACCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCCCCATCAACACGt                                                        >  5:621730/1‑138 (MQ=255)
                                                                                     tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTaa                                                     <  5:399768/138‑1 (MQ=255)
                                                                                     tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTaa                                                     <  6:569994/138‑1 (MQ=255)
                                                                                     tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGGCGGTTTCACCATCAACACGTTaa                                                     <  8:1040241/138‑1 (MQ=255)
                                                                                     tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGACGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACt                                                   >  2:1115728/1‑140 (MQ=255)
                                                                                     gcatcCTCGTCTTCCTGGTCATGTATCTGATTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTaa                                                     <  8:161214/137‑1 (MQ=255)
                                                                                       atcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACt                                                   >  6:843286/1‑138 (MQ=255)
                                                                                         ccTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGt                                               >  4:611588/1‑140 (MQ=255)
                                                                                          cTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGtt                                              >  2:450095/1‑140 (MQ=255)
                                                                                             gTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTc                                             >  8:447814/1‑138 (MQ=255)
                                                                                             gTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCgg                                           >  4:317017/1‑140 (MQ=255)
                                                                                               catCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  2:1005432/138‑1 (MQ=255)
                                                                                               cTTCCTTGTCATTTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGGCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCgg                                           <  6:615279/138‑1 (MQ=255)
                                                                                               cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  2:638680/140‑1 (MQ=255)
                                                                                               cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  4:442078/140‑1 (MQ=255)
                                                                                               cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  4:935693/140‑1 (MQ=255)
                                                                                               cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGAGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTCTTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCgg                                           <  8:687359/138‑1 (MQ=255)
                                                                                               cTTCCTGGTCATGTATCTGTTTTTGCAGAATTACCGCGCCACAA‑TCATCACGACGATTGCCGTACCGTTGGTTATTCTAGGGACGATTGCGATCTTGTCGGAGGTCGGTTTAACCATCAACACTTTAACAATGTTCgg                                           >  8:38207/1‑138 (MQ=255)
                                                                                               cTTCCTGGTCATGTATCTGTGTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGGTTCACCATCAACACGTTAACTATGTTCgg                                           <  6:884723/138‑1 (MQ=255)
                                                                                               cTTCCTGGTCATGTATCTGGTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  4:66859/140‑1 (MQ=255)
                                                                                                 tCCTGGTCATGTTTATGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTTCCGTACCGGTGGTTATTCTCGGGACGGTTGCGATCTTGTCGGCGGTCGTTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  5:211898/138‑1 (MQ=255)
                                                                                                    tGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATgg                                      <  5:244879/138‑1 (MQ=255)
                                                                                                     gttCATGTATCTGTTTTTGCAGAATTTCCGCGACACAA‑TCATCCCGACGATTGCCGTACCGGTGGGTATGCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGc                                   <  2:717298/138‑1 (MQ=255)
                                                                                                     ggTAATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGACGTTCAGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGc                                   <  3:257706/140‑1 (MQ=255)
                                                                                                      gTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTg                                    <  8:789181/138‑1 (MQ=255)
                                                                                                       tCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGc                                   >  7:1072433/1‑138 (MQ=255)
                                                                                                           gTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCCACACGTTAACTATGTTCGGGATGGTGCTGGc                               >  5:575125/1‑138 (MQ=255)
                                                                                                           gTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TAATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTAGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGcta                             >  2:327281/1‑138 (MQ=255)
                                                                                                            tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGAt                            <  3:123809/140‑1 (MQ=255)
                                                                                                            tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGAGGTTATTCTCGGGACGTTTGCGATCTTGTCGTCGGTCGGTTTCACCATCAACACGTTAACTATGATCGGGATGGTGCTGGCGAt                            <  3:666907/140‑1 (MQ=255)
                                                                                                             aTCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCgg                                           <  8:54652/124‑1 (MQ=255)
                                                                                                                 gTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAgg                         <  5:3758/138‑1 (MQ=255)
                                                                                                                  tttttGCAGAATTACCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTGCACCATCAACACGTTATCTATGTTCGGGATGGTGCTGGCGATAGGGtt                      <  2:5585/140‑1 (MQ=255)
                                                                                                                   ttttTCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGt                       <  7:616229/138‑1 (MQ=255)
                                                                                                                   ttttGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGcggt                                                                            >  2:132672/1‑85 (MQ=255)
                                                                                                                   ttttGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGcggt                                                                            <  1:132672/85‑1 (MQ=255)
                                                                                                                   ttttGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTa                     <  2:389816/140‑1 (MQ=255)
                                                                                                                    tttGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTAc                    >  3:167560/1‑140 (MQ=255)
                                                                                                                      tGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACt                                                   <  3:1085875/107‑1 (MQ=255)
                                                                                                                              ttCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGAt            >  6:1123358/1‑138 (MQ=255)
                                                                                                                                 cgcgCCACAA‑TCATCCCGCCGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGc       <  1:165755/140‑1 (MQ=255)
                                                                                                                                    gcCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCAt    <  1:667428/140‑1 (MQ=255)
                                                                                                                                      cacaA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACCCGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCATCg  <  4:820982/140‑1 (MQ=255)
                                                                                                                                      cacaA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCATCg  <  1:1000653/140‑1 (MQ=255)
                                                                                                                                      cacaA‑TCATCCCGACGATTGCCGTACCGGGGGGTATTCTCGGGACGTTTGCGATCTTGTCGGAGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCATCg  <  3:297856/140‑1 (MQ=39)
                                                                                                                                           |                                                                                                                                       
AGCCTGAAGACGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAATTCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCATCG  >  NZ_CP022686/2408722‑2408996

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

GATK/CNVnator alignment

N/A