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 F36 I0 R1	179	9550.8	8038540	98.3%	7901884	136.2

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_CP022686	2,408,861	0	T	.	97.4%	1035.9 / 10.8	232	pseudogene (1097/3115 nt)	mdtF	multidrug efflux pump RND permease MdtF
Reads supporting (aligned to +/- strand): ref base T (0/1); major base . (101/125); minor base A (3/0); total (106/126)
Fisher's exact test for biased strand distribution p-value = 9.22e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.28e-01
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 234 total aligned reads displayed.

GCCTGAAGACGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAATTCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCATCG  >  NZ_CP022686/2408723‑2408996

     aaGACGGTTTATCCTTACGCCACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATccc                                                                                                                                  >  6:671732/1‑140 (MQ=255)

     aaGACGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATccc                                                                                                                                  <  7:332082/140‑1 (MQ=255)

     aaGACGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTAAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGTTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATccc                                                                                                                                  >  2:968907/1‑140 (MQ=255)

        aCGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCcgac                                                                                                                               <  4:320745/140‑1 (MQ=255)

          ggTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTGTTTGCAGAATTTCCGCGACACAA‑TCATCCcgacga                                                                                                                             >  1:70519/1‑140 (MQ=255)

           gTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACTCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAt                                                                                                                            <  2:181715/140‑1 (MQ=255)

           gTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAt                                                                                                                            <  5:847169/140‑1 (MQ=255)

            tttATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCCTCCCGACGAtt                                                                                                                           >  3:224395/1‑140 (MQ=255)

            tttATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCA‑AAATCATCACGACTAtt                                                                                                                           >  6:735970/1‑140 (MQ=255)

            tttATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCAGGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAtt                                                                                                                           >  1:634485/1‑140 (MQ=255)

            tttATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGACTTCCTGGTCAATTATCTGTTTTTGCAGAATTTCCGCGCCTCAA‑TCATCCCGACGAtt                                                                                                                           >  1:510693/1‑140 (MQ=255)

            tttATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTAGTCTTCCAGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAtt                                                                                                                           >  3:85476/1‑140 (MQ=255)

            tttATCCTTACGACACCAAACCTTTTTTCAAAATTTATATAAATGAAGTTTTCAAAAGTCTGGATGAGGGTATCATCGACGGATTAATTTTAATGTTTATGTTTTTGCAGAATTTCAGCGCCACAA‑TCATCCCGAAGAtt                                                                                                                           >  8:665353/1‑140 (MQ=255)

                tCCTTACGACACCACACCGGTTATCAAAATGTCTATGCAGGCAGGTTTCAAAACGCTGGGTGAGGCTAGCATCCGCGTCTGCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCg                                                                                                                       <  7:498167/140‑1 (MQ=255)

                    tACGACACCACCCCGTTTATCAATATTTCTATTCAGGAAGTTTTCAAAACGCTGGATGAGGCTATCATCCTCGTCTTCCTGTTCATGTATCTGTTGTTGCAGATTTTCCGCGCC‑GAAATCATCACGACGATTGcctatcc                                                                                                                   >  6:802258/1‑135 (MQ=255)

                    tACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGTCTATAATCCTCGTCTTCCTGTTCATGAATCTGTTTTTGCAGAATTTCCGCGCCAC‑ACTCAAACCGACGATTGCCGTAcc                                                                                                                   >  6:351670/1‑140 (MQ=255)

                    tACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGGTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTAcc                                                                                                                   <  1:476892/140‑1 (MQ=255)

                      cGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCgg                                                                                                                 <  1:25253/140‑1 (MQ=255)

                          accacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCggtggt                                                                                                             <  3:752475/140‑1 (MQ=255)

                          accacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACAggtggt                                                                                                             >  4:398111/1‑140 (MQ=255)

                          accacaccGTTTATAAAAATTTCTATTCAGGAATTTTTCAATACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTTCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCggtggt                                                                                                             <  3:346335/140‑1 (MQ=255)

                            cacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGttt                                                                                                           >  1:791124/1‑139 (MQ=255)

                            cacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTa                                                                                                           <  4:453206/140‑1 (MQ=255)

                            cacaccGTTTATCAAAATTTCTATTAAGGAATTTTTCAAAACCCTGGTTGAGGCTATCATCCACGTCTTCCAGGTAATGTATCTGTTTTTGAAGAATTTCCGCTCCACAA‑TAAACCCGACGAATGCCTTACCGGTGGTTa                                                                                                           >  6:900047/1‑140 (MQ=255)

                              caccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTAtt                                                                                                         >  8:373590/1‑140 (MQ=255)

                              caccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑ACATCCCGACGATTGCCGTACCGGTGGTTAtt                                                                                                         >  2:413962/1‑140 (MQ=255)

                              caccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAAATTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTAtt                                                                                                         >  4:212902/1‑140 (MQ=255)

                                ccGTTTATCAAAATTTCTATTCAGGAAGTTTTAAAAACGCTTGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGACGTACCGGTGGGTATtct                                                                                                       <  7:646228/140‑1 (MQ=255)

                                 cGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATtctc                                                                                                      >  6:561911/1‑140 (MQ=255)

                                   tttATCAAAATTTCTATTCAGTAAGTTTTCAAAACGCTGGTTGAGGCTATCATAATCTTCTTCCTGGTCATGTATATGTTTTTGCAGAATTTACGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTAttatggg                                                                                                    >  3:706076/1‑135 (MQ=255)

                                   tttATCAAAATTTCTATTCAGGAAGTTTTCAACACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATGTGTTTTTGGAGTATTTCAGCGCCACAA‑TCATCCCGACGCTTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  6:213997/1‑140 (MQ=255)

                                   tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTTCAGAATTTCCGCGCCACAA‑TCCTCCCGACGATTGCCGTACCGGTGGGTATTGTCgg                                                                                                    >  3:878086/1‑140 (MQ=255)

                                   tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  2:888799/1‑140 (MQ=255)

                                   tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  2:79759/1‑140 (MQ=255)

                                   tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  1:276526/1‑140 (MQ=255)

                                      aTCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGAc                                                                                                 >  4:286274/1‑140 (MQ=255)

                                             tttCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCg                                                                                          <  3:57857/140‑1 (MQ=255)

                                             tttCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCg                                                                                          <  7:259639/140‑1 (MQ=255)

                                                     cAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTc                                                                                  >  1:921388/1‑140 (MQ=255)

                                                        gAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTcggc                                                                               >  7:187787/1‑140 (MQ=255)

                                                             tttCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTTCTATCTTGTAGGcggtcg                                                                          >  7:658339/1‑140 (MQ=255)

                                                              ttCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGcggtcgg                                                                         >  5:664643/1‑140 (MQ=255)

                                                                   aaCGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCa                                                                    <  8:655978/140‑1 (MQ=255)

                                                                        tGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                               <  6:286363/140‑1 (MQ=255)

                                                                        tGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                               <  2:48788/140‑1 (MQ=255)

                                                                        ggtttGAGGCTAACCTCCTCGTCTTCCTGGTCATGGATCTGTTTTTGAAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTCTTCTCCGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                               <  8:774240/137‑1 (MQ=255)

                                                                        gggTTGAGGCTATCATCCTAGTCTTCCTCGGCATTTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTTGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                               <  7:752510/139‑1 (MQ=255)

                                                                         ggTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACAATCa                                                              >  7:561996/1‑140 (MQ=255)

                                                                          gTTGCGGCTATCATCCTCGTCTTCCTGCTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTTGTTATTCTCGGGTCGTTTGCGATCTTGTCGGCGGTCGGTTTCACGATCaa                                                             <  8:187258/140‑1 (MQ=255)

                                                                          gTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGGCGGTTTCACCATCaa                                                             <  2:638783/140‑1 (MQ=255)

                                                                          gTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATAGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCaa                                                             <  3:291589/140‑1 (MQ=255)

                                                                                gCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGGTATTCTCGGGACGTTTGCGATCTTGTCGTCGGTCGGGTTCACCATCAACACGtt                                                       >  5:478833/1‑140 (MQ=255)

                                                                                  tATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTaa                                                     <  4:348790/140‑1 (MQ=255)

                                                                                  tATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTaa                                                     <  8:578807/140‑1 (MQ=255)

                                                                                  tATCATCCTCGGCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTaa                                                     <  2:489231/140‑1 (MQ=255)

                                                                                  aatcatcCTAGTCTTCCTTGTCATGTATCTCTTTTTGCAGAATTTCCGCGCCACAA‑TCCTCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTaa                                                     <  2:651258/139‑1 (MQ=255)

                                                                                    tctgccTCGTCTTCCTGGGCATGTATATGTTTTTGCCGAATTTCCGCGCGACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGGGATCTTGTCGGCGGTCTGTTTCACCATCATCACGTTATCt                                                   <  6:490121/136‑1 (MQ=255)

                                                                                    tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACt                                                   <  2:602389/140‑1 (MQ=255)

                                                                                    tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACt                                                   <  3:463320/140‑1 (MQ=255)

                                                                                    tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACt                                                   >  8:327851/1‑140 (MQ=255)

                                                                                    tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACt                                                   <  2:364808/140‑1 (MQ=255)

                                                                                    tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGGCGGTTTCACCATCAACACGTTAACt                                                   <  2:746777/140‑1 (MQ=255)

                                                                                    tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGACGTACCGGTGGTTTTTATCGGGACGTTTGCTATCTTTTCGGCGGGCGGTTTCCCCATCAACCAGTTAACt                                                   >  2:111560/1‑140 (MQ=255)

                                                                                    tcatcCTCGTCTTCCTGGTCATGTATCTGATTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTTCCGTACCGGTGGTTATTCTCGGGACGTGTGAGATGTTGTAGGAGGTCGGTTTCCCGATCAACACGTTAACt                                                   >  6:311757/1‑140 (MQ=255)

                                                                                    tcataCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGGTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACt                                                   <  4:571076/140‑1 (MQ=255)

                                                                                         cTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGtt                                              <  3:158937/140‑1 (MQ=255)

                                                                                         cTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGtt                                              >  3:266555/1‑140 (MQ=255)

                                                                                         cTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTAGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGtt                                              >  7:391000/1‑140 (MQ=255)

                                                                                         cTCGGCTTCCTGGTCATGTATCTGTTGTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGGTTCACCATCAACACGTTAACTATGtt                                              <  7:718772/140‑1 (MQ=255)

                                                                                           cGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCg                                            >  1:810680/1‑140 (MQ=255)

                                                                                              cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         >  1:424997/1‑140 (MQ=255)

                                                                                              cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  5:119970/140‑1 (MQ=255)

                                                                                              cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  4:992606/140‑1 (MQ=255)

                                                                                              cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  4:738097/140‑1 (MQ=255)

                                                                                              cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  4:130163/140‑1 (MQ=255)

                                                                                              cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCAC‑ATTCATCCCGACGATTGCCTTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGGCGGTTTCTCGATCATCACGTTAACTATGTTCGGGa                                         <  4:61913/140‑1 (MQ=255)

                                                                                                tCCTGGTCATGTATCTTTTTTTGAAGAATTTCCGCGCAACAA‑TCATCCCGACTATTGCAGTACCGGTGGTTATTCTCTGGAAGTTTGCGATCTTGTCGTCGGTCTGTTTCACCATCAACACGTTAACTATGTTCGGGATg                                       <  6:572729/140‑1 (MQ=255)

                                                                                                tCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATg                                       <  7:899914/140‑1 (MQ=255)

                                                                                                 ccTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATgg                                      >  1:1017854/1‑140 (MQ=255)

                                                                                                 ccTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATgg                                      >  6:482317/1‑140 (MQ=255)

                                                                                                 ccTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTAGGGATgg                                      >  2:924305/1‑140 (MQ=255)

                                                                                                 ccTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGG‑TTCACCAACAACACGTTAACTAGGTTCGGGATGGt                                     >  5:156883/1‑140 (MQ=255)

                                                                                                    ggTCATGTATCTGTTTTTGCAGAATTTCGGCGCCACAA‑TCATCCCGACGATTGACGTACCGGTGGTTATTCTCTGGACGTTGGCGATGTTGTCGGCGGTCGGTTTCTCCATCATGACGTTAACTATGTTCGGGATGGTGc                                   <  5:958335/140‑1 (MQ=255)

                                                                                                    ggTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGc                                   <  8:160738/140‑1 (MQ=255)

                                                                                                    ggTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGGGc                                   <  2:521838/140‑1 (MQ=255)

                                                                                                     gTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGCCCATTGCCGTAACGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCAACAACACGTTAACTAATTTCGGGATGGTGcg                                  >  6:211509/1‑139 (MQ=255)

                                                                                                      tCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTGAACTATGTTCGGGAGGGTGCTg                                 >  7:602800/1‑140 (MQ=255)

                                                                                                        aTGTATCTGTTTTTGCAGAATTTCAGCGCCCCAA‑TCATCCCGACGATTGCCGTACCGTTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGGTTCACCATAAAAACGTTAACTATGTTCGGGATGGTGCTggg                               >  2:230683/1‑139 (MQ=255)

                                                                                                          gTATCTGTTTTTGCAGAATTTCCGCTCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGAGCGGGTTCAACATCAACACGTTAACTATGTTCGGGATCGTGCTGGCgt                             >  6:7074/1‑139 (MQ=255)

                                                                                                           tATCTGTTTTTGGAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGAt                            <  1:775140/140‑1 (MQ=255)

                                                                                                           tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGAt                            <  7:705888/140‑1 (MQ=255)

                                                                                                           tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGAt                            <  8:54286/140‑1 (MQ=255)

                                                                                                           tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGGTATTCTCGGGACGTTTGCGATATTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCTAt                            <  8:766784/140‑1 (MQ=255)

                                                                                                                gTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATTGTGCTGGCGATAGGGt                       <  1:654690/140‑1 (MQ=255)

                                                                                                                gTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGt                       >  7:946200/1‑140 (MQ=255)

                                                                                                                gTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGt                       >  4:730148/1‑140 (MQ=255)

                                                                                                                gTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATAGCCGTACCGGTGGTTATTCTCGGGACGATTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGt                       >  3:225341/1‑140 (MQ=255)

                                                                                                                    ttGCAGAAGTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACAGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCTCCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGTTTAcg                   >  8:404550/1‑139 (MQ=255)

                                                                                                                     tGCAGAATTTCTGCGCCACTA‑TCATACCGACTATTGCTGTACGGGTGGTTATACTCGGGACGTTTGAGATCTTGTCGGCGGTCGGTTTCACCATCATCAATTTAACTTTGTTCGGGTTTGTGCTGTCGATATGTTTACtg                  <  6:928398/140‑1 (MQ=255)

                                                                                                                             ttCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATATGGTTACTGGTGGATGa          <  7:808502/140‑1 (MQ=255)

GCCTGAAGACGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAATTCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCATCG  >  NZ_CP022686/2408723‑2408996

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