Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A28 F11 I0 R1	246	10296.8	9866480	98.4%	9708616	135.7

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	.	97.9%	1242.0 / 11.3	275	pseudogene (1097/3115 nt)	mdtF	multidrug efflux pump RND permease MdtF
Reads supporting (aligned to +/- strand): ref base T (2/2); new base . (110/159); total (113/162)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as polymorphism: Frequency below/above cutoff threshold.

Only 100 of 277 total aligned reads displayed.

GCCTGAAGACGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAATTCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCATCG  >  NZ_CP022686/2408723‑2408996

gCCTGAAGACGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAAAGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTTCTGAGTTTCCGCGACACAAtc                                                                                                                                        >  1:577960/1‑139 (MQ=255)

     aaGACGGTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGACATGTATCTTGTATTGGAGAATTTCCGCGCCACAAtcaacca                                                                                                                                   >  4:889117/1‑134 (MQ=255)

           gTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAt                                                                                                                            <  4:144625/140‑1 (MQ=255)

           gTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAt                                                                                                                            <  7:1011963/140‑1 (MQ=255)

           gTTTATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGAt                                                                                                                            <  7:49949/140‑1 (MQ=255)

            tttATCCTTACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTACTGGTCATGTATCTGTTTTTCCAGAATTTAAGCGCCACAA‑TCATCACGACGAtt                                                                                                                           >  8:1086435/1‑140 (MQ=255)

             ttATCCTTACGACACCACACCGTTTATCAAAATATCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTCTCATCCTCGTCTACCTGGTCATGTATATGTTTTTGCAGAATTTCAGCGCCACAA‑TCAACCcgacgaa                                                                                                                            >  5:423726/1‑137 (MQ=255)

                    tACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAATCGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTa                                                                                                                     <  5:952383/138‑1 (MQ=255)

                    tACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTAcc                                                                                                                   <  8:350196/140‑1 (MQ=255)

                    tACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTAcc                                                                                                                   >  7:798639/1‑140 (MQ=255)

                    tACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTGTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGCCGATTCCCGTAcc                                                                                                                   >  4:1019994/1‑140 (MQ=255)

                    tACGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGGTGAGGCTATCATCCTCGTGTTCCTGGTCATGTAGCTGTTTTTGAAGAATTTACGCGCCACAA‑TCATCCCGACGATTGCCGTAcc                                                                                                                   >  7:303519/1‑140 (MQ=25)

                     aCGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCg                                                                                                                  <  2:1113656/140‑1 (MQ=255)

                      cGACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCACAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTAcc                                                                                                                   >  6:162588/1‑138 (MQ=255)

                       gACACCACACCGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCg                                                                                                                  >  5:803902/1‑138 (MQ=255)

                          cccacaccTTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCggtggt                                                                                                             <  1:1099060/139‑1 (MQ=255)

                          accacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCTCGCCACAA‑TAATCCCGACGATTGCCGTACCgttggt                                                                                                             >  4:1192557/1‑140 (MQ=255)

                          accacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCggtggt                                                                                                             <  7:251452/140‑1 (MQ=255)

                          accacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTCTTTTTGCAGAATTTCCGCGCCAC‑ATTCGTCCCCACGATTGACGTACCggaggg                                                                                                             >  1:1149141/1‑139 (MQ=255)

                            cacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCggtggt                                                                                                             <  5:1122949/138‑1 (MQ=255)

                            cacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTa                                                                                                           >  4:352205/1‑140 (MQ=255)

                            cacaccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑GCATCCCGACGATTGCCGTACCggtggt                                                                                                             >  5:108451/1‑138 (MQ=255)

                            cacaccGTTTATCAAAATTTCTATTCAGCAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTa                                                                                                           <  1:460553/140‑1 (MQ=255)

                              caccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACTCTGGTTGAGGCTATCATCCTCTTCTTCCTGGTCATGTATATGTTTTTTCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCCGGGGttt                                                                                                           >  6:703914/1‑137 (MQ=255)

                              caccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCCTCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCCCAA‑TCATCCCGACGAATGCCGTACCGGTGGTTAtt                                                                                                         >  2:1244740/1‑140 (MQ=255)

                              caccGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTAATGTTTCTGTTTTTGGAGAATTTCCGCGCCACAA‑TCATCCCGCCGATTGCCGTACCGTTGGTTAtt                                                                                                         >  8:486021/1‑140 (MQ=255)

                                 cGTTTATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATtctc                                                                                                      >  4:229151/1‑140 (MQ=255)

                                   tttATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    >  1:386878/1‑140 (MQ=255)

                                   tttATCAAAATTTCTATTCAGGAAGTTTTAAAAAACCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATATGTTTTTGCAGAAATTACGCGCCACAA‑TCATCCCGACGATTTCCGTACCGGTGGTTATtctc                                                                                                      >  6:956849/1‑138 (MQ=255)

                                   tttATCAAAATTTCTATTAAGGAAGTTTTAAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTAATGTATATGTTTTTGCAGAATATCCTCGCAACAA‑TCATAAGGACGATTGCAGTACAGGTGTTTATTCTCgg                                                                                                    >  2:259941/1‑140 (MQ=255)

                                     tATCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATGATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCgg                                                                                                    <  6:249609/138‑1 (MQ=255)

                                      aTCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTATCGGGAc                                                                                                 >  1:156408/1‑140 (MQ=255)

                                      aTCAAAATTTCTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCATGGTCATGTATCTGTTTTTGCAGAATTTCAGCGCCACAA‑TCATCCCGCCGATTGCAGTACCGGTGGTTATTCTCGTGAc                                                                                                 >  3:533750/1‑140 (MQ=255)

                                        cAAAATTTCTATTCAGGAAGTTTTCAAAACGCGGGTTGACGCTCTCTTACTCGTCTTCCTGTTCATGTATCTGTTTTTGCAGAATTTACGCGCCACAA‑TCATCCAGACGATTGCCGTACCGGTGGTTATTCTCGGGACGt                                                                                               <  3:213223/140‑1 (MQ=255)

                                             tttCTATTCAGGAAGTTTTCAAACCGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCg                                                                                          <  2:454065/140‑1 (MQ=255)

                                                cTATTCAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGAtg                                                                                       >  4:1128254/1‑139 (MQ=255)

                                                     cAGGAAGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCTCAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTc                                                                                  >  8:94203/1‑140 (MQ=255)

                                                          aGTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTcggc                                                                               >  5:268597/1‑138 (MQ=255)

                                                           gTTTTCAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGcggt                                                                            <  2:357529/140‑1 (MQ=255)

                                                             tttCAAAACGCTGGTTGAGGCTAGCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGcggtcg                                                                          <  2:1195927/140‑1 (MQ=255)

                                                                cAAAACGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGtt                                                                       <  1:773974/140‑1 (MQ=255)

                                                                   aaCGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCa                                                                    <  7:68719/140‑1 (MQ=255)

                                                                   aaCGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCa                                                                    <  2:239587/140‑1 (MQ=255)

                                                                    aCGCTGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCAc                                                                   <  8:656489/140‑1 (MQ=255)

                                                                        tGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                               <  3:828151/140‑1 (MQ=255)

                                                                        tGGTTGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGGTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                               <  2:906430/140‑1 (MQ=255)

                                                                        tGGGTGAGGCTATCAGCCTCGGCTTCCTGGTCATGTATCTGTTTTTGCAGAAATTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                               <  4:686634/140‑1 (MQ=255)

                                                                          gTTTAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCaa                                                             <  2:74886/140‑1 (MQ=255)

                                                                          gTTGAGGCTATCATCCTCGTCTTCCTGTTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑GCATCCCGACGATTGCCTTAACGGGGGATTATATCGGGCCGTTTTCGATCTTGGCGGCGTTCCTTTTAACCATCaa                                                             >  7:905645/1‑140 (MQ=255)

                                                                            tGAGGCTATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCaa                                                             <  6:1061092/138‑1 (MQ=255)

                                                                                  tATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATTAACACGTTaa                                                     <  2:462511/140‑1 (MQ=255)

                                                                                  tATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTaa                                                     <  3:990391/140‑1 (MQ=255)

                                                                                  tATCATCCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTaa                                                     <  2:440251/140‑1 (MQ=255)

                                                                                  aatcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCTGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTaa                                                     <  7:157726/139‑1 (MQ=255)

                                                                                    tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCTGAATTTCCGCGCCACAA‑TCATCCCGCCGATTGCCGTACCGGTGTTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACt                                                   >  3:1127288/1‑140 (MQ=255)

                                                                                    tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTaa                                                     <  6:772209/138‑1 (MQ=255)

                                                                                    tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTaa                                                     <  5:610520/138‑1 (MQ=255)

                                                                                    tcatcCTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAAATTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACt                                                   <  1:355384/140‑1 (MQ=255)

                                                                                        ccTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGt                                               <  8:119337/140‑1 (MQ=255)

                                                                                         cTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTTTTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGtt                                              <  1:741592/140‑1 (MQ=255)

                                                                                         cTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGtt                                              >  3:1223704/1‑140 (MQ=255)

                                                                                         cTCGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGtt                                              <  7:654119/140‑1 (MQ=255)

                                                                                          tCGTCTTCCTGGGCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTGTCACCATCAACACGTTAACTATGt                                               <  5:649739/138‑1 (MQ=255)

                                                                                           cGTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCCTACCGGTGGTTATTCTCGGGACGTTTGCGATCTAGTCGGCGGTCGGTTTCACCCTCAACACGTTAACTATGTTCg                                            >  3:603784/1‑140 (MQ=255)

                                                                                            gTCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAAATATGTTCgg                                           >  2:1014341/1‑140 (MQ=255)

                                                                                             tCTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCggtggt                                                                                                             >  6:791459/1‑73 (MQ=255)

                                                                                              cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACTATT‑ATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  1:662644/140‑1 (MQ=255)

                                                                                              cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAAGACGTTAACTATGTTCgggt                                         <  8:513165/140‑2 (MQ=255)

                                                                                              cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCgg                                           <  5:874035/138‑1 (MQ=255)

                                                                                              cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  2:140538/140‑1 (MQ=255)

                                                                                              cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         >  3:191130/1‑140 (MQ=255)

                                                                                              cTTCCTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCAC‑ACTCCTCCCGACGATTGCCGTACCGGTGGGTCTTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGa                                         <  3:263361/140‑1 (MQ=255)

                                                                                              cTTCCTGGTCATGTATCTGTATTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACTATTGCCGTACCGGTGGGTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCgg                                           <  5:317442/138‑1 (MQ=255)

                                                                                              cTTCCTGCTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACTATAC‑TCCCGAGGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCACCACGTTAACTATGTTCGGGa                                         <  4:1063439/140‑1 (MQ=255)

                                                                                                 ccTGGTCATGTATCTGTTTTTGCAGAATTTCCGCTCCACAA‑TCATCCCGACGATTGCCGTACCGGTGTTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGATTCACCATCAACACGTTAACTATGTTCGGGATgg                                      >  2:527066/1‑140 (MQ=255)

                                                                                                 ccTGGTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATgg                                      >  7:1090608/1‑140 (MQ=255)

                                                                                                    ggTCATGTATTTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGTCGATTGCCGTACCGGTGGTTTTTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGc                                   <  2:96020/140‑1 (MQ=255)

                                                                                                    ggTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGc                                   <  1:1039532/140‑1 (MQ=255)

                                                                                                    ggTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGc                                   <  4:916001/140‑1 (MQ=255)

                                                                                                    ggTCATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGc                                   <  4:182704/140‑1 (MQ=255)

                                                                                                       cATGTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTATCCAAAAACAAGTTAACTATGTTAGGGATGGTGCTgg                                >  7:1154571/1‑140 (MQ=255)

                                                                                                          gTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGa                             >  4:389181/1‑140 (MQ=255)

                                                                                                          gTATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TAATACCGACGATTGACGTACAGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATTTTCGGGATGGTGCTGGc                               <  5:770444/138‑1 (MQ=255)

                                                                                                           tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGAt                            <  8:1060217/140‑1 (MQ=255)

                                                                                                           tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTCCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGAt                            <  7:359497/140‑1 (MQ=255)

                                                                                                           tATCTGTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGGAGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGAt                            <  1:323801/140‑1 (MQ=255)

                                                                                                           tATCTATTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCg                              <  5:99238/138‑1 (MQ=255)

                                                                                                                gTTTTTGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGGTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAgg                         <  6:20754/138‑1 (MQ=255)

                                                                                                                   tttGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTAc                    >  2:194676/1‑140 (MQ=255)

                                                                                                                   tttGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTAc                    >  3:416997/1‑140 (MQ=255)

                                                                                                                    ttGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACAATTTAACTATGTTCTGGATTGTGCTGTCGATAGTGTTACt                   >  3:1068559/1‑140 (MQ=255)

                                                                                                                     tGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTTGCGATAGGGTTAc                    >  5:500405/1‑138 (MQ=255)

                                                                                                                     tGCAGAATTTCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACtg                  <  4:543270/140‑1 (MQ=255)

                                                                                                                     tGCAGAATTTCCGCGCCACAA‑TCATACCGACGATTGCATTACCGTTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTAGGTTTCACCCTCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTaa                    >  5:157602/1‑137 (MQ=255)

                                                                                                                             ttCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGa          <  3:131075/140‑1 (MQ=255)

                                                                                                                             ttCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGGTTGCGATCTTGGCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGa          <  8:770889/140‑1 (MQ=255)

                                                                                                                              tCCGCGCCACAA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATc                                                               <  6:399753/86‑1 (MQ=255)

                                                                                                                                     cacaA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCATCg  <  4:840054/140‑1 (MQ=255)

                                                                                                                                     cacaA‑TCATCCCGACGATTGCCGTACCGGTGGTTATTCTCGGGACGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTAAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCATCg  <  7:1065242/140‑1 (MQ=255)

                                                                                                                                     cacaA‑TCATCCCGACGATTGCCGTACCGGTGGGTATTCTCTGGCCGTTTGCGATCTTGTCGGCGGTCGGTTTCACCATCAACACGTTAACTATGTTCGGGATGGTGCTGGCGATAGGGTTACTGGTGGATGACGCCATCg  <  8:176569/140‑1 (MQ=39)

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