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
A25 F60 I1 R1	22	70.1	2377468	99.1%	2356070	137.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,415,755	A→G	K241K (AAA→AAG)	acrF →	multidrug efflux pump RND permease AcrF

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,415,755	0	A	G	100.0%	212.9 / NA	55	K241K (AAA→AAG)	acrF	multidrug efflux pump RND permease AcrF
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (29/26); total (29/26)

TATAAACTGACACCGGTTGATGTGATTAACCAGTTGAAGGTACAGAACGATCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAAAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTACGCCTGAAAGATGTCGCACGGGTTGAACTTGGCGGTGAAAACTATAACGTTATCGCTCGTATCAACGGAAAACCGGCGG  >  NC_000913/3415618‑3415891

tataAACTGACACCGGTTGATGTGATTAACCAGTTGAAGGTACAGAACGATCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTaagaa                                                                                                                                        <  2:1158888/140‑1 (MQ=255)

 ataAACTGACACCGGTTGATGTGATTAACCAGTTGAAGGTACAGAACGATCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAAt                                                                                                                                       >  2:812246/1‑140 (MQ=255)

       tGACACCGGTTGATGTGATTAACCAGTTGAAGGTACAGAACGATCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGgaa                                                                                                                                 <  2:631967/140‑1 (MQ=255)

       tGACACCGGTTGATGTGATTAACCAGTTGAAGGTACAGAACGATCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGgaa                                                                                                                                 >  2:225440/1‑140 (MQ=255)

          cacCGGTTGATGTGATTAACCAGTTGAAGGTACAGAACGATCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGgaagaa                                                                                                                              >  2:940273/1‑140 (MQ=255)

           acCGGTTGATGTGATTAACCAGTTGAAGGTACA‑‑‑‑GATCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCgg                                                                                                                         >  2:464634/1‑140 (MQ=255)

              ggTTGATGTGATTAACCAGTTGAAGGTACAGAACGATCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCg                                                                                                                          >  2:1169806/1‑140 (MQ=255)

               gTTGATGTGATTAACCAGTTGAAGGTACAGAACGATCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGCAGAATTCgg                                                                                                                         >  1:891380/1‑140 (MQ=255)

               gTTGATGTGATTAACCAGTTGAAGGTACAGAACGATCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCgg                                                                                                                         >  2:729805/1‑140 (MQ=255)

               gTTGATGTGATTAACCAGTTGAAGGTACAGAACGATCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCgg                                                                                                                         <  1:940273/140‑1 (MQ=255)

                ttGATGTGATTAACCAGTTGAAGGTACAGAACGATCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGc                                                                                                                        >  2:1131777/1‑140 (MQ=255)

                     gtgATTAACCAGTTGAAGGTACAGAACGATCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGt                                                                                                                   >  1:1184093/1‑140 (MQ=255)

                            aCCAGTTGAAGGTACAGAACGATCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTg                                                                                                            <  1:1003809/140‑1 (MQ=255)

                            aCCAGTTGAAGGTACAGAACGATCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTg                                                                                                            <  1:225440/140‑1 (MQ=255)

                                 ttGAAGGTACAGAACGATCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGt                                                                                                       >  2:193448/1‑140 (MQ=255)

                                    aaGGTACAGAACGATCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTaaa                                                                                                    <  1:879893/140‑1 (MQ=255)

                                          cAGAACGATCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGa                                                                                              >  2:333991/1‑140 (MQ=255)

                                          cAGAACGATCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGa                                                                                              <  1:1059252/140‑1 (MQ=255)

                                           aGAACGATCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGAccc                                                                                                              >  2:422406/1‑123 (MQ=255)

                                           aGAACGATCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGAccc                                                                                                              <  1:422406/123‑1 (MQ=255)

                                           aGAACGATCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGAc                                                                                             >  2:685059/1‑140 (MQ=255)

                                             aaCGATCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACgg                                                                                           <  2:817104/140‑1 (MQ=255)

                                               cGATCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCt                                                                                         <  1:193448/140‑1 (MQ=255)

                                                gATCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTc                                                                                        <  1:639785/140‑1 (MQ=255)

                                                gATCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTc                                                                                        <  1:1131777/140‑1 (MQ=255)

                                                  tCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGa                                                                                              <  1:706575/132‑1 (MQ=255)

                                                  tCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGa                                                                                              >  2:706575/1‑132 (MQ=255)

                                                  tCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCgg                                                                                      >  2:366363/1‑140 (MQ=255)

                                                    aGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTaaa                                                                                                    <  1:65352/124‑1 (MQ=255)

                                                    aGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTaaa                                                                                                    >  2:65352/1‑124 (MQ=255)

                                                    aGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCggtg                                                                                    <  2:988851/140‑1 (MQ=255)

                                                       tCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTa                                                                                 >  2:333338/1‑140 (MQ=255)

                                                         gCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTACg                                                                               >  2:833723/1‑140 (MQ=255)

                                                                               cGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTACGCCTGAAAGATGTCGCACggg                                                           <  2:286527/138‑1 (MQ=255)

                                                                               cGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTACGCCTGAAAGATGTCGCACggg                                                           >  1:286527/1‑138 (MQ=255)

                                                                               cGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTACGCCTGAAAGATGTCGCACGGGtt                                                         <  1:464634/140‑1 (MQ=255)

                                                                               cGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTACGCCTGAAAGATGTCGCACGGGtt                                                         >  1:248557/1‑140 (MQ=255)

                                                                                   aGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTACGCCTGAAAGATGTCGCACGGGTTGAAc                                                     <  1:685059/140‑1 (MQ=255)

                                                                                             gggCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTACGCCTGAAAGATGTCGCACGGGTTGAACTTGGCGGTGa                                           <  2:248557/140‑1 (MQ=255)

                                                                                             gggCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTACGCCTGAAAGATGTCGCACGGGTTGAACTTGGCGGTGa                                           <  2:1184093/140‑1 (MQ=255)

                                                                                              ggCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTACGCCTGAAAGATGTCGCACGGGTTGAACTTGGCGGTGaa                                          <  1:1169806/140‑1 (MQ=255)

                                                                                               gCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTACGCCTGAAAGATGTCGCACGGGTTGAACTTGGCGGTGaaa                                         >  1:723406/1‑140 (MQ=255)

                                                                                                 aacaaTTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTACGCCTGAAAGATGTCGCACGGGTTGAACTTGGCg                                               <  2:367771/132‑1 (MQ=255)

                                                                                                 aacaaTTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTACGCCTGAAAGATGTCGCACGGGTTGAACTTGGCg                                               >  1:367771/1‑132 (MQ=255)

                                                                                                   caaTTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTACGCCTGAAAGATGTCGCACGGGTTGAACTTGGCGGTGAAAACta                                     >  2:425276/1‑140 (MQ=255)

                                                                                                        gAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTACGCCTGAAAGATGTCGCACGGGTTGAACTTGGCGGTGaa                                          >  2:533391/1‑130 (MQ=255)

                                                                                                        gAACGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTACGCCTGAAAGATGTCGCACGGGTTGAACTTGGCGGTGaa                                          <  1:533391/130‑1 (MQ=255)

                                                                                                          aCGCCTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTACGCCTGAAAGATGTCGCACGGGTTGAACTTGGCGGTGAAAACTATAACGtt                              <  1:833723/140‑1 (MQ=255)

                                                                                                              cTCGATTATTGCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTACGCCTGAAAGATGTCGCACGGGTTGAACTTGGCGGTGAAAACTATAACGTTATCg                          >  1:598483/1‑140 (MQ=255)

                                                                                                                        gCTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTACGCCTGAAAGATGTCGCACGGGTTGAACTTGGCGGTGAAAACTATAACGTTATCGCTCGTATCaa                >  1:323515/1‑140 (MQ=255)

                                                                                                                         cTCAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTACGCCTGAAAGATGTCGCACGGGTTGAACTTGGCGGTGAAAACTATAACGTTATCGCTCGTATCAAc               >  2:86540/1‑140 (MQ=255)

                                                                                                                           cAGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTACGCCTGAAAGATGTCGCACGGGTTGAACTTGGCGGTGAAAACTATAACGTTATCGCTCGTATCAACgg             >  2:626840/1‑140 (MQ=255)

                                                                                                                            aGACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTACGCCTGAAAGATGTCGCACGGGTTGAACTTGGCGGTGAAAACTATAACGTTATAGCTCGTATCAACGGa            >  2:398533/1‑140 (MQ=255)

                                                                                                                             gACGCGGTTTAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTACGCCTGAAAGATGTCGCACGGGTTGAACTTGGCGGTGAAAACTATAACGTTATCGCTCGTATCAACGGaa           <  1:425276/140‑1 (MQ=255)

                                                                                                                                      tAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTACGCCTGAAAGATGTCGCACGGGTTGAACTTGGCGGTGAAAACTATAACGTTATCGCTCGTATCAACGGAAAACcggcgg  <  1:626840/140‑1 (MQ=255)

                                                                                                                                      tAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTACGCCTGAAAGATGTCGCACGGGTTGAACTTGGCGGTGAAAACTATAACGTTATCGCTCGTATCAACGGAAAACcggcgg  <  2:323515/140‑1 (MQ=255)

                                                                                                                                      tAAGAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTACGCCTGAAAGATGTCGCACGGGTTGAACTTGGCGGTGAAAACTATAACGTTATCGCTCGTATCAACGGAAAACcggcgg  <  1:366363/140‑1 (MQ=255)

TATAAACTGACACCGGTTGATGTGATTAACCAGTTGAAGGTACAGAACGATCAGATCGCTGCCGGACAGTTGGGCGGAACGCCAGCGTTACCAGGGCAACAATTGAACGCCTCGATTATTGCTCAGACGCGGTTTAAAAATCCGGAAGAATTCGGCAAAGTGACCCTGCGCGTAAACAGTGACGGCTCGGTGGTACGCCTGAAAGATGTCGCACGGGTTGAACTTGGCGGTGAAAACTATAACGTTATCGCTCGTATCAACGGAAAACCGGCGG  >  NC_000913/3415618‑3415891

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A