Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	480,969	T→C	Q36R (CAG→CGG)	acrA ←	multidrug efflux RND transporter periplasmic adaptor subunit AcrA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	480,969	0	T	C	100.0%	134.2 / NA	37	Q36R (CAG→CGG)	acrA	multidrug efflux RND transporter periplasmic adaptor subunit AcrA
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (16/21);  total (16/21)

CAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCTGCTGGCCACCTTGTTGGGCCTGTTTGTCGTCACATCCTGTTAGGGCTAAGCTGCCTGAGAGCATCAGAACGACCGCCAGAGGCGTAAACCCTCTGTTTTTGTTCATATGTAAACCTCGAGTGTCC  >  NZ_CP009273/480845‑481094                                                                                                                             |                                                                                                                              cAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCttgt                                                                                                                 >  1:324939/1‑139 (MQ=255)         tCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTg                                                                                                         >  1:13364/1‑139 (MQ=255)         tCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTg                                                                                                         >  2:537143/1‑139 (MQ=255)             gCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTg                                                                                                     <  2:345452/139‑1 (MQ=255)              cTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTTTTGGGCCTGGTTgt                                                                                                    >  2:33762/1‑139 (MQ=255)                 aCTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTgtc                                                                                                   <  1:472296/137‑1 (MQ=255)                  cTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTgtcgtc                                                                                                <  1:480497/139‑1 (MQ=255)                      aGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCCCCTTGTTGGGCCTGTTTTTCGTCACAt                                                                                            >  1:379503/1‑139 (MQ=255)                            aaCTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTGTCGTCACATCCTGtt                                                                                      <  1:380306/139‑1 (MQ=255)                                    cGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTGTCGTCACATCCTGTTAGGGCTa                                                                               <  1:206374/138‑1 (MQ=255)                                    cGATCCGGTACGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTGTCGTCACATCCTGTTAGGGCTa                                                                               <  2:533644/138‑1 (MQ=255)                                     gATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTGTCGTCACATCCTGTTAGGGCTAAg                                                                             <  2:501461/139‑1 (MQ=255)                                     gATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTGTCGTCACATCCTGTTAGGGCTAAg                                                                             <  1:484661/139‑1 (MQ=255)                                     gATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTGTCGTCACATCCTGTTAGGGCTAAg                                                                             <  1:150010/139‑1 (MQ=255)                                         cGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTGTCGTCACATCCTGTTAGGGCTAAGCTGc                                                                         >  1:341971/1‑139 (MQ=255)                                              ggCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTGTCGTCACATCCTGTTAGGGCTAAGCTGCCTgag                                                                    <  2:324939/139‑1 (MQ=255)                                                   tGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTGTCGTCACATCCTGTTAGGGCTAAGCTGCCTGAGAGCAt                                                               >  2:416936/1‑139 (MQ=255)                                                     gTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTGTCGTCACATCCTGTTAGGGCTAAGCTGCCTGAGAGCAt                                                               <  1:448471/137‑1 (MQ=255)                                                          aCCCGGAAGCTCGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTGTCGTCACATCCTGTTAGGGCTAAGCTGCCTGAGAGCATCAGAACg                                                        <  2:630403/139‑1 (MQ=255)                                                                 aGCTCGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTGTCGTCACATCCTGTTAGGGCTAAGCTGCCTGAGAGCATCAGAACGACCGCCa                                                 <  1:530479/139‑1 (MQ=255)                                                                  gCTCGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTGTCGTCACATCCTGTTAGGGCTAAGCTGCCTGAGAGCATCAGAACGACCGCCag                                                <  1:416936/139‑1 (MQ=255)                                                                     cGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTGTCGTCACATCCTGTTAGGGCTAAGCTGCCTGAGAGCATCAGAACGACCGCCAGAgg                                             >  1:433527/1‑139 (MQ=255)                                                                                  cAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCCCCTTTTTTGGCCTGTTTGTCGTCACATCCTGTTTGGGCTAAACTGCCTGGGGGCATCAGAACGACCGCCCGAGGCGGAAACCCCCTg                                >  2:613663/1‑139 (MQ=255)                                                                                  cAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTgtcgt                                                                                                 <  2:12582/74‑1 (MQ=255)                                                                                  cAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTgtcgt                                                                                                 >  1:12582/1‑74 (MQ=255)                                                                                  cAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTGTCGTCACATCCTGTTAGGGCTAAGCTGCCTGAGAGCATCAGAACGACCGCCAGAGGCGTa                                         <  1:85295/130‑1 (MQ=255)                                                                                  cAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTGTCGTCACATCCTGTTAGGGCTAAGCTGCCTGAGAGCATCAGAACGACCGCCAGAGGCGTAAACCct                                   <  2:87298/136‑1 (MQ=255)                                                                                  cAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTGTCGTCACATCCTGTTAGGGCTAAGCTGCCTGAGAGCATCAGAACGACCGCCAGAGGCGTAAACCCTCTg                                >  1:420328/1‑139 (MQ=255)                                                                                  cAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCCGGCCACCTTGTTGGGCCTGTTTGTCGTCACATCCTGTTAGGGCTAAGCTGCCTGAGAGCATCAGAACGACCGCCAGAGGCGTa                                         >  2:85295/1‑130 (MQ=255)                                                                                       gTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTTTTTGGCCTGTTTGTCGTCACATCCTGTTAGGGCTAAACTGCCTGAGAGCATCAGAACGACCGCCAGAGGCGTAAACCCTCTGttttt                           >  2:367900/1‑139 (MQ=255)                                                                                       gTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTTTTGGGCCTGTTTGTCGTCACATCCTGTTAGGGCTAAGCTGCCTGAGAGCATCAGAACGACCGCCAGAGGCGTAAAACCTCTGttttt                           >  2:159863/1‑139 (MQ=255)                                                                                       gTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTGTCGTCACATCCTGTTCGGGCTAAGCTGCCTGAGAGCATCAGAACGACCGCCAGAGGCGTAAACCCTCTGttttt                           >  2:309319/1‑139 (MQ=255)                                                                                           aGTTTTGACTGTTACTACGCCAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTGTCGTCACATCCTGTTAGGGCTAAGCTGCCTGAGAGCATCAGAACGACCGCCAGAGGCGTAAACCCTCTGTTTTTGtt                        <  2:446010/138‑1 (MQ=255)                                                                                                               cAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTGTCGTCACATCCTGTTAGGGCTAAGCTGCCTGAGAGCATCAGAACGACCGCCAGAGGCGTAAACCCTCTGTTTTTGTTCATATGTAAACCTCGAGTGTc   <  1:506437/139‑1 (MQ=255)                                                                                                               cAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTGTCGTCACATCCTGTTAGGGCTAAGCTGCCTGAGAGCATCAGAACGACCGCCAGAGGCGTAAACCCTCTGTTTTTGTTCATATGTAAACCTCGAGTGTc   <  1:309319/139‑1 (MQ=255)                                                                                                               cAACGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTGTCGTCACATCCTGTTAGGGCTAAGCTGCCTGAGAGCATCAGAACGACCGCCAGAGGCGTAAACCCTCTGTTTTTGTTCATATGTAAACCTCGAGTGTc   <  2:267557/139‑1 (MQ=255)                                                                                                                 aCGGCGGGCATCCGCTGGCCACCTTGTTGGGCCTGTTTGTCGTCACATCCTGTTAGGGCTAAGCTGGCTGAGAGCATCAGAACGACCGCCAGAGGCGTAAACCCTCTGTTTTTGTTCATATGTAAAACTCGAGTGTcc  >  1:228889/1‑138 (MQ=255)                                                                                                                             |                                                                                                                              CAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGTTACTACGCCAACGGCGGGCATCTGCTGGCCACCTTGTTGGGCCTGTTTGTCGTCACATCCTGTTAGGGCTAAGCTGCCTGAGAGCATCAGAACGACCGCCAGAGGCGTAAACCCTCTGTTTTTGTTCATATGTAAACCTCGAGTGTCC  >  NZ_CP009273/480845‑481094

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑