Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092733,583,9470TG39.5% 75.2 / 10.4 43T109P (ACC→CCC) ugpAsn‑glycerol‑3‑phosphate ABC transporter permease UgpA
Reads supporting (aligned to +/- strand):  ref base T (5/21);  new base G (17/0);  total (22/21)
Fisher's exact test for biased strand distribution p-value = 7.67e-08
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

CGCGTGGTTCCAGTCGTAGCCGAACTCCGCGAGAAAATGGGTGATCAGCCCGCGACCGGGGTTAAACAGGAAGATCCACAATACGGCGGCAACGGCGGGAGCCACGGCGTAAGGCAGCAACATTAAGGTTTGATAGAAACGGCTGCCGCGCACGATGTACTCCACCAGCGCCGCAAAGAACAGCGATACCAGCAAACCGCTGACGGTGACAAAGGTGCTGAATTTTATCGTCGTCCAGAAGGAGTCGAGATAGTAGCTGTCATGGAA  >  NZ_CP009273/3583819‑3584085
                                                                                                                                |                                                                                                                                          
cgcgTGGTTCCAGTCGTAGCCGAACTCCGCGAGAAAATGGGTGATCAGCCCGCGACCGGGGTTAAACAGGAAGATCCACAATACGGCGGCAACGGCGGGGGGCACGGCGGAAGGGAGCAACCTTAAGGGTTGATAGaa                                                                                                                                   >  2:335181/1‑138 (MQ=255)
            gTCGTAGCCGAACTCCGCGAGAAAATGGGTGATCAGCCCGCGACCGGGGTTAAACAGGAAGATCCACAATACGGCGGCAACGGCGGGAGCCACGGCGTAAGGCAGCAACATTAAGGTTTGATAGAAACGGCTGCCgcgc                                                                                                                      <  2:637986/139‑1 (MQ=255)
             tCGTAGCCGAACTCCGCGAGAAAATGGGTGATCAGCCCGCGACCGGGGTTAAACAGGAAGATCCACAATACGGCGGCAACGGCGGGAGCCACGGCGTAAGGCAGCAACATTAAGGTTTGATAGAAACGGCTGCCGCGCa                                                                                                                     <  2:73410/139‑1 (MQ=255)
             tCGTAGCCGAACTCCGCGAGAAAATGGGTGATCAGCCCGCGACCGGGGTTAAACAGGAAGATCCACAATACGGCGGCAACGGCGGGAGCCACGGCGTAAGGCAGCAACATTAAGGTTTGATAGAAACGGCTGCCGCGCa                                                                                                                     <  1:335181/139‑1 (MQ=255)
             tCGTAGCCGAACTCCGCGAGAAAATGGGTGATCAGCCCGCGACCGGGGTTAAACAGGAAGATCCACAATACGGCGGCAACGGCGGGAGAAACGGCGAAAGGCAGAAAAATTAAGGTGTGATAGAAACGGCGGCCGCGCa                                                                                                                     <  1:675206/139‑1 (MQ=255)
               gTAGCCGAACTCCGCGAGAAAATGGGTGATCAGCCCGCGACCGGGGTTAAACAGGAAGATCCACAATACGGCGGCAACGGCGGGGGCCACGGCGGAAGGCAGGCACATTTAGGGTTGATAGAAACCGCTGCCGCGCCCg                                                                                                                   >  2:278748/1‑139 (MQ=255)
                 aGCCGAACTCCGCGAGAAAATGGGTGATCAGCCCGCGACCGGGGTTAAACAGGAAGATCCACAATACGGCGGCAACGGCGGGAGGCACGGCGTAAGGGAGCAACAATAAGGGTTGATAGAAACGGCCGCCGCGCACGAt                                                                                                                 >  2:337781/1‑139 (MQ=255)
                 aGCCGAACTCCGCGAGAAAATGGGTGATCAGCCCGCGACCGGGGTTAAACAGGAAGATCCACAATACGGCGGCAACGGCGGGAGCCCCCGGGGAAGGGAGCAAAAATAAGGGTTGATAGAAAAGGCTGCCGCGGACGag                                                                                                                 >  2:636368/1‑138 (MQ=255)
                 aGCCGAACTCCGCGAGAAAATGGGTGATCAGCCCGCGACCGGGGTTAAACAGGAAGATCCACAATACGGCGGCAACGGCGGGAGCCACGGCGGAAGGCAGCAACAATAAGGGTTGATAGAAACGGCTGCCGCGCCCGAt                                                                                                                 >  1:683909/1‑139 (MQ=255)
                 aGCCGAACTCCGCGAGAAAATGGGTGATCAGCCCGCGACCGGGGTTAAACAGGAAGATCCACAATACGGCGGCAACGGCGGGAGCCACCGCGTAAAGGAGCAACAATAAAGGTTGATAGAAAAGGCTGCCGCGCACgct                                                                                                                 >  1:307960/1‑137 (MQ=255)
                  gCCGAACTCCGCGAGAAAATGGGTGATCAGCCCGCGACCGGGGTTAAACAGGAAGATCCACAATACGGCGGCAACGGCGGGAGCCACGGCGTAAGGCAGCAACATTAAGGTTTGATAGAAACGGCTGCCGCGCACGATg                                                                                                                <  2:632553/139‑1 (MQ=255)
                       aCTCCGCGAGAAAATGGGTGATCAGCCCGCGACCGGGGTTAAACAGGAAGATCCACAATACGGCGGCAACGGCGGGAGCCACGGCGTAAGGCAGCAACATTAAGGGTTGATAGAAACGGCTGCCGCGCACGATGTACTc                                                                                                           >  1:476705/1‑139 (MQ=255)
                       aCTCCGCGAGAAAATGGGTGATCAGCCCGCGACCGGGGTTAAACAGGAAGATCCACAATACGGCGGCAACGGCGGGAGCCACGGCGGAAAGCAGCAACATTAAGGGTTGATAGAAAAGGCTGCCGCGCCCGATGTACTc                                                                                                           >  1:486557/1‑139 (MQ=255)
                           cgcgAGAAAATGGGTGATCAGCCCGCGACCGGGGTTAAACAGGAAGATCCACAATACGGCGGCAACAGCGGGAGCCACGGCGTAAGGCAGCAACATTAAGGTTTGATAGAAACGGCTGCCGCGCACGATGTACTccac                                                                                                        >  1:319581/1‑138 (MQ=255)
                             cgAGAAAATGGGTGATCAGCCCGCGACCGGGGTTAAACAGGAAGATCCACAATACGGCGGCAACGGCGGGGGCCCCGGCCCAAAGGAGCAACATTTAGGTTTGATAGAAAAGGCTGCCGCGCCCGATATACTcagccaa                                                                                                     >  1:313128/1‑133 (MQ=255)
                                    aTGGGTCATCCGGCCGCGACGGGGGTTAGACAGGAAGAGCCCCAAGACGTCAACACCGGCGGGAGAATCGCGGTAAGGCAGCAACATTAAGCTTTGACAGAAACGGCTGCCGCGCAAGATGTGCTCCACCGGCGCCGCa                                                                                              <  2:422541/139‑1 (MQ=255)
                                       ggTGATCAGCCCGCGACCGGGGTTAAACAGGAAGATCCACAATACGGCGGCAACGGCGGGAGCCACGGCGTAAGGCAGCAACATTAAGGTTTGATAGAAACGGCTGCCGCGCACGATGTACTCCACCAGCGCCGCAAAg                                                                                           <  1:290131/139‑1 (MQ=255)
                                          gATCAGCCCGCGACCGGGGTTAAACAGGAAGATCCACAATACGGCGGCAACGGCGGGAGCCACGGCGGAAGGCAGCAACATTAAGGGTTTGTAGAAAAGGCGGCCCCGCCCCGAGGAATCCACCAGCGCCGCCAAGaa                                                                                         >  2:781629/1‑138 (MQ=255)
                                           aTCAGCCCGCGACCGGGGTTAAACAGGAAGATCCACAATACGGCGGCAACGGCGGGAGCCACGGCGTAAGGCAGCAACATTAAGGTTTGATAGa                                                                                                                                    >  1:565541/1‑94 (MQ=255)
                                           aTCAGCCCGCGACCGGGGTTAAACAGGAAGATCCACAATACGGCGGCAACGGCGGGAGCCACGGCGTAAGGCAGCAACATTAAGGTTTGATAGa                                                                                                                                    <  2:565541/94‑1 (MQ=255)
                                           aTCAGCCCGCGACCGGGGTTAAACAGGAAGATCCACAATACGGCGGCAACGGCGGGAGCCACGGCGTAAAGCAGCAACATTAAAGGTTGATAGAAAAGGCTGCCGCGCACGATGTACTCCACCAGCGCCGCaaaaaa                                                                                         >  1:28187/1‑137 (MQ=255)
                                            tCAGCCCGCGACCGGGGTTAAACAGGAAGATCCACAATACGGCGGCAACGGCGGGAGCCACGGCGTAAGGCAGCAACATTAAGGTTTGATAGAAACGGCTGCCGCGCACGATGTACTCCACCAGCGCCGCAAAGAACAg                                                                                      <  2:815521/139‑1 (MQ=255)
                                                 ccGCGACCGGGGTTAAACAGGAAGATCCACAATACGGCGGCAACGGCGGGAGGCACGGCGTAAAGGAGCAACAATAAGGGTTGATAGAAACGGCCGCCGGGCACGGTGGAACCCACCAGCGCCGCAAAGAAAAGCGATa                                                                                 >  2:776919/1‑139 (MQ=255)
                                                               aaaCAGGAAGATCCACAATACGGCGGCAACGGCGGGAGCCACGGCGTAAGGCAGCAACATTAAGGTTTGATAGAAACGGCTGCCGCGCACGATGTACTCCACCAGCGCCGCAAAGAACAGCGATACCAGCAAACCGCt                                                                    <  1:519517/138‑1 (MQ=255)
                                                                 aCAGGAAGATCCACAATACGGCGGCAACGGCGGGAGCCACGGCGTAAGGCAGCAACATTAAGGTTTGATAGAAACGGCTGCCGCGCACGATGTACTCCACCAGCGCCGCAAAGAACAGCGATACCAGCAAACCGCTGAc                                                                 <  1:603563/139‑1 (MQ=255)
                                                                     gAAGATCCACAATACGGCGGCAACGGCGGGAGCCACCGCGGAAGGCAGCAACATTTAGGGTTGATAGAAAAGGGCGCCGCGCCCGATGTACTCCACCAGCGCCGCCAAGAAAAGCGATACCAGCAAACCCCTGACgggg                                                             >  2:885942/1‑137 (MQ=255)
                                                                        gATCCTCAATACGGCGGCAACGGCGGGAGCCACGGCGTAAGGCAGCAACAGTAAGGTTTGATAGAAACGGCTGCCGCGCACGATGTACTCCACCAGCGCCGCAAAGAACAGCGATACCAGCAAACCGCTGACGGTGACa                                                          <  2:313128/139‑1 (MQ=255)
                                                                         aTCCACAATACGGCGGCAACGGCGGGAGCCACGGCGTAAGGCAGCAACATTAAGGTTTGATAGAAACGGCTGCCGCGCACGATGTACTCCACCAGCGCCGCAAAGAACAGCGATACCAGCAAACCGCTGACGGTGACaa                                                         <  2:20152/139‑1 (MQ=255)
                                                                                aTACGGCGGCAACGGCGGGAGCCACGGCGTAAAGGAGCAACAATAAGGGTTTATAGAAACGGCCGCCGCGCACGATGTACTCCACCCGCGCCGCCAAAAACAGCGATACCCGCAAACCGCTGACGGGGACaaaagctgt                                                  >  2:603563/1‑133 (MQ=255)
                                                                                 tACGGCGGCAACGGCGGGAGCCACGGCGTAAGGCAGCAACATTAAGGTTTGATAGAAACGGCTGCCGCGCACGATGTACTCCACCAGCGCCGCAAAGAACAGCGATACCAGCAAACCGCTGACGGTGACAAAGGTGCTg                                                 <  2:315562/139‑1 (MQ=255)
                                                                                    ggcggcAACGGCGGGAGCCCCGGCGGAAAGCAGCAACATTAAGGGTTTATAGAAACGGCCGCCGCGCACGGTGGAATCCCCCAGAGCCGCAAAGAAAAGAGATACCCGCAAAACGCTGACGGGGGCAAAGGGGCTGGAt                                              >  2:25172/1‑139 (MQ=255)
                                                                                    ggcggcAACGGCGGGAGCCACGGCGTAAGGGAGCAACATTAAGGGTTGGTAGAAACGGCCGCCGCGCACGATGTACTCCACCCGCGCCGCAAAGAACAGCGATACCAGCAAACCGCTGACGGGGGAAAAGGTGCTGAAt                                              >  1:277699/1‑139 (MQ=255)
                                                                                      cggcAACGGCGGGAGCCCCGGCGGAAGGCAGCAACATTAAGGGTTTATAGAAACGGCCGCCGCGCACGATGTACTCCACCCGCGCCGCCAAGAACAGCGGTACCAGCAAAACGCTGACGGGGGCAAAAGGGCTGGAttt                                            >  2:695182/1‑139 (MQ=255)
                                                                                           aCGGCGGGAGCCACGGCGTAAGGCAGCAACATTAAGGTTTGATAGAAACGGCTGCCGCGCACGATGTACTCCACCAGCGCCGCAAAGAACAGCGATACCAGCAAACCGCTGACGGTGACAAAGGTGCTGAATTTTAtcg                                       <  1:25172/139‑1 (MQ=255)
                                                                                            cggcggGAGCCACGGCGTAAGGCAGCAACATTAAGGTTTGATAGAAACGGCTGCCGCGCACGATGTACTCCACCAGCGCCGCAAAGAACAGCGATACCAGCAAACCGCTGACGGTGACAAAGGTGCTGAATTTTAtcgt                                      <  2:268745/139‑1 (MQ=255)
                                                                                                  gAGCCACGGCGTAAGGCAGCAACATTAAGGTTTGATAGAAACGGCTGCCGCGCACGATGTACTCCACCAGCGCCGCAAAGAACAGCGATACCAGCAAACCGCTGACGGTGACAAAGGTGCTGAATTTTATcgtcgt                                   <  1:143068/136‑1 (MQ=255)
                                                                                                  gAGCCACGGCGTAAGGCAGCAACATTAAGGGTTGATAGAAACGGCTGCCGCGCACGATGTACTCCACCAGCGCCGCAAAGAACAGCGATACCAGCAAACCGCTGACGGTGACAAAGGTGCTGAATTTTATcgtcgt                                   >  2:143068/1‑136 (MQ=255)
                                                                                                                     caACATTAAGGTTTGATAGAAACGGCTGCCGCGCACGATg                                                                                                                <  1:95717/40‑1 (MQ=255)
                                                                                                                     caACATTAAGGTTTGATAGAAACGGCTGCCGCGCACGATg                                                                                                                >  2:95717/1‑40 (MQ=255)
                                                                                                                     caACATTAAGGTTTGATAGAAACGGCTGCCGCGCACGATGTACTCCACCAGCGCCGCAAAGAACAGCGATACCAGCAAACCGCTGACGGTGACAAAGGTGCTGAATTTTATCGTCGTCCAGAAGGAGTCGAGAtagtag             >  2:285730/1‑139 (MQ=255)
                                                                                                                      aaCATTAAGGTTTGATAGAAACGGCTGCCGCGCACGATGTACTCCACCAGCGCCGCAAAGAACAGCGATACCAGCAAACCGCTGACGGTGACAAAGGTGCTGAATTTTATCGTCGTCCAGAAGGAGTCGAGATAGTAGc            <  2:683903/139‑1 (MQ=255)
                                                                                                                      aaCATTAAGGTTTGATAGAAACGGCTGCCGCGCACGATGTACTCCACCAGCGCCGCAAAGAACAGCGATACCAGCAAACCGCTGACGGTGACAAAGGTGCTGAATTTTATCGTCGTCCAGAAGGAGTCGAGATAGTAGc            <  1:435969/139‑1 (MQ=255)
                                                                                                                      aaCATTAAGGTTTGATAGAAACGGCTGCCGCGCACGATGTACTCCACCAGCGCCGCAAAGAACAGCGATACCAGCAAACCGCTGACGGTGACAAAGGTGCTGAATTTTATCGTCGTCCAGAAGGAGTCGAGATAGTAGc            <  1:285730/139‑1 (MQ=255)
                                                                                                                                tttGATAGAAACGGCTGCCGCGCACGATGTACTCCACCAGCGCCGCAAAGAACAGCGATACCAGCAAACCGCTGACGGTGACAAAGGTGCTGAATTTTATCGTCGTCCAGAAGGAGTCGAGATAGTAGCTGTCATGGaa  <  1:636368/139‑1 (MQ=255)
                                                                                                                                tttGATAGAAACGGATGCCGCGCACGATGTACTCCACCAGCGCCGCAAAGAACAGCGATACCAGCAAACCGCTGACGGTGACAAAGGTGCTGAATTTTATCGTCGTCCAGAAGGAGTCGAGATAGTAGCTGTCATGGaa  >  2:881488/1‑139 (MQ=255)
                                                                                                                                |                                                                                                                                          
CGCGTGGTTCCAGTCGTAGCCGAACTCCGCGAGAAAATGGGTGATCAGCCCGCGACCGGGGTTAAACAGGAAGATCCACAATACGGCGGCAACGGCGGGAGCCACGGCGTAAGGCAGCAACATTAAGGTTTGATAGAAACGGCTGCCGCGCACGATGTACTCCACCAGCGCCGCAAAGAACAGCGATACCAGCAAACCGCTGACGGTGACAAAGGTGCTGAATTTTATCGTCGTCCAGAAGGAGTCGAGATAGTAGCTGTCATGGAA  >  NZ_CP009273/3583819‑3584085

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑