Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092733,357,7550AT52.4% 13.0 / 30.8 21P530P (CCA→CCT) yhcDfimbrial biogenesis outer membrane usher protein
Reads supporting (aligned to +/- strand):  ref base A (7/3);  new base T (0/11);  total (7/14)
Fisher's exact test for biased strand distribution p-value = 1.03e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.06e-04
Rejected as consensus: Frequency below/above cutoff threshold.

GCATCAACTTAGTGCTTCAGAAAATAATGAAGACGATGGTGATCTGTTCTACGTCAACATCAGTATTCCATTTGGCAGATCAAACACCGCCACACTGTATACTCGCCATGACGATCATAAAACCCACTATGGTACTGGTGTCATGGGAGTCGTCTCAGA  >  NZ_CP009273/3357686‑3357844
                                                                     |                                                                                         
gcaTCAACTTAGTGCTTCAGAAAATAATGAAGACGATGGTGATCTGTTCTACGTCAACATCAGTATTCCATTTGGCAGATCAAACACCGc                                                                       <  2:28739/90‑1 (MQ=255)
gcaTCAACTTAGTGCTTAAAAAAATAATGAAGACGATGGTGATCTGTTCTACGTCAACATCAGTATTCCTTTTGGCAGATCAAACACCGc                                                                       <  2:35811/90‑1 (MQ=255)
  aTCAACTTAGTGCTTCAAAAAAAAATGAAGACGATGGTGATCTTTTCTACGTCAACATCAGTATTCCTTTTGGCAGATAAAACACCGCca                                                                     <  2:184173/90‑1 (MQ=255)
          aGTGCTTCAGAAAATAATGAAGACGATGGTGATCTGTTCTACGTCAACATCAGTATTCCTTTTGGCAGATCAAACACCGCCACACTGtat                                                             <  2:232136/90‑1 (MQ=255)
            tccTTCAAAAAATAATGAAGACGATGGTGATCTGTTCTACGTCAACATCAGTATTCATTTTGGCAGATCAAACACCGCCACACTGTATAc                                                           <  1:308622/88‑1 (MQ=255)
                tCAGAAAATAATGAAGACGATGGTGATCTGTTCTACGTCAACATCAGTATTCCATTTGGCAGATCAAACACCGCCACACTGTATACTCGc                                                       >  2:166887/1‑90 (MQ=255)
                tCAGAAAATAATGAAGACGATGGTGATCTGTTCTACGTCAACATCAGTATTCCATTTGGCAGATCAAACACCGCCACACTGTATACTCGc                                                       >  1:605223/1‑90 (MQ=255)
                       ataatGAAGACGATGGTGATCTGTTCTACGTCAACATCAGTTTTCCTTTTGGCAGATCAAACACCGCCACACTGTATACTCGCCATGACg                                                <  1:515724/90‑1 (MQ=255)
                       aaaatAAAGCCGATGGTGATTTGTTCTACGCCAACATCAGTATTCCTTTTGGAAGATAAAACCCCGCCACACTGTATACTCGCCATGACg                                                <  1:432064/88‑1 (MQ=255)
                                   aTGGTGATTTGTTCTACGTCAACATCAGTATTCCTTTTGGCAGATAAAACACCGCCACACTGTATACTCGCCATGACGATCATAAAAccc                                    <  1:390739/90‑1 (MQ=255)
                                   aTGGTGATCTGTTCTACGTCAACATCAGTATTCCTTTTGGCAGATCAAACACCGCCACACTGTATACTCGCCATGACGATCATAAAAccc                                    <  1:138648/90‑1 (MQ=255)
                                   aTGGTGATCTGTTCTACGTCAACATCAGTATTCCATTTGGCAGATAAAACACCGCCACACTGTATACTCGCCATGACGATCATAAAAccc                                    <  1:166887/90‑1 (MQ=255)
                                        gATCTGTTCTACGTAAACATCAGTTTCCTTTTTGGAAAACCAACCCCCGCCACACTGTATACTCGCCATGACGATCATAAAACCCACTAt                               <  2:382378/90‑1 (MQ=255)
                                             gTTCTACGTCAACATCAGTATTCCATTTGGCAGATCAAACACCGCCACACTGTATACTCGCCATGACGATCATAAAAccc                                    <  1:42439/80‑1 (MQ=255)
                                             gTTCTACGTCAACATCAGTATTCCATTTGGCAGATCAAACACCGCCACACTGTATACTCGCCATGACGATCATAAAAccc                                    >  2:42439/1‑80 (MQ=255)
                                                  ccGTAAACATCAGTATTCCTTTTGGCAGATAAAACCCCGCCACACTGTATACTCGCCATGACGATCATAAAACCCACTATGGTACTGgtg                     <  1:296881/89‑1 (MQ=255)
                                                       aaCATCAGTATTCCTTTTGGCAGATAAAACACCGCCACACTGTATACTCGCCATGACGATCATAAAAccc                                    <  1:208118/70‑1 (MQ=255)
                                                       aaCATCAGTATTCCATTTGGCAGATCAAACACCGCCACACTGTATACTCGCCATGACGATCATAAAAccc                                    >  2:208118/1‑70 (MQ=255)
                                                       aaCATCAGTATTCCATTTGGCAGATCAAACACCGCCACACTGTATACTCGCCATGACGATCATAAAACCCACTATGGTACTGGTGTCATg                >  1:432537/1‑90 (MQ=255)
                                                       aaCATCAGTATTCCATTTGGCAGATCAAACACCGCCACACTGTATACTCGCCATGACGATCATAAAACCCACTATGGTACTGGTGTCATg                >  2:294839/1‑90 (MQ=255)
                                                                   ccATTTGGCAGATCAAACACCGCCACACTGTATACTCGCCATGACGATCATAAAACCCACTATGGTACTGGTGTCATGGGAGTCGTCTCa    >  1:94015/1‑90 (MQ=255)
                                                                     aTTTGGCAGATCAAACACCGCCACACTGTATACTCGCCATGACGATCATAAAAc                                      <  1:234747/54‑1 (MQ=255)
                                                                     aTTTGGCAGATCAAACACCGCCACACTGTATACTCGCCATGACGATCATAAAAc                                      >  2:234747/1‑54 (MQ=255)
                                                                     aTTTGGCAGATCAAACACCGCCACACTGTATACTCGCCATGACGATCATAAAACCCACTATGGTACTGGTGTCATGGGAGTCGTCTCaga  >  1:197301/1‑90 (MQ=255)
                                                                     |                                                                                         
GCATCAACTTAGTGCTTCAGAAAATAATGAAGACGATGGTGATCTGTTCTACGTCAACATCAGTATTCCATTTGGCAGATCAAACACCGCCACACTGTATACTCGCCATGACGATCATAAAACCCACTATGGTACTGGTGTCATGGGAGTCGTCTCAGA  >  NZ_CP009273/3357686‑3357844

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑