Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092731,158,1920AC54.5% 8.7 / 12.7 11K33N (AAA→AAC) lpoBpenicillin‑binding protein activator LpoB
Reads supporting (aligned to +/- strand):  ref base A (3/2);  new base C (0/6);  total (3/8)
Fisher's exact test for biased strand distribution p-value = 6.06e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.28e-03
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

AGTCGCTACGCCTTGATTACCGCGCTGGCGATGTTTCTCGCCGGGTGTGTGGGGCAACGTGAACCTGCACC‑GGT‑AGAAGAAGTGAAACCAGCGCCGGAACAACCAGCCGAGCCACAACAGCCTGTCCCCACAGTGCCCTCGGTGCCGACGATCCCGCAGCAGCCA  >  NZ_CP009273/1158106‑1158270
                                                                                        |                                                                              
aGTCGCTACGCCTTGATTACCGCGCTGGCGATGTTTCTCGCCGGGTGTGTGGGGCAACGTGAACCTGCACC‑GGT‑AGAAGAAGTGAAACCa                                                                             <  1:483588/90‑1 (MQ=255)
                   ccGCGCTGGCGATGTTTCTCGCCGGGTGTGTGGGGCAACGTGAACCTGCACC‑GGT‑AGAAGAAGTGAAACCAGCGCCGGAACAACCAGCCg                                                          >  1:116154/1‑90 (MQ=255)
                    cgcgCTGGCGATGTTTCTCGCCGGGTGTGTGGGGCAACGTGAACCTGCACC‑GGT‑AGAAGAAGTGAAACCa                                                                             <  1:626579/70‑1 (MQ=255)
                    cgcgCTGGCGATGTTTCTCGCCGGGTGTGTGGGGCAACGTGAACCTGCACC‑GGT‑AGAAGAAGTGAAACCa                                                                             >  2:626579/1‑70 (MQ=255)
                                 tttCCCGCGGGGTGTGTGGGGCAACGTGACCCTGCCCC‑GGT‑AGAAGAAGTGAACCCAGCGCCGGAACAACCAGCCGAGCCACAACAGCCt                                            <  2:116154/90‑1 (MQ=255)
                                 tttCCCGCGGGGGGGGGGGGGAAACGT‑AACCCGGCCC‑GGTAAAAAGAAGAAAACCCGGCCCCGAACCACCCAGCCGAGCCACAACAGCCt                                            <  1:520502/90‑1 (MQ=255)
                                         ggggTGTGGGGGGAAACGTGACCCTGCCCG‑GGA‑AAAAGAAGTAAACCCAGCGCCGAAACAACCAGCCGAGCCACAACAGCCTGTCCCcac                                    <  2:143728/89‑1 (MQ=255)
                                              gtgtgGGGCAACGTGAACCTGCACC‑GGT‑AGAAGAAGTGAAACCAGCGCCGGAACAACCAGCCGAGCCACAACAGCCTGTCCCCACAGTGc                               >  1:605454/1‑90 (MQ=255)
                                                 gggggAAACGT‑AACCCGCCCCGGGA‑AGAAAAAGAAAACCCAGCGCGGAAACACCCACCCGAGCCACAACAGCCTGTCCCCACAGTGCCCt                            <  2:307192/89‑1 (MQ=255)
                                                                cTGCACG‑GGA‑AGAAGAAGTAAACCCGGCGCGGGAACACCCACCCGAGCCACAACAGCCTGTCCCCACAGTGCCCTCGGTGCCGACGATcc             <  2:267453/90‑1 (MQ=255)
                                                                             gaagaaGTAAACCCGGCGCCGAAACACCCAGCCGAGCCACAACAGCCTGTCCCCACAGTGCCCTCGGTGCCGACGATCCCGCAGCAGCCa  <  2:151494/90‑1 (MQ=255)
                                                                                        |                                                                              
AGTCGCTACGCCTTGATTACCGCGCTGGCGATGTTTCTCGCCGGGTGTGTGGGGCAACGTGAACCTGCACC‑GGT‑AGAAGAAGTGAAACCAGCGCCGGAACAACCAGCCGAGCCACAACAGCCTGTCCCCACAGTGCCCTCGGTGCCGACGATCCCGCAGCAGCCA  >  NZ_CP009273/1158106‑1158270

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑