Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092732,617,8730AT37.1% 48.4 / 19.6 35I491F (ATT→TTT) ppk1polyphosphate kinase 1
Reads supporting (aligned to +/- strand):  ref base A (5/17);  new base T (13/0);  total (18/17)
Fisher's exact test for biased strand distribution p-value = 7.42e-06
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.67e-01
Rejected as consensus: Frequency below/above cutoff threshold.

AACGGTGAAGTGGTGCGTTATGCACACATCGGGACCGGGAACTTTAACGAAAAAACCGCGCGTCTTTATACTGACTATTCGTTGCTGACCGCCGATGCGCGCATCACCAACGAAGTACGGCGGGTA‑TTTAACTTTATTGAAAACCCATACCGTCCGGTGACATTTGATTATTTAATGGTATCGCCGCAAAACTCCCGCCGCCTATTGTATGAAATGGTGGACCGCGAGATCGCCAACGCGCAGCAAGGGCTGCCCAGTGGTATCACCCTGAAG  >  NZ_CP009273/2617738‑2618010
                                                                                                                                        |                                                                                                                                         
aaCGGTGAAGTGGTGCGTTATGCACACATCGGGACCGGGAACTTTAACGAAAAAACCGCGCGTCTTTATACTGACTATTCGTTGCTGACCGCCGATGCGCGCATCACCAACGAAGTACGGCGGGTA‑TTTAACTTTATTg                                                                                                                                        <  1:444967/139‑1 (MQ=255)
  cGGTGAAGTGGTGCGTTATGCACACATCGGGACCGGGAACTTTAACGAAAAAACCGCGCGTCTTTATACTGACTATTCGTTGCTGACCGCCGATGCGCGCATCACCAACGAAGTACGGCGGGTA‑TTTAACTTTATTGaa                                                                                                                                      <  2:796215/139‑1 (MQ=255)
          tggtgCGTTATGCACACATCGGGACCGGGAACTTTAACGAAAAAACCGCGCGTCTTTATACTGACTATTCGTTGCTGACCGCCGATGCGCGCATCACCAACGAAGTACGGCGGGTA‑TTTAACTTTATTGAAAACCCATa                                                                                                                              <  2:921604/139‑1 (MQ=255)
            gtgCGTTATGCACACATCGGGACCGGGAACTTTAACGAAAAAACCGCGCGTCTTTATACTGACTATTCGTTGCTGACCGCCGATGCGCGCATCACCAACGAAGTACGGCGGGTA‑TTTAAATTTATTGAAAACCCATAcc                                                                                                                            >  1:843860/1‑139 (MQ=255)
            ggtcGTTTTGCACACACCGGGCCCGGGAACTTTAACAAAAAACCCGCGCTTCTTTATACTTCCTATTCGTTGCTTACCGCCGATGCCCTCATCACCAACGAAGTACGTCGGGTA‑TTTAACTTTATTGAAAACCCATAcc                                                                                                                            <  2:576184/136‑1 (MQ=255)
                    tGCACACATCGGGACCGGGAACTTTAACGAAAAAACCGCGCGTCTTTATACTGACTATTCGTTGCTGACCGCCGATGCGCGCATCACCAACGAAGTACGGCGGGGA‑TTTTACTTTTTTTAAAAACCATACCGTCCCGTg                                                                                                                    >  1:463606/1‑139 (MQ=255)
                       acacaTCGGGACCGGGAACTTTAACGAAAAAACCGCGCGTCTTTATACTGACTATTCGTTGCTGACCGCCGATGCGCGCATCACCAACGAAGTACGGCGGGGA‑TTTTAATTTTTTTAAAAACCCTACCGTCCGGGGACa                                                                                                                 >  1:260543/1‑139 (MQ=255)
                           aTCGGGACCGGGAACTTTAACGAAAAAACCGCGCGTCTTTATACTGACTATTCGTTGCTGACCGCCGATGCGCGCATCACCAACGAAGTACGGCGGGTA‑TTTTACTTTTTTTAAAACCCATACCGCCCGGTGGCATTTg                                                                                                             >  2:888267/1‑139 (MQ=255)
                           aTCGGGACCGGGAACTTTAACGAAAAAACCGCGCGTCTTTATACTGACTATTCGTTGCTGACCGCCGATGCGCGCATCACCAACGAAGTACGGCGGGGATTTTAATTTTTTTTAAAACCC‑TACCCTCCGGTGaaacttt                                                                                                             >  2:616950/1‑133 (MQ=255)
                            tCGGGACCGGGAACTTTAACGAAAAAACCGCGCGTCTTTATACTGACTATTCGTTGCTGACCGCCGATGCGCGCATCACCAACGAAGTACGGCGGGTA‑TTTAACTTTATTGAAAACCCATACCGTCCGGTGACATTTGa                                                                                                            <  1:427048/139‑1 (MQ=255)
                              gggACCGGGAACTTTAACGAAAAAACCGCGCGTCTTTATACTGACTATTCGTTGCTGACCGCCGATGCGCGCATCACCAACGAAGTACGGCGGGTG‑TTTAACTTTTTTTAAAACCCACACCCTCCGGGGACATTTTatt                                                                                                          >  2:940548/1‑139 (MQ=255)
                                     ggAACTTTAACGAAAAAACCGCGCGTCTTTATACTGACTATTCGTTGCTGACCGCCGATGCGCGCATCACCAACGAAGTACGGCGGGTA‑TTTAAATTTTTTGAAAAACCCTACCCTCCGGGGACATTTTtttattttat                                                                                                   >  1:558858/1‑139 (MQ=255)
                                                   aaaaCCGCGCGTCTTTATACTGACTATTCGTTGCTGACCGCCGATGCGCGCATCACCAACGAAGTACGGCGGGGT‑TTTTACTTTATTTTAAACCCATACCGTCCGGGGACATTTGATTATTTTATGGTATcgccgcca                                                                                      >  1:614064/1‑136 (MQ=255)
                                                          cgcgTCTTTATACTGACTATTCGTTGCTGACCGCCGATGCGCGCATCACCAACGAAGTACGGCGGGTA‑TTTAACTTTATTGAAAACCCATACCGTCCGGGGGCATTTGATTATTTTATGGTATCGCCGCAAAACAcccc                                                                              >  1:228407/1‑138 (MQ=255)
                                                           gcgTCTTTATACTGACTATTCGTTGCTGACCGCCGATGCGCGCATCACCAACGAAGTACGGCGGGTG‑TTTAACTTTTTTTAAAAACCACAACGCCCGGTGGCCTTTGATTTTTTAATTGTATTGCCGCAAAACTCccgc                                                                             >  2:888552/1‑139 (MQ=255)
                                                              tCTTTATACTGACTATTCGTTGCTGACCGCCGATGCGCGCATCACCAACGAAGTACGGCGGGTA‑TTTAACTTTATTGAAAACCCATACCGTCCGGTGACATTTGATTATTTAATGGTATCGCCGCAAAACTCCcgccgc                                                                          <  2:843860/139‑1 (MQ=255)
                                                                  tataCTGACTATTCGTTGCTGACCGCCGATGCGCGCATCACCAACGAAGTACGGCGGGTA‑TTTAACTTTATTGAAAACCCATACCGTCCGGTGACATTTGATTATTTAATGGTATCGCCGCAAAACTCCCGCCGCCTa                                                                       <  1:838567/138‑1 (MQ=255)
                                                                  tataCTGACTATTCGTTGCTGACCGCCGATGCGCGCATCACCAACGAAGTACGGCGGGTA‑TTTAACTTTATTGAAAACCCATACCGTCCGGTGACATTTGATTATTTAATGGTATCGCCGCAAAACTCCCGCCGCCTa                                                                       <  1:888267/138‑1 (MQ=255)
                                                                  tataCTGACTATTCGTTGCTGACCGCCGATGCGCGCATCACCAACGAAGTACGGCGGGTA‑TTTAACTTTATTGAAAACCCATACCGTCCGGTGACATTTGATTATTTAATGGTATCGCCGCAAAACTCCCGCCGCCTa                                                                       <  2:187279/138‑1 (MQ=255)
                                                                         aCTATTCGTTGCTGACCGCCGATGCGCGCATCACCAACGAAGTACGGCGGGTA‑TTTTACTTTTTTGTAAACCCATACCCTGCGGGGGCCTTTGTTTATTTTATTGTGTTGCCCCCAAAATCCCGCCGCCtttttgatg                                                                >  2:120649/1‑133 (MQ=255)
                                                                         aCTATTCGTTGCTGACCGCCGATGCGCGCATCACCAACGAAGTACGGCGGGTA‑TTTTACTTTTTTGAAAACCCACACCCTCCGGGGACATTTTATTTTTTTATGTGATCGCCGCCAAAATCCCCCCGCCTATTGTTTg                                                                >  2:169245/1‑138 (MQ=255)
                                                                         aCTATTCGTTGCTGACCGCCGATGCGCGCATCACCAACGAAGTACGGCGGGTA‑TTTAACTTTATTGAAAACCCATACCGTCCGGTGACATTTGATTATTTAATGGTATCGCCGCAAAACTCCCGCCGCCTATTGTATg                                                                <  2:560092/138‑1 (MQ=255)
                                                                         aCTATTCGTTGCTGACCGCCGATGCGCGCATCACCAACGAAGTACGGCGGGGA‑TTTTACTTTTTTTAAAACCCATACCGTCCGGGGACATTTGATTTTTTTATGGTATTGCCGCAAAAATCCCGCCGCCCATTGTTTg                                                                >  1:52905/1‑138 (MQ=255)
                                                                                   gCTGACCGCCGATGCGCGCATCACCAACGAAGTACGGCGGGTG‑TTTTACTTTTTTGAAAACCCCTACCCCCCGGGGGGCTTTTTTTTTTTTATTGGATTCCCGCAAAAATCCCCCCGCCCCTTTTTTGAAATTGGGGAc                                                     >  2:865092/1‑139 (MQ=255)
                                                                                   gCTGACCGCCGATGCGCGCATCACCAACGAAGTACGGCGGGTA‑TTTTACTTTTTTTTAAAACCCTACCCTCCGGGGGCCTTTTTTTATTTAATGGGATAGCCGCAAAAATCCCCCCCCCCCTTTTTTGAAAaggggggc                                                     >  2:554073/1‑137 (MQ=255)
                                                                                         cgccgATGCGCGCATCACCAACGAAGTACGGCGGGTA‑TTTAACTTTATTGAAAACCCATACCGTCCGGTGACATTTGATTATTTAATGGTATCGCCGCAAAACTCCCGCCGCCTATTGTATGAAATGGTGGACCGCgag                                               <  1:169245/139‑1 (MQ=255)
                                                                                                         aCCAACGAAGTACGGCGGGTA‑TTTAACTTTATTGAAAACCCATACCGTCCGGTGACATTTGATTATTTAATGGTATCGCCGCAAAACTCCCGCCGCCTATTGTATGAAATGGTGGACCGCGAGATCGCCAACGCgcagc                               <  2:52905/139‑1 (MQ=255)
                                                                                                              cGAAGTACGGCGGGGA‑TTTTACTTTATTTAAAAACCATACCGCCCGGGGAAATTTTATTATTTAATGGGATCGCCGCAAAACTCCCCCCCCCTCTTGTATGAAAAGGTGGACCGCGAGATCGCCAACCCCCAGCAAggg                          >  1:431267/1‑139 (MQ=255)
                                                                                                              cGAAGTACGGCGGGGA‑TTTAAATTTTTTGGAAACCCCTACCCTCCGGGGGCATTTTGTTATTTTATGGGATCGCCGCCAAAATCCCCCCCCCCATTGTATGAAATGGTGGACCGCGGGATAGCCAACCCCCAGCAAggg                          >  1:150493/1‑139 (MQ=255)
                                                                                                               gAAGTACGGCGGGTA‑TTTAACTTTATTGAAAACCCATACCGTCCGGTGACATTTGATTATTTAATGGTATCGCCGCAAAACTCCCGCCGCCTATTGTATGAAATGGTGGACCGCGAGATCGCCAACGCGCAGCAAGGGc                         <  2:463606/139‑1 (MQ=255)
                                                                                                                  gTACGGCGGGTA‑TTTAACTTTATTGAAAACCCATACCGTCCGGTGACATTTGATTATTTAATGGTATCGCCGCAAAACTCCCGCCGCCTATTGTATGAAATGGTGGACCGCGAGATCGCCAACGCGCAGCAAGGGCTGc                      <  2:558858/139‑1 (MQ=255)
                                                                                                                      ggcggGTA‑TTTAACTTTATTGAAAACCCATACCGTCCGGTGACATTTGATTATTTAATGGTATCGCCGCAAAACTCCCGCCGCCTATTGTATGAAATGGTGGACCGCGAGATCGCCAACGCGCAGCAAGGGCTGCCCAg                  <  2:150493/139‑1 (MQ=255)
                                                                                                                            tA‑TTTAACTTTATTGAAAACCCATACCGTCCGGTGACATTTGATTATTTAATGGTATCGCCGCAAAACTCCCGCCGCCTATTGTATGAAATGGTGGACCGCGAGATCGCCAACGCGCAGCAAGGGCTGCCCAGTGGTAt            <  2:516295/139‑1 (MQ=255)
                                                                                                                            tA‑TTTAACTTTATTGAAAACCCATACCGTCCGGTGACATTTGATTATTTAATGGTATCGCCGCAAAACTCCCGCCGCCTATTGTATGAAATGGTGGACCGCGAGATCGCCAACGCGCAGCAAGGGCTGCCCAGTGGTAt            <  2:797627/139‑1 (MQ=255)
                                                                                                                                       tATTGAAAACCCATACCGTCCGGTGACATTTGATTATTTAATGGTATCGCCGCAAAACTCCCGCCGCCTATTGTATGAAATGGTGGACCGCGAGATCGCCAACGCGCAGCAAGGGCTGCCCAGTGGTATCACCCTGAAg  >  1:611238/1‑139 (MQ=255)
                                                                                                                                        |                                                                                                                                         
AACGGTGAAGTGGTGCGTTATGCACACATCGGGACCGGGAACTTTAACGAAAAAACCGCGCGTCTTTATACTGACTATTCGTTGCTGACCGCCGATGCGCGCATCACCAACGAAGTACGGCGGGTA‑TTTAACTTTATTGAAAACCCATACCGTCCGGTGACATTTGATTATTTAATGGTATCGCCGCAAAACTCCCGCCGCCTATTGTATGAAATGGTGGACCGCGAGATCGCCAACGCGCAGCAAGGGCTGCCCAGTGGTATCACCCTGAAG  >  NZ_CP009273/2617738‑2618010

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑