Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0092732,355,0140AT22.9% 84.3 / 10.2 48I226N (ATC→AAC) rhmRputative DNA‑binding transcriptional regulator for the rhm operon
Reads supporting (aligned to +/- strand):  ref base A (21/16);  new base T (0/11);  total (21/27)
Fisher's exact test for biased strand distribution p-value = 1.01e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

AACCTGTTTAATTTTTGGTAGGGTCATGATGTTCTCCATTGTTATGAGGCTTGTAAGTCAAAGGGACTTTTCCATCCCAACAGACGTGAAATATCCCTGGCGCAGGCAATGGCCTTGCCCGCCAGATAATCACGGTATTCTTCATTGATTTGTAAGCGGGTACCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGGCGTTAAACACCGGCGCAGCGACACAACGGACATCGGCGTAATCTTCGCCGTTGTCATAGCTCCAGCCCTGACGGCGAATACGCGCCAGTTCTTC  >  CP009273/2354867‑2355159
                                                                                                                                                   |                                                                                                                                                 
aaCCTGTTTAATTTTTGGTAGGGTCATGATGTTCTCCATTGTTATGAGGCTTGTAAGTCAAAGGGACTTTTCCATCCCAACAGACGTGAAATATCCCTGGCGCAGGCAATGGCCTTGCCCGCCAGATAATCACGGTATTCTTCATTGAt                                                                                                                                                  <  2:693615/149‑1 (MQ=255)
 aCCTGTTTAATTTTTGGTAGGGTAATGATGTTCTCCATTGTTATGAGGCTTGTAAGTCAAAGCGACTTTTCCATCCCAACAGACGTGACATATCCCTGGCGCAGGCAATGGCCTTGCCCGCCAGATAATCACGGTATTCTTCATTGAtt                                                                                                                                                 <  1:675667/149‑1 (MQ=255)
  ccTGTTTAATTTCTGTTAGGGTCATGATGTGCTCCATTGTTATGAGGCTTGTAAGTCAAAGGGACTTTTCCATCCCAACAGACGTGAAATATCCCTGGCGCAGGCAATGGCCTTGCCCGCCAGATAATCACGGTATTCTTCATTGAttt                                                                                                                                                <  1:253198/149‑1 (MQ=255)
   cTGTTTAATTTTTGGTAGGGTCAGGATGTTCTCCATTGTTATGAGGCTTGTAAGTCAAAGGGACTTTTCCATCCCAACAGACGTGACATATCCCTGGCGAAGGCAATGGCCTTGCCCGCCAGATAATCACGGTATTCTTCATTGATTTg                                                                                                                                               >  2:687909/1‑149 (MQ=255)
    tGTTTAATTTTTGGTAGGGTCATGATGTTCTCCATTGTTATGAGGCTTGTAAGTCAAAGGGACTTTTCCATCCCAACAGACGTGAAATATCCCTGGCGCAGGCAATGGCCTTGCCCGCCAGATAATCACGGTATTCTTCATTGATTTGt                                                                                                                                              >  1:189742/1‑149 (MQ=255)
      tttAATTTTTGGTAGGGTCATGATGTTCTCCATTGTTATGAGGCTTGTAAGTCAAAGGGGCTTTTCCATCCCAACAGACGTGAAATATCCCTGGCGCAGGCAATGGCCTTGCCCGCCAGATCATCACGGTATTCTTCATTGATTTGTaa                                                                                                                                            >  1:945431/1‑149 (MQ=255)
        tAATTTTTGGTAGGGTCATGATGTTCTCCATTGTTATGAGGCTTGTAAGTCAAAGGGACTTTTCCATCCCAACATACGTGAAATATCCCTGGCGCAGCCAATGGCCTTGCCTCCCAGATAATCACGGTGTGCTTCATTGATTTGTAAGc                                                                                                                                          >  1:275948/1‑149 (MQ=255)
         aaTTTTTGGTAGGGTCATGATGTTCTCCATTGTTATGAGGCTTGTAAGTCAAAGGGACTTTTCCATCCCAACAGACGTGAAATATCCCTGGCGCAGGCAATGGCCTTGCCCGCCAGATAATCACGGTATTCTTCATTGATTTGTAAGCg                                                                                                                                         <  1:103918/149‑1 (MQ=255)
                    gggACATGATCCTCCCCATTGTTATGAGGCACCAAAGTCAAAGCGACTTTTCCATCCCAACACACGTAAAATATCCCTGCCCCAGACAATGGCCTTGCCCGCCAGATAATCACGGTATTCTTCATTGATTTGTAAGCGGGTACCGacca                                                                                                                              <  2:16723/149‑1 (MQ=255)
                            atgTTCTCCATTGTTATGAGGCTTGTAAGTCAAAGGGACTTTTCCATCCCAACAGACGTGAAATATCCCTGGCGCAGCCAATGGCCTTGCCCGCCAGATAATCACGGTATGCTTCATTGATTTGCAAGCGGGTCCCGACGACCgagccc                                                                                                                      >  2:647451/1‑146 (MQ=255)
                                      ttGTTATGAGGCTTGTAAGTCAAAGGGACTTTTCCATCCCAACAGACGTGAAATATCCCTGGCGCAGGCAATGGCCTTGCCCGCCAGATAATCACGGTATTCTTCATTGATTTGTAAGCGGGTACCGACCACCGAGATCGCAGCGGTaa                                                                                                            <  1:617809/149‑1 (MQ=255)
                                         tgaTGAGGCTTGTAAGTCAAAGGGACTTTTCCATCCCAACAGACGTGAAATATCCCTGGCGCAGGCAATGGCCTTGCCCGCCAGATAATCACGGTATTCTTCATTGATTTGTAAGCGGGTACCGACCACCGAGATCGCAGCGGTAAGCt                                                                                                         >  2:694540/3‑149 (MQ=255)
                                             gAGGCTTGTAAGTCAAAGGGACTTTTCCATCCCAACAGACGTGAAATATCCCTGGCGCAGGCAATGGACTTGCCCGCCAGATAATCACGGTATTCTTCATTGATTTGTAAGCGGGTACCGACCACCGAGATCGCAGCGGTAAGCTCggt                                                                                                     >  1:451454/1‑147 (MQ=255)
                                                  ttGTAAGTCAAAGGGACTTTTCCATCCCAACAGACGTGAAATATCCCTGGCGCAGGCAATGGCCTTGCCCGCCAGATAATCACGGTATTCTTCATTGATTTGTAAGCGGGTACCGACCACCGAGATCGCAGCGGGAAGCTCGCTATTgg                                                                                                >  2:418126/1‑149 (MQ=255)
                                                       aGTCAAAGGGACTTTTCCATCCCAACAGTCGTGAAATATCCCTGGCGCAGGCAATGGCCTTGCCCGCCAGATAATCACGGTATTCTTCTTTTTTTTTTAAGGAGACGGCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGGCGTTa                                                                                           <  2:703048/149‑1 (MQ=255)
                                                         tCACAGGGACTTTTCCATCCCAACAGACGTGAAATATCCCTGGCGCAGGCAATGGCCTTGCCCGCCAGATAATCACGGTATTCTTCATTGATTTGTAAGCGGGTACCGACCCCCGAGATAGCAGCGGTAAGCACGTTATTGGCgggaaa                                                                                         >  2:988875/1‑144 (MQ=255)
                                                         tCAAAGGGACTTTCCCATCCCAACAGACGTGAAATCTCCCTTGCGCAGGCGATGGCCTTGCCCGCCAGATAATCACGGTAGTCTTCTTTTTTTTGTAATGATGCGGCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGTCTTTaaa                                                                                         <  2:666130/149‑1 (MQ=255)
                                                             aGGGACTTTTCCATCCCAACAGACGTGAAATATCCCTGGCGCAGGCAATGGCCTTGCCCGCCAGATAATCACGGTATTCTTCATTGATTTGTAAGCGGGTACCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGGCGTTAAACAcc                                                                                     >  1:119171/1‑149 (MQ=255)
                                                             aGGGACTTTTCCATCCCAACAGACGTGAAATATCACTGGCGCTGGTAATGGCCTTGCCCGCCAGATAATCACGGTATTCTTCATTGATTTGTAAGCGGGTACCGACCACCGAGATCGCAGCGGTAAGCCCGTTATTGGCGATAAGCAcc                                                                                     >  1:291476/1‑149 (MQ=255)
                                                              tggtcTTTCCCACCCCAACCGCCGTGAATTATCCCTGGCGCAGGCAATGGCCTTGCCCGCCAGATAATCACGGTATTCTTCTTTTTTTTTTAATGATACGGCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGGCGTTAAACACCg                                                                                    <  2:17033/145‑1 (MQ=255)
                                                              gggACTTTTCCATCCCAACAGACGTGAAATATCCCTGGCGGAGGCAATGGCCTTGCCCGCCAGATAATCACGGTATTCTTCTTTTTTTTGTAAGGGTGCGGCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGGCGTTAAACACCg                                                                                    <  2:838256/149‑1 (MQ=255)
                                                                     gtgcatggcAACAGACGTGGCTTCTCCCTTGCGCAGGGAATGGCCTTGCTCGCCAGATCATCACGGTATCCTTTTTTGTTTTTTAATGATGCGGCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGGCGTTAAACACCGGCGCAGc                                                                             <  2:490267/141‑1 (MQ=255)
                                                                        cATCCCAACAGACGTGAAATATCCCTGGCGCAGGCAATGGCCTTGCCCGCCAGATAATCACGGTATTCTTCATTGATTTGTAAGCGGGTACCGACCACCGAGATCGCAGCGGTAAGCTCGTGATTGGCGTTAAACACCGGCGCAGCGac                                                                          >  1:480450/1‑149 (MQ=255)
                                                                         aTCCCAACAGACGTGAAATATCCCTGGCGCAGGCAATGGCCTTGCCCGCCAGATAATCACGGTATTCTTCATTGATTTGTAAGCGGGTACCGACCACCGAGCTCGCAGCGGTAAGCTCGTTATTGGCGCTAAACACCGGCGCGGCGaca                                                                         >  2:563071/1‑149 (MQ=255)
                                                                         aTCCCAACAGACGTGAAATATCCCTGGCGCAGGCAATGGCCTTGCCCGCCAGATAATCACGGTATTCTTCATTGATTTGTAAGCGGGTACCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGGCGTTAAACACCGGCGCAGCGaca                                                                         <  1:388777/149‑1 (MQ=255)
                                                                           cccAACAGACGTGAAATATCCCTGGCGCAGGCAATGGCCTTGCCCGCCAGATAATCACGGTATTCTTCATTGATTTGTAAGCGGGAACCCACCTCCGAGCCCGCACCGGTAACACCGCTATTGGCCTAGAACACCGCCCCCGCGccacc                                                                       >  2:587895/1‑148 (MQ=255)
                                                                                cagactgtaaaTATCCCTGGCGCAGGCAATGGTCTTGCCCGCCAGATCGTCATGGTATTGTTCATTGATTTGTAAGCGGGTACCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGGCGTTAAACACCGGCGCAGCGACACAACGGa                                                                  <  1:776147/141‑1 (MQ=255)
                                                                                    cGTGAAATATCCCTGGCGCAGGAAAGGGCCTGGCCCGCCAGATAATCACGGTATTCTTCATTGATTTGTAAGCGGGTACCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGGCGTTAAACACCGGCGCAGCGACACAACGGACATc                                                              <  1:822551/149‑1 (MQ=255)
                                                                                        aaaTATCCCTGGCGCAGTCAATGGCCTTGCCCGCCAGATAATCACGGTATTCTTCTTTTTTTTTTAATGAGGCGCCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGGCGTTAAACACCGGCGCAGCGACACAACGGACATCGGCg                                                          <  2:995685/149‑1 (MQ=255)
                                                                                               ccTGGCGCAGGCAATGGCCTTGCCCGCCAGATAATCACGGTATTCTTCATTGATTTGTAAGCGGGTACCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGGCGTTAAACACCGGCGCGGCGACACAACGGACATCGGCGTAATCtt                                                   >  1:391254/1‑149 (MQ=255)
                                                                                               ccTGGCGCAGGCAATGGCCTTGCCCGCCAGATAATCACGGTATTCTTCATTGATTTGTAAGCGGGTACCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGGCGTTAAACACCGGCGCAGCGACACAACGGACATCGGCGTAATCtt                                                   <  1:822085/149‑1 (MQ=255)
                                                                                               ccTGGCGCAGGCAATGGCCTTGCCCGCCAGATAATCACGGTATTCTTCATTGATTTGTAAGCGGGTACCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGGCGTTAAACACCGGCGCAGCGACACAACGGACATCGGCGTAATCtt                                                   >  1:751403/1‑149 (MQ=255)
                                                                                                 tGGCGCAGGCAATGGCCTTGCCCGCCAGATAATCACGGTATTTTTTTTTTTTTTTTAAGGATACGGCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGGCGTTAAACACCGGCGCAGCGACACAACGGACATCGGCGTAATCTTCg                                                 <  2:232250/149‑1 (MQ=255)
                                                                                                  ggCGCAGGCAATTGCCTTGCCCGCCAGATAATCACGGTATTCTTCTTTTTTTTTTAATCGTGCGGCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGGCGTTAAACACCGGCGCAGCGACACAACGGACATCGGCGTAATCTTCGc                                                <  2:924929/149‑1 (MQ=255)
                                                                                                      aatgCAATGGCCTTGCCCGCCAGATCATCACGGTATTCTTCATTGTTTTTTAAGCGTACGGCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGGCGTTAAACACCGGCGCAGCGACACAACGGACATCGGCGTAATCTTCGCCGtt                                            <  2:677524/146‑1 (MQ=255)
                                                                                                       aGGCAATGGCCTTGCCCGCCAGCTAATCACGGTATTCTTCATTGATTTGTAAGCGGGCACCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGGCGTTAAACACCGGCGCAGCGACAGAACGGACATCGGCGTAATCTTCGCCGTTg                                           <  1:634794/149‑1 (MQ=255)
                                                                                                                ccTTGCCCGCCAGATAATCACGGTATTCTTCATTGATTTGTAAGCGGGTACCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGGCGTTAAACACCGGCGCAGCGACACAACGGACATCGGCGTAATCTTCGCCGTTGTCATAGCTc                                  <  1:415876/149‑1 (MQ=255)
                                                                                                                    gcgcGCCAGATAATGACGGTATTCTTCATCTTTTTGTAATCGGACACCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGGCGTTAAACACCGGCGCAGCGACACAACGGACATCGGCGTAATCTTCGCCGTTGTCATAGCTCCAGc                              <  2:636276/146‑1 (MQ=255)
                                                                                                                    gcgcGCCAGAGAATCACGGTATTCTTCATTGATTTGTAAGCGTGCAGCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGGCGTTAAACACCGGCGCAGCGACACAACGGACATCGGCGTAATCTTCGCCGTTGTCATAGCTCCAGc                              <  2:275948/146‑1 (MQ=255)
                                                                                                                     cccTCCAGATAATCCCGGTATTCTTCATTGATATGTAAGGGGGCACCGACCAGCGAGATCGCAGCGGTAAGCTCGTTATTGGCGTTAAACACCGGTGCAGCGACACAACGGACATCGGCATAATCTTCGCCGTTGTCATAGCTCCAGcc                             <  2:554944/149‑1 (MQ=255)
                                                                                                                           aGATTATCCCGGTATTTTTCTTTGTTTTTTAATGGTGTGGCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGGCGTTAAACACCGGCGCAGCGACACAACGGACATCGGCGTAATCTTCGCCGTTGTCATAGCTCCAGCCCTGACg                       <  2:328925/149‑1 (MQ=255)
                                                                                                                                 tCACGGTATTCTTCATTGATTTGTAAGCGGGTACCGACCACCGAGATCGCAGCTGTAGTCTCGTTATTGGCGTTAAACACCGGCGCAGCGACACAACGGACATCGGCGTAATCTTCGCCGTTGTCATAGCTCCAGCCCTGACGGCGAAt                 >  2:168052/1‑149 (MQ=255)
                                                                                                                                      gTATTCTTCATTGATTTGTAAGCGGGTACCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGGCGTTAAACACCGGCGCAGCGACACAACGGACATCGGCGTAATCTTCGCCGTTGTCATAGCTCCAGCCCTGACGGCGAATAcgcg            >  1:944850/1‑149 (MQ=255)
                                                                                                                                       tattatTCAGTGATTTGTAAGCGGGTACCGACCACCGAGATCGCAGCGGTAAGCTCGTTAGCGGCGTTAAACACCGGCGCAGCGACACAACGGAAATCGGCGCAATCTTCGCCGTCGTCATAGCTCCAGCCCTGACGGCGAATACgcgc           <  1:174381/149‑1 (MQ=255)
                                                                                                                                         ttcttcATTGATTTGTAAGCGGGTACCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGGCGTTAAACACCGTCGCAGCGACACAACGGACATCGGCGTAATCTTCGCCGTTGTCATAGCTCCAGCCCTGACGGCGAATACGCGCCa         <  1:132289/149‑1 (MQ=255)
                                                                                                                                           cttcATTGATTTGTAAGCGGGTACCGACCACCGAGATCGCAGCGGGAAGCTCGTTATTGGCGTTAAACACCGGCGCAGCGACACAACGGGCATCGGCGTAATCTTCGCCGTTGTCATAGCTCCAGCCCTGACGGCGAATACGCGTCAGt       >  2:896960/1‑149 (MQ=255)
                                                                                                                                              cATTGATTTGTAAGCGGGTACCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGGCGTGAAAGACCGGCGCAGCGACACAACGGACATCGGCGTAATCTTCGCCGTTGTCATAGCTCCAGCCCTGACGGCGAATAGGCGCCAGttct    >  1:533898/1‑149 (MQ=255)
                                                                                                                                                tttaTTTGTAATGGTGTGCCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGGCGTTAAACACCGGCGCAGCGACACAACGGACATCGGCGTAATCTTCGCCGTTGTCATAGCTCCAGCCCTGACGGCGAATACGCGCCAGttcttc  <  2:419887/146‑1 (MQ=255)
                                                                                                                                                ttGATTTGTAAGCGGGTACCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGGCGCTACGCACCGGCGCAGCGACACAACGGACATCGGCGTAATCTTCGCCGTTGTCATAGCTCCAGCCCTGACGGCGAATACGCGCCAGttcttc  >  1:832287/1‑149 (MQ=255)
                                                                                                                                                   |                                                                                                                                                 
AACCTGTTTAATTTTTGGTAGGGTCATGATGTTCTCCATTGTTATGAGGCTTGTAAGTCAAAGGGACTTTTCCATCCCAACAGACGTGAAATATCCCTGGCGCAGGCAATGGCCTTGCCCGCCAGATAATCACGGTATTCTTCATTGATTTGTAAGCGGGTACCGACCACCGAGATCGCAGCGGTAAGCTCGTTATTGGCGTTAAACACCGGCGCAGCGACACAACGGACATCGGCGTAATCTTCGCCGTTGTCATAGCTCCAGCCCTGACGGCGAATACGCGCCAGTTCTTC  >  CP009273/2354867‑2355159

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑