Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913380,0121.G40.0% 1.6 / 44.7 25intergenic (‑131/+57)frmR/yaiOregulator protein that represses frmRAB operon/outer membrane protein
Reads supporting (aligned to +/- strand):  ref base . (4/11);  new base G (9/1);  total (13/12)
Fisher's exact test for biased strand distribution p-value = 3.61e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.33e-02
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

CTGGGCATTTCGCACCTCATCATCTGCATGCAATATACTATAGGGGGGTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAGGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAATCATCGGTTGGGGTGTCGTACC  >  NC_000913/379874‑380136
                                                                                                                                           |                                                                                                                             
cTGGGCATTTCGCACCTCATCATCTGCATGCAATATACTATAGGGGGGTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGaaa                                                                                                                                >  1:642997/1‑139 (MQ=255)
                                 tataCTATAGGGGGGTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAGGGGGGGGGGCTAATCGGCAGGGAAGGCCGccc                                                                                             >  1:62343/1‑139 (MQ=255)
                                        taGGGGGGTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAgggggggtggggttaatcggaaggaaaggccgccccggac                                                                                        >  2:1036057‑M1/1‑99 (MQ=255)
                                        taGGGGGGTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAGGGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATa                                                                                       >  1:967210/1‑139 (MQ=255)
                                           gggggTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAgggggggggggggctaatcggcagggaaggccgccccggatag                                                                                     >  1:645315‑M1/1‑96 (MQ=255)
                                           gggggTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAGGAGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAgcgg                                                                                   >  1:809618/1‑139 (MQ=255)
                                             gggTATTCTCTATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAggggggggggggcaaaccggcaggaaagcccgcccgggaagcggg                                                                                   >  2:933445‑M1/1‑94 (MQ=255)
                                             gggTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAggggggggggggctaatcggcagggaaggccgccgcggatagcgg                                                                                   >  1:607862‑M1/1‑94 (MQ=255)
                                             gggTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAggggggggggggctaatcggcagggaaggccgccccggatagcgg                                                                                   >  1:178462‑M1/1‑94 (MQ=255)
                                             gggTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAGGGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAgcggg                                                                                  >  1:437705/1‑139 (MQ=255)
                                               gTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAggggggggggggctaatcggcagggaaggccgccccggatagcgggc                                                                                 >  1:266048‑M1/1‑92 (MQ=255)
                                                tATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAGGGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAgcgggcgg                                                                               >  1:400248/1‑139 (MQ=255)
                                                      atttgtcAAGGCATACCCCCCTATAGTATATAACACTGGAGAAAAAAATTTATCCGGTGAATGTGGGCGGAAAAAAAAAAGGAAAgggggggggggggctaatcggcagggaaggccgccccggatagcgggcggcaga                                                                          <  1:732183‑M1/136‑55 (MQ=255)
                                                          gtaaatgcATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGCTGAATGTGGTCGGAAAACAAAGAGGAAAcggggggggggggctaatgggcggggaaggccgccccggaaagggggcggcagaagga                                                                      >  2:700416‑M1/4‑81 (MQ=255)
                                                          gTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAGGGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAAt                                                                     >  2:920519/1‑139 (MQ=255)
                                                             aaTGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAGGGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGTGGCAGAAGGAATCAg                                                                  >  1:192108/1‑139 (MQ=255)
                                                               tGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAGGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAAt                                                               >  1:882985/1‑139 (MQ=255)
                                                                     ccccccTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAGGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAg                                                         <  2:62343/139‑1 (MQ=255)
                                                                         ccTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAggggggggggggctaatcggcagggaaggccgccccggatagcgggcggcagaaggaatcagaatttccaggt                                                       >  1:226949‑M1/1‑66 (MQ=255)
                                                                           tataGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAggggggggggggctaatcggcagggaaggccgcccgggatagcgggcggcagaaggaatcagaatttccaggtca                                                     >  2:453755‑M1/1‑64 (MQ=255)
                                                                           tataGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAGGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAg                                                    <  2:401510/138‑1 (MQ=255)
                                                                           tataGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAGGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAg                                                    >  1:401510/1‑138 (MQ=255)
                                                                            gacagataaaaaactGGAGAATAAAATTTATCCGGGGAATTGGGGCGGAAAACAAAGAGGAAAggggggggggggctaatcggcagggaaggccgccccggatagcgggcggcagaaggaatcagaatttccaggtcag                                                    <  2:767075‑M1/134‑77 (MQ=255)
                                                                             taggttaaaaaactggggaaaaaaATTTATCCGGGGAATGGGGTGGGAAAACCAAGGGGGAgggggggggggggctaatcggcagggaaggccgccccggatagcgggcggcagaaggaatcagaatttccaggtcaga                                                  <  2:226949‑M1/128‑79 (MQ=255)
                                                                                 aaataacACGGGAAAATAAAATTTATCCGGGGAATGGGGTGGGAAAAAAAAGAGGGAAggggggggggggctaatcggcagggaaggccgccccggatagcgggcggcagaaggaatcagaatttccaggtcagacggg                                               <  2:48757‑M1/137‑82 (MQ=255)
                                                                                  tataACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAggggggggggggctaatcggcagggaaggccgccccggatagcgggcggcagaaggaatcagaatttccaggtcagacgggc                                              >  1:554752‑M1/1‑57 (MQ=255)
                                                                                   ataACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAGGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGc                                           <  2:809618/139‑1 (MQ=255)
                                                                                      acacTGGAGAATAAAATTTATCCGGGGAATGTGGGCGGAAAACAAAGAGGAAAgggggggggggggctaatcggcagggaaggccgccccggatagcgggcggcagaaggaatcagaatttccaggtcagacgggctgc                                          <  1:700416‑M1/139‑87 (MQ=255)
                                                                                       cacTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAgggggggggggggcaaatcggaaggaaaggcgcccccggatagcgggcggcagaagaaataagaatttcaagtccggacgggctgaa                                         >  2:387684‑M1/1‑52 (MQ=255)
                                                                                       cacTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAggggggggggggctaatcggcagggaaggccgccccggatagcgggcggcagaaggaatcagaatttccaggtcagacgggctgcaa                                         >  1:526447‑M1/1‑52 (MQ=255)
                                                                                          tGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAgggggggggggggctaatgggcggggaaggccgccccggatagggggcggaggaaggaatcagaatttccaggtcagacgggccgcaagt                                      >  1:363769‑M1/1‑49 (MQ=255)
                                                                                          tGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAggggggggggggctaatcggcagggaaggcccccccggatagcggggggaagagggaataagaattcccggggcagccgggcggcaagtt                                      >  2:921014‑M1/1‑49 (MQ=255)
                                                                                          tGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAGGGGGGGGGGGGTAAATGGGAAGGGAAGCCCCCCCGGGATAGGGGGGGCAAGAGGGAAACAAAATTCCCGGGTCAGGGGGGCTGCAAttt                                      >  1:79285/1‑139 (MQ=255)
                                                                                          tGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAGGGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTg                                     >  2:204895/1‑139 (MQ=255)
                                                                                           ggAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAGGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCa                                   <  2:882985/139‑1 (MQ=255)
                                                                                            gagaATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAggggggggggggctaatcggcagggaaggcccccccggatagcgggcggcagaaggaatcagaatttccaggtcagacgggctgcaactgtc                                    >  1:767075‑M1/1‑47 (MQ=255)
                                                                                                 tAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAGGGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGGGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCg                              >  1:636051/1‑139 (MQ=255)
                                                                                                         aTCCGGTGAATGTGGTGGGAAAACAAAGAGGAAAGGGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAatc                      <  1:920519/139‑1 (MQ=255)
                                                                                                         aTCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAGGGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAatc                      >  2:1202381/1‑139 (MQ=255)
                                                                                                                gAATGTGGTCGGAAAACAAAGAGGAAAggggggggggggctaatcggcagggaaggccgccccggaaagcgggcggcagaaggaataagaatttccagggcagacgggctgaaagttgaagaccgttaaaaacatcggt                >  2:961529‑M1/1‑27 (MQ=255)
                                                                                                                           gAAAACAAAGAGGAAAggggggggggggctaatcggcagggaaggccgccccggatagcgggcggcagaaggaatcagaatttccaggtcagacgggctgcaagttgcagaccgttaaaatcatcggttggggtgtcgt     >  1:449571‑M1/1‑16 (MQ=255)
                                                                                                                             aaaaaaAGAGGGAAggggggggggggctaatcggcagggaaggccgccccggatagcgggcggcagaaggaatcagaatttccaggtcagacgggctgcaagttgcagaccgttaaaatcatcggttggggtgtcgtac   <  1:11586‑M1/139‑126 (MQ=255)
                                                                                                                              aaCAAAGAGGGAAgggggggggggggctaatcggcagggaaggccgccccggatagcgggcggcagaaggaatcagaatttccaggtcagacgggctgcaagttgcagaccgttaaaatcatcggttggggtgtcgtac  <  1:387684‑M1/139‑127 (MQ=255)
                                                                                                                                           |                                                                                                                             
CTGGGCATTTCGCACCTCATCATCTGCATGCAATATACTATAGGGGGGTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAGGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAATCATCGGTTGGGGTGTCGTACC  >  NC_000913/379874‑380136

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: