Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913357,8900CA65.4% 10.2 / 9.4 26L267F (TTG→TTTcynRtranscriptional activator of cyn operon; autorepressor
Reads supporting (aligned to +/- strand):  ref base C (5/4);  new base A (0/17);  total (5/21)
Fisher's exact test for biased strand distribution p-value = 1.92e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.84e-01

GATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAATTGAGTT  >  NC_000913/357742‑358027
                                                                                                                                                             |                                                                                                                                         
gATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGcaacaa                                                                                                                                         >  2:460330/1‑151 (MQ=255)
gATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGcaacaa                                                                                                                                         >  1:223936/1‑151 (MQ=255)
     gCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAAccg                                                                                                                                    >  1:89092/1‑151 (MQ=255)
                 aGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCa                                                                                                                        >  2:995189/1‑151 (MQ=255)
                     tgtcccAGCAGCGGACGTGTGCCGGCGGCTCCGGTGTGTCATCCCCGCCACCACGCGCGCATTCCCCCAGCGCTAGGTGAAAAACGCCTTCGGCGGGGGTTGTCCGCCAGTTTTTTTCCGGCCGAAAAAAAACCGCCGTTCTCTCCagtag                                                                                                                    <  2:184611/147‑1 (MQ=255)
                     attccccgCCGAAGCCCTGTGTCAGCGGCTACGGTGTTTCTTTCCCCCCAACAACCGCCCTTTTTCCCACCGCCTGGTAAAAAAAGGCTTCCGCGGCGGTTTTCTCCCGGTTTTTTTCCCGCCGAAAAAAAACCGCCGTTCTCTCCagtag                                                                                                                    <  1:1216912/144‑1 (MQ=255)
                     atccccgcccGCAGCCTTTGTCCAGCGCCTCCCGTGTTCATTCCCCGCCAACAACCGCGCTTTTCCCCCGCCCATTGGAAAAAATTCCTTTCGCGGCGTCTTTCTGCCTTTTTTTTTCCCCCCCCAACAAAACCGCCGTTCTCTCCagtag                                                                                                                    <  2:668385/143‑1 (MQ=255)
                          cccccGCAGCCCTTTGTCGGCGCCTCCCGTTTTTCTTTCCCGCCACCACCCGCGTTTTTCCCCACCCCAATGTCAAAAAATGCCTCCGGGGCGGTTTTCGGCCAGTTTTTTTCCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCg                                                                                                               <  1:262390/148‑1 (MQ=255)
                                  gatcTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGCTCTCTCCAGTAGTGGCggggtctgg                                                                                                       >  2:687475/4‑146 (MQ=255)
                                    cgtgtgTCAGCGCCTACTGTTTTCCTTTCCCCCAAACACCCGCGATTTACCCAAACGCCATGGAAAAAACGCCCTCCGCGGGGGTTGCCGCCCATTTTTTTTCCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAgaga                                                                                                     <  2:1100560/149‑1 (MQ=255)
                                    ccTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCggggggaggga                                                                                                     >  2:652098/1‑144 (MQ=255)
                                            tacgcgttacctgtatttatttCCGCCAAACACCGCCTATTTAACCAACGCCATGGGAAAAAAGTGCTTCGGGGGGGCTTGCTGGCGGGTAGTTTTCCGGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCACGAGAAATAg                                                                                                <  2:685683/136‑1 (MQ=255)
                                              tcGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCGagctgcaaagcaat                                                                                            >  2:1089367/2‑139 (MQ=255)
                                               cggcaccggTGATTCTTTCCCCCCACCACCCCCGTTTTAATCAACCGCCTGGCGAAAAAATCCTTCCGCGGGGGTTGTCGGCCGGTTTTTTTCCGCCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCt                                                                                              <  2:796699/140‑1 (MQ=255)
                                                   tgcgagtttccATTCCCCCCAACACCCGCGCTTTAACCCACCTCAATGTGAAAAAATGCTTCCGAGGTGGGTTGCGGCCACTTTTTTTCCCGCCAAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc                                                                                       <  2:98527/141‑1 (MQ=255)
                                                   tacgggtttccATTCCCCCCAACACCCGCGCTTTACCCCACCGCAATGAGAAAAAATGCCTCCGCGGGGGTTGCCGCCGAGTTTTTTTCCCGCAACAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc                                                                                       <  2:655922/141‑1 (MQ=255)
                                                             cATTCCCCCCAACACCCGCGTATTTACCCACCGCAATGTAAAAAAAGCCCTTCGGGGCGGCTGTCGGCCAGTTTTTTTCCCGCCGAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAtgttg                                                                             <  1:460479/151‑1 (MQ=255)
                                                             cATTCCCCCAAACACCCGCGATTTTACCCACCGCCTTGAGAAAAAATGCCTGGGGGGGGGTTGTCTGCCAGTTTTTTTCCCGCCGAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAtgttg                                                                             <  2:318482/151‑1 (MQ=255)
                                                              ttttccccccAACAACGCCACATTAACCAAACGCCTTGTAAAAAATTGCCGTCGCGGCGGTTGTCGCCCTGCTTTTTCCCGCCCAAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAtgttg                                                                             <  2:1094009/143‑1 (MQ=255)
                                                              ctttccccccAACACCCGCCCTTTTACCAACCCCCATGTCAAAAAATCCCTTCGCGGGGGCTGTCGGCCAGTTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAtgttg                                                                             <  1:198173/143‑1 (MQ=255)
                                                               cttccccccaaacaccCGCTCTTTTACCCACCCCCATGTCAAAAAATGCTTGGGGGGCGGCTGTTGGCCAGTTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAtgttg                                                                             <  1:993927/141‑1 (MQ=255)
                                                                                     tttACCCACCCCCATGTGAAAAAATCCCTCCGGGGCGGCTGTCTGCCAGCTTTTTTCCCCCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAAc                                                       <  1:568544/151‑1 (MQ=255)
                                                                                     tttACCCACCCCAATGTAAAAAAATCCCTCCGCGGGGTCTGTCGCCCAGTTTTTTTCCCGCCGAAACAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAAc                                                       <  1:206740/151‑1 (MQ=255)
                                                                                     ttcacccACCGCCGTGTACAAAAATCCCTCCGCGGCGGCTGTCTGCCGGGTATTTTCCCGCCCCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAAc                                                       <  2:947730/146‑1 (MQ=255)
                                                                                                       gCAAAAAGCCCTGCGCGGGGCTTGTCGGCAACCTTTTTTCCCCCCACAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAg                                       <  2:398518/150‑1 (MQ=255)
                                                                                                         aaaatTGCCTTCGCGGCGGTTGTCTGCCAGTTTTTTCCCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTgc                                    <  2:927648/151‑1 (MQ=255)
                                                                                                                               ttttcggctagtttttttcCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAAc                 <  1:892784/137‑1 (MQ=255)
                                                                                                                                              tttcCCGCCGAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAATTGAGtt  <  1:1161892/151‑1 (MQ=255)
                                                                                                                                                             |                                                                                                                                         
GATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAATTGAGTT  >  NC_000913/357742‑358027

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: