Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,346,6530CA33.3% 23.2 / 10.2 30L30F (TTG→TTT) pdeRcyclic di‑GMP phosphodiesterase PdeR
Reads supporting (aligned to +/- strand):  ref base C (16/4);  new base A (0/10);  total (16/14)
Fisher's exact test for biased strand distribution p-value = 3.33e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.67e-01
Rejected as consensus: Frequency below/above cutoff threshold.

CGTGTGATAAATCACGAGCAACCGCCGGTGTGTCATGCCATGCAGACGCGTTGCCAGCCCATTCCCGTTTATTGATTTTTCGTCCTACCAGATGCACAGAAAGATCGCTTTCATCGACGGTCAGACTCATCATCAGGCTGGAGGTGATGACCGTCATTTCCCTGATGCGAGCAGCCTGTTC‑GGCAGATAACTGCAATGTACGATCAGGTTCTGTGGTTT‑CGGTGGTAGAAAAGCGCAAAACATCGCTGCTTTCCGTCAACCGCCAGTATGGATTGTGCGATCCGAGAAAGTTGTACAACGTTGTGGACTCCCTAACGGTTTTCATGATGCATATCCTCCGGTTAACAGCGGAGTCCGCGGTTAAATAAAAGGAACAACATGACTTACATGAAATTAACGGCGGCTAAACGCATTGTTTTTTTTATATATTTATTTGTAATCCAGTTTTGGAAAAACGCCAGTTTTCAAACGAAAGTC  >  NC_000913/1346418‑1346894
                                                                                                                                                                                                                                             |                                                                                                                                                                                                                                                 
ggggttaaaaaccACGAGCCACCGCCGTTGTGTCATGCCATGCAGACGCGTTGCCAGCCCATGCCCGTTTATTGATTTTTCGTCCTACCAGATGCACAGAAAGATCGCTTTCATCGACGGTCAGACTCATCATCAGGCTGGAGGTGATGACCGTCATTTCCCTGATGCGAGCAGCCTGTTC‑GGCAGATAACTGCAATGTACGATCATGTTCTGTGGTTT‑CGGTGGTAGAAAAGCGCAAAACATCGCTGCtt                                                                                                                                                                                                                                    <  2:159569/239‑1 (MQ=255)
  tgtgATAAATCACGAGCAACCGCCGGTGTGTCATGCCATGCAGACGCGTTGCCAGCCCATTCCCGTTTATTGATTTTTCGTCCTACCAGATGCACAGAAAGATCGCTTTCATCGACGGTCAGACTCATCATCAGGCTGGAGGTGATGACCGTCATTTCCCTGATGCGAGCAGCCTGTTC‑GGCAGATAACTGCAATGTACGATCAGGTTCTGTGGTTT‑CGGTGGTAGAAAAGCGCAAAACATCGCTGCTTTc                                                                                                                                                                                                                                  >  1:283127/1‑251 (MQ=255)
                          ggTGTGTCATGCCATGCAGACGCGTTGCCAGCCCATTCCCGTTTATTGATTTTTCGTCCTACCAGATGCACAGAAAGATCGCTTTCATCGACGGTCAGACTCATCATCAGGCTGGAGGTGATGACCGTCATTTCCCTGATGCGAGCAGCCTGTTC‑GGCAGATAACTGCAATGTACGATCAGGTTCTGTGGTTT‑CGGTGGTAGAAAAGCGCAAAACATCGCTGCTTTCCGTCAACCGCCAGTATGGATtgtg                                                                                                                                                                                                          >  2:7881/1‑251 (MQ=255)
                          ggTGTGTCATGCCATGCAGACGCGTTGCCAGCCCATTCCCGTTTATTGATTTTTCGTCCTACCAGATGCACAGAAAGATCGCTTTCATCGACGGTCAGACTCATCATCAGGCTGGAGGTGATGACCGTCATTTCCCTGATGCGAGCAGCCTGTTC‑GGCAGATAACTGCAATGTACGATCAGGTTCTGTGGTTT‑CGGTGGTAGAAAAGCGCAAAACATCGCTGCTTTCCGTCAACCGCCAGTATGGATtgtg                                                                                                                                                                                                          >  1:349051/1‑251 (MQ=255)
                             gtgtCATGCCATGCAGACGCGTTGCCAGCCCATTCCCGTTTATTGATTTTTCGTCCTACCAGATGCACAGAAAGATCGCTTTCATCGACGGTCAGACTCATCATCAGGCTGGAGGTGATGACCGTCATTTCCCTGATGCGAGCAGCCTGTTC‑GGCAGATAACTGCAATGTACGATCAGGTTCTGTGGTTT‑CGGTGGTAGAAAAGCGCAAAACATCGCTGCTTTCCGTCAACCGCCAGTATGGATTGTGCg                                                                                                                                                                                                        >  1:309611/1‑250 (MQ=255)
                                   tgccatgcAGACGCGTTGCCAGCCCATTCCCGTTTATTGATTTTTCGTCCTACCAGATGCACAGAAAGATCGCTTTCATCGACGGTCAGACTCATCATCAGGCTGGAGGTGATGACCGTCATTTCCCTGATGCGAGCAGCCTGTTC‑GGCAGATAACTGCAATGTACGATCAGGTTCTGTGGTTT‑CGGTGGTAGAAAAGCGCAAAACATCGCTGCTTTCCGTCAACCGCCAGTATGGATTGTGCGATCCg                                                                                                                                                                                                   >  1:7295/1‑249 (MQ=255)
                                   tgacatgcAGACGCGTTGACAGCCCATTCCCGTTTATTGATTTTTCGTCCTACCAGATGCACAGAAAGATCGCTTTCATCGACGGTCAGACTCATCATCAGGCTGGAGGTGATGACCGTCATTTCCCTGATGCGAGCAGCCTGTTC‑GGCAGATAACTGCAATGTACGATCAGGTTCTGTGGTTT‑CGGTGGTAGAAAAGCGCAAAACATCGCTGCTTTACGTCAACCGCCAGTATGGTTTGTGCGATCCg                                                                                                                                                                                                   >  1:7293/4‑249 (MQ=255)
                                   ggcagtgaagacgcgtgccgaccccATTCCCTTTTATTTATTTTGCGCCCTACCAGATGCAAAAAAAGCTCGCTTTAATCGTGGGCCAGCTTCCTCATCAGGGGGGAGTTAATGCCCGTCATTCCCCTGATGAGAGCAGCTTGTTC‑GGAAGATAACTGAAATGTAGGATCAGGTTTGGTGTTTT‑GGGGGGTAGAAAAGCGAAAAACATCGCTGCTTTCCGTCAACCGCCAGTATGGATTGTGCGATCCgag                                                                                                                                                                                                 <  1:634127/229‑1 (MQ=255)
                                      aatgcAAACGCGTTCCCAGCCCATCCCCGTTTTCTTATTTTTCGTCCTACCAGATGCACAGAAAGATCTCTTTCATGGACGTCCAGACGTTTCATCAGGCGGGAGGTTAGGACCGTCATTTCCTAGAGGCGACCTGCGTTTGC‑GGCAGATAACTGAAATGAGTGTAGAGGTTCTGTGGTTT‑GGGGTGAAAAAAGGCGAAAAACACCGCTTTGTTCCGTAAACCGCCAGTATGGATTGTGCGATCCGAGaaa                                                                                                                                                                                              <  1:329642/250‑1 (MQ=255)
                                       atgcAGACGCGTTGCCAGCCCATTCCCGTTTATTGATTTTTCGTCCTACCAGATGCACAGAAAGATCGCTTTCATCGACGGTCAGACTCATCATCAGGCTGGAGGTGATGACCGTCATTTCCCTGATGCGAGCAGCCTGTTC‑GGCAGATAACTGCAATGTACGATCAGGTTCTGTGGTTT‑CGGTGGTAGAAAAGCGCAAAACATCGCTGCTTTCCGTCAACCGCCAGTATGGATTGTGCGATCCGAGaa                                                                                                                                                                                               >  1:206643/1‑249 (MQ=255)
                                                     ccAGCCCATTCCCGTTTTTTGATTTTTCGTCATACCAGATTCACAGAAAGATCGCTTTCATCGACGGTCAGACTCATCATCAGGCTGGAGGTGATGACCGTCATTTCCCTGATGCGAGCAGCCTGTTC‑GGCAGATAACTGCAATGTACGATCAGGTTCTGTGGTTT‑CGGTGGTAGAAAAGCGCAAAACAACGCTGCTTTCCGTCACCCGCCAGTATGGATTGTGCGATCCGAGAAAGTTGTATAACGTtgt                                                                                                                                                                               >  2:590410/1‑251 (MQ=255)
                                                         cccATTCCCGTTTATTGATTTTCCGTCATACCAGATGCACAAAAAGTTGGCTTTCAGCGACGGTCAGACTCATCTGGGGGCTGGAGGTGATGACCGTCATTTCCCTGATGGGAGCACCCTGTTC‑GGCAGATATCTGCAATGTACAACCAGGTTCTGTGGTTT‑CGGGGGTAAAAAACCGCAAACCATCGCTGCTTCCCGTAAACCGCCAGTATGGATTGTGCGATCCGAGAAAGTTGTACAACGTTGTGGAc                                                                                                                                                                           <  1:660072/251‑1 (MQ=255)
                                                                            ttttCGTCCTACCAGATGCACAGAAAGATCGCTTTCATCGACGCTCAGACTCATCATCAGGCTGGAGGTGATGACCGTCATTTCCCTGATGCGAGCAGCCTGTTC‑GGCAGATAACTGCAATGTACGATCAGGTTCTGTGGTTT‑CGGTGGTAGAAAAGCGCAAAACATCGCTGCTTTCCGTCAACCGCCAGTATGGATTGTGCGATCCGAGAAAGTTGTACAACGTTGTGGACTCCATAACGGTTTTCatg                                                                                                                                                         >  1:620458/1‑250 (MQ=255)
                                                                                cctcctcccagtagcaaaaatagttCGCTTTCATCGCCATCCAGACTCATCATCGGGGTGGAGGTGAGCACCGTCTTTCCCCTGAGGCGAGCAGCTTTTGC‑GACAAATACATGCAATGTCCGACCTGTTTC‑GTGGTTTTCGGTGGTAGAAACGCGAAAAACAGCGCTGCTTGCCTCCATCCGCCAGTATGGATTGTGCGATCCGAGAAAGTTGTACAACGTTGTGGACTCCCTAACGGTTTTCATGATGCa                                                                                                                                                    <  2:490389/227‑1 (MQ=255)
                                                                                    cTACCAGATGCACAGAAAGATCGCTTTCATCGACGGTCAGACTCATCATCAGGCTGGAGGTGATGACCGTCATTTCCCTGATGCGAGCAGCCTGTTC‑GGCAGATAACTGCAATGTACGATCAGGTTCTGGGGTTT‑CGGTGGTAGAAAAGCGCAAAACATCGCTGCTTTCCGTCAACCGCCAGTATGGATTGTGCGATCCGAGAAAGTTGTACAACGTTGTGGACTCCCTAACGGTTTTCATGATGCAAAtc                                                                                                                                                >  2:402368/1‑251 (MQ=255)
                                                                                             gCACAGAAAGATCGTTTTCACCGACGGTCAGACTCATCATCAGGCGGGAGGTGATGCCCGTCATTTCCCTGATGCGAGCAGCCTGTTC‑GGAAGATAACTGCAATGTACGATCAGGTTCTGTGGTTT‑CGGTGGTAAAAAAGCGAAAAACATCGCTGCTTTCCGTCAACCGCCAGTATGGATTGTGCGATCCGAGAAAGTTGTACAACGTTGTGGACTCCCTAACGGTTTTCATGATGCATATCCTCCGGTTa                                                                                                                                       <  1:7881/251‑1 (MQ=255)
                                                                                                         cGCTTTCATCGACGATCAGACTCATCATCAGGCTGGAGGTGATGACCGTCATTTCCCTGATGCGAGCAGCCTGTTC‑GGCAGATAACTGCAATGTACGATCAGGTTCTGTGGTTT‑CGGTGGTAGAAAAGCGCAAAACATCGCTGCTTTCCGTCAACCGCCAGTATGGATTGTGCGATCCGAGAAAGTTGTACAACGTTGTGGACTCCCTAACGGTTTTCATGATGCATATCCTCCGGTTAACAGCGGAGTcc                                                                                                                           >  1:501160/1‑251 (MQ=255)
                                                                                                                           gccTCATCATCGGGCGGGAGGTGAGGCCCGTCATGTCCCGGAGGCGAGGAGCTTGTTC‑GGGAGATAGCGAAAATATACGATGAGTTTCGGGGGTTT‑CGGGGGAAGAAAAGCGAAAAACTTCTCTGGTTTCCGTCACCCGCCAGTATGGATTGTGCGATCCGAGAAAGTTGTACAACGTTGTGGACTCCCTAACGGTTTTCATGATGCATATCCTCCGGTTAACAGCGGAGTCCGCGGTTAAATAAAAGGaa                                                                                                         <  1:330140/249‑1 (MQ=255)
                                                                                                                                     caGGCTGGAGGTGATGACCGTCATTTCCCTGATGCGAGCAGCCTGTTC‑GGCAGATAACTGCAATGTACGATCAGGTTCTGTGGTTT‑CGGTGGTAGAAAAGCGCAAAACATCGCTGCTTTCCGTCAACCGCCAGTATGGATTGTGCGATCCGAGAAAGTTGTACAACGTTGTGGACTCCCTAACGGTTTTCATGATGCATATCCTCCGGTTAACAGCGGAGTCCGCGGTTAAATAAAAGGAACAACATGACt                                                                                               >  1:577687/1‑251 (MQ=255)
                                                                                                                                         cTGGAGGTGATGACCGTCATTTCCCTGATGCGAGCAGCCTGTTC‑GGCAGATAACTGCAATGTACGCTCAGGTTCTGTGGTTT‑CGGTGGTAGAAAAGCGCAAAACATCGCTGCTTTCCGTCAACCGCCAGTATGGATTGTGCGATCCGAGAAAGTTGTACAACGTTGTGGACTCCCTAACGGTTTTCATGATGCATATCCTCCGGTTAACAGCGGAGTCCGCGGTTAAATAAAAGGAACAACATGACTTAc                                                                                            >  1:479733/1‑250 (MQ=255)
                                                                                                                                                    gaCCGTCATTTCCATGATGCGAGCAGCCTGTTC‑GGCAGATAACTGCAATGTACGATCAGGTTCTGTGGTTT‑CGGTGGTAGAAACGCGCAAAACATCGCTGCTTTCCGTCAACCGCCAGTATGGATTGTGCGATCCGAGAAAGTTGTACAACGTTGTGGACTCCCTAACGGTTTTCATGATGCATATCCTCCGGTTAACAGCGGAGTCCGCGGTTAAATACAAGGAACAACATGACTTCCATGAAATTAAcg                                                                                >  2:684966/1‑251 (MQ=255)
                                                                                                                                                                ccggaggcgagtagctgttgc‑GGCAAATAACTGCAATGTACGCGCTGTTTTGGTGTTTC‑CGGTGGTAGAAAAGAGCAAAACACCGCTGTTTCCCTTCAACCGCCAGTATGGATTGTGCGATCCGAGAAAGTTGTACAACGTTGTGGACTCCCTAACGGTTTTCATGATGCATATCCTCCGGTTAACAGCGGAGTCCGCGGTTAAATAAAAGGAACAACATGACTTACATGAAATTAACGGCGGCTAAACGc                                                                    <  2:117815/231‑1 (MQ=255)
                                                                                                                                                                    aTGCGAGCAGCCTGTGC‑GGAATAAAACTACAATGTAGGATCAGGTTCTGGGGTTT‑CGGTGGTAAAAAAGCGAAAAACATCGCTGCTTCCCGCCATCCGCCAGTATGGATTGTGCGATCCGAGAAAGTTGTACAACGTTGTGGACTCCCTAACGGTTTTCATGATGCATATCCTCCGGTTAACAGCGGAGTCCGCGGTTAAATAAAAGGAACAACATGACTTACATGAAATTAACGGCGGCTAAACGCATTg                                                                <  1:402368/251‑1 (MQ=255)
                                                                                                                                                                        ggtgcggcTGTTCCGGCAAATAACAGAAATGTACGATCGTGTTCTGTGTTTT‑GGGTGGAAGAAAAGCGAAAAACAGCGTTGCTTTCCGACAACCGCCAGTATGGATTGTGCGATCCGAGAAAGTTGTACAACGTTGTGGACTCCCTAACGGTTTTCATGATGCATATCCTCCGGTTAACAGCGGAGTCCGCGGTTAAATAAAAGGAACAACATGACTTACATGAAATTAACGGCGGCTAAACGCATTGttt                                                             <  2:7295/244‑1 (MQ=255)
                                                                                                                                                                         gaccagctggtcggaaagagatttGCATTGTACGGTCATGTTCTGTGTTTT‑CGGGGGTAAAAAAGCTAAAACCATTGCTGTGTGCCGTCAGCCGCCAGTATGGATTGTGCGATCCGAGAAAGTTGTACAACGTTGTGGACTCCCTAACGGTTTTCATGATGCATATCCTCCGGTTATCAGCGGAGTCCGCGGTTAAATAAAAGGAACAACATGACTTACATGAAATTAGCGGCGGCTAAACGCATTGtttt                                                            <  1:624856/228‑1 (MQ=255)
                                                                                                                                                                                 ttgttgacaaaaaccggcaaggtccGATCAGGTGTTGTGTTTT‑GGGTGGTAAAAAAGCGAAAAACCGCGGTGGTTTCGGTCATCCGCCAGTATGGATTGTGCGATCCGAGAAAGTTGTACAACGTTGTGGACTCCCTAACGGTTTTCATGATGCATATCCTCCGGTTAACAGCGGAGTCCGCGGTTAAATAAAAGGAACATCATTACTTACATGAAATTAACGGCGGCTAAACGCATTGTTTTTTTtata                                                     <  1:61405/226‑1 (MQ=255)
                                                                                                                                                                                                        aCGATCAGGTTCTGGGTTTT‑GGGGGGTAGAAAGGCGAAAAACATCGCTGCTTTCCTTCAACCGCCAGTATGGATTGTGCGATCCGAGAAAGTTGTACAACGTTGTGGACTCCCTAACGGTTTTCATGATGCATATCCTCCGGTTAACAGCGGAGTCCGCGGTTAAATAAAAGGAACAACATGACTTACATGAAATTAACGGCGGCTAAACGCATTGTTTGTTTTATATATTTATTTGTAATCCAGTTTTg                              <  1:229031/250‑1 (MQ=255)
                                                                                                                                                                                                                        gTTT‑CGGTGGTAGAAAAGCGCAAAACATCGCTGCTTTCCGTCAACCGCCAGTATGGATTGTGCGATCCGAGAAAGTTGTACAACGTTGTGGACTCCCTAACGGTTTTCATGATGCATATCCTCCGGTTAACAGCGGAGTCAGCGGTTAAATAAAAGGAACAACATGACTTACATGAAATTAACGGCGGCTAAACGCATTGTTTTTTTTATATATTTATTTTTAATCCAGTTTTTGAAAAAAGCCCGTTTTc             >  1:669216/1‑251 (MQ=255)
                                                                                                                                                                                                                              gggggtAAAAAAGCGCAAAACATCCCTCCTTCCCTACAACCGCCAGTATGGATTGTGCGATCCGAGAAAGTTGTACAACGTTGTGGACTCCCTAACGGTTTTCATGATGCATATCCTCCGGTTAACAGCGGAGTCCGCGGTTAAATAAAAGGAACAACATGACTTACATGAAATTAACGGCGGCTAAACGCATTGTTTTTTTTATATATTTATTTGTAATCCAGTTTTGGAAAAACGCCAGTTTTCAAACg        <  1:684966/248‑1 (MQ=255)
                                                                                                                                                                                                                                      aaaaGCGCAAAACATCGCTGCTTTCCGTCAACCGCCAGTATGGATTGTGCGATCCGAGAAAGTTGTACAACGTTGTGGACTCCCTAACGGTTTTCATGATGCATATCCTCCGGTTAACAGCGGAGTCCGCGGTTAAATAAAAGGAACAACATGACTTACATGAAATTAACGGCGGCTAAACGCATTGTTTTTTTTATATATTTTTTTGTAATCCAGTTTTGGAAAAACGCCAGTTTTCAAACGAAAGTc  >  1:281151/1‑249 (MQ=255)
                                                                                                                                                                                                                                             |                                                                                                                                                                                                                                                 
CGTGTGATAAATCACGAGCAACCGCCGGTGTGTCATGCCATGCAGACGCGTTGCCAGCCCATTCCCGTTTATTGATTTTTCGTCCTACCAGATGCACAGAAAGATCGCTTTCATCGACGGTCAGACTCATCATCAGGCTGGAGGTGATGACCGTCATTTCCCTGATGCGAGCAGCCTGTTC‑GGCAGATAACTGCAATGTACGATCAGGTTCTGTGGTTT‑CGGTGGTAGAAAAGCGCAAAACATCGCTGCTTTCCGTCAACCGCCAGTATGGATTGTGCGATCCGAGAAAGTTGTACAACGTTGTGGACTCCCTAACGGTTTTCATGATGCATATCCTCCGGTTAACAGCGGAGTCCGCGGTTAAATAAAAGGAACAACATGACTTACATGAAATTAACGGCGGCTAAACGCATTGTTTTTTTTATATATTTATTTGTAATCCAGTTTTGGAAAAACGCCAGTTTTCAAACGAAAGTC  >  NC_000913/1346418‑1346894

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑