Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913328,8070AT44.7% 36.1 / 15.7 38D176E (GAT→GAA) betIcholine‑inducible betIBA‑betT divergent operon transcriptional repressor
Reads supporting (aligned to +/- strand):  ref base A (7/14);  new base T (17/0);  total (24/14)
Fisher's exact test for biased strand distribution p-value = 1.73e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.58e-01

GTCTCGAAGGTGCGACCGCTGGTGGCGGAGGTATAACCACCATGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCAGGGAATTAGCGC‑GGGTTTTATCCAGCGGTTTGCCGCTCAGAGCCGCGCGCAGCCATAATCCATCAATCAGCGCGGCCAGGCCGTAGCCCGCTTCCTGTGCCTGTTCGCGCGG‑CAATTCGCGACGAAACTCGCTCACCAGATTCGACAGCAAGCGGCGGCTGCTGACCT  >  NC_000913/328657‑328955
                                                                                                                                                       |                                                                                                                                                     
gTCTCGAAGGTGCGACCGCTGGTGGCGGAGGTATAACCACCATGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCAGGGAATTAGCGC‑GGGTTTTa                                                                                                                                                       <  2:465822/151‑1 (MQ=255)
     gAAGGTGCGACCGCTGGTGGCGGAGGTATAACCACCATGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCAGGGAATTAGCGC‑GGGTTTTATCCAg                                                                                                                                                  <  1:543177/151‑1 (MQ=255)
        ggTGCGACCGCTGGTGGCGGAGGTATAACCACCATGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGGGAGGGGGTTAGAGC‑GGGGTTTTTTCAGCgg                                                                                                                                               >  2:658913/1‑151 (MQ=255)
             gACCGCTGGTGGCGGAGGTATAACCACCATGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCAGGGGAATAGCGC‑GGGGTTTTTTCAGCGGgtt                                                                                                                                            >  2:33470/1‑149 (MQ=255)
             gACCGCTGGTGGCGGAGGTATAACCACCATGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCAGGGAATTAGCGC‑GGGTTTTATCCAGCGGTTTGc                                                                                                                                          <  2:341664/151‑1 (MQ=255)
                  cTGGTGGCGGAGGTATAACCACCATGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGGCAGGGGAATAAGGC‑GGGGTTTTTTCAACGGGTTTcc                                                                                                                                         >  2:316390/1‑147 (MQ=255)
                    ggtggCGGAGGTATAACCACCATGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCAGGGAATTAGCGC‑GGGTTTTATCCAGCGGTTTGCCGCTCa                                                                                                                                    <  2:233143/150‑1 (MQ=255)
                      tggCGGAGGTATAACCACCATGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCAGGGGATTAGGGC‑GGGGTTTTTTCAGCGGTTTg                                                                                                                                           >  2:130845/1‑141 (MQ=255)
                        gCGGAGGTATAACCACCATGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGGCAGGGGAGTCGCGC‑GGGGTTTTTCGCGCCGGGTGCCGCCCag                                                                                                                                   >  2:590653/1‑147 (MQ=255)
                                     caccaTGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGCGCAGGGGAGTTGCGC‑GGGGGTTTTTCAGCGGTTTgttgcctacgcccgc                                                                                                                             >  1:254501/1‑126 (MQ=255)
                                         aTGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTGAGGGGAATAGGGG‑GGGGGTTTTTCACCGGGTTGCCGCCCCGAGGCCCGCGCCGCCCTaa                                                                                                                 >  2:411688/1‑148 (MQ=255)
                                         aTGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGGCCGGGGCATAGCGG‑GGGGGTTATCCAGCCGTGTGCCCCGCCCCGCCGCGCGCAGCCCTAATcc                                                                                                              >  1:129848/1‑151 (MQ=255)
                                          tGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGGCGGGGGGGTAACGCGGGGGTTTTTCACACGGTTT‑CCGCCCCGAGCCCCGCgccgcccaaaatc                                                                                                              >  2:511118/1‑143 (MQ=255)
                                           gTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCAGGGAATTAGCGC‑GGGTTTTATCCAGCGGTTTGCCGCTCAGAGCCGCGCGCAGCCATAATCCa                                                                                                             <  2:135475/150‑1 (MQ=255)
                                               ataAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGGGAGGGGAATAAAGC‑GGGGGTTTTTCACCGGGTTTGCGCCCCCAGCCGCGCgccgccccaa                                                                                                                 >  2:651940/1‑138 (MQ=255)
                                                                    tCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGGCAGGGGAATAACGC‑GGGGTTTTTTCTGCGGTTTTGCCCTCCGAGCCGCGCGCCGCCCCAATCCATCAAACAACGCGGCCCGGCCgcacc                                                                                    >  1:65583/1‑146 (MQ=255)
                                                                     cGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCAGGGAATTAGCGC‑GGGTTTTATCCAGCGGTTTGCCGCTCAGAGCCGCGCGCAGCCATAATCCATCAATCAGCGCGGCCAGGCCGTAGccc                                                                                  <  2:631820/151‑1 (MQ=255)
                                                                       ggACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTTATAAAGTGGCGGGTCAGGGAATTAGCGC‑GGGTTTTATCCAGCGGTTTGCCGCTCAGAGCCGCGCGCAGCCATAATCCATCAATCAGCGCGGCCAGGCCGTAGCCCGc                                                                                <  1:340859/151‑1 (MQ=255)
                                                                        gACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGGCCGGGGGGTAACGCGGGGGTTTTTTAACCGGTTTTCC‑CTCCGAGCCGCGCGCCGCCCCAATCCATCAATAAACGCGGGCAGGCCggcaccccc                                                                                >  2:699214/1‑142 (MQ=255)
                                                                                  ctcctcGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGGCAGGGGAATAGAGC‑GGGGTTTTTTCAACGGGTTGTCGCCCAGAGCCGCGCGCAGCCCCAAAACATCAAACAACGCCGGCCGGCCGCAGCCCCCCTCCCCTGcc                                                                      >  2:592619/1‑150 (MQ=255)
                                                                                        ggTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTGAGGGGATTTGAGC‑GGGGGTTTTTCAGCCGTTTGGCGCCCAGAGCCGCGCCCCGCCCTCAAACATCCCTACACGCGGCCCGGCCGGCGCCCGCGTCCCCTGCCTGTTct                                                                >  1:40403/1‑149 (MQ=255)
                                                                                        ggTTAATCGGGGGGTAGAGGCTGAGTGATAAAGTGGCGGGTCAGGGAATTAGCGC‑GGGTTTTATCCAGCGGTTTGCCGCTCAGAGCCGCGCGCAGCCATAATCCATCAATCAGCGCGGCCAGGCCGTAGCCCGCTTCCTGTGCCTGtt                                                                  <  1:171875/148‑1 (MQ=255)
                                                                                           tAATCGGGGGGTAGATGCTGAGTGATAAAGTGGCGGGTCAGGGAATTAGCGC‑GGTTTTTATCCAGCGGTTTGCCGCTCAGAGCCGCGCGCAGCCATAATCCATCAATCAGCGCGGCCAGGCCGTAGCCCGCTTCCTGTGCCTGTTcgcgc                                                             <  1:56346/150‑1 (MQ=255)
                                                                                              tCGGAGGGTAGATGCTGAGTGATAAAGTGGCGGGGGATGGGAATAGGGG‑GGGGGTTTTCTAGCGGGTTGTCGCGCCGAGCCGCGCGCCGCCCCAATCCCTCCATCAACGGGGGCAGGGCCCAGCCCGCGTCCCGCGCCCGTTGGCCCgg                                                           >  1:48422/1‑149 (MQ=255)
                                                                                                 gTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCAGGGAATTAGCGC‑GGGTTTTATCCAGCGGTTTGCCGCTCAGAGCCGCGCGCAGCCATAATCCATCAATCAGCGCGGCCAGGCCGTAGCCCGCTTCCTGTGCCTGTTCGCGCGG‑CAAtt                                                     <  2:410322/151‑1 (MQ=255)
                                                                                                      tAGATGCTGAGTGATAAAGTGGCGGGGCCGGGGAATAACGT‑GGGGGTTTTTCCGCGGGTTGGCGCTCCGAGACCCCCGCCGCCACAAACCATCAACAAACGCGGCCCGGCCGGTACCCGCCTCCTGTGCCTGTTCTCGCGG‑cgactc                                                    >  1:457276/1‑142 (MQ=255)
                                                                                                       aGATGCTGAGTGATAAAGTGGCGGGTCAGGGGAATAACGC‑GGGGTTTTTTCCTCGGGTTTTCGCCCCGAACCGCGCGCCGCCCAAAACCCTCAATCAACGCGGCCCGGCCGTAGCCCCCCTTCTTTGCCTGTTTGCGCGGCCAATTcc                                                   >  2:342603/1‑147 (MQ=255)
                                                                                                         aTGCTGAGTGATAAAGTGGCGGGGCCGGGAAATAGCGC‑GGGGGTTTTTCAGCGGTTTTCCCCCCACAGCCGCGCGCCGCCCCAAACCATCCATCAACGCGGCCCGGCCGGAGCCCCCCTCCTCTGCCTGTTTGCGCCG‑CCATTCGcgac                                               >  2:495473/1‑149 (MQ=255)
                                                                                                          tGCTGAGTGATAAAGTGGCGGGTCAGGGAATTAGCGC‑GGGTTTTATCCAGCGGTTGGCCGCTCAGAGCCGCGCGCAGCCATAATCCATCAATCAGCGCGGCCAGGCCGTAGCCCGCTTCCTGTGCCTGTTCGCGCGG‑CAATTCGcgacga                                             <  1:140240/150‑1 (MQ=255)
                                                                                                                        gTGGCGGGTCAGGGAATTAGCGC‑GGGTTTTATCCAGCGGTTTGCCGCTCAGAGCCGCGCGCAGCCATAATCCATCAATCAGCGCGGCCAGGCCGTAGCCCGCTTCCTGTGCCTGTTCGCGCGG‑CAATTCGCGACGAAACTCGCTCACCAGa                              <  2:351936/151‑1 (MQ=255)
                                                                                                                          ggCGGGTCAGGGAATTAGCGC‑GGGTTTTATCCAGCGGTTTGCCGCTCAGAGCCGCGCGCAGCCATAATCCATCAATCAGCGCGGCCAGGCCGTAGCCCGCTTCCTGTGCCTGTTCGCGCGG‑CAATTCGCGACGAAACTCGCTCACCAGAtt                            <  1:447751/151‑1 (MQ=255)
                                                                                                                             gggTCGGGGAATTAGCGC‑GGTTTTTATCCAGCGTTTTGCCCCTCAGAGCCGCGCCCAGCCATAATCCATCAAGCAGCGCGGCCAGGCCGTAGCCCGCTTCCTGTGCCTGTTCGCGCGG‑CAATTCGCGACGAAACTCGCTCACCAGATTc                           <  1:27659/149‑1 (MQ=255)
                                                                                                                              ggTCAGGGAATTAGCGC‑GGGTTTTATCCAGCGGTTTGCCGCTCAGAGCCGCGCGCAGCCATAATCCATCAATCAGCGCGGCCAGGCCGTAGCCCGCTTCCTGTGCCTGTTCGCGCGG‑CAATTCGCGACGAAACTCGCTCACCAGATTCGAc                        >  1:545237/1‑151 (MQ=255)
                                                                                                                                    ggAATTAGCGC‑GGGTTTTATCCAGCGGTTTGCCGCTCAGAGCCGCGCGCAGCCATAATCCATCAATCAGCGCGGCCAGGCCGTAGCCCGCTTCCTGTGCCTGTTCGCGCGG‑CAATTCGCGACGAAACTCGCTCACCAGATTCGACAGCa                    >  2:510630/1‑149 (MQ=255)
                                                                                                                                             gc‑gGGTTTTATCCAGCGGTTTGCCGCTCAGAGCCGCGCGCAGCCATAATCCATCAATCAGCGCGGCCAGGCCGTAGCCCGCTTCCTGTGCCTGTTCGCGCGG‑CAATTCGCGACGAAACTCGCTCACCAGATTCGACAGCAAGCGGCGgctg         >  1:507395/1‑151 (MQ=255)
                                                                                                                                                  gTTTTATCCAGCGGTTTGCCGCTCAGAGCCGCGCGCAGCCATAATCCATCAATCAGCGCGGCCAGGCCGTAGCCCGCTTCCTGTGCCTGTTCGCGCGG‑CAATTCGCGACGAAACTCGCTCACCAGATTCGACAGCAAGCGGCGGctgctg      >  1:230905/1‑150 (MQ=255)
                                                                                                                                                    tttATCCAGCGGTTTGCCGCTCAGAGCCGCGCGCAGCCATAATCCATCAATCAGCGCGGCCAGGCCGTAGCCCGCTTCCTGTGCCTGTTCGCGCGG‑CAATTCGCTACGAAACTCGCTCACCAGATTCGACAGCAAGCGGCGGCTGCTGAcc   >  2:699877/1‑151 (MQ=255)
                                                                                                                                                    tttATCCAGCGGTTTGCCGCTCAGAGCCGCGCGCAGCCATAATCCATCAATCAGCGCGGCCAGGCCGTAGCCCGCTTCCTGTGCCTGTTCGCGCGG‑CAATTCGCGACGAAACTCGCTCACCAGATTCGACAGCAAGCGGCGGCTGCTGAc    <  1:510861/150‑1 (MQ=255)
                                                                                                                                                     ctATCCAGCGGTTTGCCGCTCAGAGCCGCGCGCAGCCATAATCCATCAATCAGCGCGGCCAGGCCGTAGCCCGCTTCCTGTGCCTGTTCGCGCGG‑CAATTCGCGACGAAACTCGCTCACCAGATTCGACAGCAAGCGGCGGCTGCTGACct  >  2:483062/2‑151 (MQ=255)
                                                                                                                                                       |                                                                                                                                                     
GTCTCGAAGGTGCGACCGCTGGTGGCGGAGGTATAACCACCATGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCAGGGAATTAGCGC‑GGGTTTTATCCAGCGGTTTGCCGCTCAGAGCCGCGCGCAGCCATAATCCATCAATCAGCGCGGCCAGGCCGTAGCCCGCTTCCTGTGCCTGTTCGCGCGG‑CAATTCGCGACGAAACTCGCTCACCAGATTCGACAGCAAGCGGCGGCTGCTGACCT  >  NC_000913/328657‑328955

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑