Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,578,3010AC45.5% 96.4 / 10.4 57G142G (GGT→GGGgntRd‑gluconate inducible gluconate regulon transcriptional repressor
Reads supporting (aligned to +/- strand):  ref base A (26/4);  new base C (0/25);  total (27/30)
Fisher's exact test for biased strand distribution p-value = 1.08e-11
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CGTCGAGACGTGCGCCGAGATAGGCAATGTGGCGATGCCCGCGAGCAATAATGGCAGTGGTCATCTGGCGTGCTGCTTCAAAGTTATCAAAACCGACGGCGATATCAAGGCATGGCGACTTGCTGTCCATCAGTTCCACCACGGGAATACCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGGAGAGCATGGATTCGAGGCGTTCTTGCTCCATTTCCGGTTTATAACCGTAGTGCGCCAGCATGGTCTGA  >  NC_000913/3578153‑3578445
                                                                                                                                                       |                                                                                                                                                
cgtcgAGACGTGCGCCGAGATAGGCAATGTGGCGATGCCCGCGAGCAATAATGGCAGTGGTCATCTGGCGTGCTGCTTCAAAGTTATCAAAACCGACGGCGATATCAAGGCATGGCGACTTGCTGTCCATCAGTTCCACCACGGGAATAcc                                                                                                                                                >  2:946/1‑151 (MQ=255)
  tcgAGACGTGCGCCGAGATAGGCAATGTGGCGATGCCCGCGAGCAATAATGGCAGTGGTCATCTGGCGTGCTGCTTCAAAGTTATCAAAACCGACGGCGATATCAAGGCATGGCGACTTGCTGTCCATCAGTTCCACCACGGGAATACCCg                                                                                                                                              >  1:458058/1‑151 (MQ=255)
         gTGCGCCGAGATAGGCAATGTGGCGATGCCCGCGAGCAATAATGGCAGTGGTCATCTGGCGTGCTGCTTCAAAGTTATCAAAACCGACGGCGATATCAAGGCATGGCGACTTGCTGTCCATCAGTTCCACCACGGGAATACCCGCCACTTc                                                                                                                                       >  1:1123100/1‑151 (MQ=255)
         gTGCGCCGAGATAGGCAATGTGGCGATGCCCGCGAGCAATAATGGCAGTGGTCATCTGGCGTGCTGCTTCAAAGTTATCAAAACCGACGGCGATATCAAGGCATGGCGACTTGCTGTCCATCAGTTCCACCACGGGAATACCCGCCACTTc                                                                                                                                       >  1:382915/1‑151 (MQ=255)
                   aTAGGCAATGTGGCGATGCCCGCGAGCAATAATGGCAGTGGTCATCTGGCGTGCTGCTTCAAAGTTATCAAAACCGACGGCGATATCAAGGCATGGCGACTTGCTGTCCATCAGTTCCACCACGGGAATACCCGCCACTTCAATCATCttt                                                                                                                             >  1:105845/1‑151 (MQ=255)
                      ggataTGGGGCGTTCCCGGCGAAAAATAAGGGTAGTGGTCATCGGGCGTGCTCCTTCAAATTTAAAAAACCCGCGGGGAATATCAAGGCCGGGCTTCTTGCTGTCCATCATTCCCACCGCGGGAATCCCCGCCACTTCAATCATCTTTaa                                                                                                                           <  2:440649/146‑1 (MQ=255)
                      ggCAATGTGGCGATGCCCGCGAGCAATAATGGCAGTGGTCATCTGGCGTGCTGCTTCAAAGTTATCAAAACCGACGGCGATATCAAGGCATGGCGACTTGCTGTCCATCAGTTCCACCACGGGAATACCCGCCACTTCAATCATCTTTa                                                                                                                            >  1:543830/1‑149 (MQ=255)
                        cAATGTGGCGATGCCCGCGAGCAATAATGGCAGTGGTCATCTGGCGTGCTGCTTCAAAGTTATCAAAACCGACGGCGATATCAAGGCATGGCGACTTGCTGTCCATCAGTTCCACCACGGGAATACCCGCCACTTCAATCATCTTTAAgg                                                                                                                         >  2:432824/1‑150 (MQ=255)
                         agtgtgGCGTCGCCGGCGAAAAAAAAGGGCAGGGGTCTTCGGCCGTCCTCCTCAAAAGTTAAAAAACCCGCCGGCAATACCAAGCCAGGGCACTTTCTTGCCCATCATTCCCCCCGGGGAAATCCCCGCCACTTCAATCATCTTTAAg                                                                                                                          <  2:616665/146‑1 (MQ=255)
                           tgtgGCGATGCCCGCGAGCAATAATGGCAGTGGTCATCTGGCGTGCTGCTTCAAAGTTATCAAAACCGACGGCGATATCAAGGCATGGCGACTTGCTGTCCATCAGTTCCACCACGGGAATACCCGCCACTTCAATCATCTTTAAGGTgcg                                                                                                                     >  2:59142/1‑151 (MQ=255)
                            ggggCGATGCCCGCGAAAAAAAGGGGAAGTGGTCATCGGGCGTGCTGCTAAAAATTTAAAAAAACCGGCGGCGATAACAAGGCATGGCGATTTGCTCCCCATCAGTCCCCCCAGGGAAATCCCCGCCACTTCAATCATCttt                                                                                                                             <  1:309207/140‑1 (MQ=255)
                                 gATCCCCGCGAGAAATAAGGGCAGTGGTCATCGGGCGTGCTGCTTAAAAGTAAAAAAACCCGCCGGCAATATAAAGGCAGGGCGACTTGCTGCCCATCAGTCCCCCCGCGGAAATCCCCGCCACTTCAATCATCTTTAAGGTGCGCGGCgt                                                                                                               <  1:832057/151‑1 (MQ=255)
                                       cgcgAGCAATAATGGCAGTGGTCATCTGGCGTGCTGCTTCAAAGTTATCAAAACCGACGGCGATATCAAGGCATGGCGACTTGCTGTCCATCAGTTCCACCACGGGAATACCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGt                                                                                                         >  1:53466/1‑151 (MQ=255)
                                           aGCAATAATGGCAGTGGTCATCTGGCGTGCTGCTTCAAAGTTATCAAAACCGACGGCGATATCAAGGCATGGCGACTTGCTGTCCATCAGTTCCACCACGGGAATACCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGt                                                                                                     >  1:786101/1‑151 (MQ=255)
                                              aatagtGGCGGTGTTCATCTGGGGTGCTGCTTAAAATTTATAAAACCCGACGGCAATATCAAGGCAGGGCGACTTGTTGCCCATCATTCCCCCCGGGGAAATACCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTc                                                                                                   <  1:991707/150‑1 (MQ=255)
                                              aataagGGTGGTGTTCTTGTGGCGTGCTCCTTAAAATTAACAAAACCCGCCGGCGATACCAGGGCATGGCGTTTTTCTTTCCACCAGTCCCCCCGGGGGAATCCCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGt                                                                                                     <  2:768358/148‑1 (MQ=255)
                                              aataagGGGTGTGGTCATCTGGCGTGCTTCTTAAATTTTAACAAACCCGACGGCGATACCAAGGCATGGCTACTTGCTTTCCATCACTTCCCCCGCGGAAAGCCCCGCCACTTCAATCATCTTTAAGGTGCGCGGCgt                                                                                                               <  2:1057050/138‑1 (MQ=255)
                                               ataatGGCAGTGGTCATCTGGCGTCCTGCTTAAAATTTATAAAACCCGGGGGCGATATCAAGGCATGGCGCTTTGCTGTCCTTCATTCCCCCCACGGAAATCCCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCgg                                                                                                 <  1:969398/151‑1 (MQ=255)
                                                 aagggCGGTGGTCATCTGGCGTGCTGCTTAAAATTTAAAAAACCCGCCGGCGATATAAGGGCATGGCGTCTTGCTGTCCATCAGTCCCCCCGGGGAAATACCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGt                                                                                                <  1:106091/147‑1 (MQ=255)
                                                    ggCAGTGGTCATCTGGCGTGCTGCTTAAAAGTTACCAAACCCGACGGCGATATCAAGGCGTGGCGACTTGCTGTCCATCAGTTCCCCCACGGAAATCCCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGa                                                                                              <  2:721135/149‑1 (MQ=255)
                                                     gCAGTGGTCATCTGGCGTGCTGCTTCAAAGTTATCAAAACCGACGGCGATATCAAGGCATGGCGACTTGCTGTCCATCAGTTCCACCACGGGAATACCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAgg                                                                                            >  1:996067/1‑150 (MQ=255)
                                                      cAGTGGTCATCTGGCGTGCTGCTTCAAAGTTATCAAAACCGACGGCGATATCAAGGCATGGCGACTTGCTGTCCATCAGTTCCACCACGGGAATACCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGAt                                                                                          >  1:12001/1‑151 (MQ=255)
                                                        gTGGTCTTCGGGGGTGCTGCTCAAAATTTACAAAACCCGCGGGCAATAAAAAGGCAGGGCGCTTTGTTGCCCATCATTCCCCCCAGGGAAATACCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGAt                                                                                          <  1:187265/149‑1 (MQ=255)
                                                              aTCTGGCGTGCTGCTTCAAAGTTATCAAAACCGACGGCGATATCAAGGCATGGCGACTTGCTGTCCATCAGTTCCACCACGGGAATACCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCg                                                                                   >  1:899340/1‑150 (MQ=255)
                                                                          gctTAAAATTTAAAAAACCCGACGGCAATATCAAGGCTTGGCTCCTTGCTGTCCACCAGTCCCCCCACGGGAATACCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAg                                                                       <  2:588595/150‑1 (MQ=255)
                                                                          cctcaaaaGTTACAAAACCCCCCGGCGATATCAAGGCAGGGCGCTTTGTTCTCCATCAGTCCCCCCAGGGAAATCCCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCa                                                                        <  2:276051/144‑1 (MQ=255)
                                                                              aaaaGTTAACAAACCCGACGGAAATATCAAGGCATGGCGATTTGCTGTCCATCGGTCCCCCCAGGGGAATCCCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGgag                                                                    <  2:813105/148‑1 (MQ=255)
                                                                               aatattATAAAACCCGCCGGCAATATCAAGGCATGGCGACTTGCTGTCCATCTGTCCCCCCAGGGGAATCCCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATAtt                                                                           <  2:960777/137‑1 (MQ=255)
                                                                               aaattaataaaacCCGACGGCGATATCAGGGCGGGGCGCCTGGCTGTCCATCGGTCCCACCGGGGAAATCCCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGgaga                                                                   <  2:46358/140‑1 (MQ=255)
                                                                               aaaTTTATCAAACCCGCCGGCGATATCAAGGCATGGCGCCTTGCTGTCCATCATTCCCCCCAGGGAAATCCCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAgg                                                                      <  1:112530/146‑1 (MQ=255)
                                                                                aaatttaaaaaccccGAGGCCGATATAAAGGTAGGGCTTCTTGTTTCCCATCGGTCCCACCACGGAAATCCCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAgg                                                                      <  1:598724/133‑1 (MQ=255)
                                                                                aaatttaaaaaaCCGGACGGCGATATCAAGGCATGGCGCTTTCCTGTCCATCAGTCCCCCCCGGGAAACCCCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGgaga                                                                   <  1:154775/141‑1 (MQ=255)
                                                                                aaGTTATCAAACCCGGGGGCGATAGCACGGAAGGGCGACTTTCTTTCCATCATTTCCCCCAGGGAAATTCCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTc                                                                                 <  2:869559/134‑1 (MQ=255)
                                                                                 aGTTATCAAAACCGACGGCGATATCAAGGCATGGCGACTTGCTGTCCATCAGTTCCACCACGGGAATACCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGGAGAGCAt                                                               >  2:555320/1‑151 (MQ=255)
                                                                                      tCAAAACCGACGGCGATATCAAGGCATGGCGACTTGCTGTCCATCAGTTCCACCACGGGAATACCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGGAGAGCATGGAtt                                                          >  1:929025/1‑151 (MQ=255)
                                                                                        aaacCCGACGGAGATACGAAGGCAGGGCGACTTGTTTTCCATCGTTCCCACCAGGGAAATCCCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGGAGAGCATGGATTc                                                         <  2:917214/150‑1 (MQ=255)
                                                                                        aaaaCCGACGGCGATATCAAGGCATGGCGACTTGCTGTCCATCAGTTCCACCACGGGAATACCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGGAGAGCATGGATTCg                                                        >  2:421908/1‑151 (MQ=255)
                                                                                          aacccccacgacgATAACAAGGCATGCCCTCTTGCTGCCCATCATTCCCCCCGGGAGAATCACCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGGAGAGCATGGAtt                                                          <  1:882779/142‑1 (MQ=255)
                                                                                          aacccgccgGCGATATCAGGGCGTGGCGTCTTGCTGTCCATCATTCCCCCCGGGGAAATCCCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGGAGAGCATGGATTCGa                                                       <  1:944654/148‑1 (MQ=255)
                                                                                              cGACGGCGATATCAAGGCATGGCGACTTGCTGTCCATCAGTTCCACCACGGGAATACCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGGAGAGCATGGATTCGAGGCg                                                   >  1:893390/1‑151 (MQ=255)
                                                                                                      gATATCAAGGCATGGCGACTTGCTGTCCATCAGTTCCACCACGGGAATACCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGGAGAGCATGGATTCGAGGCGTTCTTGc                                            >  1:134576/1‑151 (MQ=255)
                                                                                                      gATATCAAGGCATGGCGACTTGCTGTCCATCAGTTCCACCACGGGAATACCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGGAGAGCATGGATTCGAGGCGTTCTTGc                                            >  2:84553/1‑151 (MQ=255)
                                                                                                           cAAGGCATGGCGACTTGCTGTCCATCAGTTCCACCACGGGAATACCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGGAGAGCATGGATTCGAGGCGTTCTTGCTCCAt                                       >  1:503688/1‑151 (MQ=255)
                                                                                                              ggcgtggcgtCTTGCTTTCCATCGTTCCCCCCGCGGAAACCCCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGGAGAGCATGGATTCGAGGCGTTCTTGCTCCAttt                                     <  2:47084/150‑1 (MQ=255)
                                                                                                               gCATGGCTTCTTGCTCTCCATCATTCCCCCCGGGGGAATCCCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGGAGAGCATGGATTCGAGGCGTTCTTGCTCCATTTcc                                   <  1:749887/151‑1 (MQ=255)
                                                                                                                   gccGACTTCCTGCCCATCAGTCCCCCCGGGGAAATCCCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGGAGAGCATGGATTCGAGGCGTTCTTGCTCCATTTCCGGt                                <  1:713541/148‑1 (MQ=255)
                                                                                                                       aCTTGCTGTCCATCAGTTCCACCACGGGAATACCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGGAGAGCATGGATTCGAGGCGTTCTTGCTCCATTTCCGGTTtat                            >  1:80597/1‑150 (MQ=255)
                                                                                                                        cTTGCTGTCCATCAGTTCCACCACGGGAATACCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGGAGAGCATGGATTCGAGGCGTTCTTGCTCCATTTCCGGTTtata                           >  1:212708/1‑150 (MQ=255)
                                                                                                                         ttGCTGTCCATCAGTTCCACCACGGGAATGCCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGGAGAGCATGGATTCGAGGCGTTCTTGCTCCATTTCCGGCTTATAAc                         >  2:928414/1‑151 (MQ=255)
                                                                                                                         ttGCTGTCCATCAGTTCCACCACGGGAATACCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGGAGAGCATGGATTCGAGGCGTTCTTGCTCCATTTCCGGTTTATAAc                         >  2:958901/1‑151 (MQ=255)
                                                                                                                               gTCCATCAGTTCCACCACGGGAATACCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGGAGAGCATGGATTCGAGGCGTTCTTGCTCCATTTCCGGTTTATAACCGt                      >  1:636020/1‑149 (MQ=255)
                                                                                                                                 ccATCAGTCCCCCCGGGGAAATCCCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGGAGAGCATGGATTCGAGGCGTTCTTGCTCCATTTCCGGTTTATAACCGTAGt                   <  1:113312/150‑1 (MQ=255)
                                                                                                                                   aTCATTCCCCCCACGGGAAACCCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGGAGAGCATGGATTCGAGGCGTTCTTGCTCCATTTCCGGTTTATAACCGTAGTg                  <  2:884257/149‑1 (MQ=255)
                                                                                                                                    tCAGTTCCACCACGGGAATACCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGGAGAGCATGGATTCGAGGCGTTCTTGCTCCATTTCCGGTTTATAACCGTAGTgcgc               >  2:806864/1‑151 (MQ=255)
                                                                                                                                        ttCCACCACGGGAATACCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGGAGAGCATGGATTCGAGGCGTTCTTGCTCCATTTCCGGTTTATAACCGTAGTGCGCCAGc           >  1:872538/1‑151 (MQ=255)
                                                                                                                                                 ggaaaTCCCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGGAGAGCATGGATTCGAGGCGTTCTTGCTCCATTTCCGGTTTATAACCGTAGTGCGCCAGCATGGt      <  1:954077/144‑1 (MQ=255)
                                                                                                                                                 ggaaaTCCCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGGAGAGCATGGATTCGAGGCGTTCTTGCTCCATTTCCGGTTTATAACCGTAGTGCGCCAGCATGGTCTGa  <  2:254158/148‑1 (MQ=255)
                                                                                                                                                       |                                                                                                                                                
CGTCGAGACGTGCGCCGAGATAGGCAATGTGGCGATGCCCGCGAGCAATAATGGCAGTGGTCATCTGGCGTGCTGCTTCAAAGTTATCAAAACCGACGGCGATATCAAGGCATGGCGACTTGCTGTCCATCAGTTCCACCACGGGAATACCCGCCACTTCAATCATCTTTAAGGTGCGCGGCGTGTGGGTACGTTCGGTGAGGATCAGGCCGTCGATATTCCAGGAGAGCATGGATTCGAGGCGTTCTTGCTCCATTTCCGGTTTATAACCGTAGTGCGCCAGCATGGTCTGA  >  NC_000913/3578153‑3578445

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: