Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,097,1180CA35.7% 6.6 / 23.5 28intergenic (+289/+447)ycdU/serXuncharacterized protein YcdU/tRNA‑Ser
Reads supporting (aligned to +/- strand):  ref base C (11/7);  new base A (3/7);  total (14/14)
Fisher's exact test for biased strand distribution p-value = 2.36e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.18e-01
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

TGAGGAAGTGATAGGAAGTGACCAGATAATACATATATGTTCTGTACTCTCTTGCGCATTTTGATTGTTGACTGAGTAACCAGACAGTTGATGTGCACGATTTCCCCTCGCCCTAACAGACGTGGGCGGGGGCACCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTG‑TCCAACTGGCTGTCGCCAGTTGTCGACCCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTT  >  NC_000913/1096827‑1097411
                                                                                                                                                                                                                                                                                                    |                                                                                                                                                                                                                                                                                                     
tGAGGAAGTGATAGGAAGTGACCAGATAATACATATATGTTCTGTACTCTCTTGCGCATTTTGATTGTTGACTGAGTAACCAGACAGTTGATGTGCACGATTTCCCCTCGCCCTAACAGACGTGGGCGGGGGCACCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTG‑TCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTc                                                                                                                                                                                                                                                                                               <  1:187868/300‑1 (MQ=255)
         gATAGGAAGTGACCAGATAATACATATATGTTCTGTACTCTCTTGCGCATTTTGATTGTTGACTGAGTAACCAGACAGTTGATGTGCACGATTTCCCCTCGCCCTAACAGACGTGGGCGGGGGCACCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTTTTCTTTAAATCTGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTG‑TCCAACTGGCTGTCGCCAGTTATCGACCCCCGGTCGGGGCttat                                                                                                                                                                                                                                                                                      >  1:94572/1‑298 (MQ=255)
         gATAGGAAGTGACCAGATAATACATATATGTTCTGTACTCTCTTGCGCATTTTGATTGTTGACTGAGTAACCAGACAGTTGATGTGCACGATTTCCCCTCGCCCTAACAGACGTGGGCGGGGGCACCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTG‑TCCAACTGGCTGTCGCCAGTTGTCGACCCCCGGTCGGGGCTtct                                                                                                                                                                                                                                                                                      >  1:313731/1‑300 (MQ=255)
         gATAGGAAGTGACCAGATAATACATATATGTTCTGTACTCTCTTGCGCATTTTGATTGTTGACTGAGTAACCAGACAGTTGATGTGCACGATTTCCCCTCGCCCTAACAGACGTGGGCGGGGGCACCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTG‑TCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTtct                                                                                                                                                                                                                                                                                      >  1:93586/1‑300 (MQ=255)
             ggAAGTTACCAGATAATACATATAGGTTCTGTACTCTCTTGCGCATTTTGATTGTTTACTGAGTAACCAGACAGTTGATGTGCACGATTTCCCCTCGCCCTAACAGACGTGGGCGGGGGCACCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTG‑TCCAACTGGCTGTCGCCAGTTGTCGACCCCCGTTCGGGGCTTCTCAt                                                                                                                                                                                                                                                                                   <  2:228832/299‑1 (MQ=255)
                 gTGACCAGATAATACATATATGTTCTGTACTCTCTTGCGCATTTTGATTGTTGACTGAGTAACCAGACAGTTGATGTGCACGATTTCCCCTCGCCCTAACAGACGTGGGCGGGGGCACCCGGCGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTG‑TCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATccccc                                                                                                                                                                                                                                                                              <  2:21619/300‑1 (MQ=255)
                  tGACCAGATAATACATATATGTTCTGTGCTCTCTTGCGCATTTTGATTGTTGACTGAGTAACCAGACAGTTGATGTGCACGATTTCCCCTCGCCCTAACAGACGTGGGCGGGGGCACCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTTTG‑TCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATccccc                                                                                                                                                                                                                                                                              <  2:21789/299‑1 (MQ=255)
                       aGATAATACATATATGTTCTGTACTCTCTTGCGCATTTTGATTGTTGACTGAGTAACCAGACAGTTGATGTGCACGATTTCCCCTCGCCCTAACAGACGTGGGCGGGGGCACCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTG‑TCCAACTGGCTGTCGCAAGTTGTCGACCCCCAGTCGGGGCTCCTAATccacacggt                                                                                                                                                                                                                                                                          >  1:62295/1‑291 (MQ=255)
                              aCATATATGTTCTGTACTCTCTTGCGCATTTTGATTGTTGACTGAGTAACCAGACAGTTGATGTGCACGATTTCCCCTCGCCCTAACAGACGTGGGCGGGGGCACCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGTGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTG‑TCCAACTGGCTGTCGCCAGTTGTCGACCCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAAt                                                                                                                                                                                                                                                                 <  2:525692/300‑1 (MQ=255)
                                 tatatGTTCTGTACTCTCTTGCGCATTTTGATTGTTGACTGAGTAACCAGACAGTTGATGTGCACGATTTCCCCTCGCCCTAACAGACGTGGGCGGGGGCACCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAACCATAGCGACGAGGAAGAGACCAAACCGCTCCGCCCACCCTGCGGGCAGCCCGCTCACTGCGTTCAAGGTCTG‑TCCAAATGGCTGTCGCCAGTTGTCGACCCCAGGTCGGGGCTTCTAATCCCACAGGTGTGTGCAATaca                                                                                                                                                                                                                                                              >  1:602082/1‑300 (MQ=21)
                                     tGTTCTGTACTCTCTTGCGCATTTTGATTGTTGACTGAGTAACCAGACAGTTGATGTGCACGATTTCCCCTCGCCCTAACAGACGTGGGCGGGGGCACCCTGTGTGTGCAAGATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTG‑TCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGaa                                                                                                                                                                                                                                                          <  2:21802/300‑1 (MQ=255)
                                      gTTCTGTACTCTCTTGCGCATTTTGATTGTTGACTGAGTAACCAGACAGTTGATGTGCACGATTTCCCCTCGCCCTAACAGACGTGGGCGGGGGCACCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTG‑TCCAACTGGCTGTCGCCAGTTGTCGACCCCCGGTCGGGGCTTCTCATCCACCCGGTGTGTGCAATACACGaaa                                                                                                                                                                                                                                                         >  1:23356/1‑300 (MQ=255)
                                        tCTGTACTCTCTTGCGCATTTTGATTGTTGACTGAGTAACCAGACAGTTGATGTGCACGATTTCCCCTCGCCCTAACAGACGTGGGCGGGGGCACCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTG‑TCCAACTGGCTGTCGCCAGTTGTCGACCCCCGGTCGGGGCTTCTCATCCACCCGGTGTGTGCAATACACGaaaaa                                                                                                                                                                                                                                                       >  1:17850/1‑300 (MQ=255)
                                                ctctTGCGCATTTTGATTGTTGACTGAGTAACCAGACAGTTGATGTGCACGATTTCCCCTCGCCCTAACAGACGTGGGCGGGGGCACCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTG‑TCCAACTGGTTGTCGCCAGTTGTCGACCCCCGGTCGGGGCTTCTCATCCACCCGGTGTGTGCAATACACGAAAAAAAAGccc                                                                                                                                                                                                                                                >  1:20782/1‑299 (MQ=255)
                                                ctctTGCGCATTTTGATTGTTGACTGAGTAACCAGACAGTTGATGTGCACGATTTCCCCTCGCCCTAACAGACGTGGGCGGGGGCACCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTG‑TCCAACTGGTTGCCGCCAAGTGTCGACACACGGTCGGGGCGTATCATCCAACCAGTGTGTGCAATAAACGAAAAAAAAGcac                                                                                                                                                                                                                                                >  1:21004/1‑297 (MQ=18)
                                                   ttGCGCATTTTGATTGTTGACTGAGTAACCAGACAGTTGATGTGCACGATTTCCCCTCGCCCTAACAGACGGGTGCGGGGGCACCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTG‑TCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTAc                                                                                                                                                                                                                                            <  2:93586/300‑1 (MQ=255)
                                                                                    cAGTTGATGTGCACGATTTCCCCTCGCCCTAACAGACGTGGGCGGGGGCACCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTG‑TCCAACTGGCTGTCGCCAGTTGTCGCACCCCGGTCGGGGCTTCTCATCCACCAGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTGGTACGAGCTCTTCTTTAAATATGGCGGt                                                                                                                                                                                                            >  2:508132/1‑299 (MQ=255)
                                                                                      gTTGATGTGCACGATTTCCCCTCGCCCTAACAGACGTGGGCGGGGGCACCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTG‑TCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATc                                                                                                                                                                                                                                                                                  <  1:560050/227‑1 (MQ=255)
                                                                                      gTTGATGTGCACGATTTCCCCTCGCCCTAACAGACGTGGGCGGGGGCACCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTG‑TCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATc                                                                                                                                                                                                                                                                                  >  2:560050/1‑227 (MQ=255)
                                                                                                                      gACGTGGGCGGGGGCACCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTATGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTG‑TCCAACTGGCTGTCGCCAGTTGTCGACCCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATCTGTCGGTGAgagggggctcaactcacctagcccgccacata                                                                                                                                                                          >  1:33848/1‑274 (MQ=14)
                                                                                                                                 gggCACCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTG‑TCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATc                                                                                                                                                                                                                                                                                  <  1:560035/184‑1 (MQ=11)
                                                                                                                                         ggTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATTGCGGTGAGGTGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTG‑TCCAACTGGCTGTCGCCAGTTGTCGACCCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCAc                                                                                                                                                            <  1:167636/294‑1 (MQ=21)
                                                                                                                                         ggTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTTCGTTCCCATCCCGCTCCAAC‑AGCTGCTGACAATTTTCAACCCCCGATGATTACTTCTCATCCCCCCTCTATGTGCCCTCCACACCACCAAAGCCCGTACTTTCGTATGAGCTCTTCTTTAGATATGGCGGTGCGGGGGGGATTGACTCGCTTCGCTCGCCCTGCAGGCAGCCCTCTCAcatgtct                                                                                                                                                      >  2:167636/1‑294 (MQ=2)
                                                                                                                                           tgtgtgCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTG‑TCCAACTGGCTGTCGCCAGTTGTCGACCCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCACTACCCGAAAAAAAAGCCCGTACTTTCATACGAGCTCTTCTTTAAATATGGCGGTGGGGGGGGGATTGACTCGCTTAGCTCGAACTGCGGGCAGCCCGCTCATTGCGTTCa                                                                                                                                                    >  1:317594/1‑300 (MQ=11)
                                                                                                                                                                                      tcttctTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTG‑TCCAACTGGCTGTCGCCAGTTGTCGACCCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCg                                                                                                         <  1:5407/300‑1 (MQ=32)
                                                                                                                                                                                                                                        tgtgggCAGCCCGCTCGCTGCGTTCCCGGTCTG‑TCCAATCGGCTGTCGCCAGTTGTCGACCCCCGGTCGGGGCTTCTTAGCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGGACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAAc                                                                                                                                       <  2:54559/217‑1 (MQ=11)
                                                                                                                                                                                                                                                    gCTCACTGCGTTCACGGTCTG‑TCCAACTGGCTGTCGCCAGTTGTCGACCCCCGGTCGTGTCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGc                                           <  1:29679/300‑1 (MQ=17)
                                                                                                                                                                                                                                                                                            gTTGTCGACCCTCGTTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGTGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGt                                                                                                                                                <  2:197595/160‑1 (MQ=255)
                                                                                                                                                                                                                                                                                                tcagcccccGGTCGTTGCTTCTCGTCCCCCCGGTGTGTGCACTATATGAGAAAGAAACCCGTACTTTTGTACGAGTTCTTCTTGAAATATTTCGTGGAGGGGTGGATTGACTCGCTTTGCCCTCCCTGTGTGCAGTTTGTTCACGGCGTTCACGTTCTGTACATCTTGCTGACGCCAGTTTTCGAACCCAGGGCGAGGCTTCTCAGCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGTCGGTGAGGGGGGGATTGACtcgctt  <  2:17850/294‑1 (MQ=2)
                                                                                                                                                                                                                                                                                                    |                                                                                                                                                                                                                                                                                                     
TGAGGAAGTGATAGGAAGTGACCAGATAATACATATATGTTCTGTACTCTCTTGCGCATTTTGATTGTTGACTGAGTAACCAGACAGTTGATGTGCACGATTTCCCCTCGCCCTAACAGACGTGGGCGGGGGCACCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTG‑TCCAACTGGCTGTCGCCAGTTGTCGACCCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTT  >  NC_000913/1096827‑1097411

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑