Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_007779438,4432.C46.4% 42.8 / 71.2 28coding (959/1863 nt)dxs1‑deoxy‑D‑xylulose‑5‑phosphate synthase
Reads supporting (aligned to +/- strand):  ref base . (12/3);  new base C (13/0);  total (25/3)
Fisher's exact test for biased strand distribution p-value = 2.26e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.67e-05
Rejected as consensus: Frequency below/above cutoff threshold.

CCTGATCATAGGCGCGTTGCAGGAAAGTGGAGTAAATCGCGACAATGGGTTTGTACCCACCAATCGCCAGACCCGCAGCAAAGGTCACCGCGTGTTGCTCGGCAATTGCCACGTCGAAGTAGCGATCCGGGAATTTACGTGAAAACTCGACCATGCCGGAACCTTCACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TCGGCAAACCGCCGCTACTTTTCGGCAAACAACCGCTGGAGGGATCAAATTTAGGCACGGCGTGGAAAGTGATCGGGTCTTTTTCTGCCGGTTCATAACCACGACCTTTTTTGGTCATGATATGCAGGAACTGCGGGCCTTTCAGGTCGCGCATGTTC  >  NC_007779/438195‑438601
                                                                                                                                                                                                                                                          |                                                                                                                                                                                 
ccTGATCATAGGCGCGTTGCAGGAAAGTGGAGTAAATCGCGACAATGGGTTTGTACCCACCAATCGCCAGACCCGCAGCAAAGGTCACCGCGTGTTGCTCGGCAATTGCCACGTCGAAGTAGCGATCCGGGAATTTACGTGAAAACTCGACCATGCCGGAACCTTCACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑t                                                                                                                                                               <  2:786902/250‑1 (MQ=255)
  tGATCATAGGCGCGTTGCAGGAAAGTGGAGTAAATCGCGACAATGGGTTTGTACCCACCAATCGCCAGACCCGCAGCAAAGGTCACCGCGTGTTGCTCGGCAATTGCCACGTCGAAGTAGCGATCCGGGAATTTACGTGAAAACTCGACCATGCCGGAACCTTCACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TCg                                                                                                                                                             <  1:4162/250‑1 (MQ=255)
      cATAGGCGCGTTGCAGGAAAGTGGAGTAAATCGCGACAATGGGTTTGTACCCACCAATCGCCAGACCCGCAGCAAAGGTCACCGCGTGTTGCTCGGCAATTGCCACGTCGAAGTAGCGATCCGGGAATTTACGTGAAAACTCGACCATGCCGGAACCTTCACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TCGGCaa                                                                                                                                                         >  1:580115/1‑250 (MQ=255)
       aTAGGCGCGTTGCAGGAAAGTGGAGTAAATCGCGACAATGGGTTTGTACCCACCAATCGCCAGACCCGCAGCAAAGGTCACCGCGTGTTGCTCGGCAATTGCCACGTCGAAGTAGCGATCCGGGAATTTACGTGAAAACTCGACCATGCCGGAACCTTCACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TCGGCaaa                                                                                                                                                        <  1:272190/250‑1 (MQ=255)
                    aGGAAAGTGGAGTAAATCGCGACAATGGGTTTGTACCCACCAATCGCCAGACCCGCAGCAAAGGTCACCGCGTGTTGCTCGGCAATTGCCACGTCGAAGTAGCGATCCGGGAATTTACGTGAAAACTCGACCATGCCGGAACCTTCACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TCGGCAAACCGCCGCTACttt                                                                                                                                           >  1:1008085/1‑250 (MQ=255)
                         aGTGGAGTAAATCGCGACAATGGGTTTGTACCCACCAATCGCCAGACCCGCAGCAAAGGTCACCGCGTGTTGCTCGGCAATTGCCACGTCGAAGTAGCGATCCGGGAATTTACGTGAAAACTCGACCATGCCGGAACCTTCACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TCGGCAAACCGCCGCTACTTTTCGGc                                                                                                                                      >  1:830001/1‑250 (MQ=255)
                          gTGGAGTAAATCGCGACAATGGGTTTGTACCCACCAATCGCCAGACCCGCAGCAAAGGTCACCGCGTGTTGCTCGGCAATTGCCACGTCGAAGTAGCGATCCGGGAATTTACGTGAAAACTCGACCATGCCGGAACCTTCACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TCGGCAAACCGCCGCTACTTTTCGGCa                                                                                                                                     >  2:512275/1‑250 (MQ=255)
                          gTGGAGTAAATCGCGACAATGGGTTTGTACCCACCAATCGCCAGACCCGCAGCAAAGGTCACCGCGTGTTGCTCGGCAATTGCCACGTCGAAGTAGCGATCCGGGAATTTACGTGAAAACTCGACCATGCCGGAACCTTCACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTACCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TCGGCAAACCGCCGCTACTTTTCGGCa                                                                                                                                     >  1:242922/1‑250 (MQ=255)
                           tGGAGTAAATCGCGACAATGGGTTTGTACCCACCAATCGCCAGACCCGCAGCAAAGGTCACCGCGTGTTGCTCGGCAATTGCCACGTCGAAGTAGCGATCCGGGAATTTACGTGAAAACTCGACCATGCCGGAACCTTCACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TCGGCAAACCGCCGCTACTTTTCGGCaa                                                                                                                                    >  1:59396/1‑250 (MQ=255)
                            ggAGTAAATCGCGACAATGGGTTTGTACCCACCAATCGCCAGACCCGCAGCAAAGGTCACCGCGTGTTGCTCGGCAATTGCCACGTCGAAGTAGCGATCCGGGAATTTACGTGAAAACTCGACCATGCCGGAACCTTCACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TCGGCAAACCGCCGCTACTTTTCGGCaaa                                                                                                                                   >  1:207735/1‑250 (MQ=255)
                               gTAAATCGCGACAATGGGTTTGTACCCACCAATCGCCAGACCCGCAGCAAAGGTCACCGCGTGTTGCTCGGCAATTGCCACGTCGAAGTAGCGATCCGGGAATTTACGTGAAAACTCGACCATGCCGGAACCTTCACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TCGGCAAACCGCCGCTACTTTTCGGCAaaccg                                                                                                                                >  1:1205243/1‑248 (MQ=255)
                                 aaaccacgACAAGGGGTTGGCCCCCCCCAACCGCCACCCCCGAAGAAAAGGTCACCGCGTGTTGCCGGGCAATGGCCACGTAGAAGTAGCGACCCGGGATTTTACGTGAAACCCCGCCCTTGCCGAACCCTTCCCGCACCGCGGGAGTAATCCCCATCAGTTTGTTGTCTTTCGCTGCCTTTTCGCACAACCAGTCGCAAAAGATTTTTGAATAGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TCGGCAAACCGCCGCTACTTTTCGGCAaaccgcc                                                                                                                              <  2:832130/244‑5 (MQ=255)
                                        gACAATGGGTTTGTACCCACCAATCGCCAGACCCGCAGCAAAGGTCACCGCGTGTTGCTCGGCAATTGCCACGTCGAAGTAGCGATCCGGGAATTTACGTGAAAACTCGACCATGCCGGAACCTTCACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TCGGCAAACCGCCGCTACTTTTCGGCAAACCGCCGCtactt                                                                                                                       >  1:1052913/1‑246 (MQ=255)
                                         aCAATGGGTTTGTACCCACCAATCGCCAGACCCGCAGCAAAGGTCACCGCGTGTTGCTCGGCAATTGCCACGTCGAAGTAGCGATCCGGGAATTTACGTGAAAACTCGACCATGCCGGAACCTTCACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TCGGCAAACCGCCGCTACTTTTCGGCAAACCGCCGCtacttt                                                                                                                      >  2:666198/1‑245 (MQ=255)
                                           aaTGGGTTTGTACCCACCAATCGCCAGACCCGCAGCAAAGGTCACCGCGTGTTGCTCGGCAATTGCCACGTCGAAGTAGCGATCCGGGAATTTACGTGAAAACTCGACCATGCCGGAACCTTCACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TCGGCAAACCGCCGCTACTTTTCGGCAAACCGCCGCtacttttc                                                                                                                    >  2:465398/1‑243 (MQ=255)
                                             tGGGTTTGTACCCACCAATCGCCAGACCCGCAGCAAAGGTCACCGCGTGTTGCTCGGCAATTGCCACGTCGAAGTAGCGATCCGGGAATTTACGTGAAAACTCGACCATGCCGGAACCTTCACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TCGGCAAACCGCCGCTACTTTTCGGCAAACCGCCGCtacttttcgg                                                                                                                  >  2:612634/1‑241 (MQ=255)
                                                                                                                      gTAGCGATCCGGGAATTTACGTGAAAACTCGACCATGCCGGAACCTTCACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGCTCGGCAAACCGCCGCTACTTTTCGGCAAACCGCCGCTACTTTTCGGCAAACAACCGCTGGAGGGATCAAATTTAGGCACGGCGTGGAAAGTGATCGGGTCTTTTTCTGCCGGTTCATaa                                                              >  2:711177/1‑250 (MQ=255)
                                                                                                                            aTCCGGGAATTTACGTGAAAACTCGACCATGCCGGAACCTTCACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGCTCGGCAAACCGCCGCTACTTTTCGGCAAACCGCCGCTACTTTTCGGCAAACAACCGCTGGAGGGATCAAATTTAGGCACGGCGTGGAAAGTGATCGGGTCTTTTTCTGCCGGTTCATAACCACGa                                                        >  1:553530/1‑250 (MQ=255)
                                                                                                                            aTCCGGGAATTTACGTGAAAACTCGACCATGCCGGAACCTTCACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGCTCGGCAAACCGCCGCTACTTTTCGGCAAACCGCCGCTACTTTTCGGCAAACAACCGCTGGAGGGATCAAATTTAGGCACGGCGTGGAAAGTGATCGGGTCTTTTTCTGCCGGTTCATAACCACGa                                                        >  1:265725/1‑250 (MQ=255)
                                                                                                                                 ggAATTTACGTGAAAACTCGACCATGCCGGAACCTTCACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGCTCGGCAAACCGCCGCTACTTTTCGGCAAACCGCCGCTACTTTTCGGCAAACAACCGCTGGAGGGATCAAATTTAGGCACGGCGTGGAAAGTGATCGGGTCTTTTTCTGCCGGTTCATAACCACGACCttt                                                   >  2:253837/1‑250 (MQ=255)
                                                                                                                                      ttACGTGAAAACTCGACCATGCCGGAACCTTCACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGCTCGGCAAACCGCCGCTACTTTTCGGCAAACCGCCGCTACTTTTCGGCAAACAACCGCTGGAGGGATCAAATTTAGGCACGGCGTGGAAAGTGATCGGGTCTTTTTCTGCCGGTTCATAACCACGACCTTTTTTgg                                              >  2:911869/1‑250 (MQ=255)
                                                                                                                                      ttAAGTGAAAACTCGACCATGCCGGAACCTTCACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGCTCGGCAAACCGCCGCTACTTTTCGGCAAACCGCCGCTACTTTTCGGCAAACAACCGCTGGAGGGATCAAATTTAGGCACGGCGTGGAAAGCGATCGGGTCTTTTTCTGCCGGTTCGTAACCACGACATTTTTTgg                                              >  2:517535/1‑250 (MQ=255)
                                                                                                                                        aCGTGAAAACTCGACCATGCCGGAACCTTCACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGCTCGGCAAACCGCCGCTACTTTTCGGCAAACCGCCGCTACTTTTCGGCAAACAACCGCTGGAGGGATCAAATTTAGGCACGGCGTGGAAAGTGATCGGGTCTTTTTCTGCCGGTTCATAACCACGACCTTTTTTGGTc                                            >  1:286676/1‑250 (MQ=255)
                                                                                                                                            gAAAACTCGACCATGCCGGAACCTTCACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGCTCGGCAAACCGCCGCTACTTTTCGGCAAACCGCCGCTACTTTTCGGCAAACAACCGCTGGAGGGATCAAATTTAGGCACGGCGTGGAAAGTGATCGGGTCTTTTTCTGCCGGTTCATAACCACGACCTTTTTTGGTCATGa                                        >  1:1103746/1‑250 (MQ=255)
                                                                                                                                                  tCGACCATGCCGGAACCTTCACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGCTCGGCAAACCGCCGCTACTTTTCGGCAAACCGCCGCTACTTTTCGGCAAACAACCGCTGGAGGGATCAAATTTAGGCACGGCGTGGAAAGTGATCGGGTCTTTTTCTGCCGGTTCATAACCACGACCTTTTTTGGTCATGATATGCa                                  >  2:659580/1‑250 (MQ=255)
                                                                                                                                                                   ttCACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGCTCGGCAAACCGCCGCTACTTTTCGGCAAACCGCCGCTACTTTTCGGCAAACAACCGCTGGAGGGATCAAATTTAGGCACGGCGTGGAAAGTGATCGGGTCTTTTTCTGCCGGGTCATAACCACGACCTTTTTTGGTCATGATATGCAGGAACTGCGGGCCGTTc                 >  2:193416/1‑250 (MQ=255)
                                                                                                                                                                     cACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGCTCGGCAAACCGCCGCTACTTTTCGGCAAACCGCCGCTACTTTTCGGCAAACAACCGCTGGAGGGATCAAATTTAGGCACGGCGTGGAAAGTGATCGGGTCTTTTTCTGCCGGTTCATAACCACGACCTTTTTTGGTCATGATATGCAGGAACTGCGGGCCTTTCAg               >  1:26790/1‑250 (MQ=255)
                                                                                                                                                                            cGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGCTCGGCAAACCGCCGCTACTTTTCGGCAAACCGCCGCTACTTTTCGGCAAACAACCGCTGGAGGGATCAAATTTAGGCACGGCGTGGAAAGTGATCGGGTCTTTTTCTGCCGGTTCATAACCACGACCTTTTTTGGTCATGATATGCAGGAACTGCGGGCCTTTCAGGTCgcgc        >  1:311782/1‑250 (MQ=255)
                                                                                                                                                                                  aGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGCTCGGCAAACCGCCGCTACTTTTCGGCAAACCGCCGCTACTTTTCGGCAAACAACCGCTGGAGGGATCAAATTTAGGCACGGCGTGGAAAGTGATCGGGTCTTTTTCTGCCGGTTCATAACCACGACCTTTTTTGGTCATGATATGCAGGAACTGCGGGCCTTTCAGGTCGCGCATGTTc  >  1:23671/1‑250 (MQ=255)
                                                                                                                                                                                                                                                          |                                                                                                                                                                                 
CCTGATCATAGGCGCGTTGCAGGAAAGTGGAGTAAATCGCGACAATGGGTTTGTACCCACCAATCGCCAGACCCGCAGCAAAGGTCACCGCGTGTTGCTCGGCAATTGCCACGTCGAAGTAGCGATCCGGGAATTTACGTGAAAACTCGACCATGCCGGAACCTTCACGCATCGCCGGAGTAATCGCCATCAGCTTGTTGTCTTTCGCTGCCGTTTCGCACAACCAGTCGCCAAAGATTTTTGAATAGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TCGGCAAACCGCCGCTACTTTTCGGCAAACAACCGCTGGAGGGATCAAATTTAGGCACGGCGTGGAAAGTGATCGGGTCTTTTTCTGCCGGTTCATAACCACGACCTTTTTTGGTCATGATATGCAGGAACTGCGGGCCTTTCAGGTCGCGCATGTTC  >  NC_007779/438195‑438601

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑