Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,192,140	G→T	intergenic (‑201/‑68)	glgS ← / → yqiJ	motility and biofilm regulator/DUF1449 family inner membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,192,140	0	G	T	100.0%	98.9 / NA	31	intergenic (‑201/‑68)	glgS/yqiJ	motility and biofilm regulator/DUF1449 family inner membrane protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base T (19/12);  total (19/12)

GGCAAAACTACGCGCCAGGAAATCGAAATTATTTAAAGAATTAAGACTATGATCCATAAGCACATCCTCCGGTTATCGCATACCTTTTAAGGCCATATGCTTTTTCTGATTTCAGTATTCCCCAATCAGTGTAGTGCCTTTAAACATAACGTGCGTAAATATATTGTCCCCGATCACACTTTTTAGTGAAAAATAAAAAACCATATTAAAAGACTTTCTCTTCCAGAACTTCTCTAACCTGTGTTATTATTAACACAGATAAATGTAAGCAAGGAAACTATTACAAAGTAAATATTGCGTCACTAAATGGACATTGGAGTGATATATGATTTTATTCGCCGACTATAACACCCCTTATCTTTTCGCTATTTCCTTTGTACTGTTGATCGGCCTGTTAGAAATTTTTGCGCTTATCTGCGGTCACATGCTCTCCGGTGCTCTTGATGCACATCTTGACCATTATGATTCTATAACCACAGGTCATATTAGCCAGGCACTTCATTATCTCAATATTGGAAGATTGCCA  >  NC_000913/3191883‑3192408                                                                                                                                                                                                                                                                  |                                                                                                                                                                                                                                                                             ggCAAAACTACGCGCCAGGAAATCGAAATTATTTAAAGAATTAAGACTATGATCCATAAGCACATCCTCCGGTTATCGCATACCTTTTAAGGCCATATGCTTTTTCTGATTTCAGTATTCCCCCATCAGTGTAGTGCCTTTAAACATAACGTGCGTAAATATATTGTCCCCGATCACACTTTTTAGTGAAAAATAAAAAACCATATTAAAAGACTTTCTCTTCCAGAACTTCTCTAACCTGTGTTATTATTAACACATATAAATGTAAGCAAGGa                                                                                                                                                                                                                                                             <  1:125158/275‑1 (MQ=255) gacAAAACTACGCTCCAGGAAATCGAAATTATTTAAAGAATTAAGACTATGATCCCTAAGCACATCCTCCGGTTATCGCATACCTTTTAAGGCCATATGCTTTTTCTGATTTCAGTATTCCCCAATCAGTGTAGTGCCTTTAAACATAACGTGCGTAAATATATTGTCCCCGATCACACTTTTTAGTGAAAAATAAAAAACCATATTAAAAGACTTTCTCTTCCAGAACTTCTCTAACCTGTGTTATTATTAACACATATAAATGTAAGCAAGGa                                                                                                                                                                                                                                                             <  2:64960/273‑1 (MQ=255) agCAAAACTACTCGCCAGTAAATCGAAATTATTTAAAGAATTAAAACTTTGGTCCATAAGCACATCCTCCGGTTATCGCATACCTTTTAAGGCCATATGCTTTTTCTGATTTCAGTATTCCCCAATCAGTGTAGTGCCTTTAAACATAACGTGCGTAAATATATTGTCCCCGATCACACTTTTTAGTGAAAAATAAAAAACCATATTAAAAGACTTTCTCTTCCAGAACTTCTCTAACCTGTGTTATTATTAACACATATAAATGTAAGCAAGGa                                                                                                                                                                                                                                                             <  4:271795/274‑1 (MQ=255)          aCGCGCCAGGAAATCGAAAATATTTAAAGAATTAATACTATGATCCATAAGCACATCCTCCGGTTATCGCATACCTTGTAAGGCCATATGCTTTTTCTGATTTCAGTATTCCCCAATCAGTGTAGTGCCTTTAAACATAACGTGCGTAAATATATTGTCCCCGATCACACTTTTTAGTGAAAAATAAAAAACCATATTAAAAGACTTTCTCTTCCAGAACTTCTCTAACCTGTGTTATTATTAACACATATAAATGTAAGCAAGGAAACTATTAc                                                                                                                                                                                                                                                    <  2:132788/275‑1 (MQ=255)                                                                     ccGTTTATTTCATACCTTTTAAGGCCATATGCTTTTTCTGATTTCAGTATTCCCCAATCAGTGTAGTGACTTTAAACATAACGTGCGTAAATATATTGTCCCCGATCACACTTTTTAGTGAAAAATAAAAAACCATATTAAAAGACTTTCTCTTCCAGAACTTCTCTAACCTGTGTTATTATTAACACATATAAATGTAAGCAAGGAAACTATTACAAAGTAAATATTGCGTCACTAAATGGACATTGGAGTGATATATGATTTTATTCGCCGa                                                                                                                                                                                          <  4:87658/274‑1 (MQ=255)                                                                      cGGTTATCGCATACCTTTTAAGGCCATATGCTTTTTCTGATTTCAGTATTCCCCAATCAGTGTAGTGCCTTTAAACATAACGTGCGTAAATATATTGTCCCCGATCACACTTTTTAGTGAAAAATAAAAAACCATATTAAAAGACTTTCTCTTCCAGAACTTCTCTAACCTGTGTTATTATTAACAAATATAAATGTAAGCAAGGAAACTATTACAAAGTAAATATTTCGTCACTAAATGGCAATTGGAGTGATAAAATATTTTAtttccctatt                                                                                                                                                                                        >  2:87658/1‑267 (MQ=255)                                                                                         aaGGCCATATGCTTTTTCTGATTTCAGTATTCCCCAATCAGTGTAGTTCATTTAAACATAACGTGCGTAAAAATATTGTCCCCGATCACACTTTTTAGTGAAATATCAAAAACCATATTAAAAGACTTTCTCTTCCAGAACTTCTCTAACCTGTGTTATTATTAACAAATATAAATGTAAGCAAGGATACTATTACAAAGTAAATATTGCGTCACTAAATGGACATTGGAGTGATATATGATTTTATTCGCCGACTATAACACCCCTTATCtttt                                                                                                                                                                     <  2:239598/275‑1 (MQ=255)                                                                                              cATATGCTTTTTCTGATTTCAGTATTCCCCAATCAGTGTAGTGCCTTTAAACATAACGTGCGTAAATATATTGTCCCCGATCACACTTTTTAGTGAAAAATAAAAAACCATATTAAAAGACTTTCTCTTCCAGAACTTCTCTAACCTGTGTTATTATTAACACATATAAATGTAAGCAAGGAAACTATTACAAAGTAAATATTGCGTCACTAAATGGACATTGGAGTGATATATGATTTTATTCGCCGACTATAAAACCCCTTATCTTTTc                                                                                                                                                                    >  1:196484/1‑271 (MQ=255)                                                                                               ttattttttttCTTATTTCCGTATTCCCCAATCAGTTTATTTCCTTTAAACATAACGTACGTAAATATATTGTCCCCTATCACACTTTTTAGTGAAAAATAAAAAACCATATTAAAAGACTTTCTCTTCCAGAACTTCTCTAACCTGTGTTATTATTAACACATATAAATGTAAGCAAGGAAACTATTACAAAGTAAATATTGCGTCACTAAATGGACATTGGAGTGATATATGATTTTATTCGCCGACTATAACACCCCTTATCTTTTCGCTAt                                                                                                                                                               <  4:56172/269‑1 (MQ=255)                                                                                                tatGCTTTTTCTGATTTCAGTATTCCCCAATCAGTGTAGTGCCTTTAAACATAACGTGCGTAAATATATTGTCCCCGATCACACTTTTTAGTGAAAAATAAAAAACCATATTAAAAGACTTTCTCTTCCAGAACTTCTCTAACCTGTGTTATTATTAACACATATAAATGTAAGCAAGGAAACTATTACAAAGTAAATATTGCGTCACTAAATGGACATTGGAGTGATATATGATTTTATTCGCCGACTATAACACCCCTTATCTTTTCGCTAtt                                                                                                                                                              >  1:138907/1‑275 (MQ=255)                                                                                                      ttttCTGATTTCAGTATTCCCCAATCAGTGTAGTGCCTTTAAACATAACGTGCGTAAATATATTGTCCCCGATCACACTTTTTAGTGAAAAATAAAAAACCATATTAAAAGACTTTCTCTTCCAGAACTTCTCTAACCTGTGTTATTATTAACACATATAAATGTAAGCAAGGAAACTATTACAAAGTAAATATTGCGTCACTAAATGGACATTGGAGTGATATATGATTTTATTAGATGACTATAACACTTCTTATCTTTTAGCTTTTTCttt                                                                                                                                                         >  2:2984/1‑274 (MQ=255)                                                                                                                              tCAGTGTAGTGCCTTTAAACATAACGTGCGTAAATATATTGTCCCCGATCACACTTTTTAGTGAAAAATAAAAAACCATATTAAAAGACTTTCTCTTCCAGAACTTCTCTAACCTGTGTTATTATTAACACATATAAATGTAAGCAAGGAAACTATTACAAAGTAAATATTGCGTCACTAAATGGACATTGGAGTGATATATGATTTTATTCGCCGACTTTAACACCCCTTATCTTTTCGCTATTTCCTTTTTACTTTTGTTTTGCCTGTTAGaa                                                                                                                                >  4:124489/1‑275 (MQ=255)                                                                                                                                  tgtAGTGCCTTTAAACATAACGTGCGTAAATATATTGTCCCCGATCACACTTTTTAGTGAAAAATAAAAAACCATATTAAAAGACTTTCTCTTCCAGAACTTCTCTAACCTGTGTTATTATTAACACATATAAATGTAAGCAAGGAAACTATTACAAAGTAAATATTGCGTCACTAAATGGACATTGGAGTGATATATGATTTTATTCGCCGACTATAACACCCCTTATCTTTTCGCTATTTCCTTTGTACTGTTGATCGGCCTGTTAGAAAttt                                                                                                                            >  3:84406/1‑275 (MQ=255)                                                                                                                                  tgtAGTGCCTTTAAACATAACGTGCGTAAATATATTGTCCCCGATCACACTTTTTAGTGAAAAATAAAAAACCATATTAAAAGACTTTCTCTTCCAGAACTTCTCTAACCTGTGTTATTATTAACACATATAAATGTAAGCAAGGAAACTATTACAAAGTAAATATTGCGTCACTAAATGGACATTGGAGTGATATATGATTTTATTCGCCGACTATAACACCACTTATCTTTTCGCTATTCCCTTTGTATTGTTGATCGGCATGTTAGAAAttt                                                                                                                            >  3:221503/1‑275 (MQ=255)                                                                                                                                    tattGCCTGTAAACATACCAGTCGGTAATATATGATCCACGATCACACTTTTTAATGAAAAATAAAAAACCATAGTAAAAGACTTTCTCTTCCATAACTTCTCTAACCTGTGTTAGTATTAACACATATAAATGGAAGCCATGAAACTATTACAAAGTAAATATTGCTTCACTAAATGTACATTGGAGTTATATATGATTTTATTCGCCGACTATAACACCCCTTATCTTTTCGCTATTTCCTTTGTACTGTTGATCGGCCTGTTAGAAAttttt                                                                                                                          <  4:1003/272‑1 (MQ=255)                                                                                                                                                         gCGTAAATATATTGTCCCCGATCACACTTTTTAGTGAAAAATAAAAAACCATATTAAAAGACTTTCTCTTCCAGAACTTCTCTAACCTGTGTTTTTATTAACACATATAAATGTAAGCAAGGAAACTATTACAAAGTAAATATTGCGTCACTAAATGGACATTGGAGTGATATATGATTTTATTCGCCGACTATAACACCCCTTATCTTTTCGCTATTTCCTTTGTACTGTTGATCGGCCTTTTAGAAATTTTTGCGCTTATCTGCCGTCACATg                                                                                                     >  2:16372/1‑275 (MQ=255)                                                                                                                                                          cGTAAATATATTGTCCCCGATCACACTTTTTAGTGAAAAATAAAAAACCATATTAAAAGACTTTCTCTTCCAGAACTTCTCTAACCTGTGTTATTATTAACACATATAAATGTAAGCAAGGAAACTATTACAAAGTAAATATTTCGTAACTAAATGGACATTGGAGTGATATATGATTTTATTCGCCGACTATAACACCCCTTATCTTTTAGCTATTTCCTTTTTACTGTTTATCGGCCTTTTAGAACTTTTTCCGTTTTTCttatgtacacttt                                                                                                    >  2:186826/1‑263 (MQ=255)                                                                                                                                                                       tCCCCGATCACACTTTTTAGTGAAAAATAAAAAACCATATTAAAAGACTTTCTCTTCTAGAACTTCTCTAACCTGTGTTATTATTAACACATATAAATGTAAGCAAGGAAACTATTACAAAGTAAATATTGCGTCACTAAATGGACATTGGAGTGATATATGATTTTATTCGACGACTATAACACCCCTTATCTTTTCTCTATTTACTTTGTAATGTTTATCGGCCTGTTAGAAATTTTTGCGCTTATCTTCCGTCACATGCTTTCCGTTgtctt                                                                                       >  1:241859/1‑271 (MQ=255)                                                                                                                                                                       tCCCCGATCACACTTTTTAGTGAAAAATAAAAAACCATATTAAAAGACTTTCTCTTCCAGAACTTCTCTAACCTGTGTTATTATTAACACATATAAATGTAAGCAAGGAAACTATTACAAAGTAAATATTGCGTCACTAAATGGACATTGGAGTGATATATGATTTTATTCGCCGACTATAACACCCCTTATCTTTTCGCTATTTCCTTTGTACTGTTGATCGGCCTGTTAGAAATTTTTGCGCTTATCTGCGGTCACATGCTCTCCGGTGctct                                                                                       >  1:223298/1‑275 (MQ=255)                                                                                                                                                                         cccGATCACACTTTTTAGTGAAAAATAAAAAACCATATTAAAAGACTTTCTCTTCCAGAACTTCTCTAACCTGTGTTATTATTAACACATATAAATGTAAGCAAGGAAACTATTACAAAGTAAATATTGCGTCACTAAATGGACATTGTAGTGATATATGATTTTATTCGCCGACTATAACACCCCTTATCTTTTCGCTATTTCCTTTTTACTGTTGCTCGGCCTGTTAGAAATTTTTTCGCTTATCTGTGGTCACATGCTCTCCGGTGccttt                                                                                      >  4:256429/1‑270 (MQ=255)                                                                                                                                                                             aTCACACTTTTTAGTTAAAAATAAAAAACCATATTAAAAGACTTTCTCTTCCAGAACTTCTCTAACCTGTGTTATTATTAACACATATAAATGTAAGCAAGGAAACTATTACAAAGTAAATATTGCGTCACTAAATGGACATTGGAGTGATATATGATTTTATTCGCCGACTATAACACCCCTTATCTTTTCGCTAt                                                                                                                                                               <  4:71734/197‑1 (MQ=255)                                                                                                                                                                                              aaaaTAAAAAACCATATTAAAAGACTTTCTCTTCCAGAACTTCTCTAACCTGTGTTATTATTAACACATATAAATGTAAGCAAGGAAACTATTACAAAGTAAATATTGCGTCACTAAATGGACATTGGAGTGATATATGATTTTATTCGCCGACTATAACACCCCTTATCTTTTCGCTATTTCCTTTGTACTGTTGATCGGCCTGTTAGAAATTTTTGCGCTTATCTGCGGTCACATGCTCTCCGGTGCTCTTGATGCACATCTTGACCATTATg                                                                <  3:138906/275‑1 (MQ=255)                                                                                                                                                                                                                        ttCTCTTCCAGAACTTCTCTAACCTGTGTTATTATTAACACATATAAATGTAAGCAAGGAAACTATTACAAAGTAAATATTGCGTCACTAAATGGACATTGGAGTGATATATGATTTTATTCGCCGACTATAACACCCCTTATCTTTTCGCTATTTCCTTTGTACTGTTGATCGGCCTGTTAGAAATTTTTGCGCTTATCTGCGGTCACATGCTCTCCGGTGCTCTTGATGCACATCTTGACCATTATGATTCTATAACCACAGGTCATATTAGc                                      >  3:250142/1‑275 (MQ=255)                                                                                                                                                                                                                         tctcTTCCAAAACATCTCTAACCTGTTTTATTATTAACACATATAAATGGAAGCAAGGAAACTATTAAAAAGTAAATATTGCGTCACTAAATGGACATTGGAGTGATATATGATTTTATTCGCCGACTATAACACCCCTTATCTTTTCGCTATTTCCTTTGTACTGTTGATCGGCCTGTTAGAAATTTTTGCGCTTATCTGCGGTCACATGCTCTCCGGTGCTCTTGATGCACATCTTGACCATTATGATTCTATAACCACAGGTCATATTAGcc                                     <  1:221504/275‑1 (MQ=255)                                                                                                                                                                                                                               ccAGAACTTCTCTAACCTGTGTTATTATTAACACATATAAATGTAAGCAAGGAAACTATTACAAAGTAAATATTGCGTCACTAAATGGACATTGGAGTGATATATGATTTTATTCGCCGACTATAACACCCCTTATCTTTTCGCTATTTCCTTTGTACTGTTGATCGGCCTGTTAGAAATTTTTGCGCTTATCTGCGGTCACATGCTCTCCGGTGCTCTTGATGCACATCTTGACCATTATGATTCTATAACCACAGGTCATATTAGCCAGGCAc                               >  3:238936/1‑275 (MQ=255)                                                                                                                                                                                                                                           tAACCTGTGTTATTATTAACACATATAAATGTAAGCAAGGAAACTATTACAAAGTAAATATTGCGTCACTAAATGGACATTGGAGTGATATATGATTTTATTCGCCGACTATAACACCCCTTATCTTTTCGCTATTTCCTTTGTACTGTTGATCGGCCTGTTAGAAATTTTTGCGCTTATCTGCGGTCACATGCTCTCCGGTGCTCTTGATGCACATCTTGACCATTATGATTCTATAACCACAGGTCATATTAGCCAGGCACTTCATTATCTCa                   <  3:223297/275‑1 (MQ=255)                                                                                                                                                                                                                                                  tgtTATTATTAACACATATAAATGTAAGCAAGGAAACTATTACAAAGTAAATATTGCGTCACTAAATGGACATTGGAGTGATATATGATTTTATTCGCCGACTATAACACCCCTTATCTTTTCGCTATTTCCTTTGTACTGTTGATCGGCCTGTTAGAAATTTTTGCGCTTATCTGCGGTCACATGCTCTCCGGTGCTCTTGATGCACATCTTGACCATTATGATTCTATAACCACAGGTCATATTAGCCAGGCACTTCATTATCTCAATATTg             >  3:209573/1‑274 (MQ=255)                                                                                                                                                                                                                                                  tgtTATTATTAACACATATAAATGTAAGCAAGGAAACTATTACAAAGTAAATATTGCGTCACTAAATGGACATTGGAGTGATATATGATTTTATTCGCCGACTATAACACCCCTTATCTTTTCGCTATTTCCTTTGTACTGTTGATCGGCCTGTTAGAAATTTTTGCGCTTATCTGCGGTCACATGCTCTCCGGTGCCCTTGATGCACCTCTTGACCATTATTATTCTATAACCACAGGTCATATTAGCCAGGCACTTCATTACTTCAATTTTgt            >  3:88278/1‑274 (MQ=255)                                                                                                                                                                                                                                                            aaCACATATAAATGTAAGCAAGGAAACTATTACAAAGTAAATATTGCGTCACTAAATGGACATTGGAGTGATATATGATTTTATTCGCCGACTATAACACCCCTTATCTTTTCGCTATTTCCTTTGTACTGTTGATCGGCCTGTTAGAAATTTTTGCGCTTATCTGCGGTCACATGCTCTCCGGTGCTCTTGATGCACATCTTGACCATTATGATTCTATAACCACAGGTCATATTAGCCAGGCACTTCATTATCTCAATATTGGAAGATTGcc   >  3:47199/1‑274 (MQ=255)                                                                                                                                                                                                                                                            aaCACATATAAATGTAAGCAAGGAAACTATTACAAAGTAAATATTGCGTCACTAAATGGACATTGGAGTGATATATGATTTTATTCGCCGACTATAACACCCCTTATCTTTTCGCTATTTCCTTTGTACTGTTGATCGGCCTGTTAGAAATTTTTGCGCTTATCTGCGGTCACATGCTCTCCGGTGCTCTTGATGCACATCTTGACCATTATGATTCTATAACCACAGGTCATATTAGCCAGGCACTTCATTATCTCAATATTGGAAGATTGcc   >  2:94516/1‑274 (MQ=255)                                                                                                                                                                                                                                                            aaCACATATAAATGTAAGCAAGGAAACTATTACAAAGTAAATATTGCGTCACTAAATGGACATTGGAGTGATATATGATTTTATTCGCCGACTATAACACCCCTTATCTTTTCGCTATTTCCTTTGTACTGTTGATCGGCCGGTTAGAAATTTTTGCGCTTATCTGCGTTCACATGCTCTCCGGTGACCTTGATGTACAGCTTGACCGTTATGATTCTATAACCCCAGGTCTTATTAGACAGGCCTTGCCTTATCTCATTATTGGTAGTTTGcga  >  4:65091/1‑273 (MQ=255)                                                                                                                                                                                                                                                                  |                                                                                                                                                                                                                                                                             GGCAAAACTACGCGCCAGGAAATCGAAATTATTTAAAGAATTAAGACTATGATCCATAAGCACATCCTCCGGTTATCGCATACCTTTTAAGGCCATATGCTTTTTCTGATTTCAGTATTCCCCAATCAGTGTAGTGCCTTTAAACATAACGTGCGTAAATATATTGTCCCCGATCACACTTTTTAGTGAAAAATAAAAAACCATATTAAAAGACTTTCTCTTCCAGAACTTCTCTAACCTGTGTTATTATTAACACAGATAAATGTAAGCAAGGAAACTATTACAAAGTAAATATTGCGTCACTAAATGGACATTGGAGTGATATATGATTTTATTCGCCGACTATAACACCCCTTATCTTTTCGCTATTTCCTTTGTACTGTTGATCGGCCTGTTAGAAATTTTTGCGCTTATCTGCGGTCACATGCTCTCCGGTGCTCTTGATGCACATCTTGACCATTATGATTCTATAACCACAGGTCATATTAGCCAGGCACTTCATTATCTCAATATTGGAAGATTGCCA  >  NC_000913/3191883‑3192408

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑