Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,006,068	A→G	N119S (AAC→AGC)	fliT →	flagellar biosynthesis protein FliT

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,006,068	0	A	G	100.0%	125.9 / NA	37	N119S (AAC→AGC)	fliT	flagellar biosynthesis protein FliT
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (18/19);  total (18/19)

CAAGGTAAAGCAGTTATTACAGATTCGGATGGATGAACTGGCGAAACTGGTCGGTCAGTCATCGGTGCAAAAATCGGTGTTAAGTGCCTATGGCGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAACCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACGGCTACGCTTCTAATGTTCCCCTTGAATGGAGTCGAAGAATGCGTAATCCCACGCTGTTACAATGTTTTCACTGGTATTACCC  >  NC_000913/2005940‑2006199                                                                                                                                 |                                                                                                                                    cAAGGTAAAGCAGTTATTACAGATTCGGATGGATGAACTGGCGAAACTGGTCGGTCAGTCATCGGTGCAAAAATCGGTGTTAAGTGCCTATGGCGATCAGGGCGGCTTTGTGCTGGCTGCGCAGGATAGTCTCTTTTGaa                                                                                                                          <  2:590020/140‑1 (MQ=255)    ggTAAAGCAGTTATTACAGATTCGGATGGATGAACTGGCGAAACTGGTCGGTCAGTCATCGGTGCAAAAATCGGTGTTAAGTGCCTATGGCGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCt                                                                                                                       >  1:495778/1‑140 (MQ=255)        aaGCAGTTATTACAGATTCGGATGGATGAACTGGCGAAACTGGTCGGTCAGTCATCGGTGCAAAAATCGGTGTTAAGTGCCTATGGCGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAAt                                                                                                                   >  2:167484/1‑140 (MQ=255)              ttattaCAGATTCGGATGGATGAACTGGCGAAACTGGTCGGTCAGTCATCGGTGCAAAAATCGGTGTTAAGTGCCTATGGCGATCAGGGCGGCTTTGTGCGGGCGCCGGAGGATAGCGTCTTTTGAATCTGAATGAGTCg                                                                                                             >  2:225332/1‑140 (MQ=255)                      gATTCGGATGGATGAACTGGCGAAACTGGTCGGTCAGTCATCGGTGCAAAAATCGGTGTTAAGTGCCTATGGCGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTTAATGAGTCGATGGCTcg                                                                                                     >  2:325630/1‑140 (MQ=255)                        ttCGGATGGATGAACTGGCGAAACTGGTCGGTCAGTCATCGGTGCAAAAATCGGTGTTAAGTGCCTATGGCGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTcgcg                                                                                                   >  1:64364/1‑140 (MQ=255)                            gatggatgAACTGGCGAAACTGGTCGGTCAGTCATCGGTGCAAAAATCGGTGTTAAGTGCCTATGGCGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGaata                                                                                               >  2:527195/1‑140 (MQ=255)                              tggatgAACTGGCGAAACTGGTCGGTCAGTCATCGGTGCAAAAATCGGTGTTAAGTGCCTATGGCGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGaataat                                                                                             <  1:325630/140‑1 (MQ=255)                                     aCTGGCGAAACTGGTCGGTCAGTCATCGGTGCAAAAATCGGTGTTAAGTGCCTATGGCGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTa                                                                                      >  2:157586/1‑140 (MQ=255)                                       tGGCGAAACTGGTCGGTCAGTCATCGGTGCAAAAATCGGTGTTAAGTGCCTATGGCGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACg                                                                                    <  2:655897/140‑1 (MQ=255)                                         gCGAAACTGGTCGGTTAGTCATCGGTGCAAAAATCGGTGTTAAGTGCCTATGGCGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACGGc                                                                                  <  1:324484/140‑1 (MQ=255)                                           gAAACTGGTCGGTCAGTCATCGTTGTAAAAATCGGTGTTAAGTGCCTATGGCGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACGGCTa                                                                                <  1:293394/140‑1 (MQ=255)                                           gAAACTGGTCGGTCAGTCATCGGTGCAAAAATCGGTGTTAAGTGCCTATGGCGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACGGCTa                                                                                <  1:527195/140‑1 (MQ=255)                                                   tcggtcAGTCATCGGTGCAAAAATCGGTGTTAAGTGCCTATGGCGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACGGCTACGCTTCTa                                                                        >  2:707032/1‑140 (MQ=255)                                                   tcggtcAGTCATCGGTGCAAAAATCGGTGTTAAGTGCCTATGGCGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACGGCTACGCTTCTa                                                                        >  2:15221/1‑140 (MQ=255)                                                    cggtcAGTCATCGGTGCAAAAATCGGTGTTAAGTGCCTATGGCGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACGGCTACGCTTCTaa                                                                       <  1:63706/140‑1 (MQ=255)                                                           tcaaatgTGCAAAAATCTGTGTTAAGTGCCTATGGGGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACGGCTACGCTTCTAATGTTccc                                                                <  2:324780/134‑1 (MQ=255)                                                                 gTGCAAAAATCGGTGTTAAGTGCCTCTGGGGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACGGCTACGCTTCTAATGTTCCCCTTGaa                                                          <  1:333920/140‑1 (MQ=255)                                                                 gTGCAAAAATCGGTGTTAAGTGCCTCTGGCGATCAGGCCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAACGAGTCGATGGCTCGCGAATAATCCGATTACGGCTACGCTTCTAATGTTCCCCTTGaa                                                          <  1:263665/140‑1 (MQ=255)                                                                      aaaaTCGGTGTTAAGTGCCTATGGCGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACGGCTACGCTTCTAATGTTCCCCTTGAATGGAg                                                     <  2:672396/140‑1 (MQ=255)                                                                      aaaaTCGGTGTTAAGTGCCTATGGCGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACGGCTACGCTTCTAATGTTCCCCTTGAATGGAg                                                     <  1:15221/140‑1 (MQ=255)                                                                            ggTGTTAAGTGCCTATGGCGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACGGCTACGCTTCTAATGTTCCCCTTGAATg                                                        <  1:753590/131‑1 (MQ=255)                                                                            ggTGTTAAGTGCCTATGGCGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACGGCTACGCTTCTAATGTTCCCCTTGAATg                                                        >  2:753590/1‑131 (MQ=255)                                                                                        cTATGGCGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACGGCTACGCTTCTAATGTTCCCCTTGAATGGAGTCGAAGAATGCGTAATcc                                   <  1:167484/140‑1 (MQ=255)                                                                                          aTGGCGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACGGCTACGCTTCTAATGTTCCCCTTGAATGGAGTCGAAGAATGCGTAATc                                    <  2:727150/137‑1 (MQ=255)                                                                                          aTGGCGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACGGCTACGCTTCTAATGTTCCCCTTGAATGGAGTCGAAGAATGCGTAATc                                    >  1:727150/1‑137 (MQ=255)                                                                                          aTGGCGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACGGCTACGCTTCTAATGTTCCCCTTGAATGGAGTCGAAGAATGCGTAATCCCa                                 <  2:422422/140‑1 (MQ=255)                                                                                            ggCGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACGGCTACGCTTCTAATGTTCCCCTTGAATGGAGTCGAAGAATGCGTAATCCCACg                               <  1:755673/140‑1 (MQ=255)                                                                                            ggCGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACGGCTACGCTTCTAATGTTCCCCTTGAATGGAGTCGAAGAATGCGTAATCCCACg                               >  1:675016/1‑140 (MQ=255)                                                                                                  cAGGGCGGCTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACGGCTACGCTTCTAATGTTCCCCTTGAATGGAGTCGAAGAATGCGTAATCCCACGCTGTTa                         >  1:661117/1‑140 (MQ=255)                                                                                                     ggcggcTTTGTGCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACGGCTACGCTTCTAATGTTCCCCTTGAATGGAGTTGAAAAATGCGTAAACCCACGCTGTTACaa                      >  1:282318/1‑140 (MQ=255)                                                                                                             tgtgCTGGCTCCGCAGGGTAGCTTCTTTTGACTCTCAATGAGTCGATGACTCGCGAATAATCCGATTACGGCTACGCTTCTAATGTTCCCCTTGAATGGAGTCGAAGAATGCGTAATCCCACGCTGTTACAATGTTTTCa              <  2:213694/140‑1 (MQ=255)                                                                                                             tgtgCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACGGCTACGCTTCTAATGTTCCCCTTGAATGGAGTCGAAGAATGCGTAATCCCACGCTGTTACAATGTTTTCa              <  1:157586/140‑1 (MQ=255)                                                                                                               tgCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACGGCTACGCTTCTAATGTTCCCCTTGAATGGAGTCGAAGAATGCGTAATCCCACGCTGTTACAATGTTTTCACt            >  2:800427/1‑140 (MQ=255)                                                                                                               tgCTGGCTCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACGGCTACGCTTCTAATGTTCCCCTTCAATGGAGTCGAAGAATCCGTAATCCCACGCTGTTACAATGTTTTCACt            >  2:355425/1‑140 (MQ=255)                                                                                                                      tCCGCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACGGCTACGCTTCTAATGTTCCCCTTGAATGGAGTCGAAGAATGCGTAATCCCACGCTGTTACAATGTTTTCACTGGTATTa     >  2:165910/1‑140 (MQ=255)                                                                                                                         gCAGGATAGCCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACGGCTACGCTTCTAATGTTCCCCTTGAATGGAGTCGAAGAATGCGTAATCCCACGCTGTTACAATGTTTTCACTGGTATTAccc  >  1:196978/1‑140 (MQ=255)                                                                                                                                 |                                                                                                                                    CAAGGTAAAGCAGTTATTACAGATTCGGATGGATGAACTGGCGAAACTGGTCGGTCAGTCATCGGTGCAAAAATCGGTGTTAAGTGCCTATGGCGATCAGGGCGGCTTTGTGCTGGCTCCGCAGGATAACCTCTTTTGAATCTGAATGAGTCGATGGCTCGCGAATAATCCGATTACGGCTACGCTTCTAATGTTCCCCTTGAATGGAGTCGAAGAATGCGTAATCCCACGCTGTTACAATGTTTTCACTGGTATTACCC  >  NC_000913/2005940‑2006199

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑