Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	2,009,052	A→G	D231G (GAC→GGC)	fliG →	flagellar motor switch protein FliG

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	2,009,052	0	A	G	100.0%	112.8 / NA	31	D231G (GAC→GGC)	fliG	flagellar motor switch protein FliG
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (16/15);  total (16/15)

AATGGGCGGCGTGAGAACGGCAGCCGAAATTATCAACCTGATGAAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGACGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGCCGAGCAGCCACTGCGCGAGAAATTCTTGC  >  NZ_CP009273/2008936‑2009186                                                                                                                     |                                                                                                                                       aaTGGGCGGCGTGAGAACGGCAGCCGAAATTATCAACCTGATGAAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAAt                                                                                                                  <  1:95404/139‑1 (MQ=255)            tGAGAACGGCAGCCGAAATTATCAACCTGATGAAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGt                                                                                                       >  2:77445/1‑139 (MQ=255)                      aGCCGAAATTATCAACCTGATGAAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATg                                                                                                        >  1:336664/1‑128 (MQ=255)                      aGCCGAAATTATCAACCTGATGAAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATg                                                                                                        <  2:336664/128‑1 (MQ=255)                                  cAACCTGATGAAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGt                                                                                 <  2:491421/139‑1 (MQ=255)                                   aaCCTGATGAAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGt                                                                                 >  2:740014/1‑138 (MQ=255)                                   aaCCTGATGAAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGt                                                                                 <  1:740014/138‑1 (MQ=255)                                     ccTGATGAAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTg                                                                              <  1:461374/139‑1 (MQ=255)                                     ccTGATGAAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTg                                                                              >  1:571300/1‑139 (MQ=255)                                      cTGATGAAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGt                                                                             >  1:672993/1‑139 (MQ=255)                                                   agcagGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGa                                                                >  1:247162/1‑139 (MQ=255)                                                   agcagGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGa                                                                >  2:604250/1‑139 (MQ=255)                                                        gaagaaGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCg                                                           <  1:59751/139‑1 (MQ=255)                                                           gaagCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAAt                                                        <  2:331164/139‑1 (MQ=255)                                                                  ttattaCCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGa                                                                >  1:447686/1‑124 (MQ=255)                                                                  ttattaCCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGa                                                                <  2:447686/124‑1 (MQ=255)                                                                     ttaCCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGa                                               <  2:611218/138‑1 (MQ=255)                                                                           ccgTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCt                                        >  1:576865/1‑139 (MQ=255)                                                                             gtgcgtgAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTg                                       >  1:673055/1‑138 (MQ=255)                                                                             gtgcgtgAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTg                                       >  2:407786/1‑138 (MQ=255)                                                                              tgcgtgAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATcgcg                                          <  1:153744/134‑1 (MQ=255)                                                                              tgcgtgAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATcgcg                                          >  2:153744/1‑134 (MQ=255)                                                                                cgtgAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATg                                                                                                        >  2:263883/1‑70 (MQ=255)                                                                                cgtgAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATg                                                                                                        <  1:263883/70‑1 (MQ=255)                                                                                    aaTTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGc                               <  2:672993/139‑1 (MQ=255)                                                                                         gACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGCCGag                           <  1:407786/138‑1 (MQ=255)                                                                                          aCGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGCCGag                           >  2:763308/1‑137 (MQ=255)                                                                                           cGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGCCGagcag                        >  2:100639/1‑139 (MQ=255)                                                                                                        cAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGCCGAGCAGCCACTGCGCgaga           <  2:576865/139‑1 (MQ=255)                                                                                                                 atcGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGCCGAGCAGCCACTGCGCGAGAAATTCTTgc  >  2:409393/1‑139 (MQ=255)                                                                                                                 atcGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGCCGAGCAGCCACTGCGCGAGAAATTCTTg   <  1:77445/138‑1 (MQ=255)                                                                                                                     |                                                                                                                                       AATGGGCGGCGTGAGAACGGCAGCCGAAATTATCAACCTGATGAAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGACGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGCCGAGCAGCCACTGCGCGAGAAATTCTTGC  >  NZ_CP009273/2008936‑2009186

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑