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%	107.0 / NA	31	D231G (GAC→GGC)	fliG	flagellar motor switch protein FliG
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (15/16);  total (15/16)

CAAGCGCAGCAAAATGGGCGGCGTGAGAACGGCAGCCGAAATTATCAACCTGATGAAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGACGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGCCGAGCAGCCACTGCGCGAGAAATTCTTGCG  >  NZ_CP009273/2008924‑2009187                                                                                                                                 |                                                                                                                                        cAAGCGCAGCAAAATGGGCGGCGTGAGAACGGCAGCCGAAATTATCAACCTGATAAAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTc                                                                                                                               >  1:499266/1‑139 (MQ=255)  aaGCGCAGCAAAATGGGCGGCGTGAGAACGGCAGCCGAAATTATCAACCTGATGAAGACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTcc                                                                                                                              >  1:183124/1‑139 (MQ=255)      gcagcaAAATGGGCGGCGTGAGAACGGCAGCCGAAATTATCAACCTGATGAAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGtt                                                                                                                          >  2:441267/1‑139 (MQ=255)      gcagcaAAATGGGCGGCGTGAGAACGGCAGCCGAAATTATCAACCTGATGAAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGtt                                                                                                                          >  2:191125/1‑139 (MQ=255)        agcaAAATGGGCGGCGTGAGAACGGCAGCCGAAATTATCAACCTGATAAAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCg                                                                                                                        <  2:499266/139‑1 (MQ=255)               tGGGCGGCGTGAGAACGGCAGCCGAAATTATCAACCTGATGAAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCt                                                                                                                 >  1:78017/1‑139 (MQ=255)                    ggcgTGAGAACGGCAGCCGAAATTATCAACCTGATGAAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCtggtgg                                                                                                            <  2:303318/139‑1 (MQ=255)                           gaACGGCAGCCGAAATTATCAACCTGATGAAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTcga                                                                                                     <  2:143761/139‑1 (MQ=255)                              cGGCAGCCGAAATTATCAACCTGATGAAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTcgacga                                                                                                  <  2:78017/139‑1 (MQ=255)                              cGGCAGCCGAAATTATCAACCTGATGAAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTcgacga                                                                                                  <  1:212089/139‑1 (MQ=255)                                   gCCGAAATTATCAACCTGATGAAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCgca                                                                                             <  1:26853/139‑1 (MQ=255)                                   gCCGAAATTATCAACCTGATGAAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCgca                                                                                             <  2:94224/139‑1 (MQ=255)                                                    gatgaAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTcgacga                                                                                                  >  1:498617/1‑117 (MQ=255)                                                    gatgaAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTcgacga                                                                                                  <  2:498617/117‑1 (MQ=255)                                                     atgaAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCgca                                                                                             >  1:364411/1‑121 (MQ=255)                                                     atgaAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCgca                                                                                             <  2:364411/121‑1 (MQ=255)                                                               agcagGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGa                                                                 >  1:602778/1‑139 (MQ=255)                                                               agcagGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGa                                                                 >  2:268028/1‑139 (MQ=255)                                                                gcagGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGAt                                                                >  1:374191/1‑139 (MQ=255)                                                                gcagGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGAt                                                                >  1:541028/1‑139 (MQ=255)                                                                      agaagCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGaa                                                          <  1:260286/139‑1 (MQ=255)                                                                       gaagCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAAt                                                         <  2:602778/139‑1 (MQ=255)                                                                       gaagCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAAt                                                         >  1:57011/1‑139 (MQ=255)                                                                                   aCCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATc                                              <  1:27458/138‑1 (MQ=255)                                                                                      gccgTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCgcgc                                          >  2:420520/1‑139 (MQ=255)                                                                                            cgtgAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAg                                    >  2:138378/1‑139 (MQ=255)                                                                                            cgtgAATTCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAg                                    >  1:582607/1‑139 (MQ=255)                                                                                                  ttCGACGGCGAGCTGGCGCAGAAAATCATCGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGCCg                              <  1:420520/139‑1 (MQ=255)                                                                                                                             atcGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGCCGAGCAGCCACTGCGCGAGAAATTCTTg    <  2:28204/138‑1 (MQ=255)                                                                                                                              tcGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGCCGAGCAGCCACTGCGCGAGAAATTCTTgcg  <  2:462275/139‑1 (MQ=255)                                                                                                                              tcGGCGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGCCGAGCAGCCACTGCGCGAGAAATTCTTgcg  <  1:138378/139‑1 (MQ=255)                                                                                                                                 |                                                                                                                                        CAAGCGCAGCAAAATGGGCGGCGTGAGAACGGCAGCCGAAATTATCAACCTGATGAAAACTCAGCAGGAAGAAGCCGTTATTACCGCCGTGCGTGAATTCGACGGCGAGCTGGCGCAGAAAATCATCGACGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGCCGAGCAGCCACTGCGCGAGAAATTCTTGCG  >  NZ_CP009273/2008924‑2009187

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑