Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	2,014,277	A→G	E237G (GAA→GGA)	fliM →	flagellar motor switch protein FliM

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	2,014,277	0	A	G	100.0%	67.1 / NA	20	E237G (GAA→GGA)	fliM	flagellar motor switch protein FliM
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (12/8);  total (12/8)

AACACGCCGTTCCATGTGGAGATTGGCAACCTGACCGGCGAATTTAATATCTGCCTGCCATTCAGCATGATCGAGCCGCTACGGGAATTGTTGGTTAACCCGCCGCTGGAAAACTCGCGTAATGAAGATCAGAACTGGCGCGATAACCTGGTGCGCCAGGTGCAGCATTCACAGCTGGAGCTGGTCGCCAACTTTGCCGATATCTCGCTACGCCTGTCGCAGATTTTAAAACTGAACC  >  NZ_CP009273/2014168‑2014405                                                                                                              |                                                                                                                                 aaCCCGCCTTCCCATGGGGAGATTGGCAACCTGACCGGCGAATTTAATTTCTGCCTCCCATTCAGCATGATCGAGCCGCTACGGGAATTGTTGGTTAACCCGCCGCTGGGAAACTCGCGTAATGAAGATCAGAACTgg                                                                                                      <  1:150337/138‑1 (MQ=255) aaCACGCCGTTCTATGTGGAGTTTGGCAACCTGCCCGGGGAATTTAATATCTTCTTTCCATTCACCTTGATCGGGCCGTTACGGGAATTGTTGGTTAACCCGCCGCTGGGAAACTCGCGTAATGAAGATCAGAACTgg                                                                                                      <  1:349566/138‑1 (MQ=255) aaCACGCCGTTCCATGTGGAGATTGGCAACCTGACCGGCGAATTTAATATCTGCCTGCCATTCAGCATGATCGAGCCGCTACGGGAATTGTTGGTTAACCCGCCGCTGGGAAACTCGCGTAATGAAGATCAGAACTGgc                                                                                                     >  2:232412/1‑139 (MQ=255)  acacGCCGTTCCATGTGGGGATGGGCACCCTGACCGGCGAATTAAATATCTGCCTGCCATTCAGCATGATCGGGCCGCTACGGGAATTGTTGGTTAACCCGCCGCTGGGAAACTCGCGTAATGAAGATCAGAACTGgcg                                                                                                    <  1:109230/139‑1 (MQ=255)      gCCGTTCCATGTGGAGATTGGCAACCTGACCGGCGAATTTAATATCTGCCTGCCATTCAGCATGATCGAGCCGCTACGGGAATTGTTGGTTAACCCGCCGCTGGGAAACTCGCGTAATGAAGATCAGAACTGGCGCGa                                                                                                 >  2:426810/1‑138 (MQ=255)      gCCGTTCCATGTGGAGATTGGCAACCTGACCGGCGAATTTAATATCTGCCTGCCATTCAGCATGATCGAGCCGCTACGGGAATTGTTGGTTAACCCGCCGCTGGGAAACTCGCGTAATGAAGATCAGAACTGGCGCGa                                                                                                 >  1:41795/1‑138 (MQ=255)      gCCGTTCCATGTGGAGATTGGCAACCTGACCGGCGAATTTAATATCTGCCTGCCATTCAGCATGATCGAGCCGCTACGGGAATTGTTGGTTAACCCGCCGCTGGGAAACTCGCGTAATGAAGATCAGAACTGGCGCGa                                                                                                 >  1:168593/1‑138 (MQ=255)                  ggAGATTGGCAACCTGACCGGCGAATTTAATATCTGCCTGCCATTCAGCATGATCGAGCCGCTACGGGAATTGTTGGTTAACCCGCCGCTGGGAAACTCGCGTAATGAAGATCAGAACTGGCGCGATAACCTGGTgcgc                                                                                    >  1:287449/1‑139 (MQ=255)                                                                         gAGCCGCTACGGGAATTGTTGGTTAACCCGCCGCTGGGAAACTCGCGTAATGAAGATCAGAACTGGCGCGATAACCTGGTGCGCCAGGTGCAGCATTCACAGCTGGAGCTGGTCGCCAACTTTGCCGATATCTCGCTAc                             <  2:41795/139‑1 (MQ=255)                                                                          aGCCGCTACGGGAATTGTTGGTTAACCCGCCGCTGGGAAACTCGCGTAATg                                                                                                                    >  1:402220/1‑51 (MQ=255)                                                                          aGCCGCTACGGGAATTGTTGGTTAACCCGCCGCTGGGAAACTCGCGTAATg                                                                                                                    <  2:402220/51‑1 (MQ=255)                                                                          aGCCGCTACGGGAATTGTTGGTTAACCCGCCGCTGGGAAACTCGCGTAATGAAGATCAGAACTGGCGCGATAACCTGGTGCGCCAGGTGCAGCATTCACAGCTGGAGCTGGTCGCCAACTTTGCCGATATCTCGCt                               >  1:204166/1‑136 (MQ=255)                                                                          aGCCGCTACGGGAATTGTTGGTTAACCCGCCGCTGGGAAACTCGCGTAATGAAGATCAGAACTGGCGCGATAACCTGGTGCGCCAGGTGCAGCATTCACAGCTGGAGCTGGTCGCCAACTTTGCCGATATCTCGCt                               <  2:204166/136‑1 (MQ=255)                                                                          aGCCGCTACGGGAATTGTTGGTTAACCCGCCGCTGGGAAACTCGCGTAATGAAGATCAGAACTGGCGCGATAACCTGGTGCGCCAGGTGCAGCATTCACAGCTGGAGCTGGTCGCCAACTTTGCCGATATCTCGCTACg                            >  1:102433/1‑139 (MQ=255)                                                                            ccGCTACGGGAATTGTTGGTTAACCCGCCGCTGGGAAACTCGCGTAATGAAGATCAGAACTGGCGCGATAACCTGGTGCGCCAGGTGCAGCATTCACAGCTGGAGCTGGTCGCCAACTTTGCCGATATCTCGCTACGcc                          >  1:68139/1‑139 (MQ=255)                                                                            ccGCTACGGGAATTGTTGGTTAACCCGCCGCTGGGAAACTCGCGTAATGAAGATCAGAACTGGCGCGATAACCTGGTGCGCCAGGTGCAGCATTCACAGCTGGAGCTGGTCGCCAACTTTGCCGATATCTCGCTACGcc                          >  2:176639/1‑139 (MQ=255)                                                                                 aCGGGAATTGTTGGTTAACCCGCCGCTGGGAAACTCGCGTAATGAAGATCAGAACTGGCGCGATAACCTGGTGCGCCAGGTGCAGCATTCACAGCTGGAGCTGGTCGCCAACTTTGCCGATATCTCGCTACGCCTGTCg                     >  2:198014/1‑139 (MQ=255)                                                                                   gggAATTGTTGGTTAACCCGCCGCTGGGAAACTCGCGTAATGAAGATCAGAACTGGCGCGATAACCTGGTGCGCCAGGTGCAGCATTCACAGCTGGAGCTGGTCGCCAACTTTGCCGATATCTCGCTACGCCTGTCGCa                   <  2:168593/139‑1 (MQ=255)                                                                                                  aCCCGCCGCTGGGAAACTCGCGTAATGAAGATCAGAACTGGCGCGATAACCTGGTGCGCCAGGTGCAGCATTCACAGCTGGAGCTGGTCGCCAACTTTGCCGATATCTCGCTACGCCTGTCGCAGATTTTAAAACTGaa    >  2:22276/1‑139 (MQ=255)                                                                                                    ccgccgCTGGGAAACTCGCGTAATGAAGATCAGAACTGGCGCGATAACCTGGTGCGCCAGGTGCAGCATTCACAGCTGGAGCTGGTCGCCAACTTTGCCGATATCTCGCTACGCCTGTCGCAGATTTTAAAACTGAAcc  <  1:198014/139‑1 (MQ=255)                                                                                                              |                                                                                                                                 AACACGCCGTTCCATGTGGAGATTGGCAACCTGACCGGCGAATTTAATATCTGCCTGCCATTCAGCATGATCGAGCCGCTACGGGAATTGTTGGTTAACCCGCCGCTGGAAAACTCGCGTAATGAAGATCAGAACTGGCGCGATAACCTGGTGCGCCAGGTGCAGCATTCACAGCTGGAGCTGGTCGCCAACTTTGCCGATATCTCGCTACGCCTGTCGCAGATTTTAAAACTGAACC  >  NZ_CP009273/2014168‑2014405

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑