Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,014,078	G→A	D284N (GAT→AAT)	fliF →	flagellar basal‑body MS‑ring and collar protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,014,078	0	G	A	100.0%	105.6 / NA	28	D284N (GAT→AAT)	fliF	flagellar basal‑body MS‑ring and collar protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (14/14);  total (14/14)

TTCACGCCCAGGTTACGGCGCAGCTGGACTTCGCCAGTAAAGAACAAACGGAAGAACAGTATCGCCCTAACGGTGATGAATCTCATGCGGCGCTTCGTTCACGCCAGCTTAATGAGAGCGAGCAAAGCGGTTCCGGTTATCCGGGCGGCG  >  NC_000913/2014004‑2014153                                                                           |                                                                            ttCACGCCCAGGTTACGGCGCAGCTGGACTTCGCCAGTAAAGAACAAACGGAAGAACAGTATCGCCCTAACGGTAATGAAt                                                                       <  2:331747/81‑1 (MQ=255) ttCACGCCCAGGTTACGGCGCAGCTGGACTTCGCCAGTAAAGAACAAACGGAAGAACAGTATCGCCCTAACGGTAATGAAt                                                                       <  2:331746/81‑1 (MQ=255)    aCGCCCAGGTTACGGCGCAGCTGGACTTCGCCAGTAAAGAACAAACGGAAGAACAGTATCGCCCTAACGGTAATGAAtct                                                                     >  1:331826/1‑80 (MQ=255)       cccAGGTTACGGCGCAGCTGGACTTCGCCAGTAAAGAACAAACGGAAGAACAGTATCGCCCTAACGGTAATGAATCTCATg                                                                 >  1:331784/1‑81 (MQ=255)           ggTTACGGCGCAGCTGGACTTCGCCAGTAAAGAACAAACGGAAGAACAGTATCGCCCTAACGGTAATGAATCTCATgcggc                                                             <  1:331748/81‑1 (MQ=255)            gTTACGGCGCAGCTGGACTTCGCCAGTAAAGAACAAACGGAAGAACAGTATCGCCCTAACGGTAATGAATCTCATgcggcg                                                            <  1:331749/81‑1 (MQ=255)             ttACGGCGCAGCTGGACTTCGCCAGTAAAGAACAAACGGAAGAACAGTATCGCCCTAACGGTAATGAATCTCATGCGgcgc                                                           >  1:331779/1‑81 (MQ=255)                cGGCGCAGCTGGACTTCGCCAGTAAAGAACAAACGGAAGAACAGTATCGCCCTAACGGTAATGAATCTCATGCGGCGCtt                                                         <  2:331750/80‑1 (MQ=255)                   cgcAGCTGGACTTCGCCAGTAAAGAACAAACGGAAGAACAGTATCGCCCTAACGGTAATGAATCTCATGCGGCGCTTCGtt                                                     >  2:331786/1‑81 (MQ=255)                      aGCTGGACTTCGCCAGTAAAGAACAAACGGAAGAACAGTATCGCCCTAACGGTAATGAATCTCATGCGGCGCTTCGTTCAc                                                  <  1:331751/81‑1 (MQ=255)                        cTGGACTTCGCCAGTAAAGAACAAACGGAAGAACAGTATCGCCCTAACGGTAATGAATCTCATGCGGCGCTTCGTTCACGc                                                <  1:331752/81‑1 (MQ=255)                           gACTTCGCCAGTAAAGAACAAACGGAAGAACAGTATCGCCCTAACGGTAATGAATCTCATGCGGCGCTTCGTTCACGCCAg                                             <  2:331754/81‑1 (MQ=255)                           gACTTCGCCAGTAAAGAACAAACGGAAGAACAGTATCGCCCTAACGGTAATGAATCTCATGCGGCGCTTCGTTCACGCCAg                                             <  1:331753/81‑1 (MQ=255)                               tCGCCAGTAAAGAACAAACGGAAGAACAGTATCGCCCTAACGGTAATGAATCTCATGCGGCGCTTCGTTCACGCCAGCtt                                          >  1:331802/1‑80 (MQ=255)                                cGCCAGTAAAGAACAAACGGAAGAACAGTATCGCCCTAACGGTAATGAATCTCATGCGGCGCTTCGTTCACGCCAGCtt                                          <  2:331755/79‑1 (MQ=255)                                cGCCAGTAAAGAACAAACGGAAGAACAGTATCGCCCTAACGGTAATGAATCTCATGCGGCGCTTCGTTCACGCCAGCTTaa                                        >  1:331773/1‑81 (MQ=255)                                 gCCAGTAAAGAACAAACGGAAGAACAGTATCGCCCTAACGGTAATGAATCTCATGCGGCGCTTCGTTCACGCCAGCTTAAt                                       <  1:331756/81‑1 (MQ=255)                                    aGTAAAGAACAAACGGAAGAACAGTATCGCCCTAACGGTAATGAATCTCATGCGGCGCTTCGTTCACGCCAGCTTAAt                                       >  2:331772/1‑78 (MQ=255)                                     gTAAAGAACAAACGGAAGAACAGTATCGCCCTAACGGTAATGAATCTCATGCGGCGCTTCGTTCACGCCAGCTTAATgaga                                   <  2:331757/81‑1 (MQ=255)                                     gTAAAGAACAAACGGAAGAACAGTATCGCCCTAACGGTAATGAATCTCATGCGGCGCTTCGTTCACGCCAGCTTAATga                                     >  1:331785/1‑79 (MQ=255)                                     gTAAAGAACAAACGGAAGAACAGTATCGCCCTAACGGTAATGAATCTCATGCGGCGCTTCGTTCACGCCAGCTTAATga                                     >  2:331780/1‑79 (MQ=255)                                      tAAAGAACAAACGGAAGAACAGTATCGCCCTAACGGTAATGAATCTCATGCGGCGCTTCGTTCACGCCAGCTTAATGagag                                  >  1:331782/1‑81 (MQ=255)                                         aGAACAAACGGAAGAACAGTATCGCCCTAACGGTAATGAATCTCATGCGGCGCTTCGTTCACGCCAGCTTAATGAgagcga                               <  2:331758/81‑1 (MQ=255)                                          gAACAAACGGAAGAACAGTATCGCCCTAACGGTAATGAATCTCATGCGGCGCTTCGTTCACGCCAGCTTAATGAgagcgag                              >  2:331781/1‑81 (MQ=255)                                                  ggAAGAACAGTATCGCCCTAACGGTAATGAATCTCATGCGGCGCTTCGTTCACGCCAGCTTAATGAGAGCGAGCAAAGCgg                      >  1:331775/1‑81 (MQ=255)                                                    aagaaCAGTATCGCCCTAACGGTAATGAATCTCATGCGGCGCTTCGTTCACGCCAGCTTAATGAGAGCGAGCAAAGCGGtt                    <  1:331759/81‑1 (MQ=255)                                                                  ccTAACGGTAATGAATCTCATGCGGCGCTTCGTTCACGCCAGCTTAATGAGAGCGAGCAAAGCGGTTCCGGTTATCCGggc      >  2:331783/1‑81 (MQ=255)                                                                      aCGGTAATGAATCTCATGCGGCGCTTCGTTCACGCCAGCTTAATGAGAGCGAGCAAAGCGGTTCCGGTTATCCGGgcggcg  >  2:331798/1‑81 (MQ=255)                                                                           |                                                                            TTCACGCCCAGGTTACGGCGCAGCTGGACTTCGCCAGTAAAGAACAAACGGAAGAACAGTATCGCCCTAACGGTGATGAATCTCATGCGGCGCTTCGTTCACGCCAGCTTAATGAGAGCGAGCAAAGCGGTTCCGGTTATCCGGGCGGCG  >  NC_000913/2014004‑2014153

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑