Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	USA300TCH1516_ALE	991,415	A→T	I79F (ATT→TTT)	oppF_1 →	Oligopeptide transport ATP‑binding protein OppF

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	991,415	0	A	T	100.0%	48.5 / NA	16	I79F (ATT→TTT)	oppF_1	Oligopeptide transport ATP‑binding protein OppF
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base T (9/7);  total (9/7)

GAAACATTAGGTTTAGTAGGAGAATCGGGGTGTGGTAAATCTACAACTGGTAAATCAATTATTAAACTTAATGATATTACAAGTGGAGAAATTTTGTATGAGGGTATTGATATACAAAAGATTCGTAAACGTAAAGATTTGCTTAAATTTAATAAAAAGATACAGATGATTTTTCAAGACCCATATGCGTCTTTAAATCCTAGGTTAAAAGTAATGGATATAGTAGCTGAAGGTATTGATATCCATCATTTAGCAACT  >  USA300TCH1516_ALE/991295‑991552                                                                                                                         |                                                                                                                                          gAAACATTAGGTTTAGTAGGAGAATCGGGGTGTGGTAAATCTACAACTGGTAAATCAATTATTAAACTTAATGATATTACAAGTGGAGAAATTTTGTATGAGGGTATTGATATACAAAAGTTTCGTAAACGTAAAGaagtg                                                                                                                       >  1:466112/1‑137 (MQ=255)  aaaCATTATGTTTAGTAGGAGAATCGGGGTGTGGTAAATCTACAACTGGTAAATCAATTATTAAACTTAATGATATTACAAGTGGAGAAATTTTGTATGAGGGTATTGATATACAAAAGTTTCGTAAACGTAAAGATTTGc                                                                                                                      <  1:334690/141‑1 (MQ=255)  aaaCATTAGGTTTAGTAGGAGAATCGGGGGGTGGTAAATCTACAACTGGTAAATCAATTATTAAACTTAATGATATTACAAGTGGAGAAATTTTGTATGAGGGTATTGATATACAAAAGTTTCGTAAACGTAAAGATTTGc                                                                                                                      <  1:106990/141‑1 (MQ=255)      aTTAGGTTTAGTAGGAGAATCGGGGTGTGGTAAATCTACAACTGGTAAATCAATTATTAAACTTAATGATATTACAAGTGGAGAAATTTTGAGGGAGGGTATTGATATACAAAAGTTTCGTAAACGTAAAGATTTGCTTaa                                                                                                                  >  1:66277/1‑141 (MQ=255)         aGGTTTAGTAGGAGAATCGGGGTGTGGTAAATCTACAACTGGTAAATCAATTATTAAACTTAATGATATTACAAGTGGAGAAATTTTGTATGAGGGTATTGATATACAAAAGTTTCGTAAACGTAAAGATTTGCTTAAAtt                                                                                                               <  1:61504/141‑1 (MQ=255)                         tCGGGGTGTGGTAAATCTACAACTGGTAAATCAAGTATTAAACTTAATGATATTACAAGTGGAGAAATTTTGTATGAGGGTATTGATATACAAAAGTTTCGTAAACGTAAAGATTTGCTTAAATTTAATAAAAAGATACAg                                                                                               <  1:282328/141‑1 (MQ=255)                                 gggTAAATCTACAACTGGTAAATCAATTATTAAACTTAATGATATTACAAGTGGAGAAATTTTGTATGAGGGTATTGATATACAAAAGTTTCGTAAACGTAAAGATTTGCTTAAATTTAACAAAAAGATACAGATGAtttt                                                                                       <  1:302702/140‑1 (MQ=255)                                                   tAAATCAATTATTAAACTTAATGATATTACAACTGGAGAAATTTTGTATGAGGGTATTGATATACAAAAGTTTCGTAAACGTAAAGATTTGCTTAAATTTAATAAAAAGATACAGATGATTTTTCAAGACCCATATGCGTc                                                                     <  1:335676/141‑1 (MQ=255)                                                     aaTCAATTATTAAACTTAATGATATTACAAGTGGAGAAATTTTGTATGAGGGTATTGATATACAAAAGTTTCGTAAACGTAAAGATTTGCTTAAATTTAATAAAAAGATACAGATGATTTTTCAAGACCCATATGCGTCtt                                                                   >  1:408950/1‑141 (MQ=255)                                                           ttattaAACTTAATGATATTACAAGTGGAGAAATTTTGTATGAGGGTATTGATATACAAAAGTTTCGTAAACGTAAAGATTTGCTTAAATTTAATAAAAAGATACAGATGATTTTTCAAGACCCATATGCGTCTTTAAATc                                                             >  1:375656/1‑141 (MQ=255)                                                             attaAACTTAATGATATTACAAGTGGAGAAATTTTGTATGAGGGTATTGATATACAAAAGTTTCGTAAACGTAAAGATTTGCTTAAATTTAATAAAAAGATACAGATGATTTTTCAAGACCCATATGCGTCTTTAAATCCt                                                           >  1:35006/1‑141 (MQ=255)                                                                aaaCTTAATGATATTACAAGTGGAGAAATTTTGTATGAGGGTATTGATATACAAAAGTTTCGTAAACGTAAAGATTTGCTTAAATTTAATAAAAAGATACAGATGATTTTTCAAGACCCATATGCGTCTTTAAATCCTAgg                                                        >  1:467669/1‑141 (MQ=255)                                                                         gATATTACAAGTGGAGAAATTTTGTATGAGGGTATTGATATACAAAAGTTTCGTAAACGTAAAGATTTGCTTAAATTTAATAAAAAGATACAGATGATTTTTCAAGACCCATATGCGTCTTTAAATCCTAGGTTAAAAGTa                                               >  1:65131/1‑141 (MQ=255)                                                                                      gagaAATTTTGTATGAGGGTATTGATATACAAAAGTTTCGTAAACGTAAAGATTTGCTTAAATTTAATAAAAAGATACAGATGATTTTTCAAGACCCATATGCGTCTTTAAATCCTAGGTTAAAAGTAATGGATAtagtag                                  <  1:143751/141‑1 (MQ=255)                                                                                            ttttGTATGAGGGTATTGATATACAAAAGTTTCGTAAACGTAACGATTTGCTTAAATTTAATAAAAAGATACAGATGATTTTTCAAGACCCATATGCGTCATTAAATCCTAGTTGAAAAGTAATGGATGTAGTAGTTAAAg                            >  1:255089/1‑141 (MQ=255)                                                                                                                      aaGTTTCGTAAACGTAAAGATTTGCTTAAATTTAATAAAAAGATACAGATGATTTTTCAAGACCCATATGCGTCTTTAAATCCTAGGTTAAAAGTAATGGATATAGTAGCTGAAGGTATTGATATCCATCATTTAGCAACt  >  1:352942/1‑141 (MQ=255)                                                                                                                         |                                                                                                                                          GAAACATTAGGTTTAGTAGGAGAATCGGGGTGTGGTAAATCTACAACTGGTAAATCAATTATTAAACTTAATGATATTACAAGTGGAGAAATTTTGTATGAGGGTATTGATATACAAAAGATTCGTAAACGTAAAGATTTGCTTAAATTTAATAAAAAGATACAGATGATTTTTCAAGACCCATATGCGTCTTTAAATCCTAGGTTAAAAGTAATGGATATAGTAGCTGAAGGTATTGATATCCATCATTTAGCAACT  >  USA300TCH1516_ALE/991295‑991552

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑