Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	USA300TCH1516_ALE	2,532,298	A→T	T15T (ACA→ACT)	femA_3 →	Aminoacyltransferase FemA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	2,532,298	0	A	T	100.0%	70.2 / NA	24	T15T (ACA→ACT)	femA_3	Aminoacyltransferase FemA
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base T (4/20);  total (4/20)

TGTATTTGTAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACAACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGATGCTTATTGACAG  >  USA300TCH1516_ALE/2532163‑2532428                                                                                                                                        |                                                                                                                                   tgtATTTGTAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACaaa                                                                                                                               <  1:171649/141‑1 (MQ=255)       tGTAATAATTTTTTGATAAAATAAAAAAATAGCAGTATGAATAAATTCAAAAATTAGAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCAttt                                                                                                                         <  2:192145/141‑1 (MQ=255)         tAATCAGTTTAAGATAAAAAAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCAttttt                                                                                                                       <  2:38627/141‑1 (MQ=255)                   ttGATAAAATAAAAAAATAGACTTATTCAGGAATTTATAACATATCGGCATATGCTCAGAGGGATGGGGTAACATGACCTTTTTATCGTTTACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTacac                                                                                                             <  1:212217/141‑1 (MQ=255)                     gATAAAATAAAAAAATAGCCTTCATACTAAATTAAAAAATTATAGTTAAATTCAGAGAGGGATGGGATAAAATGAACGTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATGTTTCACATTacacac                                                                                                           <  2:85759/141‑1 (MQ=255)                     gATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAATGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTacacac                                                                                                           <  2:187247/141‑1 (MQ=255)                     aaaaaaataaaaAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTacacac                                                                                                           <  2:22093/138‑1 (MQ=255)                        aaaataaaaAAATAGCATTATTAATAAATTCAAAAATTATAGTTTAATTCAGAGAGAGATGGGATAAAATGAACTTTGTAACGTTGACTTCGTATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAAt                                                                                                        <  2:47584/141‑1 (MQ=255)                        aaaagaaaaAAATGGGTGTATTGATAAATTCAAAAATTATAGTTCAATTCAGAGAGGTATGGGATAAAATGAACTTTGTACCGTTGACTTCGCACGAGCTCAATTCGTTTACTACAAAGCATTTTTCACATGACACACAAt                                                                                                        <  2:137074/141‑1 (MQ=255)                           ataaaaAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAg                                                                                                     <  1:29684/141‑1 (MQ=255)                           ataaaaAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAg                                                                                                     <  2:160142/141‑1 (MQ=255)                            taaaaAAAGAGCAGTATTAATAAATTAAAAAATTATAATTCAATGCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGc                                                                                                    <  2:100772/141‑1 (MQ=255)                                   aTAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCAt                                                                                             >  1:137677/1‑141 (MQ=255)                                                    ttCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCCTTTCAAGCATAGAGTTGa                                                                            >  1:79940/1‑141 (MQ=255)                                                       aaaaaTTATAGTTAAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGAttt                                                                         <  2:94019/141‑1 (MQ=255)                                                           actataGATAAATTCACAGACGGATCGCATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTaaaa                                                                     <  1:122209/139‑1 (MQ=255)                                                               taGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCg                                                                 <  1:90648/141‑1 (MQ=255)                                                                       ttCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCAt                                                         <  2:206537/141‑1 (MQ=255)                                                                                   tgggatAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGtt                                             >  1:173330/1‑141 (MQ=255)                                                                                                     gTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCaa                           <  2:203179/141‑1 (MQ=255)                                                                                                                ttCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTCAAGATGACAATGGTCAAGGGATTGTAgg                >  1:48503/1‑141 (MQ=255)                                                                                                                   ggATGAGTTCAATGCCTTTACTACAATGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGATg             <  1:78180/141‑1 (MQ=255)                                                                                                                    gATGAGTTCGATGCGTTTACTAAAAAGCATTTTTCACATTACACACAATCCGATTTTGCTGACAAAAACCCCGTTGAGTCATAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGATGc            <  2:153218/141‑1 (MQ=255)                                                                                                                              aTGCGTTTACTACAAAGCAGTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGATGCTTATTGACAg  <  2:69805/141‑1 (MQ=255)                                                                                                                                        |                                                                                                                                   TGTATTTGTAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACAACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGATGCTTATTGACAG  >  USA300TCH1516_ALE/2532163‑2532428

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑