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%	67.4 / NA	26	T15T (ACA→ACT)	femA_3	Aminoacyltransferase FemA
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base T (9/17);  total (9/17)

GTATTTGTAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACAACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGATGCTTAT  >  USA300TCH1516_ALE/2532164‑2532422                                                                                                                                       |                                                                                                                             gtATTTGTAATCAGTTTTTGATAAAATAAAAAAATAGCCTTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGCACTTTGTAACTTTAACTTCGGATGAGTTCAATGCGTTTACTACAAAg                                                                                                                        <  1:150484/141‑1 (MQ=255)    tttGTAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGAATGGGATAAAATGAAATTTGTAACGTTGACTTCGGCTGAGTTCAATGCGTTTACTACAAAGCAt                                                                                                                     >  2:144931/1‑141 (MQ=255)        tAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGATGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAATTCAATGCGTTTACTACAACGCAttttt                                                                                                                 >  2:309946/1‑141 (MQ=255)        tAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCAttttt                                                                                                                 <  1:220061/141‑1 (MQ=255)                       aaaataaaaAAATAGCATTATTAATAAATTCAAAAATTATAGTACAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCATTTACTACAAAGCATTTTTCACATTACACACaaa                                                                                                  >  2:204054/1‑140 (MQ=255)                       aaaataaaaAAATAGCATTATTAATAAATTCAAAAATTATAGATAAATTCAGAGAGGTATGGGATAAAATGAACTTTGAAACGTTGACTACGTAGGAGTTCAAAGAGTATACTACAAAGCAATTTTGAAATTACACACaaa                                                                                                  >  2:219849/1‑140 (MQ=255)                                   tAGCAGTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCAtt                                                                                      <  2:164404/141‑1 (MQ=255)                                               taaATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATagag                                                                          <  1:286662/141‑1 (MQ=255)                                                   ttCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGa                                                                      <  1:165342/141‑1 (MQ=255)                                                           atataGTTCAATTCATAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAg                                                              <  2:127733/140‑1 (MQ=255)                                                              taGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTAAGAATAAGTTCAATAAGATAAATAAAAAAAATTTTTCACATTACACACAATCAGCTTTATGAAAGGTTTATAGAGTTGATTTAAAAGGCg                                                           <  2:173355/141‑1 (MQ=255)                                                                   cAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGAtgtg                                                      <  2:323528/141‑1 (MQ=255)                                                                       gcAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATc                                                  <  2:215836/140‑1 (MQ=255)                                                                                   gggatAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACACAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTCGGGGTTa                                      >  2:308277/1‑141 (MQ=255)                                                                                     gatAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATAACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATTTGCATCTTGTAGGGGTTaaa                                    <  2:280902/141‑1 (MQ=255)                                                                                     gaaaaaaTGAAATTTGTAACGATTACTTCGAATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTaaa                                    <  2:252844/138‑1 (MQ=255)                                                                                       aaaaaTGAACTTAGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGa                                  <  2:320095/140‑1 (MQ=255)                                                                                             gAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACGCACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACaa                            <  2:77976/141‑1 (MQ=255)                                                                                                cTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATgg                         >  1:142266/1‑141 (MQ=255)                                                                                                  ttGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTAATTACAATCATAGAGTTGTTTTCACAGGCGATGTGAATCTTGTCGGTAGTAAAGATGACGATGGTc                       >  2:8740/1‑141 (MQ=255)                                                                                                     tAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCAACTTGTAGGGGTTAAAGATGACAATGGTCAAg                    <  2:108466/141‑1 (MQ=255)                                                                                                          ttgcagtCGGACGAGTTGAATGCGTTTACTACAAGCCATATTTCACATTACACACAATCAGCCATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGAtt               <  1:209207/135‑1 (MQ=255)                                                                                                             aCTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCa            <  2:341464/141‑1 (MQ=255)                                                                                                               ttCGGATGAGTTCAATGCGTTTACTACAAATCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAgg          >  1:346460/1‑141 (MQ=255)                                                                                                                       aGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGATGCTTAt  >  1:293333/1‑141 (MQ=255)                                                                                                                       aGTTAAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGATGCTTAt  <  1:309946/141‑1 (MQ=255)                                                                                                                                       |                                                                                                                             GTATTTGTAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACAACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGATGCTTAT  >  USA300TCH1516_ALE/2532164‑2532422

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: ‑