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%	68.5 / NA	24	T15T (ACA→ACT)	femA_3	Aminoacyltransferase FemA
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base T (11/13);  total (11/13)

GTATTTGTAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGT‑AACGTTGACTTCGGATGAGTTCAATGCGTTTACAACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATT  >  USA300TCH1516_ALE/2532164‑2532409                                                                                                                                        |                                                                                                                gtATTTGTAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGATTAATTCAGAGAGGGATGGGATAAAATGAACTTTGT‑AACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAg                                                                                                           >  2:279136/1‑141 (MQ=255) gtAATTGTAATCAGTTTTAGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGT‑AACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAg                                                                                                           <  2:237347/141‑1 (MQ=255)        tAATCAGTTTTTGATCCTTTCCAAGAACATCAGTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGT‑AACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCAttttt                                                                                                    >  2:235244/1‑141 (MQ=255)                  ttaataaaataaaAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGT‑AACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTacac                                                                                          <  2:109121/138‑1 (MQ=255)                  ttGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGT‑ACCGTTGACTTCGGATGAGTTCACTGCGTTTACTACTAATCTATTTTCACGTTacac                                                                                          >  1:99832/1‑141 (MQ=255)                      taaaataaaaAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGT‑AACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACaa                                                                                      >  1:85112/1‑141 (MQ=255)                              aaaaaTAGCATTATTAATAAATTCAAAAATTATAGTTAAATTCAGAGAGGAATGGGATAAAATGAACTTTGT‑AACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTTACATTACACACAATTAGTTAt                                                                              >  2:92942/1‑141 (MQ=255)                                        ttattaATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGT‑AACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAAt                                                                    <  1:171145/141‑1 (MQ=255)                                        ttattaATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGT‑AACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAAt                                                                    <  1:250156/141‑1 (MQ=255)                                            taataaATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGT‑AACGTTGAGTTCGGATGAGTTCAATCAGTTTACTAACAAGCATTTTTCACGTGACACACAATCAGCTCTCCCTTACAAtaaaa                                                                >  2:236136/1‑137 (MQ=255)                                                aaaTTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGT‑AACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGt                                                            >  2:224830/1‑141 (MQ=255)                                                    tCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGT‑AACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATATAGTTGAt                                                        >  2:223073/1‑141 (MQ=255)                                                      aaaaaTAATGGATGAATGCGGAGGGGGGTGGGAGAAAATGATCTTTGT‑AACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGAttt                                                      <  2:99832/141‑1 (MQ=255)                                                       aaaaTTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGT‑AACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTa                                                     <  2:78073/141‑1 (MQ=255)                                                       aaaaTTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGT‑AACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTa                                                     <  1:124854/141‑1 (MQ=255)                                                         aaTTATATTTCAATGCAGAGAGGGATGGGATAAAATGAGCGTTGT‑AACGTTGACTTCGGATGAGTTCAATGCGTTTACTACCAAGCAGTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTaaa                                                   <  2:117270/141‑1 (MQ=255)                                                             ataGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGT‑AACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGc                                               <  2:56383/141‑1 (MQ=255)                                                             ataGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGT‑AACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGc                                               <  1:107362/141‑1 (MQ=255)                                                                      ttgagagagGGATGGGATAAAATGAACTTTGT‑AACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCATCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCAt                                      <  2:111259/138‑1 (MQ=255)                                                                       tCAGAAAGGGATGGGATAAAATGAACTTTGT‑AACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATc                                     <  1:92028/141‑1 (MQ=255)                                                                        aagagagGGATGGGATAAAATGATCTTTGT‑AACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCt                                    <  2:127815/140‑1 (MQ=255)                                                                                  tgggatAAAATGAACTTTGTGATTGTTG‑CATCGGATGAGGTCAATGCGTTTACTACAAAGAATCAATCACAGGACACACATTCATCTATTCAGTATAAGCATATGTTGGATGTAAAAGGCGATGTTCATCTTGtcaggctt                          >  2:5466/1‑134 (MQ=255)                                                                                                          gTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACAGTACACACAGTCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGAt   >  2:35397/1‑141 (MQ=255)                                                                                                           ttGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAGAGGCGATGTGCATCTTGTAGTGGTTAAAGATGACAATGGTCAAGTGAtt  >  2:16621/1‑141 (MQ=255)                                                                                                                                        |                                                                                                                GTATTTGTAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGT‑AACGTTGACTTCGGATGAGTTCAATGCGTTTACAACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATT  >  USA300TCH1516_ALE/2532164‑2532409

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: ‑