Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP000730	654,252	C→T	S362L (TCG→TTG)	USA300HOU_0591 →	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	654,252	0	C	T	100.0%	214.3 / NA	58	S362L (TCG→TTG)	USA300HOU_0591	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (19/39);  total (19/39)

ACATCAGGTAATGTGTTTATAGAAAATGGTAGTAAATTTGCAAAAGGCGGAAAATACCTAGGTAAAGGTGTTGCTGGTGTAGGATTTGGTATAGGTATGTATGATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTCGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGATTTTAGCAGGTTTGGCTATGAGTACAGTATTTGCATTAGG  >  CP000730/654107‑654390                                                                                                                                                  |                                                                                                                                           aCATCAGGTAATGTGTTTATAGAAAATGGTAGTAAATTTGCAAAAGGCGGAAAATACCTAGGTAAAGGTGTTGCTGGTGTAGGATTTGGTATAGGTATGTATGATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGc                                                                                                                                          <  1:283000/148‑1 (MQ=255)     cAGGTAATGTGTTTATAGAAAATGGTAGTAAATTTGCAAAAGGCGGAAAATACCTAGGTAAAGGTGTTGCTGGTGTAGGATTTGGTATAGGTATGTATGATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATaa                                                                                                                                      <  1:341629/148‑1 (MQ=255)               gtTTATAGAAGATGGTAGTAAATTTTCAGAAGGCGGGAATTACCTATGTAAAGGTGTTGCGGGTGTAGGATTTGGTATAGGAATGTATGATGACCTTGCAAATGATGATAAAACATTTGAAGAGGCGTGGTTGCATAATGGGAGGACg                                                                                                                            >  2:381608/1‑148 (MQ=255)                 ttATAGAAAATGGTAGTAAATTTGCAAAAGGCGGAAAATACCTAGGTAAAGGTGTTGCTGGTGTAGGATTTGGTATAGGTATGTATGATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCt                                                                                                                          >  2:92435/1‑148 (MQ=255)                      gAAAATGGTAGTAAATTTGCAAAAGGCGGAAAATACCTAGGTAAAGGTGTTGCTGGTGTAGGATTTGGTATAGGTATGTATGATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAg                                                                                                                     <  1:239875/148‑1 (MQ=255)                             gtagtaAATTTGCAAAAGGCGGAAAATACCTAGGTAAAGGTGTTGCTGGTGTAGGAATGAGAATAGGTATGTATTATGGCCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATc                                                                                                              <  1:121545/148‑1 (MQ=255)                                gtaAATTTGCAAAAGGCGGAAAATACCTAGGTAAAGGTGTTGCTGGTGTAGGATTTGGTATAGGTATGTATGATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGc                                                                                                           >  2:60974/1‑148 (MQ=255)                                 taAATTTGCAAAAGGCGGAAAATACCTAGGTAAAGGTGTTGCTGGTGTAGGATTTGGTATAGGTATGTATGATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCa                                                                                                          <  2:139899/148‑1 (MQ=255)                                      ttGCAAAAGGCGGAAAATACCTAGGTAAAGGTGTTGCTGGTGTAGGATTTGGTATAGGTATGTATGATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGAc                                                                                                     <  2:115001/148‑1 (MQ=255)                                             aGGCGGAAAATACCTAGGTAAAGGTGTTGCTGGTGTAGGATTTGGTATAGGTATGTATGATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGtt                                                                                              >  2:294289/1‑148 (MQ=255)                                                 ggAAAATACCTAGGTAAAGGTGTTGCTGGTGTAGGATTTGGTATAGGTATGTATGATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAg                                                                                          <  2:242266/148‑1 (MQ=255)                                                 ggAAAATACCTAGGTAAAGGTGTTGCTGGTGTAGGATTTGGTATAGGTATGTATGATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAg                                                                                          <  2:60664/148‑1 (MQ=255)                                                     aaTACCTAGGTAAAGGTGTTGCTGGTGTAGGATTTGGTATAGGTATGTATGATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTgg                                                                                      >  1:84253/1‑148 (MQ=255)                                                         ccTAGGTAAAGGTGTTGCTGGTGTAGGATTTGGTATAGGTATGTATGATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTa                                                                                  <  1:68496/148‑1 (MQ=255)                                                         ccTAGGTAAAGGTGTTGCTGGTGTAGGATTTGGTATAGGTATGTATGATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTa                                                                                  <  1:246270/148‑1 (MQ=255)                                                            aGGTAAAGGTGTTGCTGGTGTAGGATTTGGTATAGGTATGTATGATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCg                                                                               >  2:359121/1‑148 (MQ=255)                                                                  aGGTGTTGCTGGTGTAGGATTTGGTATAGGTATGTATGATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACtttt                                                                         >  2:276156/1‑148 (MQ=255)                                                                   ggTGTTGCTGGTGTAGGATTTGGTATAGGTATGTATGATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTg                                                                        <  1:153149/148‑1 (MQ=255)                                                                     tgtTGCTGGTGTAGGATTTGGTATAGGTATGTATGATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGtt                                                                      <  1:159585/148‑1 (MQ=255)                                                                      gtTGCTGGTGTAGGATTTGGTATAGGTATGTATGATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGttt                                                                     <  1:60974/148‑1 (MQ=255)                                                                      gtTGCTGGTGTAGGATTTGGTATAGGTATGTATGATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGttt                                                                     >  1:211406/1‑148 (MQ=255)                                                                      gtTGCTGGTGTAGGATTTGGTATAGGTATGTATGATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGttt                                                                     >  1:292707/1‑148 (MQ=255)                                                                      gtTGCTGGTGTAGGATTTGGTATAGGTATGTATGATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGttt                                                                     >  1:8292/1‑148 (MQ=255)                                                                      gtTGCTGGTGTAGGATTTGGTATAGGTATGTATGATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGCTATGAAGCTTGAAGCTGGCTATGAAGGGGCAGCAGTTGGAGCTGGATTCGCGACTTTTGttt                                                                     >  1:322844/1‑148 (MQ=255)                                                                                 aGGATTTGGTATAGGTATGTATGATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAAt                                                          <  2:81579/148‑1 (MQ=255)                                                                                 aGGATTTGGTATAGGTATGTATGATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAAt                                                          <  2:151602/148‑1 (MQ=255)                                                                                             aGGTATGTATGATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATgg                                              <  1:20614/148‑1 (MQ=255)                                                                                                tatgtatgATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTg                                           >  1:119892/1‑148 (MQ=255)                                                                                                tatgtatgATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGAATTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTg                                           >  1:353998/1‑148 (MQ=255)                                                                                                  tgtatgATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGAt                                         <  1:48497/148‑1 (MQ=255)                                                                                                  tgtatgATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGAt                                         <  1:265475/148‑1 (MQ=255)                                                                                                  tgtatgATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGAt                                         <  1:303691/148‑1 (MQ=255)                                                                                                   gtatgATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGAtt                                        <  2:185174/148‑1 (MQ=255)                                                                                                   gtatgATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGAtt                                        <  2:222032/148‑1 (MQ=255)                                                                                                   ggattatgaCCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGAtt                                        <  2:190508/143‑1 (MQ=255)                                                                                                      tgatgaCCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGATTTTa                                     <  2:358671/148‑1 (MQ=255)                                                                                                      tgatgaCCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGATTTTa                                     <  1:215186/148‑1 (MQ=255)                                                                                                       gatgaCCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGATTTTAg                                    >  1:25366/1‑148 (MQ=255)                                                                                                       gatgaCCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGATTTTAg                                    <  1:276156/148‑1 (MQ=255)                                                                                                         tgaCCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGATTTTAGCa                                  >  2:241603/1‑148 (MQ=255)                                                                                                           aCCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGATTTTAGCAgg                                <  2:93458/148‑1 (MQ=255)                                                                                                           aCCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGATTTTAGCAgg                                >  2:267213/1‑148 (MQ=255)                                                                                                                  aaaTGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGATTTTAGCAGGTTTGGCt                         <  1:151730/148‑1 (MQ=255)                                                                                                                  aaaTGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGATTTTAGCAGGTTTGGCt                         <  1:262049/148‑1 (MQ=255)                                                                                                                  aaaTGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGATTTTAGCAGGTTTGGCt                         <  1:149239/148‑1 (MQ=255)                                                                                                                  aaaTGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGATTTTAGCAGGTTTGGCt                         <  1:151750/148‑1 (MQ=255)                                                                                                                  aaaTGATGATAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGATTTTAGCAGGTTTGGCt                         <  1:1333/148‑1 (MQ=255)                                                                                                                      gatgatAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGATTTTAGCAGGTTTGGCTATGa                     >  2:220213/1‑148 (MQ=255)                                                                                                                       atgatAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGATTTTAGCAGGTTTGGCTATGAg                    <  1:379728/148‑1 (MQ=255)                                                                                                                          atAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGATTTTAGCAGGTTTGGCTATGAGTAc                 <  1:120536/148‑1 (MQ=255)                                                                                                                           tAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGATTTTAGCAGGTTTGGCTATGAGTACa                >  2:317924/1‑148 (MQ=255)                                                                                                                           tAAAACATTTGGAGAGGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGATTTTAGCAGGTTTGGCTATGAGTACa                >  1:231187/1‑148 (MQ=255)                                                                                                                                       agagGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGATTTTAGCAGGTTTGGCTATGAGTACAGTATTTGCATTa    <  2:364498/148‑1 (MQ=255)                                                                                                                                       agagGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGATTTTAGCAGGTTTGGCTATGAGTACAGTATTTGCATTa    <  2:174052/148‑1 (MQ=255)                                                                                                                                       agagGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGATTTTAGCAGGTTTGGCTATGAGTACAGTATTTGCATTa    <  1:124977/148‑1 (MQ=255)                                                                                                                                       agagGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGATTTTAGCAGGTTTGGCTATGAGTACAGTATTTGCATTa    <  1:290836/148‑1 (MQ=255)                                                                                                                                         agGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGATTTTAGCAGGTTTGGCTATGAGTACAGTATTTGCATTAgg  <  2:179865/148‑1 (MQ=255)                                                                                                                                         agGCGTTGTTGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGATTTTAGCAGGTTTGGCTATGAGTACAGTATTTGCATTAgg  <  2:96779/148‑1 (MQ=255)                                                                                                                                                  |                                                                                                                                           ACATCAGGTAATGTGTTTATAGAAAATGGTAGTAAATTTGCAAAAGGCGGAAAATACCTAGGTAAAGGTGTTGCTGGTGTAGGATTTGGTATAGGTATGTATGATGACCTTGCAAATGATGATAAAACATTTGGAGAGGCGTTGTCGCATAATGGTATGACGCTTGCAGCTGGATCTGCAGGGACAGCAGTTGGAGCTGGATTAGCGACTTTTGTTTTAGGAAGTAATCCAGTAGGATGGGTGATTTTAGCAGGTTTGGCTATGAGTACAGTATTTGCATTAGG  >  CP000730/654107‑654390

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑