Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	USA300TCH1516_ALE	1,646,189	G→C	A155G (GCA→GGA)	ypdF ←	Aminopeptidase YpdF

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	1,646,189	0	G	C	97.7%	161.8 / ‑5.8	43	A155G (GCA→GGA)	ypdF	Aminopeptidase YpdF
Reads supporting (aligned to +/- strand):  ref base G (0/0);  major base C (27/15);  minor base A (1/0);  total (28/15)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01

ATTTTATCACTTGCAACACCATGTGGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTGCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAATGATAT  >  USA300TCH1516_ALE/1646051‑1646322                                                                                                                                           |                                                                                                                                       atTTTATCACTTGCAACACCATGTGGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGcctcct                                                                                                                                      >  1:341032/1‑141 (MQ=255)       tCACTTGCAACACCATGTGGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTaca                                                                                                                                >  2:246802/1‑141 (MQ=255)                   ccATGTGGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAata                                                                                                                    >  1:559666/1‑141 (MQ=255)                     aTGTGGTAATGCACCTCTATGACCAGATGTTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAatata                                                                                                                  <  2:84529/141‑1 (MQ=255)                      tgtgGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAatatat                                                                                                                 >  1:448953/1‑141 (MQ=255)                      tgtgGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAatatat                                                                                                                 >  1:277779/1‑141 (MQ=255)                                    tctATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTtcatc                                                                                                  >  2:269344/1‑141 (MQ=255)                                      tATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATcaa                                                                                                >  1:460729/1‑141 (MQ=255)                                        tGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATcaaca                                                                                              >  2:466888/1‑141 (MQ=255)                                        tGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATcaaca                                                                                              >  2:552664/1‑141 (MQ=255)                                          aCCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAat                                                                                            <  2:370904/141‑1 (MQ=255)                                           ccAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAata                                                                                           <  2:341032/141‑1 (MQ=255)                                                tGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCTTA‑TGTTTCATCAACAATATTAgc                                                                                      <  1:246802/141‑1 (MQ=255)                                                 gCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAgct                                                                                     >  2:351378/1‑141 (MQ=255)                                                 gCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAgct                                                                                     >  2:137941/1‑141 (MQ=255)                                                 gCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAgct                                                                                     >  2:530634/1‑141 (MQ=255)                                                  cTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACACCAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAgctg                                                                                    <  1:468452/141‑1 (MQ=255)                                                             tCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAAtt                                                                         <  1:19670/141‑1 (MQ=255)                                                             tCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAAtt                                                                         <  1:246603/141‑1 (MQ=255)                                                              cGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTa                                                                        >  2:549704/1‑141 (MQ=255)                                                              cGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTa                                                                        >  1:300249/1‑141 (MQ=255)                                                                     tgGTCCATCTGCTCCTAATTCTAGCATTTTGCTGTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAAt                                                                 >  1:295268/1‑141 (MQ=255)                                                                     tgGTCCATCTGATCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTAAGTCATGGATATTTTTAGAACAGTTAAAATATATTAATA‑TGTTTCATAAAAAATATTAGCTGATTTTTGAATTAAAGAAAt                                                                 >  1:425394/1‑141 (MQ=255)                                                                           aTCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTc                                                           <  1:532047/141‑1 (MQ=255)                                                                           aTCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTc                                                           <  2:219521/141‑1 (MQ=255)                                                                           aTCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTc                                                           <  1:498190/141‑1 (MQ=255)                                                                                   cTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCtt                                                   <  2:37070/141‑1 (MQ=255)                                                                                     aaTTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTg                                                 >  1:90952/1‑141 (MQ=255)                                                                                                  tGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAAttt                                    >  1:270509/1‑141 (MQ=255)                                                                                                           atatTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAg                           <  2:508677/141‑1 (MQ=255)                                                                                                              ttGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTAt                        <  1:443756/141‑1 (MQ=255)                                                                                                              ttGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTAt                        <  2:359718/141‑1 (MQ=255)                                                                                                              ttGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATT‑ATACTGGTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTCTCTACAGTAt                        >  1:297657/1‑141 (MQ=255)                                                                                                                gCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTa                      >  1:235609/1‑141 (MQ=255)                                                                                                                 ccTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAg                     >  1:490258/1‑141 (MQ=255)                                                                                                                 ccTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAg                     >  2:394395/1‑141 (MQ=255)                                                                                                                      aaTTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATg                >  1:324584/1‑141 (MQ=255)                                                                                                                        ttCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCt              >  1:485523/1‑141 (MQ=255)                                                                                                                           tttttCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCttat           >  2:376328/1‑141 (MQ=255)                                                                                                                           tttttCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCttat           >  1:323402/1‑141 (MQ=255)                                                                                                                               tCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAAt       >  1:321132/1‑141 (MQ=255)                                                                                                                                cAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAATg      <  1:269344/141‑1 (MQ=255)                                                                                                                                 aGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAATGa     >  2:540328/1‑141 (MQ=255)                                                                                                                                    cATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAATGatat  >  1:173437/1‑141 (MQ=255)                                                                                                                                           |                                                                                                                                       ATTTTATCACTTGCAACACCATGTGGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTGCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAATGATAT  >  USA300TCH1516_ALE/1646051‑1646322

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: ‑