Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	USA300TCH1516_ALE	1,646,189	G→C	100%	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	100.0%	79.0 / NA	27	A155G (GCA→GGA)	ypdF	Aminopeptidase YpdF
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base C (15/12);  total (15/12)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

ACTTGCAACACCATGTGGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTGCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAATGATAT  >  USA300TCH1516_ALE/1646059‑1646322                                                                                                                                   |                                                                                                                                      aCTTGCAACACCATGTGGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTacaac                                                                                                                             >  1:281759/1‑141 (MQ=255)         cacCATGTGGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTaaaa                                                                                                                     <  1:258516/141‑1 (MQ=255)               gtgGTAATGCACCTCTATGACGAGATGCTACAATCGAATCGAAGGATGGTCTAGCTGATCCTCATGCTAGAGTTTTGCTTGCTAATATTGCCTTTAATTCTTTTTCAGTGGTGCCTCCTTTTACAACAGTTgaagtctctt                                                                                                               >  2:139711/1‑134 (MQ=255)                 ggTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCa                                                                                                             <  1:88829/141‑1 (MQ=255)                      tGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGt                                                                                                        <  1:275389/141‑1 (MQ=255)                                  aCCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAat                                                                                            >  1:49098/1‑141 (MQ=255)                                     ctaTGATACAGTCGTCGCGAATGATGGTCCATCTGCTCCTGATTCTAGTACTTTGCTTTCGAATATTGACTTTAATGCTCTTTCAGTCACGCCTCCTTTTACAACAATTAAAATATATTCATATGTTTCATCAACAATAtt                                                                                         <  2:98938/139‑1 (MQ=255)                                             cAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCtt                                                                                 >  2:226379/1‑141 (MQ=255)                                               aTCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCtttt                                                                               <  1:210620/141‑1 (MQ=255)                                                      cGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCACCAGTATTAGCTGCTTTTTGAATTa                                                                        >  2:266215/1‑141 (MQ=255)                                                       ggatgatgGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTaa                                                                       <  1:46728/139‑1 (MQ=255)                                                          ttatgGTCCATCTGCTCCTAATTCTAGCATTTTGCTGTCTAATACTGCTCTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACATTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGc                                                                    <  2:224965/139‑1 (MQ=255)                                                           gatgGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCa                                                                   <  1:71946/141‑1 (MQ=255)                                                              ggTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAAtt                                                                >  2:9410/1‑141 (MQ=255)                                                              ggTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAAtt                                                                >  1:114309/1‑141 (MQ=255)                                                              ggTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGACTTTAATTGTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAAtt                                                                >  1:66398/1‑141 (MQ=255)                                                                     ccgCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAg                                                         <  1:337207/139‑1 (MQ=255)                                                                             aaTTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTg                                                 >  1:110633/1‑141 (MQ=255)                                                                                          tGCTTTCTAATATTGCCTTTAATTCTTTTTTTTTTTTTTTTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGTATTAAATCAATTTCGTCAGCTTCTTTGATGTCTCTAAttt                                    >  2:201666/1‑141 (MQ=255)                                                                                                          cTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATAAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATATTTGACGTCTCTAATTTTATTTACAGTATTAGa                    >  1:159062/1‑141 (MQ=255)                                                                                                               aTTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGc               >  2:265372/1‑141 (MQ=255)                                                                                                                  cTTTGTCAGTACTACCTCCTTTTCCACCAGTTAAAATATATTCGTATGTTTTATCAACAATTTTAGCTGATTCTTGTATTAAAGCAATTTCGTCATGACGTTGGACGTCTCTAATTTTATCTACAGTCTTATAAAGGCtta            >  2:104325/1‑141 (MQ=255)                                                                                                                    ttttCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCttatt          >  1:299761/1‑141 (MQ=255)                                                                                                                     tttCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCttatta         <  2:114309/141‑1 (MQ=255)                                                                                                                     tttCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCttatta         <  2:66398/141‑1 (MQ=255)                                                                                                                       tCAGTCATTCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAAt       <  2:63357/141‑1 (MQ=255)                                                                                                                            cATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAATGatat  >  1:98031/1‑141 (MQ=255)                                                                                                                                   |                                                                                                                                      ACTTGCAACACCATGTGGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTGCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAATGATAT  >  USA300TCH1516_ALE/1646059‑1646322

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: ‑