Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	USA300TCH1516_ALE	1,454,616	G→A	R315R (CGC→CGT)	arlS ←	Signal transduction histidine‑protein kinase ArlS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	1,454,616	0	G	A	100.0%	34.6 / NA	14	R315R (CGC→CGT)	arlS	Signal transduction histidine‑protein kinase ArlS
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (6/8);  total (6/8)

CAATAAAGATTAAAAATAATTGTTCGAATTGATGAGGTTTCATTTTAATTTCTAGATTTTTAGATGTCAGATCCGTATCAAATTGATAATCAGGATGCAATTGTTTTAATGAGTGTATTCGCGAGCGAATTTCATCATTAATATGCACGGTCTGTGCTTCAGAAGAAATGTCATTTACATCTCCTTTAGTCAATTCAAGTAATTCTTCGACTAATTTTATGATACGATTCATTTCTTCAATAGAAATATTTAACGAT  >  USA300TCH1516_ALE/1454492‑1454748                                                                                                                             |                                                                                                                                     cAATAAAGATTAAAAATAAATGTTCGAATTGATGAGGTTTCATTTTAATTTCTAGATTTTTAGATGTCAGATCCGTATCAAATTGATAATCAGGATGCAATTGTTTTAATGAGTGTATTCGAGAACGAATTTCATCATTaa                                                                                                                      >  2:133646/1‑141 (MQ=255)                ataatTGTTCGAATTGATGAGGTTTCATTTTAATTTCTAGATTTTTAGATGTCAGATCCGTATCAAATTGATAATCAGGATGCAATTGTTTTAATGAGTGTATTCGCGAACGAATTTCATCATTAATATGCACGGTCtgtg                                                                                                       <  2:223698/141‑1 (MQ=255)                                      gttCATTTTAATTTCTAGATTTTTAGATGTCAGATCCGGATCAAATTGATAATCAGGATGCAATTGTTTTAATGAGTGTATTCGCGAACGAATTTCATCATTAATATGCACGGTCTGTGCTTCAGAAGAAATGTCATTTAc                                                                                 <  2:170722/140‑1 (MQ=255)                                         cATTTTAATTTCTAGATTTTTAGATGTCAGATCCGTATCAAATTGATAATCAGGATGCAATTGTTTTAATGAGTGTATTCGCGAACGAATTTCATCATTAATATGCACGGTCTGTGCTTCAGAAGAAATGTCATTTACAtc                                                                              <  1:151123/141‑1 (MQ=255)                                                             tAGATGTCAGATCCGTATCAAATTGATAATCAGGATGCAATTGTTTTAATGAGTGTATTCGCGAACGAATTTCATCATTAATATGCACGGTCTGTGCTTCAGAAGAAATGTCATTTACATCTCCTTTAGTCAATTCAAGTa                                                          <  2:99067/141‑1 (MQ=255)                                                                            tATCAAATTGATAATCAGGATGCAATTGTTTTAATGAGTGTATTCGCGAACGAATTTCATCATTAATATGCACGGTCTGTGCTTCAGAAGAAATGTCATTTACATCTCCTTTAGTCAATTCAAGTAATTCTTCGACTAAtt                                           <  1:137807/141‑1 (MQ=255)                                                                                         aTCAGGATGCAATTGTTTTAATGAGTGTATTCGCGAACGAATTTCATCATTAATATGCACGGTCTGTGCTTCAGAAGAAATGTCATTTACATCTCCTTTAGTCAATTCAAGTAATTCTTCGACTAATTTTATGATACGAtt                              >  2:162226/1‑141 (MQ=255)                                                                                                          ttAATGAGTGTATTCGCGAACGAATTTCATCATTAATATGCACGGTCTGTGCTTCAGAAGAAATGTCATTTACATCTCCTTTAGTCAATTCAAGTAATTCTTCGACTAATTTTATGATACGATTCATTTCTTCAATAGaaa             <  1:229864/141‑1 (MQ=255)                                                                                                           tAATGAGTGTATTCGCGAACGAATTTCATCATTAATATGCACTGTCTGTGCTTCAGAAGAAATGTCATTTACATCTCCTTTAGTCAATTCAAGTAATTCTTCGACTAATTTTATGATACGATTCATTTCTTCAATAGAAat            <  1:133646/141‑1 (MQ=255)                                                                                                              tGAGTGTATTCGCGAACGAATTTCATCATTAATATGGACGGACTGTGCTTCAGAAGAAATGTCCTTTACTTATCCTTTCGTCAGTCCCAGTACTTCTTTGAATAATTTCATGATCAGATTACTTTCTGCAATAGAAATAtt         >  2:39555/1‑141 (MQ=255)                                                                                                              tGAGTGTATTCGCGAACGAATTTCATCATTAATATGCACGGTCTGTGCTTCAGAAGAAATGTCATTTACATCTCCTTTAGTCAATTCAAGTAATTCTTCGACTAATTTTATGATACGATTCATTTCTTCAATAGAAATAtt         >  1:139505/1‑141 (MQ=255)                                                                                                              tGAGTGTATTCGCGAACGAATTTCATCATTAATATGCACGGTCTGTGCTTCAGAAGAAATGTCATTTACATCTCCTTTAGTCAATTCAAGTAATTCTTCGACTAATTTTATGATACGATTCATTTCTTCAATAGAAATAtt         >  2:193771/1‑141 (MQ=255)                                                                                                                 gtgtATTCGCGAACGAATTTCATCATTAATATGCACGGTCTGTGCTTCAGAAGAAATGTCATTTACATCTCCTTTAGTCAATTCAAGTAATTCTTCGACTAATTTTATGATACGATTCATTTCTTCAATAGAAATATTTaa      <  2:80678/141‑1 (MQ=255)                                                                                                                     aTTCGCGAACGAATTTCATCATTAATATGCACGGTCTGTGCTTCAGAAGAAATGTCATTTACATCTCATTTAGTCAATTCAAGTAATTCTTCGACTAATTTTATGATACGATTCATTTCTTCAATAGAAATATTTAACGAt  >  2:45884/1‑141 (MQ=255)                                                                                                                             |                                                                                                                                     CAATAAAGATTAAAAATAATTGTTCGAATTGATGAGGTTTCATTTTAATTTCTAGATTTTTAGATGTCAGATCCGTATCAAATTGATAATCAGGATGCAATTGTTTTAATGAGTGTATTCGCGAGCGAATTTCATCATTAATATGCACGGTCTGTGCTTCAGAAGAAATGTCATTTACATCTCCTTTAGTCAATTCAAGTAATTCTTCGACTAATTTTATGATACGATTCATTTCTTCAATAGAAATATTTAACGAT  >  USA300TCH1516_ALE/1454492‑1454748

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: ‑