Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	USA300TCH1516_ALE	2,028,124	G→A	P174L (CCG→CTG)	USA300HOU_RS10230 ←	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	2,028,124	0	G	A	100.0%	60.3 / NA	20	P174L (CCG→CTG)	USA300HOU_RS10230	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (6/14);  total (6/14)

TAGATATTAACTGTATAGTTATCCGGTTTCATCATTTCTTCAATATGAATATTGTTATTTTCAACTTTATATGATTTTTCATTCACGTAAGTACTTCCATAAAAAGCAGCTACATGTAAATTAATATTGTAATTAACCGGCAATATAACCTGCACTTTACCTAAAATGTGTCTAACAACAATGGTATTATTTTCCTTAATATTTGCAGCTTTTGTTAAGTCAATATGTAGGTCGCCAATTCCATGTTGAATTTGTACATCTTCCCACTT  >  USA300TCH1516_ALE/2027986‑2028254                                                                                                                                           |                                                                                                                                   tAGATATTAACTGTATAGTTATCCGGTTTCATCATTTCTTCAATATGAATATTGTTATTTTCAACTTTATATGATTTTTCATTCACGTAAGTACTTCCATAAAAAGCAGCTACATGTAAATTAATATTGTAATTAACCAGc                                                                                                                                  >  2:209506/1‑141 (MQ=255)    atatTAACTGTATAGTTATCCGGTTTCATCATTTCTTCAATATGAATATTGTTATTTTCAACTTTATATGATTTTTCATTCACGTAAGTACTTCCATAAAAAGCAGCTACATGTAAATTAATATTGTAATTAACCAGCAat                                                                                                                               <  1:99943/141‑1 (MQ=255)                 ggTTATCCTGTTTCATCATTTCTTCAATATGAATATTGTTATTTTCAACTTTATATGATTTTTCATTCACGTAAGTACTTCCATAAAAAGCAGCTACATGTAAATTAATATTGTAATTAACCAGCAATATAACCTGCACtt                                                                                                                  <  2:169474/140‑1 (MQ=255)                 aGTTATCCGGTTTCATCATTTCTTCAATATGAATATTGTTATTTTCAACTTTATATGATTTTTCATTCACGTAAGTACTTCCATAAAAAGCAGCTACATGTAAATTAATATTGTAATTAACCAGCAATATAACCTGCACtt                                                                                                                  <  2:107867/141‑1 (MQ=255)                      tCCGGTTTCATCATTTCTTCAATATGAATATTGTTATTTTCAACTTTATATGATTTTTCATTCACGTAAGTACTTCCATAACAAGCAGCTACATGTAAATTAATATTGTAATTAACCAGCAATATAACCTGCACTTTACCt                                                                                                             >  1:81888/1‑141 (MQ=255)                        cGGTTTCATCATTTCTTCAATATGAATATTGTTATTTTCAACTTTATATGATTTTTCATTCACGTAAGTACTTCCATAAAAAGCAGCTACATGTAAATTAATATTGTAATTAACCAGCAATATAACCTGCACTTTACCTaa                                                                                                           <  1:231905/141‑1 (MQ=255)                                   tttCTTCAATATGAATATTGTTATTTTCAACTTTATATGATTTTTCATTCACGTAAGTACTTCCATAAAAAGCAGCTACATGTAAATTAATATTGTAATTAACCAGCAATATAACCTGCACTTTACCTAAAATGTGTCTaa                                                                                                <  2:82701/141‑1 (MQ=255)                                           atatGAATATTGTTATTTGCAACTTTATATGATTTTTCATTCACGTAAGTACTTCCATAAAAAGCAGCTACATGTAAATTAATATTGTAATTAACCAGCAATATAACCTGCACTTTACCTAAAATGTGTCTAACAACAATg                                                                                        <  1:13012/141‑1 (MQ=255)                                                   atTGTTATTTTCAACTTTATATGATTTTTCATTCACGTAAGTACTTCCATAAAAAGCAGCTACATGTAAATTAATATTGTAATTAACCAGCAATATAACCTGCACTTTACCTAAAATGTGTCTAACAACAATGGTattatt                                                                                <  1:119485/141‑1 (MQ=255)                                                       ttATTTTCAACTTTATATGATTTTTCATTCACGTAAGTACTTCCATAAAAAGCAGCTACATGTAAATTAATATTGTAATTAACCAGCAATATAACCTGCACTTTACCTAAAATGTGTCTAACAACAATGGTATTATTTTcc                                                                            <  2:128067/141‑1 (MQ=255)                                                       ttATTTTCAACTTTATATGATTTTTCATTCACGTAAGTACTTCCATAAAAAGCAGCTACATGTAAATTAATATTGTAATTAACCAGCAATATAACCTGCACTTTACCTAAAATGTGTCTAACAACAATGGTATTATTTTcc                                                                            <  2:18006/141‑1 (MQ=255)                                                             tCAACTTTATATGATTTTTCATTCACGTAAGTACTTCCATAAAAAGCAGCTACATGTAAATTAATATTGTAATTAACCAGCAATATAACCTGCACTTTACCTAAAATGTGTCTAACAACAATGGTATTATTTTCCTTAata                                                                      >  2:56219/1‑141 (MQ=255)                                                                aCTTTATATGATTTTTCATTCACGTAAGTACTTCCATAAAAAGCAGCTACATGTAAATTAATATTGTAATTAACCAGCAATATAACCTGCACTTTACCTAAAATGTGTCTAACAACAATGGTATTATTTTCCTTAATAttt                                                                   <  2:147591/141‑1 (MQ=255)                                                                                           gTACTTCCATAAAAAGCAGCTACATGTAAATGAATATTGTAATTAACCAGCAATATAACCTGCACTTTACCTAAAATGTGTCTAACAACAATGGTATTATTTTCCTTAATATTTGCAGCTTTTGTTAAGTCAATATGTAgg                                        <  2:231215/141‑1 (MQ=255)                                                                                                 ccATAAAAAGCAGCTACATGTAAATTAATATTGTAATTAACCAGCAATATAACCTGCACTTTACCTAAAATGTGTCTAACAACAATGGTATTATTTTCCTTAATATTTGCAGCTTTTGTTAAGTCAATATGTAGGTCGCCa                                  <  1:145882/141‑1 (MQ=255)                                                                                                  cATAAAAAGCAGCTACATGTAAATTAATATTGTAATTAACCAGCAATATAACCTGCACTTTACCTAAAATGTGTCTAACAACAATGGTATTATTTTCCTTAATATTTGCAGCTTTTGTTAAGTCAATATGTAGGTCGCCaa                                 >  1:169923/1‑141 (MQ=255)                                                                                                      aaaaGCAGCTACATGTAAATTAATATTGTAAGTAACCAGCAATATAACCTGCACTTTACCTAAAATGTGTCTAACAACAATGGTATTATTTTCCTTAATATTTGCAGCTTTTGTTAAGTCAATATGTAGGTCGCCAATTcc                             <  2:83648/141‑1 (MQ=255)                                                                                                                 aaTGTAAATTAATATTGTAATTAACCAGCAATATAACCTGCACTTTACCTAAAATGTGTCTAACAACAATGGTATTATTTTCCTTAATATTTGCAGCTTTTGTTAAGTCAATATGTAGGTCGCCAATTCCATGTTGAAttt                  <  2:141137/140‑1 (MQ=255)                                                                                                                            atatTGTAATTAACCAGCAATATAACCTGCACTTTACCTAAAATGTGTCTAACAACAATGGTATTATTTTCCTTAATATTTGCAGCTTTTGTTAAGTCAATATGTAGGTCGCCAATTCCATGTTGAATTTGTACATCTTcc       >  2:197594/1‑141 (MQ=255)                                                                                                                                 gTAATTAACCAGCAATATAACCTGCACTTTACCTAAAATGTGTCTAACAACAATGGTATTATTTTCCTTAATATTTGCAGCTTTTGTTAAGTCAATATGTAGGTCGCCAATTCCATGTTGAATTTGTACATCTTCCCACtt  >  1:30294/1‑141 (MQ=255)                                                                                                                                           |                                                                                                                                   TAGATATTAACTGTATAGTTATCCGGTTTCATCATTTCTTCAATATGAATATTGTTATTTTCAACTTTATATGATTTTTCATTCACGTAAGTACTTCCATAAAAAGCAGCTACATGTAAATTAATATTGTAATTAACCGGCAATATAACCTGCACTTTACCTAAAATGTGTCTAACAACAATGGTATTATTTTCCTTAATATTTGCAGCTTTTGTTAAGTCAATATGTAGGTCGCCAATTCCATGTTGAATTTGTACATCTTCCCACTT  >  USA300TCH1516_ALE/2027986‑2028254

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑