Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	USA300TCH1516_ALE	1,744,292	A→T	I127N (ATT→AAT)	apt ←	Adenine phosphoribosyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	1,744,292	0	A	T	100.0%	80.0 / NA	25	I127N (ATT→AAT)	apt	Adenine phosphoribosyltransferase
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base T (12/13);  total (12/13)

ATTCGTCGTATGAGATTAAACTCATAACATCGTAATCTTTAATTTTTTCAATACCATTTAAATATTTCAATTCAATTATAAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATT  >  USA300TCH1516_ALE/1744155‑1744427                                                                                                                                          |                                                                                                                                        attCGTCGTATGAGATTAAACTCATAACATCGTAATCTTTAATTTTTTCAATACCATTTAAATATTTCAATTCAATTATAAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCATTCg                                                                                                                                      <  1:68662/141‑1 (MQ=255)    cgtcgtATGAGATTAAACTCATAACATCGTAATCTTTAATTTTTTCAATACCATTTAAATATTTCAATTCAATTATAAATGCAATACCTACTACGATACCGCCTCATTTTTCACCTAATTTTATTGCTGCTTCATTCGTac                                                                                                                                   >  2:253557/1‑141 (MQ=255)        gtATGAGATTAAACTCATAACATCGTAATCTTTAATTTTTTCAATACCATTTAAATATTTCAATTCAATTATAAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCATTCGTaccacc                                                                                                                               <  1:71300/141‑1 (MQ=255)        gtATGAGATTAAACTCATAACATCGTAATCTTTAATTTTTTCAATACCATTTAAATATTTCAATTCAATTATAAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCATTCGTaccacc                                                                                                                               <  1:286508/141‑1 (MQ=255)        gtATGAGATTAAACTCATAACATCGTAATCTTTAATTTTTTCAATACCATTTAAATATTTCAATTCAATTATAAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCATTCGTaccacc                                                                                                                               <  1:299551/141‑1 (MQ=255)                ttAAACTCATAACATCGTAATCTTTAATTTTTTCAATACCATTTAAATATTTCAATTCAATTATAAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCATTCGTACCACCAGTAGCta                                                                                                                       <  2:266172/141‑1 (MQ=255)                 tAAACTCATAACATCGTAATCTTTAATTTTTTCAATACCATTTAAATATTTCAATTCAATTATAAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCATTCGTACCACCAGTAGCtaa                                                                                                                      <  1:7037/141‑1 (MQ=255)                                                   aTACCATTTAAATATTTCAATTAAATTATAAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCATTCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGt                                                                                    >  1:71160/1‑141 (MQ=255)                                                      ccATTTAAATATTTCAATTCAATTATAAATGCAATACCTACTACGATACCGCCTACTTTTTCAACTAATTTTATTGCTGCTTCATTCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTa                                                                                 <  1:82374/141‑1 (MQ=255)                                                          ttAAATATTTCAATTCAATTATAAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCATTCGTACCGCCTGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTg                                                                             <  2:224920/141‑1 (MQ=255)                                                           tAAATATTTCAATTCAATTATAAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCATTCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGc                                                                            >  2:84015/1‑141 (MQ=255)                                                           tAAATATTTCAATTCAATTATAAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCATCCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTTGTTTAATCGc                                                                            >  2:120288/1‑141 (MQ=255)                                                                  ttcaattcaaTTATAAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCATTCGTACCACCAGTAGCTAATAAATCATATATACTTAACACACGTTGACCTGGTTTAATTGCATCTTtg                                                                     >  1:240241/1‑141 (MQ=255)                                                                  ttcaattcaaTTATAAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCATTCGTACCACCAGTAGCTAAAAAATAATCTGTAATTAAAACACCATGACCTGGTTTAATTGCATCtttt                                                                     >  1:240232/1‑140 (MQ=255)                                                                      attcaattATAAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCATTCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCa                                                                 >  1:301008/1‑141 (MQ=255)                                                                                        tACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCATTCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTAc                                               <  2:274392/141‑1 (MQ=255)                                                                                         aCCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCATTCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTAcc                                              >  2:9145/1‑141 (MQ=255)                                                                                         aCCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCATTCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTAcc                                              <  1:187546/141‑1 (MQ=255)                                                                                         aCCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCATTCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTAcc                                              >  1:277272/1‑141 (MQ=255)                                                                                          ccTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCATTCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCa                                             >  1:215420/1‑141 (MQ=255)                                                                                               tacGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCATTCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTc                                        <  2:139937/141‑1 (MQ=255)                                                                                                                   cAACTTATTTTATTGCTGCTTCATTCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGaa                    >  2:58965/1‑141 (MQ=255)                                                                                                                   cAACTAATTTTATTGCTGCTTCATTCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGaa                    >  2:141057/1‑141 (MQ=255)                                                                                                                                tgctgcTTCATTCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAgg       <  2:301008/141‑1 (MQ=255)                                                                                                                                     ctTCATTCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAAtt  <  2:71160/141‑1 (MQ=255)                                                                                                                                          |                                                                                                                                        ATTCGTCGTATGAGATTAAACTCATAACATCGTAATCTTTAATTTTTTCAATACCATTTAAATATTTCAATTCAATTATAAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATT  >  USA300TCH1516_ALE/1744155‑1744427

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: ‑