Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	USA300TCH1516_ALE	665,392	T→G	L79* (TTA→TGA)	paiA_1 →	Spermidine/spermine N(1)‑acetyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	665,392	0	T	G	100.0%	81.5 / NA	25	L79* (TTA→TGA)	paiA_1	Spermidine/spermine N(1)‑acetyltransferase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base G (12/13);  total (12/13)

ACGCTGCGACAACAGTTAATCACTTGTTAGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATTATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGAAGATAAATTTGAAGGTGTTTACTTAGAAGTAGATAATAAAAATGAAGAAGCAG  >  USA300TCH1516_ALE/665248‑665532                                                                                                                                                 |                                                                                                                                             aCGCTGCGACAACAGTTAATCACTTGTTAGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATgata                                                                                                                                           >  1:239624/1‑148 (MQ=255) aCGCTGCGACAACAGTTAATCACTTGTTAGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGACCTTCATGGATGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATgata                                                                                                                                           >  1:300567/1‑148 (MQ=255)  cGCTGCGACAACAGTTAATCACTTGTTAGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGatat                                                                                                                                          >  1:439115/1‑148 (MQ=255)   gCTGCGACAACAGTTAATCACTTGTTAGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATAtt                                                                                                                                         >  1:111138/1‑148 (MQ=255)   gCTGCGACAACAGTTAATCACTTGTTAGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATAtt                                                                                                                                         >  1:402893/1‑148 (MQ=255)   gCTGCGACAACAGTTAATCACTTGTTAGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATAtt                                                                                                                                         >  1:107802/1‑148 (MQ=255)    cTGCGACAACAGTTAATCACTTGTTAGAAGATTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAGTTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGGATGATAtta                                                                                                                                        >  1:486326/1‑147 (MQ=255)     tGCGACAACAGTTAATCACTTGTTAGAAGCTTCATATCATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTa                                                                                                                                       >  1:90093/1‑148 (MQ=255)            acaGTTAATCACTTGTGAGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACGTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTc                                                                                                                                <  1:587030/148‑1 (MQ=255)                  aaTCACTTGTTAGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATg                                                                                                                          <  1:38130/148‑1 (MQ=255)                  aaTCACTTGTTAGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCCTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATg                                                                                                                          <  1:452446/148‑1 (MQ=255)                       cTTGTTAGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTaaa                                                                                                                     <  1:541913/148‑1 (MQ=255)                             aGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTTGCTTTGCTAACTTTATTTACGGTGACGAATGATCTTTATCAGCTCATTATGTTAAACCAGaa                                                                                                               <  1:410367/148‑1 (MQ=255)                                  cTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCa                                                                                                          <  1:256489/148‑1 (MQ=255)                                     cATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACa                                                                                                       >  1:449571/1‑148 (MQ=255)                                       tataATAAACATCATTTAAAGAAAAGACTTCAAGAACTATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATa                                                                                                     <  1:19679/148‑1 (MQ=255)                                         taataaACATCTTTTAAAAAAAAGCCTTCAAGAACAATTATTCTTCTTCGTTGAAGAAGGTAAGGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACa                                                                                                   <  1:292575/148‑1 (MQ=255)                                               aCATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTAt                                                                                             >  1:59268/1‑148 (MQ=255)                                                         aagaaaagaCTTAAAAAACAATTATTCTTAGTCGTTGAAGAAGGTACTGGCAGGGGGTGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCAt                                                                                   <  1:145564/148‑1 (MQ=255)                                                               agaCTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAAATTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGGTaa                                                                             >  1:421979/1‑148 (MQ=255)                                                                             attattCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCa                                                               >  1:332447/1‑148 (MQ=255)                                                                                                gaagGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGAAGATAAATTTg                                            <  1:332155/148‑1 (MQ=255)                                                                                                          aCATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGGTATGGTACAGCATNGTTAAATGAAGGATGATCACGNTNTGAAGNTNAATTTGAAGGCGTTTa                                  >  1:634051/1‑148 (MQ=255)                                                                                                                 ttgCTTTGGTAACTTTTTTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAACTGAAGGACTATCACGTTTTGAAGATAAATTTGAAGGTGTTTACTTAGaa                           <  1:280294/146‑1 (MQ=255)                                                                                                                         cTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGAAGATAAATTTGAAGGTGTTTACTTAGAAGTAGataa                   <  1:555731/148‑1 (MQ=255)                                                                                                                             cTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGAAGATAAATTTGAAGGTGTTTACTTAGAAGTAGATAATaaa               >  1:34498/1‑148 (MQ=255)                                                                                                                                          gaagaaTGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGAAGATAAATTTGAAGGTGTTTACTTAGAAGTAGATAATAAAAATGAAGAAGCAg  <  1:484088/148‑1 (MQ=255)                                                                                                                                                 |                                                                                                                                             ACGCTGCGACAACAGTTAATCACTTGTTAGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATTATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGAAGATAAATTTGAAGGTGTTTACTTAGAAGTAGATAATAAAAATGAAGAAGCAG  >  USA300TCH1516_ALE/665248‑665532

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: ‑