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%	47.8 / NA	16	L79* (TTA→TGA)	paiA_1	Spermidine/spermine N(1)‑acetyltransferase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base G (6/10);  total (6/10)

ACGCTGCGACAACAGTTAATCACTTGTTAGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATTATATTTA‑TCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGAAGATAAATTTGAAGGTGTTTACTTAGAAGTAGATAATAAA  >  USA300TCH1516_ALE/665248‑665519                                                                                                                                                 |                                                                                                                                 aCGCTGCGACAACAGTTAATCACTTGTTAGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATgata                                                                                                                               >  1:208724/1‑148 (MQ=255) aCGCTGCGACAACAGTTAATCACTTGTTAGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATgata                                                                                                                               >  1:220718/1‑148 (MQ=255) aCGCTGCGACAACAGTTAATCACTTGTTAGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATgata                                                                                                                               >  1:301494/1‑148 (MQ=255)   gCTGCGACAACAGTTAATCACTTGTTAGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATAtt                                                                                                                             >  1:47448/1‑148 (MQ=255)             caGTTAATCACTTGTTAGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTA‑TCAGCTCa                                                                                                                  >  1:32299/1‑148 (MQ=255)               gTTCATCACTTGTTAGAAGCTTCATATAATGAACATCATTTAAAGAAGAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTA‑TCAGCTCAtt                                                                                                                <  1:134757/148‑1 (MQ=255)                      aCTTGTTAGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTA‑TCAGCTCATTATGTTaa                                                                                                         >  1:164931/1‑148 (MQ=255)                           ttAGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTA‑TCAGCTCATTATGTTAAACCAg                                                                                                    <  1:287435/148‑1 (MQ=255)                             aGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTGATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATTGAGCT‑GTTATGTTAAACCAGaa                                                                                                  >  1:80797/1‑148 (MQ=255)                                  cTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTA‑TCAGCTCATTATGTTAAACCAGAATCGCa                                                                                             <  1:303233/148‑1 (MQ=255)                                          aaTGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTA‑TCAGCTCATTATGTTAAACCAGAATCGCAACATACAg                                                                                     >  1:50025/1‑148 (MQ=255)                                                          agaaaagaCTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTA‑TCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCAtt                                                                     <  1:148127/148‑1 (MQ=255)                                                          agaaaagaCTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTA‑TCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCAtt                                                                     >  1:75748/1‑148 (MQ=255)                                                                                                   ggTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTA‑TCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGAAGATAAATTTGAAg                            <  1:75619/148‑1 (MQ=255)                                                                                                   ggTAATGACATCGTTGGCGTTGCTAACTTGATGTACGGTGAAGAATGATATTTA‑TCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGAAGATAAATTTGAAg                            <  1:244895/148‑1 (MQ=255)                                                                                                      aaTGACATCGTTGGCTTTGCTAACTTTATGTACGGTGAAGAATGATATTTA‑TCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGAAGATAAATTTGAAGgtg                         <  1:237987/148‑1 (MQ=255)                                                                                                         gACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTA‑TCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGAAGATAAATTTGAAGGTGttt                      <  1:159373/148‑1 (MQ=255)                                                                                                                           aaCTTTATTTACGGTGAAGAATGATATTTA‑TCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGAAGATAAATTTGAAGGTGTTTACTTAGAAGTAGataata    <  1:266197/148‑1 (MQ=255)                                                                                                                             cTTTATTTACGGTGAAGAATGATATTTA‑TCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGAAGATAAATTTGAAGGTGTTTACTTAGAAGTAGATAATaaa  <  1:216771/148‑1 (MQ=255)                                                                                                                                                 |                                                                                                                                 ACGCTGCGACAACAGTTAATCACTTGTTAGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATTATATTTA‑TCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGAAGATAAATTTGAAGGTGTTTACTTAGAAGTAGATAATAAA  >  USA300TCH1516_ALE/665248‑665519

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑