Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 665,392 T→G 100% 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_ALE665,3920TG100.0% 111.5 / NA 32L79* (TTA→TGA) paiA_1Spermidine/spermine N(1)‑acetyltransferase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base G (16/16);  total (16/16)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

ACAACAGTTAATCACTTGTTAGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATTATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGAAGATAAATTTGAAGGTGTTTACTTAGAAGTAGATAATAAAAA  >  USA300TCH1516_ALE/665256‑665521
                                                                                                                                        |                                                                                                                                 
acaacaGTTAATCACTTGTTAGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGatat                                                                                                                               >  1:152246/1‑141 (MQ=255)
  aacaGTTAATCACTTGTTAGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATAttt                                                                                                                             >  1:381179/1‑141 (MQ=255)
    caGTTAATCACTTGTTAGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTAt                                                                                                                           <  1:102236/141‑1 (MQ=255)
                    aGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTaa                                                                                                           >  1:377721/1‑141 (MQ=255)
                            cATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGGTAACTTTGTTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAAt                                                                                                   >  1:342521/1‑141 (MQ=255)
                            cATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAAt                                                                                                   >  1:15958/1‑141 (MQ=255)
                                             ttAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTGATTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTAt                                                                                  >  1:338311/1‑141 (MQ=255)
                                              tAAAAAAAAGACGTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATg                                                                                 >  1:328507/1‑141 (MQ=255)
                                                 agaaaagaCGTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTa                                                                              <  1:181226/141‑1 (MQ=255)
                                                    aaagaCTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAg                                                                           <  1:424980/141‑1 (MQ=255)
                                                          ttCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGt                                                                     <  1:14849/141‑1 (MQ=255)
                                                          ttCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGt                                                                     <  1:348336/141‑1 (MQ=255)
                                                           tCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGtt                                                                    <  1:275844/141‑1 (MQ=255)
                                                           tCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGtt                                                                    >  1:246845/1‑141 (MQ=255)
                                                                          cTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATc                                                     >  1:251148/1‑141 (MQ=255)
                                                                                cGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGttt                                               >  1:289028/1‑141 (MQ=255)
                                                                                  ttGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTg                                             <  1:383153/141‑1 (MQ=255)
                                                                                    gaagaaGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGaa                                           >  1:414435/1‑141 (MQ=255)
                                                                                          ggTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGACGATaaa                                     >  1:175025/1‑141 (MQ=255)
                                                                                          ggTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGAAGATaaa                                     >  1:216041/1‑141 (MQ=255)
                                                                                            tAATGACATCGTTGGCTTTGCTAACTTTCTTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGAAGATAAAtt                                   <  1:322974/141‑1 (MQ=255)
                                                                                                        tGGCTTTGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGAAGATAAATTTGAAGGTGTTTa                       <  1:35555/141‑1 (MQ=255)
                                                                                                            tttGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCCCGTTTTGAAGATAAATTTGAAGGTGTTTACTTa                   >  1:61368/1‑141 (MQ=255)
                                                                                                            tttGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGAAGATAAATTTGAAGGTGTTTACTTa                   <  1:355128/141‑1 (MQ=255)
                                                                                                            tttGCTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGAAGATAAATTTGAAGGTGTTTACTTa                   >  1:61392/1‑141 (MQ=255)
                                                                                                                cTAACTTTATTTACGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGAAGATAAATTTGAAGGTGTTTACTTAGagg               >  1:116352/1‑139 (MQ=255)
                                                                                                                     tttatttaCGGTGAAGAATGATATTTATCAGCCCATTATGTCAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGAAGATAAATTTGAAGGTGTTTACTTAGAAGTAGat          <  1:265480/141‑1 (MQ=255)
                                                                                                                         tttaCGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGAAGATAAATTTGAAGGTGTTTACTTAGAAGTAGataata      <  1:145148/141‑1 (MQ=255)
                                                                                                                            aCGGTGAAGAATGATATTTATCAGCTCATTATGTTACACCAGCATCGCCACATTCCCGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGAAGATAAATTTGAAGGTGTTTACTTAGAAGTAGATAATaaaa   <  1:13522/141‑1 (MQ=255)
                                                                                                                            aCGGTGAAGAATGATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGAAGATAAATTTGAAGGTGTTTACTTAGAAGTAGATAATaaaa   <  1:49520/141‑1 (MQ=255)
                                                                                                                            aCGGTGAAGAATGATATTTATCAGCTCATTATCTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATCATCACGTTTTGAAGATAAATTTGAAGGTGTTTACTTAGAAGTAGATAATaaaa   <  1:311025/141‑1 (MQ=255)
                                                                                                                             ccgTGAACAATGATATTTATCAGCTCATTATGTTAAACCAGAATCTCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGAAGATAAATTTGAAGGTGTTTACTTAGAAGTAGATAATaaaaa  <  1:236282/139‑1 (MQ=255)
                                                                                                                                        |                                                                                                                                 
ACAACAGTTAATCACTTGTTAGAAGCTTCATATAATGAACATCATTTAAAGAAAAGACTTCAAGAACAATTATTCTTAGTCGTTGAAGAAGGTAATGACATCGTTGGCTTTGCTAACTTTATTTACGGTGAAGAATTATATTTATCAGCTCATTATGTTAAACCAGAATCGCAACATACAGGTTATGGTACAGCATTGTTAAATGAAGGATTATCACGTTTTGAAGATAAATTTGAAGGTGTTTACTTAGAAGTAGATAATAAAAA  >  USA300TCH1516_ALE/665256‑665521

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑