Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	448,331	G→T	A224D (GCC→GAC)	ampG ←	muropeptide MFS transporter AmpG

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	448,331	0	G	T	92.3%	80.1 / 0.8	26	A224D (GCC→GAC)	ampG	muropeptide MFS transporter AmpG
Reads supporting (aligned to +/- strand):  ref base G (1/1);  new base T (11/13);  total (12/14)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.97e-01

ACGCCGCGAATCAAAAACGTGGTTGTCAGGCTCATGGCGAATGCGTCGCCCAGCTTATACAGCACGATAAGAAGCAAAATAAGCCAGGCATTATTGCGACCAAAGAAATCTCGCAGAGGTGCAACAACCGCTTGTTCCAGCGTTTTGGGCACAGGAATGGTGTCGGTT  >  NZ_CP009273/448244‑448411                                                                                        |                                                                                 aCGCCGCGAATCAAAAACGTGGTTGTCAGGCTCATGGCGAATGCGTCGCCCAGCTTATACAGCACGATAAGAAGCAAAATAAGCCAGTCa                                                                                >  1:257633/1‑90 (MQ=255)                aaCGTGGTTGTCAGGCTCATGGCGAATGCGTCGCCCAGCTTATACAGCACGATAAGAAGCAAAATAAGCCAGTCATTATTGCGACCAAAg                                                                 <  2:455490/90‑1 (MQ=255)                 aCGTGGTTGTCAGGCTCATGGCGAATGCGTCGCCCAGCTTATACAGCACGATAAGAAGCAAAATAAGCCAGTCATTATTGCGACCAAAGa                                                                <  1:586786/90‑1 (MQ=255)                         gTCAGGCTCATGGCGAATGCGTCGCCCAGCTTATACAGCACGATAAGAAGCAAAATAAGCCAGTCATTATTGCGACCAAAGAAATCTCGc                                                        <  2:344822/90‑1 (MQ=255)                         gTCAGGCTCATGGCGAATGCGTCGCCCAGCTTATACAGCACGATAAGAAGCAAAATAAGCCAGTCATTATTGCGACCAAAGAAATCTCGc                                                        <  1:658691/90‑1 (MQ=255)                                      cGAATGCGTCGCCCAGCTTATACAGCACGATAAGAAGCAAAATAAGCCAGTCATTATTGCGACCAAAGAAATCTCGCAGAGGTGcaacaa                                           <  2:891807/90‑1 (MQ=255)                                            cGTCGCCCAGCTTATACAGCACGATAAGAAGCAAAATAAGCCAGGCATTATTGCGACCAAAGAAATCTCGCAGAGGTGCAACAACCGCtt                                     <  2:375664/90‑1 (MQ=255)                                                   cAGCTTATACAGCACGATAAGAAGCAAAATAAGCCAGTCATTATTGCGACCAAAGAAATCTCGCAGAGGTGCAACAACCGCTTGTTCCAg                              <  2:75419/90‑1 (MQ=255)                                                   cAGCTTATACAGCACGATAAGAAGCAAAATAAGCCAGTCATTATTGCGACCAAAGAAATCTCGCAGAGGTGCAACAACCGCTTGTTCCAg                              <  2:423585/90‑1 (MQ=255)                                                     gCTTATACAGCACGATAAGAAGCAAAATAAGCCAGGCATTATTGCGACCAAAGAAATCTCGCAGAGGTGCAACAACCGCTTGTTCCAGCg                            >  2:49186/1‑90 (MQ=255)                                                             aGCACGATAAGAAGCAAAATAAGCCAGTCATTATTGCGACCAAAGAAATCTCGCAGAGGTGCAACAACCGCTTGTTCCAGCGTTTTGGGc                    >  1:830006/1‑90 (MQ=255)                                                             aGCACGATAAGAAGCAAAATAAGCCAGTCATTATTGCGACCAAAGAAATCTCGCAGAGGGGCAACAACCGCTTGTTCCAGCGTTTTGGGc                    >  1:47419/1‑90 (MQ=255)                                                              gCACGATAAGAAGCAAAATAAGCCAGTCATTATTGCGACCAAAGAAATCTCGCAGAGGTGCAACAACCGCTTGTTCCAGCGTTTTGGGca                   >  2:751657/1‑90 (MQ=255)                                                               cACGATAAGAAGCAAAATAAGCCAGTCATTATTGCGACCAAAGAAATCTCGCAGAGGTGCAACAACCGCTTGTTCCAGCGTTTTGGGcac                  >  1:764922/1‑90 (MQ=255)                                                               cACGATAAGAAGCAAAATAAGCCAGTCATTATTGCGACCAAAGAAATCTCGCAGAGGTGCAACAACCGCTTGTTCCAGCGTTTTGGGcac                  >  1:382982/1‑90 (MQ=255)                                                               cACGATAAGAAGCAAAATAAGCCAGTCATTATTGCGACCAAAGAAATCTCGCAGAGGTGCAACAACCGCTTGTTCCAGCGTTTTGGGcac                  >  2:544201/1‑90 (MQ=255)                                                               cACGATAAGAAGCAAAATAAGCCAGTCATTATTGCGACCAAAGAAATCTCGCAGAGGTGCAACAACCGCTTGTTCCAGCGTTTTGGGcac                  <  2:358266/90‑1 (MQ=255)                                                               cACGATAAGAAGCAAAATAAGCCAGTCATTATTGCGACCAAAGAAATCTCGCAGAGGCGCAACAACCGCTTGTTCCAGCGTTTTGGGcac                  >  2:421969/1‑90 (MQ=255)                                                                aCGATAAGAAGCAAAATAAGCCAGTCATTATTGCGACCAAAGAAATCTCGCAGAGGTGCAACAACCGCTTGTTCCAGCGTTTTGGGcaca                 <  1:584050/90‑1 (MQ=255)                                                                   aTAAGAAGCAAAATAAGCCAGTCATTATTGCGACCAAAGAAATCTCGCAGAGGTGCAACAACCGCTTGTTCCAGCGTTTTGGGCACAGGa              >  2:300824/1‑90 (MQ=255)                                                                    tAAGAAGCAAAATAAGCCAGTCATTATTGCGACCAAAGAAATCTCGCAGAGGTGCAACAACCGCTTGTTCCAGCGTTTTGGGCACAGGaa             <  2:341013/90‑1 (MQ=255)                                                                          gCAAAATAAGCCAGTCATTATTGCGACCAAAGAAATCTCGCAGAGGTGCAACAACCGCTTGTTCCAGCGTTTTGGGCACAGGAATGgtgt       <  1:702708/90‑1 (MQ=255)                                                                            aaaaTAAGCCAGTCATTATTGCGACCAAAGAAATCTCGCAGAGGTGCAACAACCGCTTGTTCCAGCGTTTTGGGCACAGGAATGGTGTCg     >  2:154430/1‑90 (MQ=255)                                                                               aTAAGCCAGTCATTATTGCGACCAAAGAAATCTCGCAGAGGTGCAACAACCGCTTGTTCCAGCGTTTTGGGCACAGGAATGGTGTCggtt  <  2:830006/90‑1 (MQ=255)                                                                                  aGCCAGTCATTATTGCGACCAAAGAAATCTCGCAGAGGTGCAACAACCGCTTGTTCCAg                              >  1:816028/1‑59 (MQ=255)                                                                                  aGCCAGTCATTATTGCGACCAAAGAAATCTCGCAGAGGTGCAACAACCGCTTGTTCCAg                              <  2:816028/59‑1 (MQ=255)                                                                                        |                                                                                 ACGCCGCGAATCAAAAACGTGGTTGTCAGGCTCATGGCGAATGCGTCGCCCAGCTTATACAGCACGATAAGAAGCAAAATAAGCCAGGCATTATTGCGACCAAAGAAATCTCGCAGAGGTGCAACAACCGCTTGTTCCAGCGTTTTGGGCACAGGAATGGTGTCGGTT  >  NZ_CP009273/448244‑448411

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑