Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	50,280	T→C	F153S (TTT→TCT)	folA →	type 3 dihydrofolate reductase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	50,280	0	T	C	92.0%	64.7 / ‑0.3	25	F153S (TTT→TCT)	folA	type 3 dihydrofolate reductase
Reads supporting (aligned to +/- strand):  ref base T (1/1);  new base C (6/17);  total (7/18)
Fisher's exact test for biased strand distribution p-value = 4.90e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.39e-01

ATTTCCCGGATTACGAGCCGGATGACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTTTGAGATTCTGGAGCGGCGGTAATTTTGTATAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGCCTTCC  >  NZ_CP009273/50193‑50364                                                                                        |                                                                                     aTTTCCCGGATTACGAGCCGGATGACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTg                                                                                    >  1:22385/1‑90 (MQ=255) aTTTCCCGGATTACGAGCCGGATGACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTg                                                                                    >  2:462176/1‑90 (MQ=255)  tttCCCGGATTACGAGCCGGATGACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTga                                                                                   <  2:81062/90‑1 (MQ=255)            tACGAGCCGGATGACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTTTGAGATTCTGGAg                                                                         >  2:79735/1‑90 (MQ=255)              cGAGCCGGATGACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAgcg                                                                       <  1:560024/90‑1 (MQ=255)                aGCCGGATGACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAgcggc                                                                     <  2:49605/90‑1 (MQ=255)                        gACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAAttt                                                             <  1:473357/90‑1 (MQ=255)                                aTCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTATAGa                                                     <  1:523880/90‑1 (MQ=255)                                       ttCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTATAGAATTTACg                                              >  2:286156/1‑90 (MQ=255)                                               aTTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTATAGAATTTACGGCTAgcgc                                      <  2:278742/90‑1 (MQ=255)                                                           tGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTATAGAATTTACGGCTAGCGCCGGATGCGACGc                          <  1:493400/90‑1 (MQ=255)                                                                cgcAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTATAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTc                     <  2:108645/90‑1 (MQ=255)                                                                 gcAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTATAGAATTTa                                                >  2:182637/1‑62 (MQ=255)                                                                 gcAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTATAGAATTTa                                                <  1:182637/62‑1 (MQ=255)                                                                 gcAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTATAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTcg                    <  2:561242/90‑1 (MQ=255)                                                                     aaCTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTATAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTc                <  2:535297/90‑1 (MQ=255)                                                                     aaCTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTATAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTc                <  1:451176/90‑1 (MQ=255)                                                                         ctcACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTATAGAATTTTCGGCTAACGCCGGATGCGACGCCGGGCGCGTCtttt            >  2:298569/1‑88 (MQ=255)                                                                               gCTATTGCTTTGAGATTCTGGAGCGGCGGTAATTTTGTATAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGcc      <  2:410775/90‑1 (MQ=255)                                                                               gCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTATAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGcc      <  1:375563/90‑1 (MQ=255)                                                                               gCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTATAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGcc      <  1:286156/90‑1 (MQ=255)                                                                                 tATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTG‑‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGCCTTcc  <  1:409805/90‑1 (MQ=38)                                                                                  aTTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTATAGAATTTACGGCTAGCGCCGGATGCGACGCCGGGCGCGTCTTATCCGGCCTTc   >  2:232264/1‑90 (MQ=255)                                                                                   ttGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTATAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGCCTTcc  <  2:122448/90‑1 (MQ=255)                                                                                   ttGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTATAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGCCTTcc  <  1:322270/90‑1 (MQ=255)                                                                                        |                                                                                     ATTTCCCGGATTACGAGCCGGATGACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTTTGAGATTCTGGAGCGGCGGTAATTTTGTATAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGCCTTCC  >  NZ_CP009273/50193‑50364

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑