Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,301,992	A→T	N271Y (AAT→TAT)	oppA →	oligopeptide ABC transporter periplasmic binding protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,301,992	0	A	T	100.0%	74.1 / NA	22	N271Y (AAT→TAT)	oppA	oligopeptide ABC transporter periplasmic binding protein
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base T (14/8);  total (14/8)

TGCCAAAAGCCGCTATCGAGAAATTCGGCGAAAAATGGACCCAGCCTGGTAATATCGTCACCAACGGTGCCTATACCTTAAAAGATTGGGTCGTAAACGAACGAATCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACCAGGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAGTGGTGAAATCGACATGACGAATAACAGCATGCCGATCGAATTGTTCCAGAAGCTGAAAAAAGAGATCCCGGACGAAGTTCACGTTGATCCATACC‑TGTGCACTTACTATTACGAAATTAACA‑ACCAGAAACCGCCATTCAACGATGTGCGTGTGCGTACCGCACTGAAACTAGGTATGGACCGCGATATCATTGTTAATAAAGTGAAAGCGCAGGGCAACATGCCCGCCTATGGT‑TACACTCCACCGTATACTGATGGCGCAAAAT  >  NC_000913/1301759‑1302238                                                                                                                                                                                                                                          |                                                                                                                                                                                                                                                          tgccaacaatcgatATCAAGAAATTAGGCGTAAACTGGACTCAGCCTGGTCATATCGTAACCCACGGTGCCTATACCTTAACAGATTGGGTCGTAAACGAACAAATAGTTCTTGAACGCAGCCCGACCTAATGGAACAACGCGAAAACCGTTCTTAACCAGGTAACCTATTTGCCTATTGCTTCTGAAGTTACCAATGTCAACCGCTACCCTAGTGGTGAAATCGACATGACGTATAACAGCATGCCGATc                                                                                                                                                                                                                                          >  2:262425/14‑251 (MQ=255)       aaGCCGCTATCGAGAAATTCGGCGAAAAATGGACCCAGCCTGGTAATATCGTCACCAACGGTGCCTATACCTTAAAAGATTGGGTCGTAAACGAACGAATCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACCAGGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAGTGGTGAAATCGACATGACGTATAACAGCATGCCGATCGAATTg                                                                                                                                                                                                                                    <  2:18376/251‑1 (MQ=255)                           ggCGAAAAATGGACCCAGCCTGGTAATATCGTCACCAACGGTGCCTATACCTTAAAAGATTGGGTCGTAAACGAACGAATCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACCAGGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCTCTACCGTAGTGGTGAAATCGACATGACGTATAACAGCATGCCGATCGAATTGTTCCAGAAGCTGAATAAaga                                                                                                                                                                                                                <  1:88375/251‑1 (MQ=255)                                         ccAGCCTGGTAATATCGTCACCAACGGTGCCTATACCTTAAAAGATTGGGTCGTAAACGAACGAATCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACCAGGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAGTGGTGAAATCGACATGACGTATAACAGCATGCCGATCGAATTGTTCCAGAAGCTGAAAAAAGAGATCCCGGACGAAg                                                                                                                                                                                                  <  1:87991/251‑1 (MQ=255)                                                     tatCGTCACCAACGGTGCCTATACCTTAAAAGATTGGGTCGTAAACGAACGAATCGTTCTTGAACGCAGCCAGACCTACTGGAACAACGCGAAAACCGTTATTAACCAGGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAGTGGTGAAATCGACATGACGTATAACAGCATGCCGATCGAATTGTTCCAGAAGCTGAAAAAAGAGATCCCGGACGAAGTTCACGTTGATc                                                                                                                                                                                      >  1:168009/1‑251 (MQ=255)                                                      atCGTCACCAACGGTGCCTATACCTTAAAAGATTGGGTCGTAAACGAACGAATCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACCAGGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAGTGGTGAAATCGACATGACGTATAACAGCATGCCGATCGAATTGTTCCAGAAGCTGAAAAAAGAGATCCCGGACGAAGTTCACGTTGATc                                                                                                                                                                                      <  2:22840/250‑1 (MQ=255)                                                                                     aTTGGGTCGTAAACGAACGAATCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACCAGGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAGTGGTGAAATCGACATGACGTATAACAGCATGCCGATCGAATTGTTCCAGAAGCTGAAAAAAGAGATCCCGGACGAAGTTCACGTTGATCCATACC‑TGTGCACTTACTATTACGAAATTaac                                                                                                                                                     <  1:75121/251‑1 (MQ=255)                                                                                         ggTCGTAAACGAACGAATCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACCAGGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAGTGGTGAAATCGACATGACGTATAACAGCATGCCGATCGAATTGTTCCAGAAGCTGAAAAAAGAGATCCCGGACGAAGTTCACGTTGATCCATACC‑TGTGCACTTACTATTACGAAATTAACA‑Acc                                                                                                                                                >  1:4284/1‑251 (MQ=255)                                                                                                     acgaaTCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACCAGGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAGTGGTGAAATCGACATGACGTATAACAGCATGCCGATCGAATTGTTCCAGAAGCTGAAAAAAGAGATCCCGGACGAAGTTCACGTTGATCCATACC‑TGTGCACTTACTATTACGAAATTAACA‑ACCAGAAACCGCCAt                                                                                                                                    >  1:15702/1‑251 (MQ=255)                                                                                                                                               gacaaCCGTTATTAACTAGGTAACCTATTTGCCTATTGCTTCTGAAGATACAGATGTCAACCGCCACCGTAGTGGTGAAATCGACATGACGTATAACAGCCTGCCGATCGAATTGTTCCAGAAGCTGAAAAAAGAGATCCCGGACGAAGTTCACGTTTATCCATACC‑TGTGCAATTCCTATTACGAAATTAACA‑ACCAGAAACCGACATTCAACGATGTGCGTGTGCGTCCCGCACTGAAACTAGGTATgg                                                                                          >  2:162522/4‑251 (MQ=255)                                                                                                                                                  aaCCGTTATTAACCAGGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAGTGGTGAAATCGACATGACGTATAACAGCATGCCGATCGAATTGTTCCAGAAGCTGAAAAAAGAGATCCCGGACGAAGTTCACGTTGATCCATACC‑TGTGCACTTACTATTACGAAATTAACA‑ACCAGAAACCGCCATTCAACGATGTGCGTGTGCGTACCGCACTGAAACTAGGTATGGAcc                                                                                       >  1:122971/1‑251 (MQ=255)                                                                                                                                                       ttattaACCAGGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAGTGGTGAAATCGACATGACGTATAACAGCATGCCGATCGAATTGTTCCAGAAGCTGAAAAAAGAGATCCCGGACGAAGTTCACGTTGATCCATACC‑TGTGCACTTACTATTACGAAATTAACA‑ACCAGAAACCGCCATTCAACGATGTGCGTGTGCGTACCGCACTGAAACTAGGTATGGACCGCGat                                                                                  >  1:201993/1‑251 (MQ=255)                                                                                                                                                           taACCAGGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAGTGGTGAAATCGACATGACGTATAACAGCATGCCGATCGAATTGTTCCAGAAGCTGAAAAAAGAGATCCCGGACGAAGTTCACGTTGATCCATACC‑TGTGCACTTACTATTACGAAATTAACA‑ACCAGAAACCGCCATTCAACGATGTGCGTGTGCGTACCGCACTGAAACTAGGTATGGACCGCGATATc                                                                               <  1:134534/250‑1 (MQ=255)                                                                                                                                                                        tATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAGTGGTGAAATCGACATGACGTATAACAGCATGCCGATCGAATTGTTCCAGAAGCTGAAAAAAGAGATCCCGGACGAAGTTCACGTTGATCCATACC‑TGTGCACTTACTATTACGAAATTAACA‑ACCAGAAACCGCCATTCAACGATGTGCGTGTGCGTACCGCACTGAAACTAGGTATGGACCGCGATATCATTGTTAATAAAGt                                                                 >  2:211516/1‑251 (MQ=255)                                                                                                                                                                         aTTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGACGTGGAGAACTCGACATGACGTATAACAGCATGCCGATCGAATTGTTCCAGAAGCTGAAAAAAGAGATCCCGGACGAAGTTCACGTTGATCCATACC‑TGTGCACTTACTATTACGAAATTAACA‑ACCAGAAACCGCCATTCAACGATGTGCGTGTGCGTACCGCACTGAAACTAGGTATGGACCGCGATATCATTGTTAATAACGTg                                                                >  1:276913/1‑251 (MQ=255)                                                                                                                                                                                     ctcctaaaGTTCCCGATGTCAAACGCTCCAGTAGTGGTGAAATCGACATGACGTATAACAGCATGACGATCGACTTGTTACAGACGCTGAAAAAAGAGATCCCGGACGAAGTTCACGTTGATCCATACC‑TGTGCACTTACTATTACGAACTTAACA‑GCCAGAACCCGACATTCAACGATGTGCGTGCGTTTACCGCACTGAACCTCGGTATGGACCGCGATCTCATTGTTAATAACGTAACAGCGAAGGGc                                                    >  2:233521/7‑251 (MQ=255)                                                                                                                                                                                      ttCTGAAGTTACCAATGTCAACCGCTACCGTAGTGGTGAAATCGACATGACGTATAACAGCATGCCGATCGAATTGTTCCAGAAGCTGAAAAAAGAGATCCCGGACGAAGTTCACGTTGATCCATACC‑TGTGCACTTACTATTACGAAATTAACA‑ACCAGAAACCGCCATTCAACGATGTGCGTGTGCGTACCGCACTGAAACTAGGTATGGACCGCGATATCATTGTTAATAAAGTGAAAGCGCAggga                                                    >  1:185936/1‑249 (MQ=255)                                                                                                                                                                                        cTGAAGTTACCGATGTCAACCGCTACCGTAGTGGTGAAATCGACATGACGTATAACAGCATGCCGATCGAATTGTTCCAGAAGCTGAAAAAAGAGATCCCGGACGAAGTTCACGTTGATCCATACC‑TGTGCACTTACTATTACGAAATTAACA‑ACCAGAAACCGCCATTCAACGATGTGCGTGTGCGTACCGCACTGAAACTAGGTATGGACCGCGATATCATTGTTAATAAAGTGAAAGCGCAGGGCAAc                                                 >  1:55842/1‑251 (MQ=255)                                                                                                                                                                                         ggaagttcgcGATGACAACCGCTACCGTAGTGGTGAAATCGACATGACATATAACAGCAGGCCGCTCGAATTGTTCCAGAAGCTGAAAAAAGAGATCCCGGACGAATTCCACTTGGGTCCATCCC‑TATGCACTTACTATTACGAAATTA‑CAGACCAGAAACCGCCATCCAACGATGTGCGTGTGCTTACCGCACTGAAACTAGGTATGGACAGCGATATCATTGTTAATAAAGTGAAAGCGCAGGGCAACa                                                <  2:45119/242‑1 (MQ=255)                                                                                                                                                                                                                   gTAGTGGAGAAATCGACATGACGTATAACAGCATGCCGATCGAATTGTTCCAGAAGCTGAAAAAAGAGATCCCGGACGAAGTTCACGTTGATCC‑TACCCTGTGCACTTACTATTACGAAATTAACA‑ACCAAAAACCGCCATTCAACGATGTGCGTGTGCGTACCGCACTGAAACTAGGTATGGACCGCGATATCATTGTTAATAAAGTGAAAGCGCAGGGCAACATGCCCGTCTA‑GGTATACACTCCACCg                     <  2:31358/251‑1 (MQ=255)                                                                                                                                                                                                                                  aCATGCCGTATAACAGCATGCCGATCGAATTGTTCCAGAAGCTGAAAAAAGAGATCCCGGACGACGTTCACGTTGATCCATACC‑TGTGCACTTACTATTACGAAATTAACA‑ACCAGAAACCGCCATTCAACGATGTGCGTGTGCGTACCGCACTGAAACTAGGTATGGACCGCGATATCATTGTTAATAAAGTGAAAGCGCAGGGCAACATGCCCGCCTA‑GGTATACACTCCACCGTATACTGATGgcgc       >  2:167204/1‑250 (MQ=255)                                                                                                                                                                                                                                      gACGTATAACAGCATGCCGATCGAATTGTTCCAGAAGCTGAAAAAAGAGATCCCGGACGAAGTTCACGTTGATCCATACC‑TGTGCACTTACTATTACGAAATTAACA‑ACCAGAAACCGCCATTCAACGATGTGCGTGTGCGTACCGCACTGAAACTAGGTATGGACCGCGATATCATTGTTAATAAAGTGAAAGCGCAGGGCAACATGCCCGCCTA‑GGTATACACTCCACCGTATACTGATGGCGCAAAAt  >  1:102638/1‑251 (MQ=255)                                                                                                                                                                                                                                          |                                                                                                                                                                                                                                                          TGCCAAAAGCCGCTATCGAGAAATTCGGCGAAAAATGGACCCAGCCTGGTAATATCGTCACCAACGGTGCCTATACCTTAAAAGATTGGGTCGTAAACGAACGAATCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACCAGGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAGTGGTGAAATCGACATGACGAATAACAGCATGCCGATCGAATTGTTCCAGAAGCTGAAAAAAGAGATCCCGGACGAAGTTCACGTTGATCCATACC‑TGTGCACTTACTATTACGAAATTAACA‑ACCAGAAACCGCCATTCAACGATGTGCGTGTGCGTACCGCACTGAAACTAGGTATGGACCGCGATATCATTGTTAATAAAGTGAAAGCGCAGGGCAACATGCCCGCCTATGGT‑TACACTCCACCGTATACTGATGGCGCAAAAT  >  NC_000913/1301759‑1302238

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑