Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,887,189	T→C	L121P (CTT→CCT)	mnmE →	5‑carboxymethylaminomethyluridine‑tRNA synthase GTPase subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,887,189	0	T	C	100.0%	78.5 / NA	23	L121P (CTT→CCT)	mnmE	5‑carboxymethylaminomethyluridine‑tRNA synthase GTPase subunit
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (12/11);  total (12/11)

AGATGTGCTGGAACTGCAAGGTCATGGCGGTCCGGTGATCCTCGACCTGCTGTTAAAACGCATTCTGACCATTCCCGGCCTGCGGATTGCTCGCCCTGGTGAGTTTTCCGAACGCGCGTTTCTTAACGATAAACTTGACTTAGCCCAGGCCGAGGCGATTGCCGATCTTATCGACGCCAGTTCGGAACAGGCGGCCCGTTCGGCACTTAACTCGCTGCAAGGCGCATTCTCCGCACGGGTTAATCATCTGGTAGAAGCCCTCACCCACT  >  NC_000913/3887055‑3887323                                                                                                                                       |                                                                                                                                       aGATGTGCTGGAACTGCAAGGTCATGGCGGTCCGGTGATCCTCGACCTGCTGTTAAAACGCATTCTGACCATTCCCGGCCTGCGGATTGCTCGCCCTGGTGAGTTTTCCGAACGCGCGTTTCTTAACGATAAACCTGACt                                                                                                                                   <  2:219626/140‑1 (MQ=255)             aCTGCAAGGTCATGGCGGTCCGGTGATCCTCGACCTGCTGTTAAAACGCATTCTGACCATTCCCGGCCTGCGGATTGCTCGCCCTGGTGAGTTTTCCGAACGCGCGTTTCTTAACGATAAACCTGACTTAGCCCAGGCCg                                                                                                                       >  1:246824/1‑140 (MQ=255)                            cGGTCCGGTGATCCTCGACCTGCTGTTAAAACGCATTCTGACCATTCCCGGCCTGCGGATTGCTCGCCCTGGTGAGTTTTCCGAACGCGCGTTTCTTAACGATAAACCTGACTTAGCCCAGGCCGAGGCGATTGCCGATc                                                                                                        <  2:456628/140‑1 (MQ=255)                                ccGGTGATCCTCGACCTGCTGTTAAAACGCATTCTGACCATTCCCGGCCTGCGGATTGCTCGCCCTGGTGAGTTTTCCGAACGCGCGTTTCTTAACGATAAACCTGACTTAGCCCAGGCCGAGGCGATTGCCGATCTTAt                                                                                                    >  2:436588/1‑140 (MQ=255)                                             aCCTGCTGTTAAAACGCATTCTGACCATTCCCGGCCTGCGGGTTGCTCGCCCTGGTGAGTTTTCCGAACGCGCGTTTCTTAACGATAAACCTGACTTAGCCCAGGCCGAGGCGATTGCCGATCTTATCGACGCCAGTTCg                                                                                       <  1:228643/140‑1 (MQ=255)                                             aCCTGCTGTTAAAACGCATTCTGACCATTCCCGGCCTGCGGATTGCTCGCCCTGGTGAGTTTTCCGAACGCGCGTTTCTTAACGATAAACCTGACTTAGTCCAGGCCGAGGCGATTGCCGATCTTATCGACGCCAGTTCg                                                                                       <  1:426251/140‑1 (MQ=255)                                                        aaaCGCATTCTGACCATTCCCGGCCTGCGGATTGCTCGCCCTGGTGAGTTTTCCGAACGCGCGTTTCTTAACGATAAACCTGACTTAGCCCAGGCCGAGGCGATTGCCGATCTTATCGACGCCAGTTCGGAACAggcggc                                                                            >  2:456740/1‑140 (MQ=255)                                                                  tGACCATTCCCGGCCTGCGGATTGCTCGCCCTGGTGAGTTTTCCGAACGCGCGTTTCTTAACGATAAACCTGACTTAGCCCAGGCCGAGGCGATTGCCGATCTTATCGACGCCAGTTCGGAACAGGCGGCCCGTTCGGCa                                                                  >  2:484768/1‑140 (MQ=255)                                                                                   cGGATTGCTCGCCCTGGTGAGTTTTCCGAACGCGCGTTTCTTAACGATAAACCTGACTTAGCCCAGGCCGAGGCGATTGCCGATCTTATCGACGCCAGTTCGGAACAGGCGGCCCGTTCGGCACTTAACTCGCTGCAAgg                                                 >  2:73661/1‑140 (MQ=255)                                                                                   cGGATTGCTCGCCCTGGTGAGTTTTCCGAACGCGCGTTTCTTAACGATAAACCTGACTTAGCCCAGGCCGAGGCGATTGCCGATCTTATCGACGCCAGTTCGGAACAGGCGGCCCGTTCGGCACTTAACTCGCTGCAAgg                                                 >  2:329470/1‑140 (MQ=255)                                                                                   cGGATTGCTCGCCCTGGTGAGTTTTCCGAACGCGCGTTTCTTAACGATAAACCTGACTTAGCCCAGGCCGAGGCGATTGCCGATCTTATCGACGCCAGTTCGGAACAGGCGGCCCGTTCGGCACTTAACTCGCTGCAAgg                                                 >  1:15477/1‑140 (MQ=255)                                                                                         gCTCGCCCTGGTGAGTTTTCCGAACGCGCGTTTCTTAACGATAAACCTGACTTAGCCCAGGCCGAGGCGATTGCCGATCTTATCGACGCCAGTTCGGAACAGGCGGCCCGTTCGGCACTTAACTCGCTGCAAGGCGCAtt                                           <  2:246824/140‑1 (MQ=255)                                                                                          cTCGCCCTGGTGAGTTTTCCGAACGCGCGTTTCTTAACGATAAACCTGACTTAGCCCAGGCCGAGGCGATTGCCGATCTTATCGACGCCAGTTCGGAACAGGCGGCCCGTTCGGCACTTAACTCGCTGCAAGGCGCATtc                                          >  1:392382/1‑140 (MQ=255)                                                                                               ccTGGTGAGTTTTCCGAACGCGCGTTTCTTAACGATAAACCTGACTTAGCCCAGGCCGAGGCGATTGCCGATCTTATCGACGCCAGTTCGGAACAGGCGGCCCGTTCGGCACTTAACTCGCTGCAAGGCGCATTCTCCGc                                     >  2:438395/1‑140 (MQ=255)                                                                                                cTGGTGAGTTTTCCGAACGCGCGTTTCTTAACGATAAACCTGACTTAGCCCAGGCCGAGGCGATTGCCGATCTTATCGACGCCAGTTCGGAACAGGCGGCCCGTTCGGCACTTAACTCGCTGCAAGGCGCATTCTCCGCa                                    <  1:73661/140‑1 (MQ=255)                                                                                                  ggTGAGTTTTCCGAACGCGCGTTTCTTAACGATAAACCTGACTTAGCCCAGGCCGAGGCGATTGCCGATCTTATCGACGCCAGTTCGGAACAGGCGGCCCGTTCGGCACTTAACTCGCTGCAAGGCGCATTCTCCGCACg                                  <  1:456740/140‑1 (MQ=255)                                                                                                             cGAACGCGCGTTTCTTAACGATAAACCTGACTTAGCCCAGGCCGAGGCGATTGCCGATCTTATCGACGCCAGTTCGGAACAGGCGGCCCGTTCGGCACTTAACTCGCTGCAAGGCGCATTCTCCGCACGGGTTAatcatc                       <  1:438395/140‑1 (MQ=255)                                                                                                             cGAACGCGCGTTTCTTAACGATAAACCTGACTTAGCCCAGGCCGAGGCGATTGCCGATCTTATCGACGCCAGTTCGGAACAGGCGGCCCGTTCGGCACTTAACTCGCTGCAAGGCGCATTCTCCGCACGGGTTAatcatc                       >  1:91134/1‑140 (MQ=255)                                                                                                             cGAACGCGCGTTTCTTAACGATAAACCTGACTTAGCCCAGGCCGAGGCGATTGCCGATCTTATCGACGCCAGTTCGGAACAGGCGGCCCGTTCGGCACTTAACTCGCTGCAAGGCGCATTCTCCGCACGGGTTAatcatc                       <  1:30661/140‑1 (MQ=255)                                                                                                             cGAACGCGCGTTTCTTAACGATAAACCTGACTTAGCCCAGGCCAAGGCGATTGCCGATCTTATCGACGCCAGTTCGGAACAGGCGGCCCGTTCGGCACTTAACTCGCTGCAAGGCGCATTCTCCGCACGGGTTAatcatc                       >  2:258512/1‑140 (MQ=255)                                                                                                                   cgcgTTTCTTAACGATAAACCTGACTTAGCCCAGGCCGAGGCGATTGCCGATCTTATCGACGCCAGTTCGGAACAGGCGGCCCGTTCGGCACTTAACTCGCTGCAAGGCGCATTCTCCGCACGGGTTAATCATCTGGTAg                 <  2:294150/140‑1 (MQ=255)                                                                                                                   cgcgTTTCTTAACGATAAACCTGACTTAGCCCAGGCCGAGGCGATTGCCGATCTTATCGACGCCAGTTCGGAACAGGCGGCCCGTTCGGCACTTAACTCGCTGCAAGGCGCATTCTCCGCACGGGTTAATCATCTGGTAg                 <  1:436588/140‑1 (MQ=255)                                                                                                                                  tAAACCTGACTTAGCCCAGGCCGAGGCGATTGCCGATCTTATCGACGCCAGTTCGGAACAGGCGGCCCGTTCGGCACTTAACTCGCTGCAAGGCGCATTCTCCGCACGGGTTAATCATCTGGTAGAAGCCCTCACCCACt  >  2:326254/1‑140 (MQ=255)                                                                                                                                       |                                                                                                                                       AGATGTGCTGGAACTGCAAGGTCATGGCGGTCCGGTGATCCTCGACCTGCTGTTAAAACGCATTCTGACCATTCCCGGCCTGCGGATTGCTCGCCCTGGTGAGTTTTCCGAACGCGCGTTTCTTAACGATAAACTTGACTTAGCCCAGGCCGAGGCGATTGCCGATCTTATCGACGCCAGTTCGGAACAGGCGGCCCGTTCGGCACTTAACTCGCTGCAAGGCGCATTCTCCGCACGGGTTAATCATCTGGTAGAAGCCCTCACCCACT  >  NC_000913/3887055‑3887323

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑