Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	3,639,274	T→C	V177A (GTC→GCC)	rlmJ →	23S rRNA (adenine(2030)‑N(6))‑methyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	3,639,274	0	T	C	100.0%	126.2 / NA	36	V177A (GTC→GCC)	rlmJ	23S rRNA (adenine(2030)‑N(6))‑methyltransferase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (18/18);  total (18/18)

AGAAAGATAGCCGTGCGCGTGTCGAAAAAGCCGACGGTTTCCAGCAGCTTAAGGCCAAACTG‑CCGCCGGTTTCCCGCCGTGGTTTAATCCTTATCGACCCGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGTCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACTGTGGTATCCGGTGGTGCTGCGTCAGCAAATTAAGCGCATGATCCACGATCTGGAAGCGACCGGTATTCGCAAAATTCTGCAAAT  >  NZ_CP009273/3639139‑3639409                                                                                                                                         |                                                                                                                                        aaaaaaATAGCGGGGCGTGTTGCAAAAACGCCGGCGGTTTCCAGCTCTTTAGGCCCAAACTC‑CCGCGGTTTTCCCGCCGTGGTTTAATCCTTATCGACCCGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAg                                                                                                                                      <  2:303823/137‑1 (MQ=255)          gCCGTGCGCGTGTCGAAAAAGCCGACGGTTTCCAGCAGCTTAAGGCCAAACTG‑CCGCCGGTTTCCCGCCGTGGTTTAATCCTTATCGACCCGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAg                                                                                                                              >  1:357985/1‑138 (MQ=255)           ccGTGCGCGTGTCGAAAAAGCCGACGGTTTCCAGCAGCTTAAGGCCAAACTG‑CCGCCGGTTTCCCGCCGTGGTTTAATCCTTATCGACCCGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAg                                                                                                                              >  1:545043/1‑137 (MQ=255)            ggTGCGCGTGGCAAAAACCCCGGCGTTTCCCAGCACTTTACGGCCAATCGC‑CCGCCGTTTTCCCGCCGTGGTTTAACCCTTACCGGCCCGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAGCAg                                                                                                                           <  2:48196/138‑1 (MQ=255)             gTGCGCGTGTCGAAAAAGCCGACGGTTTCCAGCAGCTTAAGGCCAAACTG‑CCGCCGGTTTCCCGCCGTGGTTTAATCCTTATCGACCCGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAGCAg                                                                                                                           >  1:73123/1‑138 (MQ=255)                                   cgtttcccAGCAGTTTAAGCCAAAACGG‑CCGCCGTTTCCCCGCCGTGGTTTAACCCTTATCGACCCGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACt                                                                                                    <  2:208685/133‑1 (MQ=255)                                                gctAAGGCCAAACCGCCCGCCGGTTCCCCGCCGTGGTTTAATCCTTATCGCCCCGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCa                                                                                        <  2:434515/137‑1 (MQ=255)                                                cTTAAGGCCAAACTG‑CCGCCGGTTTCCCGCCGTGGTTTAATCCTTATCGACCCGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCAc                                                                                       >  2:51710/1‑139 (MQ=255)                                                       ccAAACTG‑CCGCCGGTTTCCCGCCGTGGTTTAATCCTTATCGACCCGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACTGTGGTa                                                                                <  1:307467/139‑1 (MQ=255)                                                           aCTG‑CCGCCGGTTTCCCGCCGTGGTTTAATCCTTATCGACCCGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACTGTGGTATCCg                                                                            >  1:91472/1‑139 (MQ=255)                                                                                     ttAATCCTTATCGACCCGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACTGTGGTATCCGGTGGTGCTGCGTCAGCAAATTAAgc                                                   >  2:400016/1‑139 (MQ=255)                                                                                        aTCCTTATCGACCCGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACTGTGGTATCCGGTGGTGCTGCGTCAGCAAATTAAGCGCa                                                <  1:214489/139‑1 (MQ=255)                                                                                        aTCCTTATCGACCCGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACTGTGGTATCCGGTGGTGCTGCGTCAGCAAATTAAGCGCa                                                <  2:545043/139‑1 (MQ=255)                                                                                        aTCCTTATCGACCCGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACTGTGGTATCCGGTGGTGCTGCGTCAGCAAATTAAGCGCa                                                <  1:371852/139‑1 (MQ=255)                                                                                             tATCGACCCGCCGTATGAAATGAAAACTGACTATCCAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACt                                                                                      >  1:358215/1‑96 (MQ=255)                                                                                             tATCGACCCGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACt                                                                                      <  2:358215/96‑1 (MQ=255)                                                                                              aTCGACCCGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACg                                                                                          >  2:367097/1‑91 (MQ=255)                                                                                              aTCGACCCGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACg                                                                                          <  1:367097/91‑1 (MQ=255)                                                                                              aTCGACCCGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACTGTGGTATCCGGTGGTGCTGCGTCAGCAAATTAAGCGCa                                                >  2:222178/1‑133 (MQ=255)                                                                                              aTCGACCCGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACTGTGGTATCCGGTGGTGCTGCGTCAGCAAATTAAGCGCa                                                <  1:222178/133‑1 (MQ=255)                                                                                              aTCGACCCGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACTGTGGTATCCGGTGGTGCTGCGTCAGCAAATTAAGCGCATGATc                                           >  2:485897/1‑138 (MQ=255)                                                                                              aTCGACCCGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACTGTGGTATCCGGTGGTGCTGCGTCAGCAAATTAAGCGCATGATc                                           >  1:223803/1‑138 (MQ=255)                                                                                              aTCGACCCGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACTGTGGTATCCGGTGGTGCTGCGTCAGCAAATTAAGCGCATGATc                                           >  1:207393/1‑138 (MQ=255)                                                                                               tCGACCCGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACTGTGGTATCCGGTGGTGCTGCGTCAGCAAATTAAGCGCATGATCCa                                         <  2:431811/139‑1 (MQ=255)                                                                                               tCGACCCGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACTGTGGTATCCGGTGGTGCTGCGTCAGCAAATTAAGCGCATGATCCa                                         <  2:75158/139‑1 (MQ=255)                                                                                               tCGACCCGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACTGTGGTATCCGGTGGTGCTGCGTCAGCAAATTAAGCGCATGATCCa                                         <  2:207393/139‑1 (MQ=255)                                                                                                   cccGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACTGTGGTATCCGGTGGTGCTGCGTCAGCAAATTAAGCGCATGATCCa                                         <  1:119724/135‑1 (MQ=255)                                                                                                   cccGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACTGTGGTATCCGGTGGTGCTGCGTCAGCAAATTAAGCGCATGATCCACGAt                                     <  2:360815/139‑1 (MQ=255)                                                                                                   cccGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACTGTGGTATCCGGTGGTGCTGCGTCAGCAAATTAAGCGCATGATCCACGAt                                     >  1:360815/1‑139 (MQ=255)                                                                                                       ccgTATGAAATGAAAACTGACTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACTGTGGTATCCGGTGGTGCTGCGTCAGCAAATTAAGCGCATGATCCACGATCTg                                  >  1:269644/1‑138 (MQ=255)                                                                                                                 tgaaaACTGACTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACTGTGGTATCCGGTGGTGCTGCGTCAGCAAATTAAGCGCa                                                >  2:256307/1‑114 (MQ=255)                                                                                                                 tgaaaACTGACTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACTGTGGTATCCGGTGGTGCTGCGTCAGCAAATTAAGCGCa                                                <  1:256307/114‑1 (MQ=255)                                                                                                                  gaaaACTGACTATCAAGCGGTGGCCAGCGGGATAg                                                                                                                              >  1:442959/1‑35 (MQ=255)                                                                                                                  gaaaACTGACTATCAAGCGGTGGCCAGCGGGATAg                                                                                                                              <  2:442959/35‑1 (MQ=255)                                                                                                                  gaaaACTGACTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACTGTGGTATCCGGTGGTGCTGCGTCAGCAAATTAAGCGCATGATCCACGATCTGGAAGCGACCgg                       >  1:288895/1‑138 (MQ=255)                                                                                                                          aCTATCAAGCGGTGGCCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACTGTGGTATCCGGTGGTGCTGCGTCAGCAAATTAAGCGCATGATCCACGATCTGGAAGCGACCGGTATTCGCa               >  2:254727/1‑138 (MQ=255)                                                                                                                                    ggtggcCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACTGTGGTATCCGGTGGTGCTGCGTCAGCAAATTAAGCGCATGATCCACGATCTGGAAGCGACCGGTATTCGCAAAATTCTGCa     >  1:385716/1‑138 (MQ=255)                                                                                                                                      tggcCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACTGTGGTATCCGGTGGTGCTGCGTCAGCAAATTAAGCGCATGATCCACGATCTGGAAGCGACCGGTATTCGCAAAATTCTGCAAAt  >  2:304653/1‑139 (MQ=255)                                                                                                                                         |                                                                                                                                        AGAAAGATAGCCGTGCGCGTGTCGAAAAAGCCGACGGTTTCCAGCAGCTTAAGGCCAAACTG‑CCGCCGGTTTCCCGCCGTGGTTTAATCCTTATCGACCCGCCGTATGAAATGAAAACTGACTATCAAGCGGTGGTCAGCGGGATAGCAGAAGGTTACAAACGTTTCGCCACTGGTATTTACGCACTGTGGTATCCGGTGGTGCTGCGTCAGCAAATTAAGCGCATGATCCACGATCTGGAAGCGACCGGTATTCGCAAAATTCTGCAAAT  >  NZ_CP009273/3639139‑3639409

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑