Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	2,862,125	A→G	intergenic (‑13/+127)	nlpD ← / ← pcm	murein hydrolase activator NlpD/protein‑L‑isoaspartate O‑methyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	2,862,125	0	A	G	100.0%	165.5 / NA	43	intergenic (‑13/+127)	nlpD/pcm	murein hydrolase activator NlpD/protein‑L‑isoaspartate O‑methyltransferase
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (9/34);  total (9/34)

GCCTGCCAGCCATAGCGAAACCAGTGACAAAGCCGCAATGCGGCGAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGAAAAATTGGTTAATAACCAGTGACATAATTACCGTGCAAGGCACCCTACTGAACACTGGAAAAGATGTTCACGATACGCTGACCTGC  >  NZ_CP009273/2862038‑2862211                                                                                        |                                                                                       gCCTGCCAGCCATAGCGAAACCAGTGACAAAGCCGCAATGCGGCGAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGgaaa                                                                                     >  2:567042/1‑91 (MQ=255) gCCTGCCAGCCATAGCGAAACCAGTGACAAAGCCGCAATGCGGCGAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGgaaa                                                                                     >  1:361349/1‑91 (MQ=255)   cTGCCAGCCATAGCGAAACCAGTGACAAAGCCGCAATGCGGCGAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAAt                                                                                   <  2:282946/91‑1 (MQ=255)      ccagccaTAGCGAAACCAGTGACAAAGCCGCAATGCGGCGAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTg                                                                                 <  1:204213/90‑1 (MQ=255)      ccagccaTAGCGAAACCAGTGACAAAGCCGCAATGCGGCGAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTg                                                                                 >  2:204213/1‑90 (MQ=255)               gCGAAACCAGTGACAAAGCCGCAATGCGGCGAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAAcc                                                                       <  1:290351/91‑1 (MQ=255)               gCGAAACCAGTGACAAAGCCGCAATGCGGCGAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAAcc                                                                       <  1:215386/91‑1 (MQ=255)                   aaCCAGTGACAAAGCCGCAATGCGGCGAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTg                                                                   <  1:34171/91‑1 (MQ=255)                   aaCCAGTGACAAAGCCGCAATGCGGCGAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTg                                                                   <  2:88935/91‑1 (MQ=255)                   aaCCAGTGACAAAGCCGCAATGCGGCGAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTg                                                                   <  1:567042/91‑1 (MQ=255)                   aaCCAGTGACAAAGCCGCAATGCGGCGAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTg                                                                   >  1:512288/1‑91 (MQ=255)                     ccAGTGACAAAGCCGCAATGCGGCGAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGAc                                                                 <  1:848837/91‑1 (MQ=255)                        gTGACAAAGCCGCAATGCGGCGAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATa                                                              <  2:264432/91‑1 (MQ=255)                         tGACAAAGCCGCAATGCGGCGAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATaa                                                             >  2:81100/1‑91 (MQ=255)                           aCAAAGCCGCAATGCGGCGAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAAtt                                                           <  2:186009/91‑1 (MQ=255)                             aaaGCCGCAATGCGGCGAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAATTAc                                                         <  2:646510/91‑1 (MQ=255)                                  cGCAATGCGGCGAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAACTACCGTGc                                                    <  1:269081/91‑1 (MQ=255)                                    cAATGCGGCGAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAATTACCGTGCaa                                                  <  1:715780/91‑1 (MQ=255)                                    cAATGCGGCGAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAATTACCGTGCaa                                                  <  2:707112/91‑1 (MQ=255)                                      aTGCGGCGAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAATTACCGTGCAAgg                                                <  2:271690/91‑1 (MQ=255)                                         cggcgAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAATTACCGTGCAAGGCAc                                             <  2:534539/91‑1 (MQ=255)                                         cggcgAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAATTACCGTGCAAGGCAc                                             <  2:445153/91‑1 (MQ=255)                                         cggcgAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAATTACCGTGCAAGGCAc                                             <  1:107675/91‑1 (MQ=255)                                         cggcgAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAATTACCGTGCAAGGCAc                                             <  2:755798/91‑1 (MQ=255)                                         cggcgAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAATTACCGTGCAAGGCAc                                             <  2:780734/91‑1 (MQ=255)                                         cggcgAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAATTACCGTGCAAGGCAc                                             <  1:227682/91‑1 (MQ=255)                                         cggcgAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAATTACCGTGCAAGGCAc                                             <  2:134356/91‑1 (MQ=255)                                         cggcgAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAATTACCGTGCAAGGCAc                                             <  1:717611/91‑1 (MQ=255)                                         cggcgAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAATTACCGTGCAAGGCAc                                             <  1:668863/91‑1 (MQ=255)                                         cggcgAACAGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAATTTCCGTGCAAGGCAc                                             <  2:247396/91‑1 (MQ=255)                                          ggcgAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAATTACCGTGCAAGGCAcc                                            >  2:80210/1‑91 (MQ=255)                                          ggcgAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAATTACCGTGCAAGGCAcc                                            >  2:462914/1‑91 (MQ=255)                                             gAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAATTACCGTGCAAGGCACCCTa                                         >  1:769226/1‑91 (MQ=255)                                                 ggTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAATTACCGTGCAAGGCACCCTACTGa                                     <  2:367825/91‑1 (MQ=255)                                                           gggCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAATTACCGTGCAAGGCACCCTACTGAACACTGGaaa                           <  2:512288/91‑1 (MQ=255)                                                           gggCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAATTACCGTGCAAGGCACCCTACTGAACACTGGaaa                           <  2:395070/91‑1 (MQ=255)                                                             gCTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAATTACCGTGCAAGGCACCCTACTGAACACTGGAAAAg                         <  1:542087/91‑1 (MQ=255)                                                              cTTCCCGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAATTACCGTGCAAGGCACCCTACTGAACACTGGAAAAGa                        >  2:597057/1‑91 (MQ=255)                                                                 cccGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAATTACCGTGCAAGGCACCCTACTGAACACTGGAAAAGATGt                     <  2:249620/91‑1 (MQ=255)                                                                  ccGCGCTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAATTACCGTGCAAGGCACCCTACTGAACACTGGAAAAGATGtt                    <  1:434423/91‑1 (MQ=255)                                                                       cTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAATTACCGTGCAAGGCACCCTACTGAACACTGGAAAAGATGTTCACGa               <  1:462914/91‑1 (MQ=255)                                                                       cTCATTTATCCCCCAGGGAAAATTGGTTAATAACCAGTGACATAATTACCGTGCAAGGCACCCTACTGAACACTGGAAAAGATGTTCACGa               <  2:790117/91‑1 (MQ=255)                                                                                   ccAGGGAAAATTGGTTAATAACCAGTGACATAATTAc                                                         <  2:381028/37‑1 (MQ=38)                                                                                   ccAGGGAAAATTGGTTAATAACCAGTGACATAATTAc                                                         >  1:381028/1‑37 (MQ=38)                                                                                    cAGGGAAAATTGGTTAATAACCAGTGACATAATTACCGTGCAAGGCACCCTACTGAACACTGGAAAAGATGTTCACGATACGCTGACCTGc  >  1:590153/1‑91 (MQ=255)                                                                                        |                                                                                       GCCTGCCAGCCATAGCGAAACCAGTGACAAAGCCGCAATGCGGCGAACGGTGAATTTTGGGCTTCCCGCGCTCATTTATCCCCCAGGAAAAATTGGTTAATAACCAGTGACATAATTACCGTGCAAGGCACCCTACTGAACACTGGAAAAGATGTTCACGATACGCTGACCTGC  >  NZ_CP009273/2862038‑2862211

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑