Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,596,819	G→A	P248S (CCG→TCG)	livK ←	L‑leucine/L‑phenylalanine ABC transporter periplasmic binding protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,596,819	0	G	A	100.0%	142.6 / NA	41	P248S (CCG→TCG)	livK	L‑leucine/L‑phenylalanine ABC transporter periplasmic binding protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (28/13);  total (28/13)

CTTGTCTGCTTTCAGCGCATCAACGATGCCCTGGTTTGCCGGATCCTGGTCATAGCGTTTTGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGGCCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGGCGCAGCATCTGCCCCATTTCCGGGTAGTAACCGCCGTAGTAAACGAAGTCGATGTTTTCTTTTTTCAGGCGGGCGATCAGCGCGGAGAAATCTTTC  >  NC_000913/3596685‑3596955                                                                                                                                       |                                                                                                                                          cttGTCTGCTTTCAGCGCATCAACGATGCCCTGGTTTGCCGGATCCTGGTCATAGCGTTTTGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCa                                                                                                                                      >  1:697424/1‑140 (MQ=255)     tCTGCTTTCAGCGCATCAACGATGCCCTGGTTTGCCGGATCCTGGTCATAGCGTTTTGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATaaa                                                                                                                                  >  2:213533/1‑140 (MQ=255)     tCTGCTTTCAGCGCATCAACGATGCCCTGGTTTGCCGGATCCTGGTCATAGCGTTTTGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATaaa                                                                                                                                  >  1:226321/1‑140 (MQ=255)        gCTTTCAGCGCATCAACGATGCCCTGGTTTGCCGGATCCTGGTCATAGCGTTTTGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTg                                                                                                                               >  1:759440/1‑140 (MQ=255)         cTTTCAGCGCATCAACGATGCCCTGGTTTGCCGGATCCTGGTCATAGCGTTTTGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTgg                                                                                                                              <  2:422994/140‑1 (MQ=255)         cTTTCAGCGCATCAACGATGCCCTGGTTTGCCGGATCCTGGTCATAGCGTTTTGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTgg                                                                                                                              >  2:406935/1‑140 (MQ=255)              aGCGCATCAACGATGCCCTGGTTTGCCGGATCCTGGTCATAGCGTTTTGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTGGGtttt                                                                                                                         <  1:623362/140‑1 (MQ=255)                       aCGATGCCCTGGTTTGCCGGATCCTGGTCATAGCGTTTTGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCaac                                                                                                                <  2:697424/140‑1 (MQ=255)                        cGATGCCCTGGTTTGCCGGATCCTGGTCATAGCGTTTTGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCaa                                                                                                                 <  1:1001496/138‑1 (MQ=255)                        cGATGCCCTGGTTTGCCGGATCCTGGTCATAGCGTTTTGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATGACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCaa                                                                                                                 >  2:1001496/1‑138 (MQ=255)                           tGCCCTGGTTTGCCGGATCCTGGTCATAGCGTTTTGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCaacggaa                                                                                                            <  2:419440/140‑1 (MQ=255)                            gCCCTGGTTTGCCGGATCCTGGTCATAGCGTTTTGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCaacggaac                                                                                                           <  1:278/140‑1 (MQ=255)                                 ggTTTGCCGGATCCTGGTCATAGCGTTTTGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGcc                                                                                                      <  2:759440/140‑1 (MQ=255)                                 ggTTTGCCGGATCCTGGTCATAGCGTTTTGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGcc                                                                                                      >  1:548781/1‑140 (MQ=255)                                 ggTTTGCCGGATCCTGGTCATAGCGTTTTGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGcc                                                                                                      <  2:800682/140‑1 (MQ=255)                                       ccGGATCCTGGTCATAGCGTTTTGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGgcgc                                                                                               <  1:406935/140‑1 (MQ=255)                                       ccGGATCCTGGTCATAGCGTTTTGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGgcgc                                                                                               >  1:365843/1‑140 (MQ=255)                                                  tCATAGCGTTTTGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGGCGCAGCATCTGccc                                                                                    <  2:548781/140‑1 (MQ=255)                                                      agtgTTTTGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGGCGCAGCATCTGCCCCAtt                                                                                >  2:938770/4‑140 (MQ=255)                                                      aGCGTTTTGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGGCGCAGCATCTGCCCCAtt                                                                                >  2:61542/1‑140 (MQ=255)                                                      aGCGTTTTGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGGCGCAGCATCTGCCCCAtt                                                                                >  1:122444/1‑140 (MQ=255)                                                      aGCGTTTTGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGGCGCAGCATCTGCCCCAtt                                                                                >  1:949774/1‑140 (MQ=255)                                                      aGCGTTTTGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGGCGCAGCATCTGCCCCAtt                                                                                >  2:922087/1‑140 (MQ=255)                                                         gTTTTGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGGCGCAGCATCTGCCCCATTTcc                                                                             <  2:122444/140‑1 (MQ=255)                                                           tttGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGGCGCAGCATCTGccc                                                                                    <  2:128509/131‑1 (MQ=255)                                                           tttGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGGCGCAGCATCTGccc                                                                                    >  1:128509/1‑131 (MQ=255)                                                           tttGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGGCGCAGCATCTGCCCCa                                                                                  <  2:255425/133‑1 (MQ=255)                                                           tttGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGGCGCAGCATCTGCCCCa                                                                                  >  1:255425/1‑133 (MQ=255)                                                                     tGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGGCGCAGCATCTGCCCCATTTCCGGGTAGTAAccg                                                                 >  2:134162/1‑140 (MQ=255)                                                                       aCCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGGCGCAGCATCTGCCCCATTTCCGGGTAGTAAccgcc                                                               >  2:891891/1‑140 (MQ=255)                                                                               gCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGGCGCAGCATCTGCCCCATTTCCGGGTAGTAACCGCCGTAGTaaa                                                       >  1:327758/1‑140 (MQ=255)                                                                                                        ttCGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGGCGCAGCATCTGCCCCATTTCCGGGTAGTAACCGCCGTAGTAAACGAAGTCGATGTTTTCTTTTTTCAg                              >  1:825962/1‑140 (MQ=255)                                                                                                          cGACAACGCCGCTTCCCCCCCCCCTCCCGCCCCAAAAAACTGGTTTTTCAGGCCAAGGGAACGGGCC‑GGGCGCAGCCTCTGCCCCATTTCGGGGTAGAAACCGCCGTAGTAAACGAAGTCGATGTTTTCTTTTTTCAggc                            <  2:460264/140‑1 (MQ=25)                                                                                                          cGACAACGACGCATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGGCGCAGCATCTGCCCCATTTCCGGGTAGTAACCGCCGTAGTAAACGAAGTCGATGTTTTCTTTTTTCAggc                            >  2:111442/1‑140 (MQ=255)                                                                                                                 ggcgCTTTCCCCCCCCCTCCCGCCCCCAAAAGCGGGTTTTTCAGTCCAA‑GGGACGGGCCGGGGCGCAACAGCTCCCCTTTTGCCGGGTAGTACCCGCCGTAGTAAACGAAGTCGATGTTTTCTTTTTTCAGGCGGGCGAt                     <  2:969317/138‑1 (MQ=255)                                                                                                                  acgCATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGGCGCAGCATCTGCCCCATTTCCGGGTAGTAACCGCCGTAGTAAACGAAGTCGATGTTTTCTTTTTTCAGGCGGGCGATc                    >  1:258684/1‑140 (MQ=255)                                                                                                                  acgCATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGGCGCAGCATCTGCCCCATTTCCGGGTAGTAACCGCCGTAGTAAACGAAGTCGATGTTTTCTTTTTTCAGGCGGGCGATc                    >  1:163973/1‑140 (MQ=255)                                                                                                                     cATTACCCACACCTTCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGGCGCAGCATCTGCCCCATTTCCGGGTAGTAACCGCCGTAGTAAACGAAGTCGATGTTTTCTTTTTTCAGGCGGGCGATCAgc                 >  2:614400/1‑140 (MQ=255)                                                                                                                                 cTTCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGGCGCAGCATCTGCCCCATTTCCGGGTAGTAACCGCCGTAGTAAACGAAGTCGATGTTTTCTTTTTTCAGGCGGGCGATCAGCGCGGAGAAATCt     >  1:1011278/1‑140 (MQ=255)                                                                                                                                  ttCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGGCGCAGCATCTGCCCCATTTCCGGGTAGTAACCGCCGTAGTAAACGAAGTCGATGTTTTCTTTTTTCAGGCGGGCGATCAGCGCGGAGAAATCtt    >  1:584874/1‑140 (MQ=255)                                                                                                                                  ttCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGGCGCAGCATCTGCCCCATTTCCGGGTAGTAACCGCCGTAGTAAACGAAGTCGATGTTTTCTTTTTTCAGGCGGGCGATCAGCGCGGAGAAATCtt    >  1:154300/1‑140 (MQ=255)                                                                                                                                   tCCGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGGCGCAGCATCTGCCCCATTTCCGGGTAGTAACCGCCGTAGTAAACGAAGTCGATGTTTTCTTTTTTCAGGCGGGCGATCAGCGCGGAGAAATCttt   >  1:258500/1‑140 (MQ=255)                                                                                                                                    ccGACCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGGCGCAGCATCTGCCCCATTTCCGGGTAGTAACCGCCGTAGTAAACGAAGTCGATGTTTTCTTTTTTCAGGCGGGCGATCAGCGCGGAGAAATCTTtc  >  1:517887/1‑140 (MQ=255)                                                                                                                                       |                                                                                                                                          CTTGTCTGCTTTCAGCGCATCAACGATGCCCTGGTTTGCCGGATCCTGGTCATAGCGTTTTGGCATAGTGACCAACATGCCTTCGGCGGCATCACCGGCAATGTTCGACAACGACGCATTACCCACACCTTCCGGCCCCATAAACTGGGTTTTCAGGCCAACGGAACGGGCC‑TGGCGCAGCATCTGCCCCATTTCCGGGTAGTAACCGCCGTAGTAAACGAAGTCGATGTTTTCTTTTTTCAGGCGGGCGATCAGCGCGGAGAAATCTTTC  >  NC_000913/3596685‑3596955

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: ‑