Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,804,229	A→G	S296S (AGT→AGC)	waaS ←	lipopolysaccharide core biosynthesis protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,804,229	0	A	G	100.0%	120.9 / NA	32	S296S (AGT→AGC)	waaS	lipopolysaccharide core biosynthesis protein
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (9/23);  total (9/23)

CCAGAAACAGCTTCGCCGATAAACGCTATTTTCATAGAAACTCTCATTAATTGAGTAAAACTCACTGTTTTAACGGTTTTATTTGTCTATAAAATCAGAAACAATCGTTGACATCATTTTATCTGGACTGAATTTATATAAACTATCATAATCCATTGGTTTAACAGATGAGTTAATAAAATACTCTAACTTATCCCAATCATCATGACCTATTATAAAAAAGCGAGATTCACTATAGATTTCTGAACCAAATACATTTA  >  NC_000913/3804103‑3804362                                                                                                                               |                                                                                                                                      ccAGAAACAGCTTCGCCGATAAACGCTATTTTCATAGAAACTCTCATTAATTGAGTAAAACTCACTGTTTTAACGGTTTTATTTGTCTATAAAATCAGAAACAATCGTTGACATCATTTTATCTGGGCTGAATTtatata                                                                                                                          <  1:825851/140‑1 (MQ=255)           cTTCGCCGATAAACGCTATTTTCATAGAAACTCTCATTAATTGAGTAAAACTCACTGTTTTAACGGTTTTATTTGTCTATAAAATCAGAAACAATCGTTGACATCATTTTATCTGGGCTGAATTTATATAAACTATCATa                                                                                                                <  2:143681/140‑1 (MQ=255)           cTTCGCCGATAAACGCTATTTTCATAGAAACTCTCATTAATTGAGTAAAACTCACTGTTTTAACGGTTTTATTTGTCTATAAAATCAGAAACAATCGTTGACATCATTTTATCTGGGCTGAATTTATATAAACTATCATa                                                                                                                >  1:662923/1‑140 (MQ=255)               gCCGATAAACGCTATTTTCATAGAAACTCTCATTAATTGAGTAAAACTCACTGTTTTAACGGTTTTATTTGTCTATAAAATCAGAAACAATCGTTGACATCATTTTATCTGGGCTGAATTTATATAAACTATCATAATcc                                                                                                            <  2:658546/140‑1 (MQ=255)               gCCGATAAACGCTATTTTCATAGAAACTCTCATTAATTGAGTAAAACTCACTGTTTTAACGGTTTTATTTGTCTAT‑AAATCAGAAACAATCGTTGACATCATTTTATCTGGGCTGAATTTATATAAACTATCATAATcc                                                                                                            <  2:931935/139‑1 (MQ=255)               gCCGATAAACGCTATTTTCATAGAAACTCTCATTAATTGAGTAAAACTCACTGTTTTAACGGTTTTATTTGTCTAT‑AAATCAGAAACAATCGTTGACATCATTTTATCTGGGCTGAATTTATATAAACTATCATAATcc                                                                                                            >  1:931935/1‑139 (MQ=255)                ccGATAAACGCTATTTTCATAGAAACTCTCATTAATTGAGTAAAACTCACTGTTTTAACGGTTTTATTTGTCTATAAAATCAGAAACAATCGTTGACATCATTTTATCTGGGCTGAATTTATATAAACTATCATAATCCa                                                                                                           <  1:930717/140‑1 (MQ=255)                      aaCGCTATTTTCATAGAAACTCTCATTAATTGAGTAAAACTCACTGTTTTAACGGTTTTATTTGTCTATAAAATCAGAAACAATCGTTGACATCATTTTATCTGGGCTGAATTTATATAAACTATCATAATCCATTGGtt                                                                                                     <  1:267815/140‑1 (MQ=255)                              tttCATAGAAACTCTCATTAATTGAGTAAAACTCACTGTTTTAACGGTTTTATTTGTCTATAAAATCAGAAACAATCGTTGACATCATTTTATCTGGGCTGAATTTATATAAACTATCATAATCCATTGGTTTAACAGAt                                                                                             >  1:518236/1‑140 (MQ=255)                                  aTAGAAACTCTCATTAATTGAGTAAAACTCACTGTTTTAACGGTTTTATTTGTCTATAAAATCAGAAACAATCGTTGACATCATTTTATCTGGGCTGAATTTATATAAACTATCATAATCCATTGGTTTAACAGATGAGt                                                                                         <  2:1252678/140‑1 (MQ=255)                                       aaCTCTCATTAATTGAGTAAAACTCACTGTTTTAACGGTTTTATTTGTCTATAAAATCAGAAACAATCGTTGACATCATTTTATCTGGGCTGAATTTATATAAACTATCATAATCCATTGGTTTAACAGATGAGTtaata                                                                                    >  1:1031444/1‑140 (MQ=255)                                        aCTCTCATTAATTGAGTAAAACTCACTGTTTTAACGGTTTTATTTGTCTATAAAATCAGAAACAATCGTTGACATCATTTTATCTGGGCTGAATTTATATAAACTATCATAATCCATTGGTTTAACAGATGAGTtaataa                                                                                   <  2:568658/140‑1 (MQ=255)                                        aCTCTCATTAATTGAGTAAAACTCACTGTTTTAACGGTTTTATTTGTCTATAAAATCAGAAACAATCGTTGACATCATTTTATCTGGGCTGAATTTATATAAACTATCATAATCCATTGGTTTAACAGATGAGTtaataa                                                                                   <  1:719767/140‑1 (MQ=255)                                        aCTCTCATTAATTGAGTAAAACTCACTGTTTTAACGGTTTTATTTGTCTATAAAATCAGAAACAATCGTTGACATCATTTTATCTGGGCTGAATTTATATAAACTATCATAATCCATTGGTTTAACAGATGAGTtaataa                                                                                   <  1:571776/140‑1 (MQ=255)                                         ctctCATTAATTGAGTAAAACTCACTGTTTTAACGGTTTTATTTGTCTATAAAATCAGAAACAATCGTTGACATCATTTTATCTGGGCTGAATTTATATAAACTATCATAATCCATTGGTTTAACAGATGAGTTAATaaa                                                                                  <  1:651147/140‑1 (MQ=255)                                         ctctCATTAATTGAGTAAAACTCACTGTTTTAACGGTTTTATTTGTCTATAAAATCAGAAACAATCGTTGACATCATTTTATCTGGGCTGAATTTATATAAACTATCATAATCCATTGGTTTAACAGATGAGTTAATaaa                                                                                  <  2:634441/140‑1 (MQ=255)                                              aTTAATTGAGTAAAACTCACTGTTTTAACGGTTTTATTTGTCTATAAAATCAGAAACAATCGTTGACATCATTTTATCTGGGCTGAATTTATATAAACTATCATAATCCATTGGTTTAACAGATGAGTTAATAAAATAct                                                                             <  2:494737/140‑1 (MQ=255)                                                tAATTGAGTAAAACTCACTGTTTTAACGGTTTTATTTGTCTATAAAATCAGAAACAATCGTTGACATCATTTTATCTGGGCTGAATTTATATAAACTATCATAATCCATTGGTTTAACAGATGAGTTAATAAAATActct                                                                           >  2:712149/1‑140 (MQ=255)                                                      aGTAAAACTCACTGTTTTAACGGTTTTATTTGTCTATAAAATCAGAAACAATCGTTGACATCATTTTATCTGGGCTGAATTTATATAAACTATCATAATCCATTGGTTTAACAGATGAGTTAATAAAATACTCTAACTTa                                                                     >  1:947963/1‑140 (MQ=255)                                                       gTAAAACTCACTGTTTTAACGGTTTTATTTGTCTATAAAATCAGAAACAATCGTTGACATCATTTTATCTGGGCTGAATTTATATAAACTATCATAATCCATTGGTTTAACAGATGAGTTAATAAAATACTCTAACTTAt                                                                    <  2:1255600/140‑1 (MQ=255)                                                        tAAAACTCACTGTTTTAACGGTTTTATTTGTCTATAAAATCAGAAACAATCGTTGACATCATTTTATCTGGGCTGAATTTATATAAACTATCATAATCCATTGGTTTAACAGATGAGTTAATAAAATACTCTAACTTATc                                                                   >  2:974191/1‑140 (MQ=255)                                                             cTCACTGTTTTAACGGTTTTATTTGTCTATAAAATCAGAAACAATCGTTGACATCATTTTATCTGGGCTGAATTTATATAAACTATCATAATCCATTGGTTTAACAGATGAGTTAATAAAATACTCTAACTTATCCCAat                                                              <  2:1031444/140‑1 (MQ=255)                                                                             ttttATTTGTCTATAAAATCAGAAACAATCGTTGACATCATTTTATCTGGGCTGAATTTATATAAACTATCATAATCCATTGGTTTAACAGATGAGTTAATAAAATACTCTAACTTATCCCAATCATCATGACCtattat                                              <  2:518236/140‑1 (MQ=255)                                                                                    tGTCTATAAAATCAGAAACAATCGTTGACATCATTTTATCTGGGCTGAATTTATATAAACTATCATAATCCATTGGTTTAACAGATGAGTTAATAAAATACTCTAACTTATCCCAATCATCATGACCTATTATAAAAAAg                                       <  1:974191/140‑1 (MQ=255)                                                                                       cTATAAAATCAGAAACAATCGTTGACATCATTTTATCTGGGCTGAATTTATATAAACTATCATAATCCATTGGTTTAACAGATGAGTTAATAAAATACTCTAACTTATCCCAATCATCATGACCTATTATAAAAAAGCga                                    >  2:623399/1‑140 (MQ=255)                                                                                         ataAAATCAGAAACAATCGTTGACATCATTTTATCTGGGCTGAATTTATATAAACTATCATAATCCATTGGTTTAACAGATGAGTTAATAAAATACTCTAACTTATCCCAATCATCATGACCTATTATAAAAAAGCgaga                                  <  2:101231/140‑1 (MQ=255)                                                                                                       aaTCGTTGACATCATTTTATCTGGGCTGAATTTATATAAACTATCATAATCCATTGGTTTAACAGATGAGTTAATAAAATACTCTAACTTATCCCAATCATCATGACCTATTATAAAAAAGCGAGATTCACTATAGAttt                    <  1:623399/140‑1 (MQ=255)                                                                                                          cGTTGACATCATTTTATCTGGGCTGAATTTATATAAACTATCATAATCCATTGGTTTAACAGATGAGTTAATAAAATACTCTAACTTATCCCAATCATCATGACCTATTATAAAAAAGCGAGATTCACTATAGATTTCTg                 <  1:127496/140‑1 (MQ=255)                                                                                                              gACATCATTTTATCTGGGCTGAATTTATATAAACTATCATAATCCATTGGTTTAACAGATGAGTTAATAAAATACTCTAACTTATCCCAATCATCATGACCTATTATAAAAAAGCGAGATTCACTATAGATTTCTGa                <  1:890972/137‑1 (MQ=255)                                                                                                              gACATCATTTTATCTGGGCTGAATTTATATAAACTATCATAATCCATTGGTTTAACAGATGAGTTAATAAAATACTCTAACTTATCCCAATCATCATGACCTATTATAAAAAAGCGAGATTCACTATAGATTTCTGa                >  2:890972/1‑137 (MQ=255)                                                                                                                 atcatTTTATCTGGGCTGAATTTATATAAACTATCATAATCCATTGGTTTAACAGATGAGTTAATAAAATACTCTAACTTATCCCAATCATCATGACCTATTATAAAAAAGCGAGATTCACTATAGATTTCTGAACCaaa          <  2:93862/140‑1 (MQ=255)                                                                                                                         aTCTGGGCTGAATTTATATAAACTATCATAATCCATTGGTTTAACAGATGAGTTAATAAAATACTCTAACTTATCCCAATCATCATGACCTATTATAAAAAAGCGAGATTCTCTATAGATTTCTGAACCAAATACATTta  <  2:1277378/140‑1 (MQ=255)                                                                                                                               |                                                                                                                                      CCAGAAACAGCTTCGCCGATAAACGCTATTTTCATAGAAACTCTCATTAATTGAGTAAAACTCACTGTTTTAACGGTTTTATTTGTCTATAAAATCAGAAACAATCGTTGACATCATTTTATCTGGACTGAATTTATATAAACTATCATAATCCATTGGTTTAACAGATGAGTTAATAAAATACTCTAACTTATCCCAATCATCATGACCTATTATAAAAAAGCGAGATTCACTATAGATTTCTGAACCAAATACATTTA  >  NC_000913/3804103‑3804362

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑