Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,340,358	A→G	Y39C (TAC→TGC)	lapA →	lipopolysaccharide assembly protein A

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,340,358	0	A	G	100.0%	155.1 / NA	43	Y39C (TAC→TGC)	lapA	lipopolysaccharide assembly protein A
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (26/17);  total (26/17)

CCACATAACGGGAAGTAATGTGAAATATTTACTCATTTTCTTACTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTACCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAACGTAAAATAAAGCGACTGGAAAACCAG  >  NC_000913/1340224‑1340494                                                                                                                                       |                                                                                                                                         ccACATAACGGGAAGTAATGTGAAATATTTACTCATTTTCTTACTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTa                                                                                                                                     <  2:437832/140‑1 (MQ=255)      tAACGGGAAGTAATGTGAAATATTTACTCATTTTCTTACTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTcc                                                                                                                                >  2:514051/1‑140 (MQ=255)        aCGGGAAGTAATGTGAAATATTTACTCATTTTCTTACTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCcac                                                                                                                              >  1:735046/1‑140 (MQ=255)             aaGTAATGTGAAATATTTACTCATTTTCTTACTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGc                                                                                                                         <  2:735046/140‑1 (MQ=255)                              tACTCATTTTCTTACTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTtgct                                                                                                        <  1:1116322/140‑1 (MQ=255)                               aCTCATTTTCTTACTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTtgctg                                                                                                       <  2:245847/140‑1 (MQ=255)                                     tttCTTACTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGt                                                                                                 <  1:693848/140‑1 (MQ=255)                                           aCTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTa                                                                                           >  2:104257/1‑140 (MQ=255)                                            cTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTAt                                                                                          <  1:282869/140‑1 (MQ=255)                                               gtgtTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCgg                                                                                       >  1:520456/1‑140 (MQ=255)                                                   tAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCggttgg                                                                                   >  1:978173/1‑140 (MQ=255)                                                   tAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCggttgg                                                                                   <  1:514051/140‑1 (MQ=255)                                                         tCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGAtt                                                                             >  1:150096/1‑140 (MQ=255)                                                          cTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGAttt                                                                            >  2:973965/1‑140 (MQ=255)                                                          cTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGAttt                                                                            <  2:150096/140‑1 (MQ=255)                                                          cTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGAttt                                                                            <  2:1123417/140‑1 (MQ=255)                                                                   ttCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGt                                                                   >  2:968693/1‑140 (MQ=255)                                                                    tCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGtt                                                                  <  2:520456/140‑1 (MQ=255)                                                                          aCGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCt                                                            <  2:704682/140‑1 (MQ=255)                                                                                      cAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCgtgt                                                >  1:459905/1‑140 (MQ=255)                                                                                      cAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCgtgt                                                >  1:160709/1‑140 (MQ=255)                                                                                           cGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTccc                                           >  1:282347/1‑140 (MQ=255)                                                                                                       gACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCgtg                                                 >  2:335656/1‑122 (MQ=255)                                                                                                       gACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCgtg                                                 >  2:775626/1‑122 (MQ=255)                                                                                                       gACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCgtg                                                 <  1:335656/122‑1 (MQ=255)                                                                                                       gACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCgtg                                                 <  1:775626/122‑1 (MQ=255)                                                                                                        aCGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGa                              >  1:553932/1‑140 (MQ=255)                                                                                                        aCGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGa                              >  2:87701/1‑140 (MQ=255)                                                                                                        aCGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGa                              >  1:1114153/1‑140 (MQ=255)                                                                                                          gTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAAc                            >  1:1204214/1‑140 (MQ=255)                                                                                                          gTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAAc                            <  2:1204214/140‑1 (MQ=255)                                                                                                               aTTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAACGTaaa                       >  1:654255/1‑140 (MQ=255)                                                                                                                   tCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTGTTGTTTGCTGCGGGGATTGCTATCGGTTGGTTGGTTTGTGGCCTGTTCTGGCTGGGAGTTCGCGTTTCCCTCGCGCGCGCTGAACGTAAAATaa                   >  2:373074/1‑140 (MQ=255)                                                                                                                   tCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAACGTAAAATaa                   >  1:118077/1‑140 (MQ=255)                                                                                                                    cTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCt                                <  1:812015/126‑1 (MQ=255)                                                                                                                    cTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCt                                >  2:812015/1‑126 (MQ=255)                                                                                                                      gTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAACGTAAAATAAAGc                >  2:357553/1‑140 (MQ=255)                                                                                                                       ttAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAACGTAAAATAAAGCg               <  2:459905/140‑1 (MQ=255)                                                                                                                       ttAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAACGTAAAATAAAGCg               <  1:87701/140‑1 (MQ=255)                                                                                                                             cAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAACGTAAAATAAAGCGACTGGa         >  1:759731/1‑140 (MQ=255)                                                                                                                                ggggAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGGTGCGGGGTTTGCTATCGGTTGGTTGGTTTGTGGCCTGTTCTTGCTGCGAGTTCGTGTTTCCCCGGCGCGCGCTGAACGTAAAATAAAGCGACTGGaaaa      >  2:576061/1‑140 (MQ=255)                                                                                                                                 gggAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAACGTAAAATAAAGCGACTGGAAAAc     >  1:838736/1‑140 (MQ=255)                                                                                                                                    aGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAACGTAAAATAAAGCGACTGGAAAACCAg  >  2:694099/1‑140 (MQ=255)                                                                                                                                       |                                                                                                                                         CCACATAACGGGAAGTAATGTGAAATATTTACTCATTTTCTTACTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTACCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAACGTAAAATAAAGCGACTGGAAAACCAG  >  NC_000913/1340224‑1340494

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑