Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,343,891	A→G	D171G (GAC→GGC)	lptA →	lipopolysaccharide export ABC transporter periplasmic binding protein, Lipid A binding protein, LPS export and assembly protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,343,891	0	A	G	100.0%	192.1 / NA	54	D171G (GAC→GGC)	lptA	lipopolysaccharide export ABC transporter periplasmic binding protein, Lipid A binding protein, LPS export and assembly protein
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (25/29);  total (25/29)

ATGCTTATCTGCAGCAGGTCGATAGCAACATTAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGACAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCAAAAGCCTATAAAGGCCGTCGCGTGGTAGAAGACGTCAGCCTGACCGT  >  NC_000913/3343756‑3344020                                                                                                                                        |                                                                                                                                  aTGCTTATCTGCAGCAGGTCGATAGCAACATTAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCaa                                                                                                                                <  2:220345/139‑1 (MQ=255)    cTTATCTGCAGCAGGTCGATAGCAACATTAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCaaaaa                                                                                                                             >  2:808995/1‑139 (MQ=255)       aTCTGCAGCAGGTCGATAGCAACATTAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAaacaa                                                                                                                          >  1:471365/1‑139 (MQ=255)         cTGCAGCAGGTCGATAGCAACATTAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAacaaca                                                                                                                        <  2:449186/139‑1 (MQ=255)            cagcagGTCGATAGCAACATTAAGGGCGATAAGATCACTTACATGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAg                                                                                                                     >  2:181555/1‑139 (MQ=255)                  gTCGATAGCAACATTAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGGAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGa                                                                                                               >  2:751788/1‑139 (MQ=255)                  gTCGATAGCAACATTAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGa                                                                                                               >  1:1041053/1‑139 (MQ=255)                  gTCGATAGCAACATTAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGa                                                                                                               >  1:480849/1‑139 (MQ=255)                     gATAGCAACATTAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGAccc                                                                                                            <  2:1177538/139‑1 (MQ=255)                         gCAACATTAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGc                                                                                                        >  2:8519/1‑139 (MQ=255)                          cAACATTAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGca                                                                                                       <  2:1130779/139‑1 (MQ=255)                           aaCATTAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGcac                                                                                                      <  1:731771/139‑1 (MQ=255)                                tAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACagaag                                                                                                 <  2:1047450/139‑1 (MQ=255)                                        aTAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACagaag                                                                                                 <  1:100075/131‑1 (MQ=255)                                        aTAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACagaag                                                                                                 >  2:100075/1‑131 (MQ=255)                                            gATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGtaattaa                                                                                     <  2:1009089/139‑1 (MQ=255)                                            gATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGtaattaa                                                                                     <  1:808995/139‑1 (MQ=255)                                              tCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTaattaatt                                                                                   >  2:141421/1‑139 (MQ=255)                                                       tGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGc                                                                          >  2:402513/1‑139 (MQ=255)                                                               gagCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTaa                                                                  <  2:1041053/139‑1 (MQ=255)                                                               gagCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTaa                                                                  <  1:8519/139‑1 (MQ=255)                                                                agCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGc                                                                                                                   <  1:266518/89‑1 (MQ=255)                                                                agCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGc                                                                                                                   >  2:266518/1‑89 (MQ=255)                                                                agCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAAc                                                                 >  1:296088/1‑139 (MQ=255)                                                                       aaTGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGca                                                                                                       <  1:1153151/94‑1 (MQ=255)                                                                       aaTGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGca                                                                                                       >  2:1153151/1‑94 (MQ=255)                                                                          gCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGca                                                                                                       <  1:880707/91‑1 (MQ=255)                                                                          gCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGca                                                                                                       >  2:880707/1‑91 (MQ=255)                                                                               cTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGG‑AATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCa                                                 <  2:246638/139‑1 (MQ=255)                                                                                tttCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCa                                                 <  1:141421/139‑1 (MQ=255)                                                                                  tCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCaaa                                               <  2:471365/139‑1 (MQ=255)                                                                                        aCAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCa                                                 <  1:1023946/131‑1 (MQ=255)                                                                                        aCAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCa                                                 >  2:1023946/1‑131 (MQ=255)                                                                                        aCAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCAAAAGCCta                                         >  1:1131043/1‑139 (MQ=255)                                                                                                    gcgTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCAAAAGCCTATAAAGGCCGTcg                             <  2:480849/139‑1 (MQ=255)                                                                                                    gcgTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCAAAAGCCTATAAAGGCCGTcg                             <  1:402513/139‑1 (MQ=255)                                                                                                    gcgTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGATATGGCAACGTTAACTGCAAAGAACCTTGCAAAAGCCTATAAAGGCCGTcg                             <  1:751788/139‑1 (MQ=255)                                                                                                     cctAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGTCCCCGTCACAAAAGACAGGTAATTAATTCGTTCTGGCAACATTAACTCCAAAGAACCTTTCAAAAGCCTATAAAGGCCCTcgc                            <  1:181555/137‑1 (MQ=255)                                                                                                                ttCTGGTGCCGTCGCAGCTGCAGGGCAAAAacaaca                                                                                                                        <  1:951605/36‑1 (MQ=255)                                                                                                                ttCTGGTGCCGTCGCAGCTGCAGGGCAAAAacaaca                                                                                                                        >  2:951605/1‑36 (MQ=255)                                                                                                                 tCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCAAAAGCCTATAAAGGCCGTCGCGTGGTAGAAGAc                <  2:296088/139‑1 (MQ=255)                                                                                                                  cTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGtt                                                                               >  1:1195170/1‑75 (MQ=255)                                                                                                                  cTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGtt                                                                               <  2:1195170/75‑1 (MQ=255)                                                                                                                     gTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACagaaga                                                                                                >  1:709160/1‑55 (MQ=255)                                                                                                                     gTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACagaaga                                                                                                <  2:709160/55‑1 (MQ=255)                                                                                                                     gTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACag                                                                                                    >  2:1128270/1‑51 (MQ=255)                                                                                                                     gTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACag                                                                                                    <  1:1128270/51‑1 (MQ=255)                                                                                                                     gTGCCGTCGCAGCTGCAGGGC‑AAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCAAAAGCCTATAAAGGCCGTCGCGTGGTAGAAGACGTCAg           >  1:921043/1‑139 (MQ=255)                                                                                                                       gCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGtt                                                                               >  1:900388/1‑70 (MQ=255)                                                                                                                       gCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGtt                                                                               <  2:900388/70‑1 (MQ=255)                                                                                                                          gTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCAAAAGCCTATAAAGGCCGTCGCGTGGTAGAAGACGTCAGCCTg       >  1:1195301/1‑139 (MQ=255)                                                                                                                           tCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAgaagaa                                                                                               <  1:939960/50‑1 (MQ=255)                                                                                                                           tCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAgaagaa                                                                                               >  2:939960/1‑50 (MQ=255)                                                                                                                               aGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCAAAAGCCTATAAAGGCCGTCGCGTGGTAGAAGACGTCAGCCTGACCGt  >  2:548544/1‑139 (MQ=255)                                                                                                                                        |                                                                                                                                  ATGCTTATCTGCAGCAGGTCGATAGCAACATTAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGACAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCAAAAGCCTATAAAGGCCGTCGCGTGGTAGAAGACGTCAGCCTGACCGT  >  NC_000913/3343756‑3344020

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑