Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,269,545	(A)6→5	coding (692/714 nt)	lpxT →	Kdo2‑lipid A phosphotransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,269,540	0	A	.	100.0%	81.2 / NA	20	coding (687/714 nt)	lpxT	Kdo2‑lipid A phosphotransferase
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base . (11/9);  total (11/9)

TGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGTGATCGATTAATCACCTTTTTTGACAAATCACTACCAGGAAAAAACAAACATTTCCAAAACAAATAACTCACAGTAATTAACATCATCAGGGTTATTTTTATAGTGAGGATAATC  >  NC_000913/2269464‑2269615                                                                             |                                                                            tGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGTGATCGATTAATCACCTTTTTTGACAAATCACTACCAGGaaaaa                                                                         >  2:356907/1‑81 (MQ=255)      ggTTTGCCCTGGGTGTTGCTGACGCCATTAAGTGATCGATTAATCACCTTTTTTGACAAATCACTACCAGG‑AAaaacaaac                                                                   <  1:356881/81‑1 (MQ=255)          tGCCCTGGGTGTTGCTGACGCCATTAAGTGATCGATTAATCACCTTTTTTGACAAATCACTACCAGG‑AAAAACAAACAttt                                                               >  2:356912/1‑81 (MQ=255)              cTGGGTGTTGCTGACGCCATTAAGTGATCGATTAATCACCTTTTTTGACAAATCACTACCAGG‑AAAAACAAACATTTCCa                                                            >  2:356916/1‑80 (MQ=255)                gggTGTTGCTGACGCCATTAAGTGATCGATTAATCACCTTTTTTGACAAATCACTACCAGG‑AAAAACAAACATTTCCaata                                                         >  2:356920/1‑79 (MQ=255)                gggTGTTGCTGACGCCATTAAGTGATCGATTAATCACCTTTTTTGACAAATCACTACCAGG‑AAAAACAAACATTTCCaaaa                                                         >  1:356909/1‑81 (MQ=255)                  gtgtTGCTGACGCCATTAAGTGATCGATTAATCACCTTTTTTGACAAATCACTACCAGG‑AAAAACAAACATTTCCAAAACa                                                       <  2:356882/81‑1 (MQ=255)                     ttGCTGACGCCATTAAGTGATCGATTAATCACCTTTTTTGACAAATCACTACCAGG‑AAAAACAAACATTTCCAAAACaaa                                                     >  1:356915/1‑80 (MQ=255)                           aCGCCATTAAGTGATCGATTAATCACCTTTTTTGACAAATCACTACCAGG‑AAAAACAAACATTTCCAAAACAAATAACTc                                               <  2:356883/80‑1 (MQ=255)                             gCCATTAAGTGATCGATTAATCACCTTTTTTGACAAATCACTACCAGG‑AAAAACAAACATTTCCAAAACAAATAACTcaca                                            <  1:356884/81‑1 (MQ=255)                                   aaGTGATCGATTAATCACCTTTTTTGACAAATCACTACCAGG‑AAAAACAAACATTTCCAAAACAAATAACTCACAGTAAt                                       <  2:356885/80‑1 (MQ=255)                                       gATCGATTAATCACCTTTTTTGACAAATCACTACCAGG‑AAAAACAAACATTTCCAAAACAAATAACTCACAGTAATTAAca                                  >  1:356924/1‑81 (MQ=255)                                           gATTAATCACCTTTTTTGACAAATCACTACCAGG‑AAAAACAAACATTTCCAAAACAAATAACTCACAGTAATTAAcatcat                              >  2:356926/1‑81 (MQ=255)                                               aaTCACCTTTTTTGACAAATCACTACCAGG‑AAAAACAAACATTTCCAAAACAAATAACTCACAGTAATTAACATCATCAgg                          >  2:356925/1‑81 (MQ=255)                                               aaTCACCTTTTTTGACAAATCACTACCAGG‑AAAAACAAACATTTCCAAAACAAATAACTCACAGTAATTAACATCATCAg                           <  2:356886/80‑1 (MQ=255)                                                   aCCTTTTTTGACAAATCACTACCAGG‑AAAAACAAACATTTCCAAAACAAATAACTCACAGTAATTAACATCATCAGGGTTa                      >  1:356932/1‑81 (MQ=255)                                                                 aTCACTACCAGG‑AAAAACAAACATTTCCAAAACAAATAACTCACAGTAATTAACATCATCAGGGTTATTTTTATAGTGAg         >  1:356918/1‑80 (MQ=255)                                                                   cACTACCAGG‑AAAAACAAACATTTCCAAAACAAATAACTCACAGTAATTAACATCATCAGGGTTATTTTTATAGTGAGGa       >  1:356927/1‑80 (MQ=255)                                                                    aCTACCAGG‑AAAAACAAACATTTCCAAAACAAATAACTCACAGTAATTAACATCATCAGGGTTATTTTTATAGTGAGGATa     <  2:356887/81‑1 (MQ=255)                                                                      tACCAGG‑AAAAACAAACATTTCCAAAACAAATAACTCACAGTAATTAACATCATCAGGGTTATTTTTATAGTGAGGATAAt   <  2:356888/81‑1 (MQ=255)                                                                        ccAGG‑AAAAACAAACATTTCCAAAACAAATAACTCACAGTAATTAACATCATCAGGGTTATTTTTATAGTGAGGATAATc  <  1:356889/80‑1 (MQ=255)                                                                             |                                                                            TGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGTGATCGATTAATCACCTTTTTTGACAAATCACTACCAGGAAAAAACAAACATTTCCAAAACAAATAACTCACAGTAATTAACATCATCAGGGTTATTTTTATAGTGAGGATAATC  >  NC_000913/2269464‑2269615

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑