Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	969,352	G→A	*329* (TAG→TAA)	lpxK →	lipid A 4'kinase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	969,352	0	G	A	100.0%	127.9 / NA	40	*329* (TAG→TAA)	lpxK	lipid A 4'kinase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (23/17);  total (23/17)

TGCCGGGCCTTTGCAGAAGAAAATTGGTGGTATTTGCCTGTAGACGCACAGCTTTCAGGTGATGAACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTAATCTTCACCTTGCCGCACAAGGCCTGTTAAACAAACCCCGCCGTCGAGCGTCG  >  NC_000913/969239‑969478                                                                                                                  |                                                                                                                               tGCCGGGCCTTTGCAGAAGAAAATTGGTGGTATTTGCCTGTAGACGCACAGCTTTCAGGTGATGAACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGa                                                                                                       <  2:473777/139‑1 (MQ=255)      ggCCTTTGCAGAAGAAAATTGGTGGTATTTGCCTGTAGACGCACAGCTTTCAGGTGATGAACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAg                                                                                                  >  2:453077/1‑139 (MQ=255)                      aaTTGGTGGTATTTGCCTGTAGACGCACAGCTTTCAGGTGATGAACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGc                                                                                  <  2:699310/139‑1 (MQ=255)                      aaTTGGTGGTATTTGCCTGTAGACGCACAGCTTTCAGGTGATGAACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGc                                                                                  >  1:699310/1‑139 (MQ=255)                               tATTTGCCTGTAGACGCACAGCTTTCAGGTGATGAACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGAt                                                                                                      <  2:798944/110‑1 (MQ=255)                               tATTTGCCTGTAGACGCACAGCTTTCAGGTGATGAACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGAt                                                                                                      >  1:798944/1‑110 (MQ=255)                                aTTTGCCTGTAGACGCACAGCTTTCAGGTGATGAACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCtctc                                                                        >  1:1239625/1‑139 (MQ=255)                                     ccTGTAGACGCACAGCTTTCAGGTGATGAACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTg                                                                   <  2:1239625/139‑1 (MQ=255)                                         tAGACGCACAGCTTTCAGGTGATGAACCAGCGAACCTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTc                                                                                                             <  1:660280/93‑1 (MQ=255)                                         tAGACGCACAGCTTTCAGGTGATGAACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTc                                                                                                             >  2:660280/1‑93 (MQ=255)                                         tAGACGCACAGCTTTCAGGTGATGAACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGa                                                               >  1:1168335/1‑139 (MQ=255)                                               cacaGCTTTCAGGTGATGAACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGcgcg                                                         >  1:470674/1‑139 (MQ=255)                                                      ttCAGGTGATGAACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTAATCtt                                                  >  1:531786/1‑139 (MQ=255)                                                        cAGGTGATGAACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTAATCTTCa                                                <  2:1168335/139‑1 (MQ=255)                                                              atgaACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAATTACGCCGCgg                                                                                                                     <  2:323433/64‑1 (MQ=255)                                                              atgaACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAATTACGCCGCgg                                                                                                                     >  1:323433/1‑64 (MQ=255)                                                                  aCCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTAATCTTCACCTTGCCGca                                      <  1:453077/139‑1 (MQ=255)                                                                  aCCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTAATCTTCACCTTGCCGca                                      <  2:531786/139‑1 (MQ=255)                                                                     aGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATg                                                                                                     >  1:1571681/1‑73 (MQ=255)                                                                     aGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATg                                                                                                     <  2:1571681/73‑1 (MQ=255)                                                                      gCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTAATCTTCACCTTGCCGCACAAg                                  <  1:856487/139‑1 (MQ=255)                                                                               cTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTAATCTTCACCTTGCCGCACAAGGCCTGTTaa                         >  2:1038338/1‑139 (MQ=255)                                                                                ttACGCAACTAACCTTGCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTAATCTTCACCTTGCCGCACAAGGCCTGTTaaa                        >  2:413827/1‑139 (MQ=255)                                                                                       aCTAACCTTGCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTAATCTTCACCTTGCCGCACAAGGCCTGTTAAACAAAccc                 >  1:1692788/1‑139 (MQ=255)                                                                                       aCTAACCTTGCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTAATCTTCACCTTGCCGCACAAGGCCTGTTAAACAAAccc                 >  2:853842/1‑139 (MQ=255)                                                                                        cTAACCTTGCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGGATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTAATCTTCACCTTGCCGCACAAGGCCTGTTAAGCAAAcccc                >  1:1005742/1‑139 (MQ=255)                                                                                              ttGCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTAATCTTCACCTTGCCGCACAAGGc                                <  2:205662/117‑1 (MQ=255)                                                                                              ttGCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTAATCTTCACCTTGCCGCACAAGGc                                >  1:205662/1‑117 (MQ=255)                                                                                                gCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTAATCTTCACCTTGCCGca                                      <  1:77879/109‑1 (MQ=255)                                                                                                gCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTAATCTTCACCTTGCCGca                                      >  2:77879/1‑109 (MQ=255)                                                                                                gCTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTAATCTTCACCTTGCCGCACAAGGCCTGTTAAACAAACCCCGCCGTCGa        >  2:554938/1‑139 (MQ=255)                                                                                                 cTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTg                                                                   >  1:1046116/1‑79 (MQ=255)                                                                                                 cTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTg                                                                   <  2:1046116/79‑1 (MQ=255)                                                                                                 cTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTAATCTTCACCTTGCCGcac                                     >  2:750114/1‑109 (MQ=255)                                                                                                 cTGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTAATCTTCACCTTGCCGcac                                     <  1:750114/109‑1 (MQ=255)                                                                                                  tGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGcgcg                                                         <  2:1250479/88‑1 (MQ=255)                                                                                                  tGGCTTCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGcgcg                                                         >  1:1250479/1‑88 (MQ=255)                                                                                                      ttCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTAATCTTCACCTTGCCGCACAAg                                  <  2:314073/107‑1 (MQ=255)                                                                                                      ttCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTAATCTTCACCTTGCCGCACAAg                                  >  1:314073/1‑107 (MQ=255)                                                                                                      ttCTGGCAACTAATTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTAATCTTCACCTTGCCGCACAAGGCCTGTTAAACAAACCCCGCCGTCGAGcgtcg  >  2:873806/1‑139 (MQ=255)                                                                                                                  |                                                                                                                               TGCCGGGCCTTTGCAGAAGAAAATTGGTGGTATTTGCCTGTAGACGCACAGCTTTCAGGTGATGAACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTAATCTTCACCTTGCCGCACAAGGCCTGTTAAACAAACCCCGCCGTCGAGCGTCG  >  NC_000913/969239‑969478

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑