Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913_3_pae_tpiA	482,230	G→A	P725L (CCG→CTG)	acrB ←	multidrug efflux system protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913_3_pae_tpiA	482,230	0	G	A	100.0%	84.1 / NA	29	P725L (CCG→CTG)	acrB	multidrug efflux system protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (14/15);  total (14/15)

ATAAACTTTCTTCACACGACCGCGGTCGATAAAGTCGTTCACATAGCTGCCGCCCCATGCAGCGCCCAGAGTGGTGTTAATGTCGTTGATAGAAACACCCAGCGCCTGCGCTTTTTCCTGGTCGATATCAATCTTAAACTGCGGGGTATCTTCCAGACCGTTTGGACGTACGCTGGTCAACATATCAGGGTGCTTCGCTGCTTCTGCAAGCAACTGGTTACGCGCCTGAGTCAGTTTTTCGTGACCAAGGCCAGCCTGGTCAATCAGCTCAAAGTCAAAGCCGG  >  NC_000913_3_pae_tpiA/482088‑482371                                                                                                                                               |                                                                                                                                              atAACCTTTCTTCACCCGACCGCGGTCGATAAAGTCGTTCACATAGCTGCCGCCACATGCAGCGCCCAGAGTGGTGTTAATGTCCCTGATAGAAAAACCTAGCTTCTGCGCTTTTTCCTGGTCGATATCAATCTTAAACTGCAGGGTAt                                                                                                                                         <  2:396175/149‑1 (MQ=255)     aCTTTCTTCACAGGACCGCGGTCGATAAAGTCGTTCACATAGCTGCCGCCCCATGCAGCGCCCAGAGTGGTGTTAATGTCGTTGATAGAAACACCCAGCGCCTGCGCTTTTTCCTGGTCGATATCAATCTTAAACTGCAGGGTATCTTc                                                                                                                                     <  2:283857/149‑1 (MQ=255)     aCTTTCTTCACACGACCGCGGTCGATAAAGTCGTTCACATAGCTGCCGCCCCATGCAGCGCCCAGAGTGGTGTTAATGTCGTTGATAGAAACACCCAGCGCCTGCGCTTTTTCCTGGTCGATATCAATCTTAAACTGCAGGGTATCTTc                                                                                                                                     <  1:444438/149‑1 (MQ=255)       tttCTTCACACGACCGCGGTCGATAAAGTCGTTCACATAGCTGCCGCCCCATGCAGCGCCCAGAGTGGTGTTAATGTCGTTGATAGAAACACCCAGCGCCTGCGCTTTTTCCTGGTCGATATCAATCTTAAACTTCAGGATCTCTTcaa                                                                                                                                   >  1:48321/1‑147 (MQ=255)       tttCTTCACACGACCGCGGTCGATAAAGTCGTTCACATAGCTGCCGCCCCATGCAGCGCCCAGAGTGGTGTTAATGTCGTTGATAGAAACACCCAGCGCCTGCGCTTTTTCCTGGTCGATATCAATCTTAAACTGCAGGGTATCTTCCa                                                                                                                                   >  2:3153/1‑149 (MQ=255)        ttcttcACACGGCCGCGGTCGATAAAGTCGTTCACATAGCTGCCGCCCCATGCAGCGCCCAGAGTGGTGTTAATGTCGTTGATAGAAACACCCAGCGCCTGCGCTTTTTCCTGGTCGATATCAATCTTAAACTGCAGGGTATCTTcccg                                                                                                                                  <  2:365349/149‑3 (MQ=255)        ttcttcACACGACCGCGGTCGATAAAGTCGTTCACATAGCTGCCGCCCCATGCAGCGCCCAGAGTGGTGTTAATGTCGTTGATAGAAACACCCAGCGCCTGCGCTTTTTCCTTGTCGATTTCAATCTTACACTGCAGGGTATCTTCCAg                                                                                                                                  >  2:458317/1‑149 (MQ=255)              acacGACCGCGGTCGATAAAGTCGTTCACATAGCTGCCGCCCCATGCAGCGCCCAGAGTGGTGTTAATGTCGTTGATAGAAACACCCAGCGCCTGCGCTTTTTCCTGGTCGATATCAATCTTAAACTGCAGGGTATCTTCCAGACCGtt                                                                                                                            >  2:383408/1‑149 (MQ=255)                          tCGATAAGGTCGTTCACATAGCTGCCGCCCCATGCAGCGCCCAGAGTGGTGTTAATGTCGTTGATAGAAACACCCAGCGCCTGCGCTTTTTCCTGGTCGATATCAATCTTAAACTGCAGGGTATCTTCCAGACCGTTTGGACGTACGCt                                                                                                                <  2:384215/149‑1 (MQ=255)                                 aGTCGTTCACATAGCTGCCGCCCCATGCAGCGCCCAGAGTGGTGTTAATGTCGTTGATAGAAACACCCAGCGCCTGCGCTTTTTCCTGGTCGATATCAATCTTAAACTGCAGGGTATCTTCCAGACCGTTTGGACGTACGCTGGTCAAc                                                                                                         <  2:175030/149‑1 (MQ=255)                                   tCGTTCACATAGCTGCCGCCCCATGCAGCGCGCAGAGTGGTGTTACTGTCGTTGATAGAAACACCCAGCGCCTGCGCTTTTTCCTGGTCGATATCAATCTTAAACTGCAGGGTATCTTCCAGACCGTTTGGACGTAGGCTGGTAAACac                                                                                                       >  2:135203/1‑148 (MQ=255)                                                tGCCGCCCCATGCAGCGCCCAGAGTGGTGTTAATGTCGTTGATAGAAACACCCAGCGCCTGCGCTTTTTCCTGGTCGATATCAATCTTAAACTGCAGGGTATCTTCCAGACCGTTTGGACATACGCTGGTCAACATATCAggtcgatcc                                                                                          >  2:471601/1‑142 (MQ=255)                                                     ccccATGCAGCGCCCAGAGTGGTGTTAATGTCGTTGATAGAAACACCCAGCGCCTGCGCTTTTTCCTGGTCGATATCAATCTTCAACTGCAGGGTATCTTCCAGACCGTTTGGACGTACGCTGGTCAACATATCAGGGTGCTTCgctgc                                                                                     <  1:437475/149‑1 (MQ=255)                                                         aTGCAGCGCCGAGAGTGGTGTTGATGTCGTTGATAGAAACACCCAGCGCCTGCGCTTTTTCCTGGTCGATATCAAGCTTAAACTGCAGGGTATCTTCCAGACCGTTTGGACGTCCGCTGGTCAAAATAGCAGGGTGCTTCGGGGCTTCt                                                                                 >  2:281012/1‑149 (MQ=255)                                                                 cccATAGTGCTTTTAATGTCGTTGATAGAAACTCCCAGCGCCTGCGCTTTTTCCTGGTCGATATCAATCTTAAACTGCAGGGTATCTTCCAGACCGTTTGGACGTACGCTGGTCAACATATCAGGGTGCTTCGCTGCTTCTgcaagcaa                                                                         <  2:74144/149‑1 (MQ=255)                                                                           tgtTAATGTCGTTGATAGAAACACCCAGCGCCTGCGCTTTTTCCGGGTCGATATCAATCTTAAACTGCAGGGTATCTTCCAGACCGTTTGGCCGTACGCTGGTCAACATATCGGGGTGCTTCGCTGCTTCTGCACGCAACTGGTAAcgc                                                               >  1:92941/1‑149 (MQ=255)                                                                                      ttGATAGAAACACCCAGCGCCTGCGCTTTTTCCTGGTCGATATCAATCTTAAACTGCAGGGTATCTTCCAGACCGTTTGGACGTACGCTGGTCAACATATCAGGGTGCTTCGCTGCTTCTGCAAGCAACTGGTTACGCGCCTGAGTCAg                                                    <  1:243328/149‑1 (MQ=255)                                                                                          tAGAAACACCCAGCGCCTGCGCTTTTTCCTGGTCGATATCAATCTTAAACTGCAGGGTATCGTCCAGACCGTTTGGACGTACGCTGGTCAACATATCAGGGTGCTTCGCTGCTTCTGCAAGCAACTGGTTACGCGCCTGAGTCAGtttt                                                >  1:17246/1‑149 (MQ=255)                                                                                                   ccAGCGCCTGCGCTTTTTCCTGGTCGATATCAATCTTAAACTGCAGGGGAACTTCGAGACCGTTTATACGTACGCTGGTCAACATATCAGGGTGCTTCGCTGCTTCTGCAAGCAACTGGTCGCGCGCCGGAGTCAGTTTTTCCTGcccc                                       >  1:238905/1‑148 (MQ=255)                                                                                                    cAGCGCCTGCGCTTTTTCCTGGTCGATATCAATCTTAAACTGCAGGGTATCTTCCAGACCGTTTGGACGTACGCTGGTCAACATATCAGGGTGCTTCGCTGCTTCTGCAAGCAACTGGTTCCGCGCCTGAGTCAGTTTTTCGTGACCaa                                      >  2:16982/1‑149 (MQ=255)                                                                                                         ccTGCGCGTTTTCCTGGTCTATATCAATCTTAAACTGCAGCGTTTTTCCCCTACCGCTTGACCGAACGCTGCTTATTTTACCAGTGTGCTTCGGTGCTTCTGCAAGCAACTGGTTACTCGCCTGAGTCAGTTTTTCGTGACCAAGGCCa                                 <  2:394063/149‑1 (MQ=255)                                                                                                         ccTGCACCTTTTCCTGTTCGATATCAATCTTAAACTGCAGGGTATCTTCCAGACCGTTTGGACCTACGCTGGTCAACATATCAGGGTGCTTCGCTGCTTCTGCAAGCAACCGGTTACGCGCCTGAGTCAGTTTATCGTGACCAAGGCCa                                 <  2:324730/149‑1 (MQ=255)                                                                                                            gcgcTTTTTCCTGGTCTATATCAATCTTAAACTGCAGGGTATCTTCCAGACCGTTTGGACGTACGCTGGTCAACATATCAGGGTGCTTCGCTGCTTCTGCAAGCAACTGGTTACGCGCCTGAGTCAGTTTTTCGTGACCAAGGCCAGcc                              <  1:435280/149‑1 (MQ=255)                                                                                                                tttttCCTGGTCGATATCAATCTTAAACTGCAGGGTATCTTCCAAACCGTTTGGACGTACGCTGGTCAACATATCAGGGTGCTTCGCTGCTTCTGCAAGCAACTGGTTACGCGCCTGAGTCAGTTTTTCGTGACCAAGGCCAGCCTGGt                          <  1:346021/149‑1 (MQ=255)                                                                                                                       tGGTCGATATCAATCTTAAACTGCAGGGTATCTTCCAGACCGTTTGGACGTACGCTGGTCAACATAGCAGGGTGCTTCGCTGCTTCTGCAAGCAACTGGTTACGCACCTGAGTGAGTTTTTCGTGACCAAGGCGAGCCGGGTCAATcgg                   >  1:306304/1‑147 (MQ=255)                                                                                                                                tCAATCTTAAACTGCAGGGTATCTTCCAGACCGTTTGGACGTACGCTGGTCAACATATCAGGGTACTTCGCTGCTTCTGCAAGCAGCTTGTTACGCGCCTGAGTCAGTTTTTCGTGACCAAGGCCAGCCTGGTCAATCAGCtcaaagtc          >  1:513689/1‑149 (MQ=255)                                                                                                                                      ttAAACTGCAGGGTATCTTCCAGACCGTTTGGACGTACGCTGGTCAACATATCAGGGTGCTTCGCTGCTTCTGCAAGCAACTGGTTACGCGCCTGAGTCAGTTTTTCGTGACCAAGGCGAGCCTGGGCAATCAGCTCCAAGTCAAAGcc    >  1:357898/1‑149 (MQ=255)                                                                                                                                       tAAACTGCAGGGTATCTTCCAGACCGTTTGGACGTACGCGGGTAAACAAATCACGGTGCTTCCCCGCTTCTGCAAGCAACTGGTTACGCGCCTGAGTCAGTTTTTCGTGACCAAGGCCAGCCTGGTCAATCAGCTCAAAGTCAAAGCCg   <  1:230039/149‑1 (MQ=255)                                                                                                                                        aaaCTGCAGGGTATCTTCCAGACCGTTTGGACGTACGCTGGTCAACATATCAGGGTGCTTCGCTGCTTCTGCAAGCAACTGGTTACGCGCCTGAGTCAGTTTTTCGTGACCAAGGCCAGCCTGGTCAATCAGCTCAAAGTCAAAGCCgg  <  1:477030/149‑1 (MQ=255)                                                                                                                                               |                                                                                                                                              ATAAACTTTCTTCACACGACCGCGGTCGATAAAGTCGTTCACATAGCTGCCGCCCCATGCAGCGCCCAGAGTGGTGTTAATGTCGTTGATAGAAACACCCAGCGCCTGCGCTTTTTCCTGGTCGATATCAATCTTAAACTGCGGGGTATCTTCCAGACCGTTTGGACGTACGCTGGTCAACATATCAGGGTGCTTCGCTGCTTCTGCAAGCAACTGGTTACGCGCCTGAGTCAGTTTTTCGTGACCAAGGCCAGCCTGGTCAATCAGCTCAAAGTCAAAGCCGG  >  NC_000913_3_pae_tpiA/482088‑482371

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑