Predicted mutation
evidence seq id position mutation annotation gene description
RA NZ_CP009273 1,110,952 T→C intergenic (‑6/+166) mdtG ← / ← lpxL multidrug efflux MFS transporter MdtG/kdo(2)‑lipid IV(A) lauroyltransferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092731,110,9520TC90.9% 24.4 / ‑3.4 11intergenic (‑6/+166)mdtG/lpxLmultidrug efflux MFS transporter MdtG/kdo(2)‑lipid IV(A) lauroyltransferase
Reads supporting (aligned to +/- strand):  ref base T (1/0);  new base C (4/6);  total (5/6)
Fisher's exact test for biased strand distribution p-value = 4.55e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CAGCCTAGCCAGGCGACGATCAGGTTTCGTTTCCAGTTTATAGGGGTGTCATTTTCACAGGGTGACATAGCAATCCGCTGTTGGTGCGCCAGGCGCGGTGAACATAAGAAGAAAAGATAAGCACACTAATTATGCGCCCGACTTCCAGG  >  NZ_CP009273/1110879‑1111027
                                                                         |                                                                           
cAGCCTAGCCAGGCGACGATCAGGTTTCGTTTCCAGTTTATAGGGGTGTCATTTTCACAGGGTGACATAGCAACCCGCTGTTGGTGCGcc                                                             >  1:160773/1‑90 (MQ=255)
           ggCGACGATCAGGTTTCGTTTCCAGTTTATAGGGGTGTCATTTTCACAGGGTGACATAGCAACCCGCTGTTGGTGCGCCAGGCGCGGTGa                                                  <  1:529362/90‑1 (MQ=255)
           ggCGACGATCAGGTTTCGTTTCCAGTTTATAGGGGTGTCATTTTCACAGGGTGACATAGCAACCCGCTGTTGGTGCGCCAGGCGCGGTGa                                                  <  2:427608/90‑1 (MQ=255)
                              ttcCAGTTTATAGGGGTGTCATTTTCACAGGGTGACATAGCAACCCGCTGTTGGTGCGCCAGGCGCGGTGAACATAAGAAGAAAAGATaa                               <  2:491817/90‑1 (MQ=255)
                                  aGTTTATAGGGGTGTCATTTTCACAGGGTGACATAGCAACCCGCTGTTGGTGCGCCAGGCGCGGTGAACATAAGAAGAAAAGATAAGcac                           <  1:502080/90‑1 (MQ=255)
                                  aGTTTATAGGGGTGTCATTTTCACAGGGTGACATAGCAACCCGCTGTTGGTGCGCCAGGCGCGGTGAACATAAGAAGAAAAGATAAGcac                           <  1:520246/90‑1 (MQ=255)
                                  aGTTTATAGGGGTGTCATTTTCACAGGGTGACATAGCAACCCGCTGTTGGTGCACCAGGCGCGGTGAACATAAGAAGAAAAGATAAGcac                           <  2:57540/90‑1 (MQ=255)
                                               gtCATTTTCACAGGGTGACATAGCAATCCGCTGTTGGTGCGCCAGGCGCGGTGAACATAAGAAGAAAAGATAAGCACACTAATTATgcgc              >  1:510052/1‑90 (MQ=255)
                                               gtCATTTTCACAGGGGGACATAGCAACCCGCTGTTGGTGCGCCAGGCGCGGTGAACATAAGAAGAAAAGATAAGCACACTAATTATgcgc              >  1:345583/1‑90 (MQ=255)
                                                           gggTGACATAGCAACCCGCTGTTGGTGCGCCAGGCGCGGTGAACATAAGAAGAAAAGATAAGCACACTAATTATGCGCCCGACTTCCAgg  >  1:455239/1‑90 (MQ=255)
                                                           gggTGACATAGCAACCCGCTGTTGGTGCGCCAGGCGCGGTGAACATAAGAAGAAAAGATAAGCACACTAATTATGCGCCCGACTTCCAgg  >  1:469739/1‑90 (MQ=255)
                                                                         |                                                                           
CAGCCTAGCCAGGCGACGATCAGGTTTCGTTTCCAGTTTATAGGGGTGTCATTTTCACAGGGTGACATAGCAATCCGCTGTTGGTGCGCCAGGCGCGGTGAACATAAGAAGAAAAGATAAGCACACTAATTATGCGCCCGACTTCCAGG  >  NZ_CP009273/1110879‑1111027

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑