Predicted mutation
evidence seq id position mutation annotation gene description
RA NZ_CP009273 1,649,476 A→G intergenic (‑78/+128) rspA ← / ← ynfA starvation‑sensing protein RspA/YnfA family protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092731,649,4760AG78.3% 36.0 / 9.6 23intergenic (‑78/+128)rspA/ynfAstarvation‑sensing protein RspA/YnfA family protein
Reads supporting (aligned to +/- strand):  ref base A (3/2);  new base G (8/10);  total (11/12)
Fisher's exact test for biased strand distribution p-value = 6.40e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.08e-01

ATTCCTTGCATCGCTTGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCACAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTC  >  NZ_CP009273/1649404‑1649558
                                                                        |                                                                                  
aTTCCTTGCATCGCTTGTCGTGATGCATGAAATCTACGCATCTGAGCTACTACCATACAAGTATAAAGATCGGAAAAAGCCGGAGTGATc                                                                   <  1:752214/90‑1 (MQ=255)
 ttCCTTGCATCGCTTGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGGAAAAAGCCGGAGTGATca                                                                  <  2:689873/90‑1 (MQ=255)
        cATCGCTTGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGGAAAAAGCCGGAGTGATCACaaaaaa                                                           <  2:622853/90‑1 (MQ=255)
            gCTTGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCACAAAAAAAGGc                                                       >  1:327267/1‑90 (MQ=255)
               tGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGGAAAAAGCCGGAGTGATCACAAAAAAAGGCGta                                                    >  1:319371/1‑90 (MQ=255)
                          aTGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGGAAAAAGCCGGAGTGATCACAAAAAAAGGCGTATATTTGCGCtg                                         >  1:543305/1‑90 (MQ=255)
                          aTGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCACAAAAAAAGGCGTATATTTGCGCtg                                         >  2:775432/1‑90 (MQ=255)
                               aTCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGGAAAAAGCCGGAGTGATCACAAAAAAAGGCGTATATTTGCGCTGTGAAt                                    <  1:51666/90‑1 (MQ=255)
                                        aCTGAGCTACTACCATACAAGTATAAAGATCGGAAAGAGCCGGAGTGATCACAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACaa                           <  2:660066/90‑1 (MQ=255)
                                        aCTGAGCTACTACCATACAAGTATAAAGATCGGAAAAAGCCGGAGTGATCACAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACaa                           <  2:628604/90‑1 (MQ=255)
                                        aCTGAGCTACTACCATACAAGTACAAAGATCGGAAAAAGCCGGAGTGATCACAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACaa                           <  2:472095/90‑1 (MQ=255)
                                           gAGCTACTACCATACAAGTATAAAGATCGGAAAAAGCCGGAGTGATCACAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAg                        >  1:111654/1‑90 (MQ=255)
                                             gCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCACAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGAt                      >  1:324114/1‑90 (MQ=255)
                                               tactacCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCACAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGa                    <  2:327267/90‑1 (MQ=255)
                                                actacCATACAAGTATAAAGATCGGAAAAAGCCGGAGTGATCACAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGaa                   >  2:657843/1‑90 (MQ=255)
                                                 ctacCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCACAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGaaa                  <  1:775432/90‑1 (MQ=255)
                                                  tacCATACAAGTATAAAGATCGGAAAAAGCCGGAGTGATCACAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAAt                 <  1:607694/90‑1 (MQ=255)
                                                     cATACAAGTATAAAGATCGGAAAAAGCCGGAGTGATCACAAAAAAAGGCGt                                                     <  1:440858/51‑1 (MQ=255)
                                                     cATACAAGTATAAAGATCGGAAAAAGCCGGAGTGATCACAAAAAAAGGCGt                                                     >  2:440858/1‑51 (MQ=255)
                                                             tataAAGATCGGAAAAAGCCGGAGTGATCACAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCttt      >  2:757788/1‑90 (MQ=255)
                                                              ataAAGATCGGAAAAAGCCGGAGTGATCACAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCtttt     >  1:669992/1‑90 (MQ=255)
                                                              ataAAGATCGGAAAAAGCCGGAGTGATCACAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCtttt     >  1:148749/1‑90 (MQ=255)
                                                                 aaGATCGGAAAAAGCCGGAGTGATCACAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTc  <  1:407831/90‑1 (MQ=255)
                                                                        |                                                                                  
ATTCCTTGCATCGCTTGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCACAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTC  >  NZ_CP009273/1649404‑1649558

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑