Predicted mutation
evidence seq id position mutation annotation gene description
RA NZ_CP009273 1,524,293 A→G intergenic (+98/‑105) BW25113_RS07645 → / → BW25113_RS26145 RHS repeat protein/hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092731,524,2930AG96.7% 103.3 / ‑3.5 30intergenic (+98/‑105)BW25113_RS07645/BW25113_RS26145RHS repeat protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (0/1);  new base G (13/16);  total (13/17)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.57e-01

AAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCATTTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTGAAAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGTTAATAATTACAGGACGCA  >  NZ_CP009273/1524157‑1524420
                                                                                                                                        |                                                                                                                               
aaagcaaagcAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCATTTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATgaa                                                                                                                               <  2:850322/139‑1 (MQ=255)
 aagcaaagcaAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCATTTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATgaaa                                                                                                                              <  1:269157/139‑1 (MQ=255)
 aagcaaagcaAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCATTTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATgaaa                                                                                                                              <  2:797734/139‑1 (MQ=255)
       agcaaGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCATTTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATGAAACACCaa                                                                                                                        <  2:321835/139‑1 (MQ=255)
        gcaaGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCATTTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATGAAACACCaaa                                                                                                                       <  2:870778/139‑1 (MQ=255)
             ggAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCATTTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCg                                                                                                                  <  1:537033/139‑1 (MQ=255)
                 ttCAGATGCTTCAAATTATTAGAGGCAAACTTGTCATTTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATgaa                                                                                                                               <  2:750301/122‑1 (MQ=255)
                 ttCAGATGCTTCAAATTATTAGAGGCAAACTTGTCATTTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATgaa                                                                                                                               >  1:750301/1‑122 (MQ=255)
                   cAGATGCTTCAAATTATTAGAGGCAAACTTGTCATTTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATGAAACACCAAAGAGCGtt                                                                                                                >  2:1193039/1‑135 (MQ=255)
                              aaTTATTAGAGGCAAACTTGTCATTTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATGAAACACCAAAGAGCGTTGAGATATATCTTTCt                                                                                                 <  2:590017/139‑1 (MQ=255)
                                         gCAAACTTGTCATTTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATGAAACACCAAAGAGCGTTGAGATATATCTTTCTGAAAAAAatat                                                                                      >  2:326245/1‑139 (MQ=255)
                                                                      tGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATGAAACACCAAAGAGCGTTGAGATATATCTTTCTGAAAAAAATATTATTTATAAAATAATTAATGACCaaaaaa                                                         >  2:897752/1‑139 (MQ=255)
                                                                                  gttTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATGAAACACCAAAGAGCGTTGAGATATATCTTTCTGAAAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAggg                                              >  1:722103/1‑138 (MQ=255)
                                                                                        cTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACACGAAACACCAAAGAGCGTTGAGATATATCTTTCTGAAAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTc                                       <  1:359691/139‑1 (MQ=255)
                                                                                          tGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATGAAaca                                                                                                                            >  2:1000626/1‑52 (MQ=255)
                                                                                          tGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATGAAaca                                                                                                                            <  1:1000626/52‑1 (MQ=255)
                                                                                          tGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATGAAACACCAAAGAGCGTTGAGATATATCTTTCTGAAAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCAt                                     >  1:1151874/1‑139 (MQ=255)
                                                                                           gggTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATGAAACACCAAAGAGCGt                                                                                                                 <  1:761044/62‑1 (MQ=255)
                                                                                           gggTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATGAAACACCAAAGAGCGt                                                                                                                 >  2:761044/1‑62 (MQ=255)
                                                                                             gTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATGAAACACCAAAGAGCGt                                                                                                                 >  1:285525/1‑60 (MQ=255)
                                                                                             gTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATGAAACACCAAAGAGCGt                                                                                                                 <  2:285525/60‑1 (MQ=255)
                                                                                             gTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATGAAACACCAAAGAGCGTTGAGATATATCTTTCTGAAAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCAttt                                   >  2:804045/1‑138 (MQ=255)
                                                                                                tGATAACAATTCAAATTCTGACATCGTATTTTATGGACATGAAACACCAAAGAGCGTTGAGATATATCTTTCTGAAAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTtat                                <  1:306479/138‑1 (MQ=255)
                                                                                                tGATAACAATTCAAATTCTGACATCGTATTTTATGGACATGAAACACCAAAGAGCGTTGAGATATATCTTTCTGAAAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTtat                                >  1:293500/1‑138 (MQ=255)
                                                                                                tGATAACAATTCAAATTCTGACATCGTATTTTATGGACATGAAACACCAAAGAGCGTTGAGATATATCTTTCTGAAAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTtat                                <  2:293500/138‑1 (MQ=255)
                                                                                                tGATAACAATTCAAATTCTGACATCGTATTTTATGGACATGAAACACCAAAGAGCGTTGAGATATATCTTTCTGAAAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTtat                                <  2:1151874/138‑1 (MQ=255)
                                                                                                       aaTTCAAATTCTGACATCGTATTTTATGGACATGAAACACCAAAGAGCGTTGAGATATATCTTTCTGAAAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATaa                        <  1:897752/139‑1 (MQ=255)
                                                                                                        aTTCAAATTCTGACATCGTATTTTATGGACATGAAACACCAAAGAGCGTTGAGATATATCTTTCTGAAAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAAt                       >  1:252855/1‑139 (MQ=255)
                                                                                                        aTTCAAATTCTGACATCGTATTTTATGGACATGAAACACCAAAGAGCGTTGAGATATATCTTTCTGAAAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAAt                       >  1:159388/1‑139 (MQ=255)
                                                                                                                      aTCGTATTTTATGGACATGAAACACCAAAGAGCGTTGAGATATATCTTTCTGAAAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGTTAATAATTACa         <  1:326245/139‑1 (MQ=255)
                                                                                                                          tATTTTATGGACATGAAACACCAAAGAGCGTTGAGATATATCTTTCTGAAAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGTTAATAATTACAGGAc     <  2:642626/139‑1 (MQ=255)
                                                                                                                          tATTTTATGGACATGAAACACCAAAGAGCGTTGAGATATATCTTTCTGAAAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGTTAATAATTACAGGAc     <  1:804045/139‑1 (MQ=255)
                                                                                                                              ttATGGACATGAAACACCAAAGATCGTTGAGATATATCTTTCTGAAAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGTTAATAATTACAGGACGCa  <  2:185778/138‑1 (MQ=255)
                                                                                                                                  ggACATGAAACACCAAAGAGCGTTGAGATATATCTTTCTGAAAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGTtaat                >  1:287801/1‑120 (MQ=255)
                                                                                                                                  ggACATGAAACACCAAAGAGCGTTGAGATATATCTTTCTGAAAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGTtaat                <  2:287801/120‑1 (MQ=255)
                                                                                                                                        |                                                                                                                               
AAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCATTTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTGAAAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGTTAATAATTACAGGACGCA  >  NZ_CP009273/1524157‑1524420

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑