Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 721,004 T→A 10.5% intergenic (+164/+52) ybfK → / ← kdpE uncharacterized protein/response regulator in two‑component regulatory system with KdpD

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913721,0040TA10.5% 120.0 / 5.0 38intergenic (+164/+52)ybfK/kdpEuncharacterized protein/response regulator in two‑component regulatory system with KdpD
Reads supporting (aligned to +/- strand):  ref base T (18/16);  new base A (2/2);  total (20/18)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.46e-01

AGGAAATACGGTTGAACTGTGAAGGTGATCAATAAAAAATGATCAATCTTAATTTATTTAATGATGAGCTTTTTACTCAGTAATATAAAATATTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATTTATTATTACGGCTTTAATTAATAAAAGGCAGGCTGTATTAAAATTAATATTCAAAGCATAAACCGATAGCCAATACCGGTTTCAGTAATGAAATGGCGTGGGCGGGCGGGATCCTGTTCCAGTTTTTGTCGCAGATGTCCC  >  NC_000913/720869‑721146
                                                                                                                                       |                                                                                                                                              
aGGAAATACGGTTGAACTGTGAAGGTGATCAATAAAAAATGATCAATCTTAATTTATTTAATGATGAGCTTTTTACTCAGTAATATAAAATATTGAGTTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATTTATTATTACGGc                                                                                                                                   >  3:532813/1‑149 (MQ=255)
      tACGGTTGAACTGTGAAGGTGATCAATAAAAAATGATCAATCTTAATTTATTTAATGATGAGCTTTTTACTCAGTAATATAAAATATTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATTTATTATTACGGCTttaat                                                                                                                             <  4:341961/149‑1 (MQ=255)
      tACGGTTCAACTGTGAAGGTGATCAATAAAAAATGATCAATCTTAATTTATTTAATGATGAGCTTTTTACTCAGTAATATAAAATATTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATTTATTATTACGGCTttaat                                                                                                                             <  4:532813/149‑1 (MQ=255)
         ggTTGAACTGTGAAGGTGATCAATAAAAAATGATCAATCTTAATTTATTTAATGATGAGCTTTTTACTCAGTAATATAAAATATTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTAATAATAAATACGGCttt                                                                                                                                >  1:321698/1‑143 (MQ=255)
         ggTTGAACTGTGAAGGTGATCAATAAAAAATGATCAATCTTAATTTATTTAATGATGAGCTTTTTACTCAGTAATATAAAATATTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTAATAATAAATACGGCttt                                                                                                                                <  2:321698/143‑1 (MQ=255)
           ttGAACTGTGAAGGTGATCAATAAAAAATGATCAATCTTAATTTATTTAATGATGAGCTTTTTACTCAGTAATATAAAATATTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATTTATTATTACGGCTTTAATtaata                                                                                                                        >  1:284527/1‑149 (MQ=255)
                 tgtgAAGGTGATCAATAAAAAATGATCAATCTTAATTTATTTAATGATGAGCTTTTTACTCAGTAATATAAAATATTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATTTATTATTACGGCTTTAATTAATAAAaggc                                                                                                                  >  4:471526/1‑149 (MQ=255)
                   tgAAGGTGATCAATAAAAAATGATCAATCTTAATTTATTTAATGATGAGCTTTTTACTCAGTAATATAAAATATTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATTTATTATTACGGCTTTAATTAATAAAaggcag                                                                                                                <  1:440781/149‑1 (MQ=255)
                         tGATCAATAAAAAATGATCAATCTTAATTTATTTAATGATGAGCTTTTTACTCAGTAATATAAAATATTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATTTATTATTACGGCTTTAATTAATAAAAGGCAGGCTGTa                                                                                                          <  2:627646/149‑1 (MQ=255)
                           aTCAATAAAAAATGATCAATCTTAATTTATTTAATGATGAGCTTTTTACTCAGTAATATAAAATATTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATTTATTATTACGGCTTTAATTAATAGAAGGCAGGCTGTa                                                                                                          >  2:200599/1‑147 (MQ=255)
                           aTCAATAAAAAATGATCAATCTTAATTTATTTAATGATGAGCTTTTTACTCAGTAATATAAAATATTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATTTATTATTACGGCTTTAATTAATAAAAGGCAGGCTGTa                                                                                                          <  1:200599/147‑1 (MQ=255)
                              aaTAAAAAATGATCAATCTTAATTTATTTAATGATGAGCTTTTTACTCAGTAATATAAAATATTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATttattat                                                                                                                                         >  3:511295/1‑113 (MQ=255)
                              aaTAAAAAATGATCAATCTTAATTTATTTAATGATGAGCTTTTTACTCAGTAATATAAAATATTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATttattat                                                                                                                                         <  4:511295/113‑1 (MQ=255)
                                   aaaaTGATCAATCTTAATTTATTTAATGATGAGCTATTTACTCAGTAATATAAAATATTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATCTATTATTACGGCTTTAATTAATAAAAGGCAGGCTGTATTAAAATTaa                                                                                                <  3:471526/149‑1 (MQ=255)
                                                    tttatttaATGATGAGCTTTTTACTCAGTAATATAAAATATTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATTTATTATTACgg                                                                                                                                    <  4:415191/96‑1 (MQ=255)
                                                    tttatttaATGATGAGCTTTTTACTCAGTAATATAAAATATTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATTTATTATTACgg                                                                                                                                    >  3:415191/1‑96 (MQ=255)
                                                                     tttttACTCAGTAATATAAAATATTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATTTATTATTACGGCTttaa                                                                                                                              >  4:341296/1‑85 (MQ=255)
                                                                     tttttACTCAGTAATATAAAATATTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATTTATTATTACGGCTttaa                                                                                                                              <  3:341296/85‑1 (MQ=255)
                                                                     tttttACTCAGTAATATAAAATATTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATTTATTATTACGGCTttaa                                                                                                                              >  2:571297/1‑85 (MQ=255)
                                                                     tttttACTCAGTAATATAAAATATTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATTTATTATTACGGCTttaa                                                                                                                              <  1:571297/85‑1 (MQ=255)
                                                                                tAATATAAAATATTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATTTATTATTACGGCTTTAATTAATAAAAGGCAGGCTGTATTAAAATTAATATTCAAAGCATAAACCGATAGCCAATAcc                                                                  <  2:482261/134‑1 (MQ=255)
                                                                                tAATATAAAATATTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATTTATTATTACGGCTTTAATTAATAAAAGGCAGGCTGTATTAAAATTAATATTCAAAGCATAAACCGATAGCCAATAcc                                                                  >  1:482261/1‑134 (MQ=255)
                                                                                     taAAATATTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATTTATTATTACGGCTTTAATTAATAAAAGGCAGGCTGTATTAAAATTAATATTCAAAGCATAAACCGATAGCCAATACCGGTTTCAGTAATGAAATGGc                                              >  3:304477/1‑149 (MQ=255)
                                                                                     taAAATATTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATTTATTATTACGGCTTTAATTAATAAAAGGCAGGCTGTATTAAAATTAATATTCAAAGCATAAACCGATAGCCAATACCGGTTTCAGTAATGAAATGGc                                              >  3:35463/1‑149 (MQ=255)
                                                                                     taAAATATTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATTTATTATCACGGCTTTAATTAATAAAAGGCAGGCTGTATTAAAATTAATATTCAAAGCATAAACCGATAGCCAATACCGGTTTCAGTAATGAAATGGc                                              >  1:593204/1‑149 (MQ=255)
                                                                                        aaTATTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATTTATTATTACGGCTTTAATTAATAAAAGGCAGGCTGTATTAAAATTAATATTCAAAGCATAAACCGATAGCCAATACCGGTTTCAGTAATGAAATGGCGTg                                           >  2:469300/1‑149 (MQ=255)
                                                                                           atTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATTTATTATTACGGCTttaattaa                                                                                                                          <  2:493553/67‑1 (MQ=255)
                                                                                           atTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATTTATTATTACGGCTttaattaa                                                                                                                          >  1:493553/1‑67 (MQ=255)
                                                                                                               tgttgtTTAAGATAAAAAGCCGTATTTATTATTACGGCTTTAATTAATAAAAGGCAGGCTGTATTAAAATTAATATTCAAAGCATAAACCGATAGCCAATACCGGTTTCAGTAATGAAATGGCGTGGGCGGGCGGGATCCTGTTCCAGt                    >  1:239651/1‑149 (MQ=255)
                                                                                                                gttgttTAAGATAAAAAGCCGTATTTATTATTACGGCTTTAATTAATAAAAGGCAGGCTGTATTAAAATTAATATTCAAAGCATAAACCGATAGCCAATACCGGTTTCAGTAATGAAATGGCGTGGGCGGGCGGGATCCTGTTCCAGtt                   <  2:406984/149‑1 (MQ=255)
                                                                                                                gttgttTAAGATAAAAAGCCGTATTTATTATTACGGCTTTAATTAATAAAAGGCAGGCTGTATTAAAATTAATATTCAAAGCATAAACCGATAGCCAATACCGGTTTCAGTAATGAAATGGCGTGGGCGGGCGGGATCCTGTTCCAGtt                   >  1:406984/1‑149 (MQ=255)
                                                                                                                    tttAAGATAAAAAGCCGTATTTATTATTACGGCTTTAATTAATAAAAGGCAGGCTGTATTAAAATTAATATTCAAAGCATAAACCGATAGCCAATACCGGTTTCAGTAATGAAATGGCGTGGGCGGGCGGGATCCTGTTCCAGTTTTTg               >  4:419335/1‑149 (MQ=255)
                                                                                                                                aGCCGTAATAATAAATACGGCTTTAATTAATAAAAGGCAGGCTGTATTAAAATTAATATTCAAAGCATAAACCGATAGCCAATACCGGTTTCAGTAATGAAATGGCGTGGGCGGGCGGGATCCTGTTcc                       <  4:381169/129‑1 (MQ=255)
                                                                                                                                aGCCGTAATAATAAATACGGCTTTAATTAATAAAAGGCAGGCTGTATTAAAATTAATATTCAAAGCATAAACCGATAGCCAATACCGGTTTCAGTAATGAAATGGCGTGGGCGGGCGGGATCCTGTTcc                       >  3:381169/1‑129 (MQ=255)
                                                                                                                                 gCCGTATTTATTATTACGGCTTTAATTAATAAAAGGCAGGCTGTATTAAAATTAATATTCAAAGCATAAACCGATAGCCAATACCGGTTTCAGTAATGAAATGGCGTGGGCGGGCGGGATCCTGTTCCAGTTTTTGTCGCAGATGTccc  <  2:284527/149‑1 (MQ=255)
                                                                                                                                 gCCGTATTTATTATTACGGCTTTAATTAATAAAAGGCAGGCTGTATTAAAATTAATATTCAAAGCATAAACCGATAGCCAATACCGGTTTCAGTAATGAAATGGCGTGGGCGGGCGGGATCCTGTTCCAGTTTTTGTCGCAGATGTccc  <  1:469300/149‑1 (MQ=255)
                                                                                                                                    gTATTTATTATTACGGCTTTAATTAATAAAAGGCAGGCTGTATTAAAATTAATATTCAAAGCATAAACCGATAGCCAATACCGGttt                                                             >  1:670722/1‑87 (MQ=255)
                                                                                                                                    gTATTTATTATTACGGCTTTAATTAATAAAAGGCAGGCTGTATTAAAATTAATATTCAAAGCATAAACCGATAGCCAATACCGGttt                                                             <  2:670722/87‑1 (MQ=255)
                                                                                                                                       |                                                                                                                                              
AGGAAATACGGTTGAACTGTGAAGGTGATCAATAAAAAATGATCAATCTTAATTTATTTAATGATGAGCTTTTTACTCAGTAATATAAAATATTGAATTGTTATTTTTGTGTGTTGTTTAAGATAAAAAGCCGTATTTATTATTACGGCTTTAATTAATAAAAGGCAGGCTGTATTAAAATTAATATTCAAAGCATAAACCGATAGCCAATACCGGTTTCAGTAATGAAATGGCGTGGGCGGGCGGGATCCTGTTCCAGTTTTTGTCGCAGATGTCCC  >  NC_000913/720869‑721146

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑