Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 2,778,123 G→T 13.0% intergenic (+341/+23) ypjF → / ← ypjA CP4‑57 prophage; toxin of the YpjF‑YfjZ toxin‑antitoxin system/adhesin‑like autotransporter YpjA

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,778,1230GT13.0% 104.7 / 7.3 47intergenic (+341/+23)ypjF/ypjACP4‑57 prophage; toxin of the YpjF‑YfjZ toxin‑antitoxin system/adhesin‑like autotransporter YpjA
Reads supporting (aligned to +/- strand):  ref base G (19/21);  new base T (4/2);  total (24/23)
Fisher's exact test for biased strand distribution p-value = 6.65e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.30e-01

CACCAATCATGATTGGACGGTGTAAGGACAACACCAACAAAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATACCCCACCCCAAGATGCCCGCTTAACGTACTGCTGAATGAGGCTTTAATACCTGC  >  NC_000913/2777981‑2778265
                                                                                                                                              |                                                                                                                                              
caccaATCATGATTGGACGGTGTAAGGACAACACCAACAAAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTACAATGAAGGCGCACAg                                                                                                                                                >  1:84866/1‑143 (MQ=255)
   caATCATGATTGGACGGTGTAAGGACAACACCAACAAAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAAAtg                                                                                                                                             >  2:69053/1‑143 (MQ=255)
      tCATGATTGGACGGTGTAAGGACAACACCAACAAAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTgg                                                                                                                                          <  1:386700/143‑1 (MQ=255)
           acgggACGGTGTAAGGACGACACGAACAAAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCttt                                                                                                                                     <  1:57992/140‑1 (MQ=255)
              ggACGGTGTAAGGACAACAGCAACAAAAACAGGAAGTTAGAAGTCTCAGCGAATCACCGACCAGACGGTGAGGAGACATAAAAGGATACGGAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTc                                                                                                                                  <  2:349098/143‑1 (MQ=255)
                agggTGTAAGGTTCACGCCGACCAACACATTATGTTAGAAGTCCAAGCAAATCACCGACCAGACGGTGAGGAGACATAAAAGGATACGCGAAGGTGCCGCGGCTCCTGGTAACATGAAAGCCCACATCTGTGGGCtttcatgt                                                                                                                                <  2:8008/141‑6 (MQ=255)
                aCGGTGTAAGGACAACACCAACAAAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTGACATGAAAGCCCACAGATGTGGGCTTTTTCGt                                                                                                                                <  1:508301/143‑1 (MQ=255)
                   gtgtAAGGACAACACCAACAAAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTCGTTGa                                                                                                                             >  1:639907/1‑143 (MQ=255)
                   gtgtAAGGACAACACCAACAAAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTCGTTGa                                                                                                                             >  1:217933/1‑143 (MQ=255)
                         ggACAACACCAACAAAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTCGTTGATGGTCa                                                                                                                       <  1:625458/143‑1 (MQ=255)
                          gACAACACCAACAAAAACAGGAAGTTAGAAGTCCCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAg                                                                                                                      <  1:547294/143‑1 (MQ=255)
                             aacaCCAACAAAAACAGGACGTTAGAAGTCTCCGCAAAACACCGACCAGACCGTCACGAGACATAAAAGCAAACGCCAAGAAGCCCCGGCTCCTGGTAACATGAACGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAAc                                                                                                                   <  1:527723/143‑1 (MQ=255)
                               cacCAACAAAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGa                                                                                                                 >  1:330899/1‑143 (MQ=255)
                                acCAACAACAACAGGAAGTTAGAAGTCCCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGAc                                                                                                                <  1:503523/143‑1 (MQ=255)
                                  caacaaAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAACAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCCCTGCCGTTGCTGGTCAGAGCGAccg                                                                                                              >  2:579575/1‑142 (MQ=255)
                                  caacaaAAACAGGAAGTTAGAAGCGTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCa                                                                                                              <  2:325082/143‑1 (MQ=255)
                                   aacaaAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAg                                                                                                             >  1:126462/1‑143 (MQ=255)
                                   aacaaAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCGTTTTCGTTGATGGTCAGAACGACCAg                                                                                                             >  1:175733/1‑143 (MQ=255)
                                                  ttAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTAcc                                                                                              >  1:190547/1‑143 (MQ=255)
                                                  ttAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCGTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTAcc                                                                                              >  1:92562/1‑143 (MQ=255)
                                                    aGAAGTCTCAGCAAAACACCGACCAGGCCGTGAGGAGACATAAAAGGATGCGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACcgc                                                                                            <  2:483322/143‑1 (MQ=255)
                                                       aGTCCCAGCAAAACACCGACCAGACGGTGAGGAGACATACAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGtt                                                                                         <  1:389864/143‑1 (MQ=255)
                                                           tcAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCAc                                                                                     >  1:442411/1‑143 (MQ=255)
                                                             aGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACATCTGTGGGCtt                                                                                                                                      <  1:441666/92‑1 (MQ=255)
                                                             aGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACATCTGTGGGCtt                                                                                                                                      >  2:441666/1‑92 (MQ=255)
                                                                 aaaCACCGCCCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGAt                                                                               <  1:10539/143‑1 (MQ=255)
                                                                   acacGGACAGGACGGTGAGGAGACATAAAAGGATACGCAAGGGAGCCGCGGCTTCTGGTAACTTGAAAGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTc                                                                             <  2:284574/143‑1 (MQ=37)
                                                                            aggcGGTGAGGAGACATAAAAGGAGACGCAAAGGAGCCGCGGCGCCTGGTAACATGAAACCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGc                                                                    <  2:317090/140‑1 (MQ=255)
                                                                             gACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCa                                                                   <  2:639907/143‑1 (MQ=255)
                                                                                    aggagACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGCTTCCACACCGGCACTATGGc                                                            >  1:434520/1‑143 (MQ=255)
                                                                                           aTAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATaccc                                                     <  1:196873/143‑1 (MQ=255)
                                                                                            tAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAGGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATacccc                                                    <  2:84866/143‑1 (MQ=255)
                                                                                              aaaGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTGTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATaccccac                                                  >  1:587322/1‑143 (MQ=255)
                                                                                                   aTACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTGTTTCGTTGATGGTCAGAAAGACCAGTTCACACCAGCTACCGCGTTGCGCGGGGAGTCGACACCGGACCTATGGCTATCCCACGCCCCaa                                             >  1:39373/1‑143 (MQ=255)
                                                                                                      cGCACAGGGGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCCCGGGGTTTCCACTCCGGCACTATGGCTATACCCCACCCCAAGAt                                          <  2:390160/143‑1 (MQ=25)
                                                                                                       gCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCCCTATGTCTCGAACCCACCCCAAGATg                                         >  2:235358/1‑143 (MQ=25)
                                                                                                        cAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTACACCCCCGCCCAAGATGc                                        >  2:367379/1‑143 (MQ=255)
                                                                                                         aaaGGCGCCGCGGCTCCTGGTAACATGAGAGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATACCCCACCCCAAGATGcc                                       <  1:127772/143‑1 (MQ=255)
                                                                                                             gAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGATCCACGGGGAGTCCACACCGGCACTATGGCTATGCCCCACCCCACGATGCCCGCt                                   >  1:26624/1‑143 (MQ=255)
                                                                                                               ggcgcgGGCCCTGGGAACATGCAAGCCCACAGATGTGGGCTTGTTCGTTGATGGCCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATACCCCACCCCAAGATGCCCGCTTa                                 <  2:36299/141‑1 (MQ=18)
                                                                                                                ccGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGCTTCCACACCGGCACTATGGCTATACCCCGCCCCCCGCTGCTCGCtgca                                >  1:9274/1‑140 (MQ=21)
                                                                                                                  gcgGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATACCCCCCCCCCCGCTGCCCCCTTCACg                              >  1:7269/1‑143 (MQ=21)
                                                                                                                      cTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCCCTATGGCTATACCCCACCCCAAGTTGCCCGCTTAACGTCct                          >  1:125983/1‑143 (MQ=255)
                                                                                                                            gTAACATGAAAGCCCACAGATGTGGGCTTTTTCGGTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGTATTCCACACCGGCACTATGGCTATACCCCACCCCAAGATGCCCGCTTAACGTACTGCTGaa                    <  2:638084/143‑1 (MQ=255)
                                                                                                                                   caaaGCCCACATCTGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGCGATTCCACACCGCCACTATGGCTATACCCCACCCCACGATGCCCGCTGAACTTACTGCTGAATGCGGCt             >  2:518437/2‑143 (MQ=17)
                                                                                                                                     aaGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATACCCCACCCCAAGATGCCCGCTTATCGTACTGCTGAAAGAGGCttt           >  2:117650/1‑143 (MQ=255)
                                                                                                                                      aGCCCACATCTGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGAGTCCACACCGGCACTACGGCGATACACCTCCCCAAGATGCCCGCTTCACGTACTGCTGCATGAGGCGTTa          >  2:283973/1‑143 (MQ=17)
                                                                                                                                       gCCCACATCTGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATACCCCACCCCAAGATGCCCGCTTAACGTACTGCTGAATGAGGCTTTaa         >  1:493399/1‑143 (MQ=255)
                                                                                                                                              gATGTGGGCTCTTTCGGTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGCGGAGTCCACACCGGCACTATGGCTATACCCCACCCCAAGATGCCCGCTTAACGTACTGCTGAATGAGGCTTTAATAcctgc  <  2:416731/143‑1 (MQ=255)
                                                                                                                                              |                                                                                                                                              
CACCAATCATGATTGGACGGTGTAAGGACAACACCAACAAAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATACCCCACCCCAAGATGCCCGCTTAACGTACTGCTGAATGAGGCTTTAATACCTGC  >  NC_000913/2777981‑2778265

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: ‑