Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,509,831 G→A pseudogene (28/330 nt) yjhV → KpLE2 phage‑like element; putative uncharacterized protein YjhV

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,509,8310GA98.2% 174.9 / NA 55pseudogene (28/330 nt)yjhVKpLE2 phage‑like element; putative uncharacterized protein YjhV
Reads supporting (aligned to +/- strand):  ref base G (0/1);  new base A (25/29);  total (25/30)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GCGCACTAAGACCGCACGAATATAATGGTGGGTTACCACCAAACGAATCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGGCAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAGGTCACGATGACTCTGGTTAATGATACCGGCTTTGACCCCGTATTTTCCGGCTCTATCGCTGAATCATGGCGTCAGCAGCCGTGCACACCATCCTAT  >  NC_000913/4509696‑4509965
                                                                                                                                       |                                                                                                                                      
gcgcACTAAGACCGCACGAATATAATGGTGGGTTACCACCAAACGAATCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGt                                                                                                                                    <  2:354793/140‑1 (MQ=255)
 cgcACTAAGACCGCACGAATATAATGGTGGGTTACCACCAAACGAATCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGtt                                                                                                                                   >  2:41475/1‑140 (MQ=255)
 cgcACTAAGACCGCACGAATATAATGGTGGGTTACCACCAAACGAATCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGtt                                                                                                                                   >  1:446141/1‑140 (MQ=255)
 cgcACTAAGACCGCACGAATATAATGGTGGGTTACCACCAAACGAATCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGtt                                                                                                                                   >  1:647637/1‑140 (MQ=255)
 cgcACTAAGACCGCACGAATATAATGGTGGGTTACCACCAAACGAATCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGtt                                                                                                                                   >  2:600167/1‑140 (MQ=255)
   cACTAAGGCCGCACGAATATAATGGTGGGTTACCACCAAACGAATCAGATAACCGATACCGGAAAAACTCTAGCGCGTAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGc                                                                                                                                 <  2:456523/140‑1 (MQ=255)
   cACTAAGACCGCACGAATATAATGGTGGGTTACCACCAAACGAATCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGc                                                                                                                                 >  2:658173/1‑140 (MQ=255)
          aCCGCACGAATATAATGGTGGGTTACCACCACACGAATCAGAAAACCGGTACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCa                                                                                                                          <  2:245665/140‑1 (MQ=255)
              cACGAATATAATGGTGGGTTACCACCAAACGAATCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGgag                                                                                                                      >  2:361717/1‑140 (MQ=255)
              cACGAATATAATGGTGGGTTACCACCAAACGAATCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGgag                                                                                                                      >  1:80886/1‑140 (MQ=255)
                  aaTATAATGGTGGGTTACCACCAAACGAATCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGatca                                                                                                                  >  1:403378/1‑140 (MQ=255)
                     atcaTGGTGGGTTACCACCAAACGAATCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATcc                                                                                                               <  2:403378/137‑1 (MQ=255)
                     ataATGGTGGGTTACCACCAAACGAATCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTTAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATcc                                                                                                               <  2:349653/140‑1 (MQ=255)
                     ataATGGTGGGTTACCACCAAACGAATCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATcc                                                                                                               <  2:647637/140‑1 (MQ=255)
                     ataATGGTGGGTTACCACCAAACGAATCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATcc                                                                                                               <  1:658173/140‑1 (MQ=255)
                          ggtggGTTACCACCAAACGAATCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCg                                                                                                          <  2:9275/140‑1 (MQ=255)
                           gtggGTTACCACCAAACGAATCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGc                                                                                                         >  1:573697/1‑140 (MQ=255)
                           gtggGTTACCACCAAACGAACCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGc                                                                                                         >  1:435499/1‑140 (MQ=255)
                              ggTTACCACCAAACGAATCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGt                                                                                                      >  2:352635/1‑140 (MQ=255)
                              ggTTACCACCAAACGAATCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGt                                                                                                      >  2:419864/1‑140 (MQ=255)
                              ggTTACCACCAAACGAATCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGt                                                                                                      >  1:106650/1‑140 (MQ=255)
                               gTTACCACCAAACGAATCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTa                                                                                                     >  1:431887/1‑140 (MQ=255)
                               gTTACCACCAAACGAATCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTa                                                                                                     <  2:573697/140‑1 (MQ=255)
                                  accaccAAACGAATCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGATAGTTGCACTAGCAGGAGATCAGCCAGCCGCAGTACAg                                                                                                  >  1:217808/1‑140 (MQ=255)
                                  accaccAAACGAATCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAg                                                                                                  <  2:106650/140‑1 (MQ=255)
                                        aaaCGAATCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGGAGTAGCATGAGTTCATCCAGCCGCAGTACAGGTCACg                                                                                            >  1:216185/1‑140 (MQ=255)
                                             aaTCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAGGTCACGa                                                                                           >  2:18650/1‑136 (MQ=255)
                                             aaTCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAGGTCACGa                                                                                           <  1:18650/136‑1 (MQ=255)
                                              accAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAGGTCACGATGAct                                                                                      <  2:435499/138‑1 (MQ=255)
                                              aTCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAGGTCACGATGAct                                                                                      <  2:54174/140‑1 (MQ=255)
                                              aTCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAGGTCACGATGAct                                                                                      <  2:223/140‑1 (MQ=255)
                                              aTCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAGGTCACGATGAct                                                                                      <  2:615585/140‑1 (MQ=255)
                                              aTCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAGGTCACGATGAct                                                                                      <  1:391274/140‑1 (MQ=255)
                                              aTCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAGGTCACGATGAct                                                                                      <  1:581811/140‑1 (MQ=255)
                                              aTCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAGGTCACGATGAct                                                                                      <  2:388617/140‑1 (MQ=255)
                                              aTCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAGGTCACGATGAct                                                                                      <  1:600167/140‑1 (MQ=255)
                                                   aaaaCCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAGGTCACGATGACTCTGGt                                                                                 <  1:589474/140‑1 (MQ=255)
                                                                  aaaaCTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAGGTCACGATGACTCTGGTTAATGATACCGGCtt                                                                  >  1:593985/1‑140 (MQ=255)
                                                                    aaCTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAGGTCACGATGACTCTGGTTAATGATACCGGCTTTg                                                                <  2:80886/140‑1 (MQ=255)
                                                                               ggAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAGGTCACGATGACTCTGGTTAATGATACCGGCTTTGACCCCATAttt                                                     >  2:50668/1‑140 (MQ=255)
                                                                                gAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGGCGCCTGACAGTTGCAGTAGCAGGAGAGCATCCAGCCGCAGTACAGGTCACGATGACTCTGGGTAATGATACCGGCTTTGACCCCGTAtttt                                                    >  1:86982/1‑140 (MQ=255)
                                                                                 aGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAGGTCACGATGACTCTGGTTAATGATACCGGCTTTGACCCCGTATTTTc                                                   >  2:110590/1‑140 (MQ=255)
                                                                                       gTTTTAGTTGACCACAACAGACCACCTGAAGCGAGTCGCTGTCGCCTGGCAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAGGTCACGATGACTCTGGTTAATGATACCGGCTTTGACCCCGTATTTTCCGGctc                                             <  2:217808/140‑1 (MQ=255)
                                                                                            aGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAGGTCACGATGACTCTGGTTAATGATACCGGCTTTGACCCCGTATTTTCCGGCTCTATCg                                        <  2:593985/140‑1 (MQ=255)
                                                                                                                cTGAAGGGAGCCGCGGTTGCCTGACAGTTGCAGTACCAGCAGATCATCTAGCCGCAGTACAGGTCACGATGACTCTGGTTAATGATACCGGCTTTGACCCCGTATTTTCCGGCTCTATCGCTGAATCATGGCGTcagcag                    <  2:183834/140‑1 (MQ=255)
                                                                                                                cTGAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAGGTCACGATGACTCTGGTTAATGATACCGGCTTTGACCCCGTATTTTCCGGCTCTATAGCTGAATCATGGCGTcagcag                    >  2:114628/1‑140 (MQ=255)
                                                                                                                  gAAGGGAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAGGTCACGATGACTCTGGTTAATGATACCGGCTTTGACCCCGTATTTTCCGGCTCTATCGCTGAATCATGGCGTCAGCAGcc                  <  1:110590/140‑1 (MQ=255)
                                                                                                                   aaGGGAGCCGCGGTCTCCTGACGGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAGGTCACGATGACTCTGGTTAATGATACCGGCTTTGACCCCGTATTTTCCGGCTCTATCGCTGAATCATGGCGTCAGCAGCCg                 <  1:307115/140‑1 (MQ=255)
                                                                                                                     gggAGCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAGGTCACGATGACTCTGGTTAATGATACCGGCTTTGACCCCGTATTTTCCGGCTCTATCGCTGAATCATGGCGTCAGCAGCCGTg               >  2:494291/1‑140 (MQ=255)
                                                                                                                         gCCGCGGTCGCCTGACAGTTGCGGTCGCATGAGATCAACCAGCCGCAGTACAGGTCACGATGACTCTGGTTAATGATACCGGCTTTGACCCCGTATTTTCCGGCTCTATCGCTGAATCATGGCGTCAGCAGCCGTGcaca           <  1:305604/140‑1 (MQ=255)
                                                                                                                         gCCGCGGTCGCCTGACAGTTGCGGTAGCAGGTGATCATCCAGCCGCAGCACAGGTCACGATGACTCTGGTTAATGATACCGGCTTTGACCCCGTATTTTCCGGCTCTATCGCTGAATCATGGCGTCAGCAGCCGTGcaca           <  2:216185/140‑1 (MQ=255)
                                                                                                                         gCCGCGGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAGGTCACGATGACTCTGGTTAATGATACCGGCTTTGACCCCGTATTTTCCGGCTCTATCGCTGAATCATGGCGTCAGCAGCCGTGcaca           <  1:604697/140‑1 (MQ=255)
                                                                                                                             cgGTCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAGGTCACGATGACTCTGGTTAATGATACCGGCTTTGACCCCGTATTTTCCGGCTCTATCGCTGAATCATGGCGTCAGCAGCCGTGCACACCAt       >  1:590624/1‑140 (MQ=255)
                                                                                                                                tCGCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAGGTCACGATGACTCTGGTTAATGATACCGGCTTTGACCCCGTATTTTCCGGCTCTATCGCTGAATCATGGCGTCAGCAGCCGTGCACACCATCCt    <  1:419864/140‑1 (MQ=255)
                                                                                                                                  gCCTGACAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAGGTCACGATGACTCTGGTTAATGATACCGGCTTTGACCCCGTATTTTCCGGCTCTATCGCTGAATCATGGCGTCAGCAGCCGTGCACACCATCCTAt  >  2:546833/1‑140 (MQ=255)
                                                                                                                                       |                                                                                                                                      
GCGCACTAAGACCGCACGAATATAATGGTGGGTTACCACCAAACGAATCAGAAAACCGATACTGGAAAAACTCTAACGCGGAGGCCAGTTTTAGTTGACCACAACAGACTACCTGAAGGGAGCCGCGGTCGCCTGGCAGTTGCAGTAGCAGGAGATCATCCAGCCGCAGTACAGGTCACGATGACTCTGGTTAATGATACCGGCTTTGACCCCGTATTTTCCGGCTCTATCGCTGAATCATGGCGTCAGCAGCCGTGCACACCATCCTAT  >  NC_000913/4509696‑4509965

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑