Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,467,324 G→A M260I (ATG→ATA)  intS → CPS‑53 (KpLE1) prophage; prophage CPS‑53 integrase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,467,3240GA100.0% 180.0 / NA 51M260I (ATG→ATA) intSCPS‑53 (KpLE1) prophage; prophage CPS‑53 integrase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (25/26);  total (25/26)

CGCTCATTGCGACCAAAGTTTTACGCTACACAGCCCTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATGAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCACTACGCTAAGCTCCATCACCAAACCAGTCTCAGAGTTTGTTTTTGCCGGGCGCAACGATAAGAAGAAGCCAATCTGCGA  >  NC_000913/2467206‑2467458
                                                                                                                      |                                                                                                                                      
cgCCCATTGCGACCAAAGTTTTACGCTACACAGCCCTAAGAACGAAAGAGCTTCGTTCTATGCTATGGAAGAACGTCGATTTTGAAAATAGTATTATCACCATCGACGCTAGTGTGATAAAAGGACGCAAAATTCAtgtg                                                                                                                   >  2:926099/1‑140 (MQ=255)
  cTCATTGCGACCAAAGTTTTACGCTACACAGCCCTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCAtgtg                                                                                                                   >  1:415681/1‑138 (MQ=255)
  cTCATTGCGACCAAAGTTTTACGCTACACAGCCCTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCAtgtg                                                                                                                   >  2:223309/1‑138 (MQ=255)
  cTCATTGCGACCAAAGTTTTACGCTACACAGCCCTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCAtgtg                                                                                                                   <  2:415681/138‑1 (MQ=255)
  cTCATTGCGACCAAAGTTTTACGCTACACAGCCCTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCAtgtg                                                                                                                   <  1:223309/138‑1 (MQ=255)
  cTCATTGCGACCAAAGTTTTACGCTACACAGCCCTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGt                                                                                                                 >  2:151636/1‑140 (MQ=255)
     aTTGCGACCAAAGTTTTACGCTACACAGCCCTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTcc                                                                                                              <  2:563884/140‑1 (MQ=255)
      ttGCGACCAAAGTTTTACGCTACACAGCCCTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTcc                                                                                                              <  2:67283/139‑1 (MQ=255)
      ttGCGACCAAAGTTTTACGCTACACAGCCCTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTcc                                                                                                              >  1:67283/1‑139 (MQ=255)
       tGCGACCAAAGTTTTACGCTACACAGCCCTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTa                                                                                                            >  2:491175/1‑140 (MQ=255)
       tGCGACCAAAGTTTTACGCTACACAGCCCTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTa                                                                                                            >  2:158274/1‑140 (MQ=255)
       tGCGACCAAAGTTTTACGCTACACAGCCCTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTa                                                                                                            >  2:155249/1‑140 (MQ=255)
        gCGACCAAAGTTTTACGCTACACAGCCCTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACACAAAATTCATGTGGTTCCTAt                                                                                                           <  1:855532/140‑1 (MQ=255)
               aaGTTTTACGCTACACAGCCCTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGAc                                                                                                    >  1:800150/1‑140 (MQ=255)
                 gTTTTACGCTACACAGCCCTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCa                                                                                                  <  1:262798/140‑1 (MQ=255)
                 gTTTTACGCTACACAGCCCTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCa                                                                                                  <  2:61620/140‑1 (MQ=255)
                   tttACGCTACACAGCCCTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAgg                                                                                                >  2:515137/1‑140 (MQ=255)
                   tttACGCTACACAGCCCTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAgg                                                                                                <  1:790437/140‑1 (MQ=255)
                    ttACGCTACACAGCCCTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGt                                                                                               <  2:107030/140‑1 (MQ=255)
                    ttACGCTACACAGCCCTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGt                                                                                               <  2:514454/140‑1 (MQ=255)
                         cTACACAGCCCTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTg                                                                                          <  2:303148/140‑1 (MQ=255)
                           acacAGCCCTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGaa                                                                                        <  1:193871/140‑1 (MQ=255)
                            cacaGCCCTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAAc                                                                                       >  1:16396/1‑140 (MQ=255)
                             acaGCCCTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACt                                                                                      <  1:151636/140‑1 (MQ=255)
                                gCCCTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTtct                                                                                   >  2:969147/1‑140 (MQ=255)
                                 cccTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTGTGTCAGACCAGGTAGTTGAACTtctc                                                                                  >  2:871638/1‑140 (MQ=255)
                                 cccTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTtctc                                                                                  >  1:13873/1‑140 (MQ=255)
                                  ccTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCa                                                                                 <  2:69438/140‑1 (MQ=255)
                                        aaCGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCACTACGc                                                                           <  1:871638/140‑1 (MQ=255)
                                           gAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCACTACGCTaa                                                                        <  2:356327/140‑1 (MQ=255)
                                                agCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCACTACGCTAAGCTcc                                                                   <  1:515137/140‑1 (MQ=255)
                                                  cTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCACTACg                                                                            <  2:469967/129‑1 (MQ=255)
                                                  cTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCACTACg                                                                            >  1:469967/1‑129 (MQ=255)
                                                          cATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCACTACGCTAAGCTCCATCACCAAAc                                                         <  1:491175/140‑1 (MQ=255)
                                                          cATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCACTACGCTAAGCTCCATCACCAAAc                                                         <  1:158274/140‑1 (MQ=255)
                                                               tATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCACTACGCTAAGCTCCATCACCAAAc                                                         >  2:373856/1‑135 (MQ=255)
                                                               tATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCACTACGCTAAGCTCCATCACCAAAc                                                         <  1:373856/135‑1 (MQ=255)
                                                                 tGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCACTACGCTAAGCTCCATCACCAAACCAGtctc                                                  <  1:837403/140‑1 (MQ=255)
                                                                      gaaCGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCGTGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCACTACGCTAAGCTCCATCACCAAACCAGTCTCAGAgt                                             >  2:865157/1‑140 (MQ=255)
                                                                           tCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCACTACGCTAAGCTCCATCACCAAACCAGTCTCAGAgtttgtt                                        >  1:211935/1‑140 (MQ=255)
                                                                                  tGAAAATAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCACTACGCTAAGCTCCATCACCAAACCAGTCTCAGAGTTTGTTTTTGCCg                                 >  2:352805/1‑140 (MQ=255)
                                                                                     aaaTAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCACTACGCTAAGCTCCATCACCAAACCAGTCTCAGAGTTTGTTTTTGCCGGgc                              <  1:969147/140‑1 (MQ=255)
                                                                                        tAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCACTACGCTAAGCTCCATCACCAAACCAGTCTCAGAGTTTGTTTTTGCCGGGCGCa                           <  2:211935/140‑1 (MQ=255)
                                                                                        tAGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCACTACGCTAAGCTCCATCACCAAACCAGTCTCAGAGTTTGTTTTTGCCGGGCGCa                           <  1:275402/140‑1 (MQ=255)
                                                                                         aGGATTATCACCATCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCACTACGCTAAGCTCCATCACCAAACCAGTCTCAGAGTTTGTTTTTGCCGGGCGCaa                          >  1:406699/1‑140 (MQ=255)
                                                                                                     aTCGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCACTACGCTAAGCTCCATCACCAAACCAGTCTCAGAGTTTGTTTTTGCCGGGCGCAACGATaagaagaa              >  1:986487/1‑140 (MQ=255)
                                                                                                       cGACGCCAGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCACTACGCTAAGCTCCATCACCAAACCAGTCTCAGAGTTTGTTTTTGCCGGGCGCAACGATAAGAAGAAGc            >  2:583639/1‑140 (MQ=255)
                                                                                                              aGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCACTACGCTAAGCTCCATCACCAAACCAGTCTCAGAGTTTGTTTTTGCCGGGCGCAACGATAAGAAGAAGCCAATCTg     >  2:4957/1‑140 (MQ=255)
                                                                                                              aGTGTGATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCACTACGCTAAGCTCCATCACCAAACCAGTCTCAGAGTTTGTTTTTGCCGGGCGCAACGATAAGAAGAAGCCAATCTg     >  2:478152/1‑140 (MQ=255)
                                                                                                                tgtgATAAAAGGACGCAGAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCACTACGCTAAGCTCCATCACCAAACCAGTCTCAGAGTTTGTTTTTGCCGGGCGCAACGATAAGAAGAAGCCAATCTGCg   >  2:192014/1‑140 (MQ=255)
                                                                                                                tgtgATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCACTACGCTAAGCTCCATCACCAAACCAGTCTCAGAGTTTGTTTTTGCCGGGCGCAACGATAAGAAGAAGCCAATCTGCg   >  1:61460/1‑140 (MQ=255)
                                                                                                                 gtgATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCACTACGCTAAGCTCCATCACCAAACCAGTCTCAGAGTTTGTTTTTGCCGGGCGCAACGATAAGAAGAAGCCAATCTGCga  <  1:352805/140‑1 (MQ=255)
                                                                                                                 gtgATAAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCACTACGCTAAGCTCCATCACCAAACCAGTCTCAGAGTTTGTTTTTGCCGGGCGCAACGATAAGAAGAAGCCAATCTGCga  >  1:585765/1‑140 (MQ=255)
                                                                                                                      |                                                                                                                                      
CGCTCATTGCGACCAAAGTTTTACGCTACACAGCCCTAAGAACGAAAGAGCTTCGTTCCATGCTATGGAAGAACGTCGATTTTGAAAATAGGATTATCACCATCGACGCCAGTGTGATGAAAGGACGCAAAATTCATGTGGTTCCTATGTCAGACCAGGTAGTTGAACTTCTCACTACGCTAAGCTCCATCACCAAACCAGTCTCAGAGTTTGTTTTTGCCGGGCGCAACGATAAGAAGAAGCCAATCTGCGA  >  NC_000913/2467206‑2467458

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑