Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A5 F1 I2 R1 772 77.0 3769570 91.6% 3452926 105.3

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,418,386 G→A intergenic (‑157/‑285) kilR ← / → sieB killing protein, Rac prophage, FtsZ inhibitor protein/phage superinfection exclusion protein, Rac prophage

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,418,3860GA100.0% 205.4 / NA 63intergenic (‑157/‑285)kilR/sieBkilling protein, Rac prophage, FtsZ inhibitor protein/phage superinfection exclusion protein, Rac prophage
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (35/28);  total (35/28)

TGCGGTGTCTGGTGCCTCCAGGTGACTGCAACCAGTTAACAATTACAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCGCATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGGCGCACTCCCACCATTTAAATTTAACAGAC  >  NC_000913/1418264‑1418520
                                                                                                                          |                                                                                                                                      
tGCGGTGTCTGGTGCCTCCAGGTGACTGCAACCAGTTAACAATTACAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACt                                                                                                                        <  2:864886/139‑1 (MQ=255)
              ccTCCAGGTGACTGCAACCAGTTAACAATTACAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACcaca                                                                                                                                      >  2:518479/1‑111 (MQ=255)
                 ccAGGTGACTGCAACCAGTTAACAATTACAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAAt                                                                                                                             <  1:1192220/117‑1 (MQ=255)
                 ccAGGTGACTGCAACCAGTTAACAATTACAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAAt                                                                                                                             >  2:1192220/1‑117 (MQ=255)
                 ccAGGTGACTGCAACCAGTTAACAATTACAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACAt                                                                                                       <  2:1061104/139‑1 (MQ=255)
                 ccAGGTGACTGCAACCAGTTAACAATTACAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACAt                                                                                                       >  2:1877296/1‑139 (MQ=255)
                      tGACTGCAACCAGTTAACAATTACAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGcc                                                                                                  >  1:21185/1‑139 (MQ=255)
                                           tACAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAAt                                                                                                                             <  1:200414/91‑1 (MQ=255)
                                           tACAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAAt                                                                                                                             >  2:200414/1‑91 (MQ=255)
                                                 cGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGaa                                                                                      <  2:1440252/124‑1 (MQ=255)
                                                 cGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGaa                                                                                      >  1:1440252/1‑124 (MQ=255)
                                                 cGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATgccgc                                                                       <  2:697645/139‑1 (MQ=255)
                                                  ggCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATgccgcc                                                                      >  2:669747/1‑139 (MQ=255)
                                                      ttCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGa                                                                  <  1:1581191/139‑1 (MQ=255)
                                                      ttCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGa                                                                  <  1:1877296/139‑1 (MQ=255)
                                                      ttCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGa                                                                  <  1:1586396/139‑1 (MQ=255)
                                                      ttCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGa                                                                  <  2:1333467/139‑1 (MQ=255)
                                                        cccacccaAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAggg                                                                                                              >  1:1434873/1‑93 (MQ=255)
                                                        cccacccaAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAggg                                                                                                              <  2:1434873/93‑1 (MQ=255)
                                                                 aCCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGc                                                       >  2:960993/1‑139 (MQ=255)
                                                                      tAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGt                                                  >  2:1170497/1‑139 (MQ=255)
                                                                             tAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATc                                                                                                      >  2:328039/1‑80 (MQ=255)
                                                                             tAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATc                                                                                                      <  1:328039/80‑1 (MQ=255)
                                                                             tAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTAtt                                           >  2:707411/1‑139 (MQ=255)
                                                                                    aCTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAAcc                                    >  2:538213/1‑139 (MQ=255)
                                                                                    aCTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAAcc                                    >  1:1380667/1‑139 (MQ=255)
                                                                                     cTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCg                                   <  1:538213/139‑1 (MQ=255)
                                                                                       tttAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGa                                 >  1:626249/1‑139 (MQ=255)
                                                                                        ttAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCAc                                                                                                                         <  1:1572028/50‑1 (MQ=255)
                                                                                        ttAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCAc                                                                                                                         >  2:1572028/1‑50 (MQ=255)
                                                                                          aaCTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCg                                                >  2:1727253/1‑121 (MQ=255)
                                                                                          aaCTGTGCCACGTGCGCTTAGCCGAATTCACCACATCACAAAATTCACTTTGAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCg                                                <  1:1727253/121‑1 (MQ=255)
                                                                                           aCTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGgcg                             <  2:663717/139‑1 (MQ=255)
                                                                                              gtgCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTa                                             <  1:1687223/120‑1 (MQ=255)
                                                                                              gtgCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTa                                             >  2:1687223/1‑120 (MQ=255)
                                                                                              gtgCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGGCGCAc                          >  1:207443/1‑139 (MQ=255)
                                                                                               tgCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAggg                                                                                                              <  2:968689/54‑1 (MQ=255)
                                                                                               tgCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAggg                                                                                                              >  1:968689/1‑54 (MQ=255)
                                                                                               tgCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTa                                             >  2:1322583/1‑119 (MQ=255)
                                                                                               tgCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTa                                             <  1:1322583/119‑1 (MQ=255)
                                                                                               tgCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTAttt                                          >  1:539843/1‑122 (MQ=255)
                                                                                               tgCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTAttt                                          <  2:539843/122‑1 (MQ=255)
                                                                                               tgCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGgcg                             <  2:876498/135‑1 (MQ=255)
                                                                                               tgCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGgcg                             >  1:876498/1‑135 (MQ=255)
                                                                                               tgCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGGCGCACt                         >  1:179995/1‑139 (MQ=255)
                                                                                               tgCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGGCGCACt                         >  2:418571/1‑139 (MQ=255)
                                                                                               tgCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACT‑‑ACACAGCAATGTCGTTATTTACAACCGGAGGCGCACTcc                       >  2:1590552/1‑139 (MQ=255)
                                                                                                gCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCGGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACt                                                                >  1:1019776/1‑99 (MQ=255)
                                                                                                gCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCGGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACt                                                                <  2:1019776/99‑1 (MQ=255)
                                                                                                    cGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACAt                                                                                                       >  2:1450161/1‑56 (MQ=255)
                                                                                                    cGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACAt                                                                                                       <  1:1450161/56‑1 (MQ=255)
                                                                                                      tGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGGCGCACTCccacca                  >  2:1395870/1‑139 (MQ=255)
                                                                                                         gcTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTc                                                                                           >  1:460382/1‑63 (MQ=255)
                                                                                                         gcTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTc                                                                                           <  2:460382/63‑1 (MQ=255)
                                                                                                         gcTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACa                                       <  2:1075/115‑1 (MQ=255)
                                                                                                         gcTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACa                                       >  1:1075/1‑115 (MQ=255)
                                                                                                         gcTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGGCGCACTCCCACCattt               <  1:669747/139‑1 (MQ=255)
                                                                                                          cTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCg                                                >  1:1641570/1‑105 (MQ=255)
                                                                                                          cTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCg                                                <  2:1641570/105‑1 (MQ=255)
                                                                                                              gCCTCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGGCGCACTCCCACCatttaaatt          >  2:1276861/1‑139 (MQ=255)
                                                                                                                  cATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGGCGCACTCCCACCATTTAAATTTAAc      >  1:438605/1‑139 (MQ=255)
                                                                                                                   aTTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGt                                               >  1:1308127/1‑97 (MQ=255)
                                                                                                                   aTTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGt                                               <  2:1308127/97‑1 (MQ=255)
                                                                                                                   aTTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGGCGCACTCCCACCATTTAAATTTAACa     >  2:707704/1‑139 (MQ=255)
                                                                                                                      caccacATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGGCGCACTCCCACCATTTAAATTTAACAGAc  <  2:851190/139‑1 (MQ=255)
                                                                                                                          |                                                                                                                                      
TGCGGTGTCTGGTGCCTCCAGGTGACTGCAACCAGTTAACAATTACAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCGCATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGGCGCACTCCCACCATTTAAATTTAACAGAC  >  NC_000913/1418264‑1418520

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A