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
A1 F1 I1 R1 773 79.9 4112934 92.2% 3792125 104.5

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% 217.5 / NA 68intergenic (‑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 (33/35);  total (33/35)

TGTTGATGCGGTGTCTGGTGCCTCCAGGTGACTGCAACCAGTTAACAATTACAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCGCATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGGCGCACTCCCACCATTTAAATTTAACA  >  NC_000913/1418258‑1418517
                                                                                                                                |                                                                                                                                   
tgttgATGCGGTGTCTGGTGCCTCCAGGTGACTGCAACCAGTTAACAATTACAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACaaaa                                                                                                                           >  1:1468580/1‑139 (MQ=255)
  ttgATGCGGTGTCTGGTGCCTCCAGGTGACTGCAACCAGTTAACAATTACAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAAtt                                                                                                                         <  2:906549/139‑1 (MQ=255)
  ttgATGCGGTGTCTGGTGCCTCCAGGTGACTGCAACCAGTTAACAATTACAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAAtt                                                                                                                         <  1:306117/139‑1 (MQ=255)
     aTGCGGTGTCTGGTGCCTCCAGGTGACTGCAACCAGTTAACAATTACAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCAc                                                                                                                      >  1:235707/1‑139 (MQ=255)
     aTGCGGTGTCTGGTGCCTCCAGGTGACTGCAACCAGTTAACAATTACAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCAc                                                                                                                      <  1:229140/139‑1 (MQ=255)
          gtgtCTGGTGCCTCCAGGTGACTGCAACCAGTTAACAATTACAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTaa                                                                                                                 >  2:1141326/1‑139 (MQ=255)
            gtCTGGTGCCTCCAGGTGACTGCAACCAGTTAACAATTACAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTaaaa                                                                                                               <  1:1418948/139‑1 (MQ=255)
            gtCTGGTGCCTCCAGGTGACTGCAACCAGTTAACAATTACAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTaaaa                                                                                                               >  1:1866799/1‑139 (MQ=255)
                ggTGCCTCCAGGTGACTGCAACCAGTTAACAATTACAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTTCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAggg                                                                                                           <  2:224943/139‑1 (MQ=255)
                ggTGCCTCCAGGTGACTGCAACCAGTTAACAATTACAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAagg                                                                                                           >  2:68651/1‑139 (MQ=255)
                     cTCCAGGTGACTGCAACCAGTTAACAATTACAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGAc                                                                                                      <  2:1866799/139‑1 (MQ=255)
                       ccAGGTGACTGCAACCAGTTAACAATTACAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACAt                                                                                                    <  1:2052547/139‑1 (MQ=255)
                                                ttACAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTg                                                                           >  2:1535837/1‑139 (MQ=255)
                                                   cAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATg                                                                        >  1:906307/1‑139 (MQ=255)
                                                   cAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATg                                                                        >  2:2039939/1‑139 (MQ=255)
                                                       cGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCTACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATgccgc                                                                    <  2:1468580/139‑1 (MQ=255)
                                                       cGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATgccgc                                                                    <  2:122690/139‑1 (MQ=255)
                                                        ggCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATgccgcc                                                                   >  1:1072002/1‑139 (MQ=255)
                                                           tttCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAgg                                                                >  2:295688/1‑139 (MQ=255)
                                                            ttCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGa                                                               <  1:295688/139‑1 (MQ=255)
                                                                 acccaAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTaca                                                          <  1:1535837/139‑1 (MQ=255)
                                                                       aCCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGc                                                    >  1:1001884/1‑139 (MQ=255)
                                                                                 aCTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCAc                                                                                                                      <  2:703460/63‑1 (MQ=255)
                                                                                 aCTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCAc                                                                                                                      >  1:703460/1‑63 (MQ=255)
                                                                                 aCTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGc                                                                                                          >  1:1614034/1‑75 (MQ=255)
                                                                                 aCTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGc                                                                                                          <  2:1614034/75‑1 (MQ=255)
                                                                                 aCTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTa                                          >  2:560564/1‑139 (MQ=255)
                                                                                   tAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAAtt                                                                                                                         >  1:272303/1‑58 (MQ=255)
                                                                                   tAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAAtt                                                                                                                         <  2:272303/58‑1 (MQ=255)
                                                                                   tAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCa                                                                  >  1:651287/1‑113 (MQ=255)
                                                                                   tAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCa                                                                  <  2:651287/113‑1 (MQ=255)
                                                                                   tAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTaca                                                          >  1:1025060/1‑121 (MQ=255)
                                                                                   tAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTaca                                                          <  2:1025060/121‑1 (MQ=255)
                                                                                   tAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTAtt                                        >  2:1410354/1‑139 (MQ=255)
                                                                                    aaCATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTAttt                                       <  1:1410354/139‑1 (MQ=255)
                                                                                          aCTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATcaca                                                                                                                              <  1:1220170/46‑1 (MQ=255)
                                                                                          aCTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATcaca                                                                                                                              >  2:1220170/1‑46 (MQ=255)
                                                                                          aCTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCg                                                                                                         >  2:2052742/1‑67 (MQ=255)
                                                                                          aCTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCg                                                                                                         <  1:2052742/67‑1 (MQ=255)
                                                                                          aCTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAAcc                                 >  1:488278/1‑139 (MQ=255)
                                                                                           cTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCg                                <  2:1360970/139‑1 (MQ=255)
                                                                                               tAACTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAgg                            <  1:560564/139‑1 (MQ=255)
                                                                                                  cTGTGCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGgcgc                         <  1:2039939/139‑1 (MQ=255)
                                                                                                     tgCCACGTGCGCTTAGCCGCATTCACCACATCACAAAAtt                                                                                                                         >  2:714577/1‑40 (MQ=14)
                                                                                                     tgCCACGTGCGCTTAGCCGCATTCACCACATCACAAAAtt                                                                                                                         <  1:714577/40‑1 (MQ=255)
                                                                                                     tgCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTAttt                                       <  2:1368369/122‑1 (MQ=255)
                                                                                                     tgCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTAttt                                       >  1:1368369/1‑122 (MQ=255)
                                                                                                     tgCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGGCGCACt                      >  2:1601281/1‑139 (MQ=255)
                                                                                                      gCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTAcacacattgct                                                 <  1:591649/111‑6 (MQ=255)
                                                                                                      gCCACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTAcacacattgct                                                 >  2:591649/1‑106 (MQ=255)
                                                                                                        cACGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGGCGCACTccc                   <  2:1001884/139‑1 (MQ=255)
                                                                                                         aCGTGCGCTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGGCGCACTCcca                  <  1:1601281/139‑1 (MQ=255)
                                                                                                             gcgcTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGa                                                                          >  2:1896646/1‑79 (MQ=255)
                                                                                                             gcgcTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGa                                                                          <  1:1896646/79‑1 (MQ=255)
                                                                                                               gcTTAGCCGCATTCACCACATAACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGGCGCACTCCCACCagtt            >  2:1419549/1‑139 (MQ=255)
                                                                                                                cTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGGCGCACTCcca                  >  1:839921/1‑132 (MQ=255)
                                                                                                                cTTAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGGCGCACTCcca                  <  2:839921/132‑1 (MQ=255)
                                                                                                                      cGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGGCGCACTCCCACCatttaaattta     <  2:488278/139‑1 (MQ=255)
                                                                                                                       gCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGGCGCACTCCCACCatttaaatttaa    <  1:1419549/139‑1 (MQ=255)
                                                                                                                        cATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCg                                                                                              >  2:253062/1‑48 (MQ=255)
                                                                                                                        cATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCg                                                                                              <  1:253062/48‑1 (MQ=255)
                                                                                                                        cATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTaca                                                          <  1:829302/84‑1 (MQ=255)
                                                                                                                        cATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTaca                                                          >  2:829302/1‑84 (MQ=255)
                                                                                                                         aTTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATgccgc                                                                    <  2:916304/73‑1 (MQ=255)
                                                                                                                         aTTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATgccgc                                                                    >  1:916304/1‑73 (MQ=255)
                                                                                                                         aTTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGgc                           >  2:689506/1‑114 (MQ=255)
                                                                                                                         aTTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGgc                           <  1:689506/114‑1 (MQ=255)
                                                                                                                         aTTCACCACATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGGCGCACTCCCACCATTTAAATTTAACa  >  1:588425/1‑139 (MQ=255)
                                                                                                                                |                                                                                                                                   
TGTTGATGCGGTGTCTGGTGCCTCCAGGTGACTGCAACCAGTTAACAATTACAGTCGGCTTTCCCACCCAAACCAATAAGGACTAACATGACTTTTAACTGTGCCACGTGCGCTTAGCCGCATTCACCGCATCACAAAATTCACTTTAAAAAGGGCGGACATCAGCCGAACTTCAAGAAAAAAACTGATGCCGCCAGGACTACACACAGCAATGTCGTTATTTACAACCGGAGGCGCACTCCCACCATTTAAATTTAACA  >  NC_000913/1418258‑1418517

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A