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
A9 F28 I1 R1 120 56.0 1898522 99.4% 1887130 138.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,996,077 T→C pseudogene (284/399 nt) ygeO ← putative uncharacterized protein YgeO

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,996,0770TC100.0% 207.0 / NA 57pseudogene (284/399 nt)ygeOputative uncharacterized protein YgeO
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (24/33);  total (24/33)

AATCCATCAGAAATTTTTCTTTTAATCACAACACCATTTGCAGGAGATTTTATCAAGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGTCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACCACATGTGATGATATTGTGATAGTTAGCGATGCCGGGTTTGTATCGTGC  >  NC_000913/2995941‑2996210
                                                                                                                                        |                                                                                                                                     
aaTCCATCAGAAATTTTTCTTTTAATCACAACACCATTTGCAGGAGATTTTATCAAGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCcaa                                                                                                                                    >  1:495415/1‑140 (MQ=255)
aaTCCATCAGAAATTTTTCTTTTAATCACAACACCATTTGCAGGAGATTTTATCAAGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCcaa                                                                                                                                    >  1:87925/1‑140 (MQ=255)
     aTCAGAAATTTTTCTTTTAATCACAACACCATTTGCAGGAGATTTTATCAAGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACaaaa                                                                                                                               >  2:345346/1‑140 (MQ=255)
     aTCAGAAATTTTTCTTTTAATCACAACACCATTTGCAGGAGATTTTATCAAGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACaaaa                                                                                                                               >  2:345347/1‑140 (MQ=255)
           aaTTTTTCTTTTAATCACAACACCATTTGCAGGAGATTTTATCAAGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGa                                                                                                                         <  1:37140/140‑1 (MQ=255)
               tttCTTTTAATCACAACACCATTTGCAGGAGATTTTATCAAGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAaata                                                                                                                     <  2:692196/140‑1 (MQ=255)
                            caacaCCATTTGCAGGAGATTTTATCAAGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCg                                                                                                        <  2:23742/140‑1 (MQ=255)
                              acacCATTTGCAGGAGATTTTATCAAGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGtt                                                                                                      <  2:417600/140‑1 (MQ=255)
                               cacCATTTGCAGGAGATTTTATCAAGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTtg                                                                                                     <  1:567637/140‑1 (MQ=255)
                                    tttGCAGGAGATTTTATCAAGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCa                                                                                                >  2:883994/1‑140 (MQ=255)
                                       gCAGGAGATTTTATCAAGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGtt                                                                                                      <  2:191564/131‑1 (MQ=255)
                                       gCAGGAGATTTTATCAAGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGtt                                                                                                      >  1:191564/1‑131 (MQ=255)
                                          ggAGATTTTATCAAGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCa                                                                                          >  1:916576/1‑140 (MQ=255)
                                           gagaTTTTATCAAGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCaa                                                                                         <  2:87925/140‑1 (MQ=255)
                                           gagaTTTTATCAAGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCaa                                                                                         >  2:598125/1‑140 (MQ=255)
                                                 ttATCAAGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGgttg                                                                                   <  2:716206/140‑1 (MQ=255)
                                                 ttATCAAGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGgttg                                                                                   <  1:598125/140‑1 (MQ=255)
                                                 ttATCAAGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGgttg                                                                                   <  1:495079/140‑1 (MQ=255)
                                                 ttATCAAGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGgttg                                                                                   <  1:277874/140‑1 (MQ=255)
                                                 ttATCAAGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGgttg                                                                                   <  1:262379/140‑1 (MQ=255)
                                                 ttATCAAGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTAGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGgttg                                                                                   <  2:495859/140‑1 (MQ=255)
                                                  tATCAAGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGgttgt                                                                                  <  1:345347/140‑1 (MQ=255)
                                                  tATCAAGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGgttgt                                                                                  <  1:345346/140‑1 (MQ=255)
                                                     cAAGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGc                                                                               <  2:495415/140‑1 (MQ=255)
                                                      aaGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGcc                                                                              <  2:916576/140‑1 (MQ=255)
                                                      aaGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGcc                                                                              <  1:289155/140‑1 (MQ=255)
                                                         cTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTta                                                                           >  2:234848/1‑140 (MQ=255)
                                                         cTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTta                                                                           >  2:266716/1‑140 (MQ=255)
                                                                         ttCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGt                                                           >  1:275943/1‑140 (MQ=255)
                                                                                   aTGTAATTCTCTCTGAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACca                                                 <  2:430660/140‑1 (MQ=255)
                                                                                   aTGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACca                                                 <  2:275943/140‑1 (MQ=255)
                                                                                    tGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACcac                                                <  2:184932/140‑1 (MQ=255)
                                                                                     gtcaTTCTCTCTAAAAGTGTTGATGCAAGTAGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACcaca                                               <  2:583071/137‑1 (MQ=255)
                                                                                       aaTTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACCACAtg                                             <  1:366475/140‑1 (MQ=255)
                                                                                           ctctctAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACCACATGtgat                                         <  1:250059/140‑1 (MQ=255)
                                                                                            tctctAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACCACATGtgatg                                        >  1:566846/1‑140 (MQ=255)
                                                                                              tctAAAAGTGTTGATGCTTGTGGTAACGGCGATTGTATGTGTCCAACACAATCAGGAGATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCTTTATATAGGGTAATAACGTTGAAAAACCACATgtggtggt                                      >  2:8800/1‑138 (MQ=255)
                                                                                                        ttGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACCACATGTGATGATATTGTGATAg                            >  1:93814/1‑140 (MQ=255)
                                                                                                        ttGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACCACATGTGATGATATTGTGATAg                            >  2:748242/1‑140 (MQ=255)
                                                                                                         tGATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACCACATGTGATGATATTGTGATAGt                           <  2:808699/140‑1 (MQ=255)
                                                                                                          gATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACCACATGTGATGATATTGTGATAGtt                          >  2:813257/1‑140 (MQ=255)
                                                                                                          gATGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACCACATGTGATGATATTGTGATAGtt                          >  2:132404/1‑140 (MQ=255)
                                                                                                            tGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTTAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACCACATGTGATGATATTGTGATAGTTa                         <  1:169034/139‑1 (MQ=255)
                                                                                                            tGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTTAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACCACATGTGATGATATTGTGATAGTTa                         >  2:169034/1‑139 (MQ=255)
                                                                                                            tGCAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACCACATGTGATGATATTGTGATAGTTAg                        <  1:234848/140‑1 (MQ=255)
                                                                                                              cAAGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACCACATGTGATGATATTGTGATAGTTAGCg                      >  2:146074/1‑140 (MQ=255)
                                                                                                                aGTGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATTGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACCACATGTGATGATATTGTGATAGTTAGCGAt                    >  2:619310/1‑140 (MQ=255)
                                                                                                                  tGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACCACATGTGATGATATTGTGATAGTTAGCGATGc                  <  2:144177/140‑1 (MQ=255)
                                                                                                                  tGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACCACATGTGATGATATTGTGATAGTTAGCGATGc                  <  1:748242/140‑1 (MQ=255)
                                                                                                                  tGGTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACCACATGTGATGATATTGTGATAGTTAGCGATGc                  <  1:121817/140‑1 (MQ=255)
                                                                                                                    gTAACGGCGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACCACATGTGATGATATTGTGATAGTTAGCGATGCCg                >  2:587080/1‑140 (MQ=255)
                                                                                                                           cGATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACCACATGTGATGATATTGTGATAGTTAGCGATGCCGGGTTTGt         >  2:651856/1‑140 (MQ=255)
                                                                                                                            gATTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACCACATGTGATGATATTGTGATAGTTAGCGATGCCGGGTTTGTa        <  2:93814/140‑1 (MQ=255)
                                                                                                                             aTTGTATGTGGCCAACAAAATCAGGCAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACCACATGTGATGATATTGTGATAGTTAGCGATGCCGGGTTTGTAt       >  2:551259/1‑140 (MQ=255)
                                                                                                                             aTTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACCACATGTGATGATATTGTGATAGTTAGCGATGCCGGGTTTGTAt       >  2:707807/1‑140 (MQ=255)
                                                                                                                             aTTGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGCTGTTGCCTTATATAGGGTAACAACGTTGAAAAACCACATGTGATGATATTGTGATAGTTAGCGATGCCGGGTTTGTAt       >  2:377773/1‑140 (MQ=255)
                                                                                                                               tGTATGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACCACATGTGATGATATTGTGATAGTTAGCGATGCCGGGTTTGTATCg     <  1:266716/140‑1 (MQ=255)
                                                                                                                                  aTGTGGCCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAACGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACCACATGTGATGATATTGTGATAGTTAGCGATGCCGGGTTTGTATCGTGc  <  1:212605/140‑1 (MQ=255)
                                                                                                                                        |                                                                                                                                     
AATCCATCAGAAATTTTTCTTTTAATCACAACACCATTTGCAGGAGATTTTATCAAGCTCATCTCTATTTTTTTTCGCATAAAATGTAATTCTCTCTAAAAGTGTTGATGCAAGTGGTAACGGCGATTGTATGTGGTCAACAAAATCAGGAAATAATAAATTAAATCGTTGCTGCATTGCCAATGGTTGTTGCCTTATATAGGGTAACAACGTTGAAAAACCACATGTGATGATATTGTGATAGTTAGCGATGCCGGGTTTGTATCGTGC  >  NC_000913/2995941‑2996210

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: ‑

GATK/CNVnator alignment

N/A