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
A8 F1 I1 R1 771 44.8 2153074 94.1% 2026042 109.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,330,357 +T coding (1395/1434 nt) dacB → D‑alanyl‑D‑alanine carboxypeptidase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,330,3531.T100.0% 183.5 / NA 58R464L (CGT→CTT) dacBD‑alanyl‑D‑alanine carboxypeptidase
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base T (32/26);  total (32/26)

CCGGTTCGTTGCAGGGGGTATATAACCTGGCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCG‑TTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAGTCAAAAAGAAACCCCGGCACATGGCCGGGGCTTCAGATTATTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTAA  >  NC_000913/3330215‑3330475
                                                                                                                                           |                                                                                                                          
ccGGTTCGTTGCAGGGGGTATATAACCTGGCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCg                                                                                                                             <  2:434920/139‑1 (MQ=255)
        ttGCAGGGGGTATATAACCTGGCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCG‑tttttgaa                                                                                                                    <  2:789282/139‑5 (MQ=255)
         tGCAGGGGGTATATAACCTGGCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCG‑tttttgaaa                                                                                                                   <  2:503583/139‑6 (MQ=255)
           cAGGGGGTATATAACCTGGCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGc                                                                                                                  <  2:567719/139‑1 (MQ=255)
              ggggTATATAACCGGGCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGt                                                                                                               <  2:79382/139‑1 (MQ=255)
                         ccTGGCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGt                                                                                                               <  1:29670/128‑1 (MQ=255)
                         ccTGGCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGt                                                                                                               >  2:29670/1‑128 (MQ=255)
                          cTGGCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATaa                                                                                                       <  1:112840/135‑1 (MQ=255)
                          cTGGCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATaa                                                                                                       >  2:112840/1‑135 (MQ=255)
                          cTGGCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTATGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGat                                                                                                   >  2:617990/1‑139 (MQ=255)
                           tGGCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGata                                                                                                  >  1:594053/1‑139 (MQ=255)
                            ggCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGt                                                                                                               <  2:901360/125‑1 (MQ=255)
                            ggCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGt                                                                                                               >  1:901360/1‑125 (MQ=255)
                            ggCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCG‑tt                                                                                                                          <  1:1005573/113‑1 (MQ=255)
                            ggCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCG‑tt                                                                                                                          >  2:1005573/1‑113 (MQ=255)
                              cGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGt                                                                                                               <  1:312144/123‑1 (MQ=255)
                              cGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGt                                                                                                               >  2:312144/1‑123 (MQ=255)
                              cGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATAttt                                                                                               >  2:872701/1‑139 (MQ=255)
                              cGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATAttt                                                                                               >  1:471331/1‑139 (MQ=255)
                                             caGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTTCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTaat                                                                                >  1:640689/1‑137 (MQ=255)
                                             caGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTaat                                                                                >  2:291627/1‑137 (MQ=255)
                                             caGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTaat                                                                                >  2:128705/1‑137 (MQ=255)
                                              agcgagcgGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATc                                                                               >  1:486/1‑139 (MQ=255)
                                                cgagcgGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGt                                                                                                               >  1:300922/1‑105 (MQ=255)
                                                cgagcgGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGt                                                                                                               <  2:300922/105‑1 (MQ=255)
                                                  agcgGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGata                                                                                                  >  1:576779/1‑116 (MQ=255)
                                                  agcgGGCAACGAATGGCGTTTGTGCAATATCTTTCTGACTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCaaaa                                                                           >  1:514493/1‑139 (MQ=255)
                                                  agcgGGCAACGAATGGCATTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGata                                                                                                  <  2:576779/116‑1 (MQ=255)
                                                    cgGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAg                                                                         >  2:613772/1‑139 (MQ=255)
                                                                ggCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGcac                                                             <  1:280738/139‑1 (MQ=255)
                                                                     ttGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGc                                                        >  2:498802/1‑139 (MQ=255)
                                                                               tCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGCCGGGGCTTCa                                              >  1:706510/1‑139 (MQ=255)
                                                                                cTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGCCGGGGCTTCAg                                             <  1:613772/139‑1 (MQ=255)
                                                                                  ttCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGata                                                                                                  <  1:321999/84‑1 (MQ=255)
                                                                                  ttCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGata                                                                                                  >  2:321999/1‑84 (MQ=255)
                                                                                    cTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGCCGGGGCTTCAGatta                                         <  1:920999/139‑1 (MQ=255)
                                                                                       gCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGt                                                                                                               >  1:513856/1‑66 (MQ=255)
                                                                                       gCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGt                                                                                                               <  2:513856/66‑1 (MQ=255)
                                                                                         tATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATaa                                                                                                       <  1:806600/72‑1 (MQ=255)
                                                                                         tATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATaa                                                                                                       >  2:806600/1‑72 (MQ=255)
                                                                                                   aaCCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGCCGGGGCTTCAGATTATTGACAAAGTGCGCt                          <  2:514493/139‑1 (MQ=255)
                                                                                                   aaCCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGCCGGGGCTTCAGATTATTGACAAAGTGCGCt                          >  2:672391/1‑139 (MQ=255)
                                                                                                   aaCCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGCCGGGGCTTCAGATTATTGACAAAGTGCGCt                          <  1:760587/139‑1 (MQ=255)
                                                                                                     ccTGCGGTTCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGCCGGGGCTTCAGATTATTGACAAAGTGCGCttt                        >  1:771168/1‑139 (MQ=255)
                                                                                                     ccTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCTGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGCCGGGGCTTCAGATTATTGACAAAGTGCGCttt                        >  1:934859/1‑139 (MQ=255)
                                                                                                     ccTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGt                                                                                                               <  1:367679/52‑1 (MQ=39)
                                                                                                     ccTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGt                                                                                                               >  2:367679/1‑52 (MQ=39)
                                                                                                       tGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGtat                                                                                                         >  2:604385/1‑56 (MQ=255)
                                                                                                       tGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGtat                                                                                                         <  1:604385/56‑1 (MQ=255)
                                                                                                        gCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATaa                                                                                                       <  1:1020697/57‑1 (MQ=255)
                                                                                                        gCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATaa                                                                                                       >  2:1020697/1‑57 (MQ=255)
                                                                                                        gCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCa                                                                              >  2:439089/1‑82 (MQ=255)
                                                                                                        gCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCa                                                                              <  1:439089/82‑1 (MQ=255)
                                                                                                                gCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGCCGGGGCTTCAGATTATTGACAAAGTGCGCTTTGTTTATGCCgg             >  2:437295/1‑139 (MQ=255)
                                                                                                                 cGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTTTATAAAGATATTTAt                                                                                             <  2:716658/58‑1 (MQ=255)
                                                                                                                 cGTAATCGCCGTATTCCGTGAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTAt                                                                                             >  1:716658/1‑58 (MQ=255)
                                                                                                                     aTCGCCGTATCCCGTTAGTGCGTTTTTGAAAGCCGt                                                                                                               <  2:363491/36‑1 (MQ=21)
                                                                                                                      tCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGt                                                                                                               <  2:465123/35‑1 (MQ=37)
                                                                                                                      tCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGt                                                                                                               >  1:465123/1‑35 (MQ=37)
                                                                                                                          cGTATTCCGTTAGTGCGTTTTTGAAAGCTGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGCCGGGGCTTCAGATTATTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTa   <  2:934859/139‑1 (MQ=39)
                                                                                                                           gTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGCCGGGGCTTCAGATTATTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTaa  <  1:498802/139‑1 (MQ=255)
                                                                                                                             aTTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGCCGGGGCTTCAGat                                           <  2:595536/96‑1 (MQ=255)
                                                                                                                             aTTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGCCGGGGCTTCAGat                                           >  1:595536/1‑96 (MQ=255)
                                                                                                                                           |                                                                                                                          
CCGGTTCGTTGCAGGGGGTATATAACCTGGCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCG‑TTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAGTCAAAAAGAAACCCCGGCACATGGCCGGGGCTTCAGATTATTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTAA  >  NC_000913/3330215‑3330475

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A