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
A13 F1 I2 R1 92 50.6 2362856 94.3% 2228173 111.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 529,055 (T)8→7 pseudogene (416/491 nt) ybbD → pseudogene

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913529,0480T.100.0% 217.4 / NA 53pseudogene (409/491 nt)ybbDpseudogene
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base . (24/29);  total (24/29)

ATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATCCCATATCGAAGTCGTCAACTTCGT  >  NC_000913/528910‑529176
                                                                                                                                          |                                                                                                                                
atgGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACCt                                                                                                                                  >  1:665605/1‑139 (MQ=255)
     ggTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACCtttttt                                                                                                                             >  2:864038/1‑139 (MQ=255)
        aGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACCtttttttgt                                                                                                                          <  1:131859/139‑3 (MQ=255)
           tttAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAGGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTgg                                                                                                                      <  2:247834/139‑1 (MQ=255)
               aGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGaa                                                                                                                  >  1:136614/1‑139 (MQ=255)
                    aCATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTaa                                                                                                             >  1:265415/1‑139 (MQ=255)
                        tGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGtt                                                                                                         <  1:1078038/139‑1 (MQ=255)
                         gACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTa                                                                                                        <  1:864038/139‑1 (MQ=255)
                           cAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACg                                                                                                      <  2:136614/139‑1 (MQ=255)
                              tGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCat                                                                                                   >  2:639349/1‑139 (MQ=255)
                              tGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCat                                                                                                   <  2:265415/139‑1 (MQ=255)
                                aGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACg                                                                                                      <  2:78523/134‑1 (MQ=255)
                                aGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACg                                                                                                      >  1:78523/1‑134 (MQ=255)
                                  ggCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTCTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCattatt                                                                                               >  1:705645/1‑139 (MQ=255)
                                       gggAACAAGTGGAGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTtata                                                                                          <  2:874726/139‑1 (MQ=255)
                                        ggAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATaa                                                                                         >  2:853815/1‑139 (MQ=255)
                                        ggAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATaa                                                                                         >  2:539625/1‑139 (MQ=255)
                                            cAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACaaa                                                                                     <  1:603027/139‑1 (MQ=255)
                                                  gCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAAt                                                                                                                <  1:105886/106‑1 (MQ=255)
                                                  gCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAAt                                                                                                                >  2:105886/1‑106 (MQ=255)
                                                    gAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAg                                                                             <  2:1117266/139‑1 (MQ=255)
                                                               cAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCt                                                                  <  1:539625/139‑1 (MQ=255)
                                                                 aaGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGa                                                                <  2:245357/139‑1 (MQ=255)
                                                                    aaTGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGc                                                             <  1:632771/139‑1 (MQ=255)
                                                                    aaTGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGc                                                             <  1:639349/139‑1 (MQ=255)
                                                                            aGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTa                                                                                                              >  2:448513/1‑82 (MQ=255)
                                                                            aGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTa                                                                                                              <  1:448513/82‑1 (MQ=255)
                                                                              aTACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCat                                                                                                   >  1:1114746/1‑91 (MQ=255)
                                                                              aTACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCat                                                                                                   <  2:1114746/91‑1 (MQ=255)
                                                                              aTACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCagag                                                   >  1:853397/1‑139 (MQ=255)
                                                                                              gtgtAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTaa                                   <  1:627345/139‑1 (MQ=255)
                                                                                                     tatGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTa                            <  1:853815/139‑1 (MQ=255)
                                                                                                         gTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTg                                                                          >  1:87392/1‑89 (MQ=255)
                                                                                                         gTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTg                                                                          <  2:87392/89‑1 (MQ=255)
                                                                                                         gTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCaga                                                    >  1:499147/1‑111 (MQ=255)
                                                                                                         gTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCaga                                                    <  2:499147/111‑1 (MQ=255)
                                                                                                         gTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATCTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATccc                        >  2:735697/1‑139 (MQ=255)
                                                                                                             gATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCa                                                                                                    >  1:169920/1‑59 (MQ=255)
                                                                                                             gATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCa                                                                                                    <  2:169920/59‑1 (MQ=255)
                                                                                                                aCCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATCCCATATCGa                 >  1:396800/1‑139 (MQ=255)
                                                                                                                    gggCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGCAATTAATGTTACGCat                                                                                                   >  2:749839/1‑53 (MQ=255)
                                                                                                                    gggCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCat                                                                                                   <  1:749839/53‑1 (MQ=255)
                                                                                                                    gggCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATCCCATATCGAAgtc             >  2:290647/1‑139 (MQ=255)
                                                                                                                      gCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATCCCATATCGAAgtcgt           >  1:353461/1‑139 (MQ=255)
                                                                                                                       cAAGGGGATGGTGTAAACC‑TTTTTTTGTCGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATCCCATATCGAAgtcgtc          <  2:705645/139‑1 (MQ=255)
                                                                                                                        aaGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATCCCATATCGAAGTCGTCa         <  1:1049478/139‑1 (MQ=255)
                                                                                                                         aGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGtt                                                                                                         <  2:496961/42‑1 (MQ=255)
                                                                                                                         aGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGtt                                                                                                         >  1:496961/1‑42 (MQ=255)
                                                                                                                          ggggATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGt                               <  2:1095418/115‑1 (MQ=255)
                                                                                                                          ggggATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGt                               >  1:1095418/1‑115 (MQ=255)
                                                                                                                              aTGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATCCCATATCGAAGTCGTCAACTTCg   <  2:396800/139‑1 (MQ=255)
                                                                                                                               tGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATCCCATATCGAAGTCGTCAACTTCGt  >  2:589262/1‑139 (MQ=255)
                                                                                                                                ggTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGATTCTATCCCa                       >  1:171959/1‑117 (MQ=255)
                                                                                                                                ggTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATCCCa                       <  2:171959/117‑1 (MQ=255)
                                                                                                                                  tgtAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAatat                                                                                  >  2:212573/1‑56 (MQ=255)
                                                                                                                                  tgtAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAatat                                                                                  <  1:212573/56‑1 (MQ=255)
                                                                                                                                          |                                                                                                                                
ATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATCCCATATCGAAGTCGTCAACTTCGT  >  NC_000913/528910‑529176

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