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 F28 I1 R1 108 95.2 3177646 99.2% 3152224 139.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,351,196 (G)7→8 intergenic (‑157/+211) fabI ← / ← ycjD enoyl‑[acyl‑carrier‑protein] reductase/DUF559 domain‑containing protein YcjD

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,351,1891.G87.0% 147.0 / 15.6 46intergenic (‑150/+218)fabI/ycjDenoyl‑[acyl‑carrier‑protein] reductase/DUF559 domain‑containing protein YcjD
Reads supporting (aligned to +/- strand):  ref base . (3/3);  new base G (19/21);  total (22/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.67e-01

TATTGTTGATGCTTGTTGTGCCTGAAAATCAGGCGATTCGTCGTTTTAGTAAACAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCA‑‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGTATTGTGCAAATATTGTTACCCCAGCAACAAACAGGCTCATACAGCCCCTAACCCTTTCATGGCGATGGCTGGGACGGTT  >  NC_000913/1351052‑1351324
                                                                                                                                          |                                                                                                                                         
tATTGTTGATGCTTGTTGTGCCTGAAAATCAGGCGATTCGTCGTTTTAGTAAACAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCA‑‑gg                                                                                                                                        >  1:1014460/1‑140 (MQ=255)
     ttgATGCTTGTTGTGCCTGAAAATCAGGCGATTCGTCGTTTTAGTAAACAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCA‑‑ggggggg                                                                                                                                   <  2:963630/140‑1 (MQ=255)
     ttgATGCTTGTTGTGCCTGAAAATCAGGCGATTCGTCGTTTTAGTAAACAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCA‑‑ggggggg                                                                                                                                   <  1:298922/140‑1 (MQ=255)
      tgATGCTTGTTGTGCCTGAAAATCAGGCGATTCGTCGTTTTAGTAAACAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCA‑‑gggggggg                                                                                                                                  <  2:1546464/140‑2 (MQ=255)
        aTGCTTGTTGTGCCTGAAAATCAGGCGATTCGTCGTTTTAGTAAACAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCA‑‑ggggggggcg                                                                                                                                >  1:902551/1‑137 (MQ=255)
             tgttgtGCCTGAAAATCAGGCGATTCGTCGTTTTAGTAAACAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑tttt                                                                                                                           >  2:545407/1‑140 (MQ=255)
               ttgtGCCTGAAAATCAGGCGATTCGTCGTTTTAGTAAACAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTcc                                                                                                                         >  2:912844/1‑140 (MQ=255)
               ttgtGCCTGAAAATCAGGCGATTCGTCGTTTTAGTAAACAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCA‑‑GGGGGGGCGC‑TTTTccc                                                                                                                        >  2:524481/1‑140 (MQ=255)
                tgtgCCTGAAAATCAGGCGATTCGTCGTTTTAGTAAACAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTccc                                                                                                                        <  2:278334/140‑1 (MQ=255)
                tgtgCCTGAAAATCAGGCGATTCGTCGTTTTAGTAAACAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTccc                                                                                                                        <  1:470729/140‑1 (MQ=255)
                tgtgCCTGAAAATCAGGCGATTCGTCGTTTTAGTAAACAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCA‑‑GGGGGGGCGC‑TTTTcccc                                                                                                                       <  1:1046114/140‑1 (MQ=255)
                  tgCCTGAAAATCAGGCGATTCGTCGTTTTAGTAAACAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCt                                                                                                                      <  1:1287607/140‑1 (MQ=255)
                      tGAAAATCAGGCGATTCGTCGTTTTAGTAAACAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCAcc                                                                                                                  <  1:1196510/140‑1 (MQ=255)
                        aaaaTCAGGCGATTCGTCGTTTTAGTAAACAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCt                                                                                                                <  1:696872/140‑1 (MQ=255)
                            tCAGGCGATTCGTCGTTTTAGTAAACAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAAcc                                                                                                            <  2:1240236/140‑1 (MQ=255)
                             cAGGCGATTCGTCGTTTTAGTAAACAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑‑TTTCCCCTCACCCTAACCct                                                                                                          <  2:648468/140‑1 (MQ=255)
                                gCGATTCGTCGTTTTAGTAAACAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCctct                                                                                                        <  1:1519391/140‑1 (MQ=255)
                                     tcgtcgTTTTAGTAAACAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCa                                                                                                   <  1:204116/140‑1 (MQ=255)
                                              tAGTAAACAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGa                                                                                          <  1:285088/140‑1 (MQ=255)
                                                   aaCAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGa                                                                                     <  2:350395/140‑1 (MQ=255)
                                                        tACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTACCCTTAGCCTAACCCTCTCCCCAGAGGGGCGAGGGGAACGTa                                                                                >  2:1508416/1‑140 (MQ=39)
                                                          cGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAGGGGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGTAt                                                                               >  1:257916/1‑140 (MQ=255)
                                                          cGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGTAtt                                                                              >  2:779972/1‑140 (MQ=255)
                                                               aGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGTATTGTGCa                                                                         <  2:738910/140‑1 (MQ=255)
                                                                gATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCA‑‑GGGGGGGCGC‑TTTTCCCCTCACCCCAACCCCCTCCCCCGAGGGGGGAGGGGGCCGGATTTTGCaaa                                                                       >  1:548/1‑140 (MQ=255)
                                                                           attatAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGTATTGTGCAAATATTGTTAcc                                                             >  2:1182212/1‑140 (MQ=255)
                                                                                      ccTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGTATTGTGCAAATATTGTTACCCCAGCaacaaa                                                  >  1:726613/1‑140 (MQ=255)
                                                                                      ccTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGTATTGTGCAAATATTGTTACCCCAGCaacaaa                                                  >  1:106477/1‑140 (MQ=255)
                                                                                      ccTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGTATTGTGCAAATATTGTTACCCCAGCaacaaa                                                  <  1:912844/140‑1 (MQ=255)
                                                                                      ccTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGCATTGTGCAAATATTGTTACCCCAGCaacaaa                                                  >  1:707415/1‑140 (MQ=255)
                                                                                       cTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGTATTGTGCAAATATTGTTACCCCAGCaacaaac                                                 >  1:322878/1‑140 (MQ=255)
                                                                                         ggCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCCGAGGGGCGAGGGGACCGTATTGTGCAAATATTGTTACCCCAGCAACAAACAg                                               >  1:107044/1‑140 (MQ=255)
                                                                                          gCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGTATTGTGCAAATATTGTTACCCCAGCAACAAACAgg                                              <  1:1461091/140‑1 (MQ=255)
                                                                                                 gTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGTATTGTGCAAATATTGTTACCCCAGCAACAAACAGGCTCATAc                                       <  1:1508416/140‑1 (MQ=255)
                                                                                                    gCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGTATTGTGCAAATATTGTTACCCCAGCAACAAACAGGCTCATACAGc                                    >  1:117385/1‑140 (MQ=255)
                                                                                                             gCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGGCCGTATTGTGCAAATATTGTTACCCCAGCAACAAACAGGCTCATACAGCCCCTAAccc                           >  1:645004/1‑140 (MQ=255)
                                                                                                             gCCAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGTATTGTGCAAATATTGTTACCCCAGCAACAAACAGGCTCATACAGCCCCTAAccc                           >  2:1280565/1‑140 (MQ=255)
                                                                                                              ccAGGTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGCTTTTTCCCCTC‑CCCCAACCCCCCCCCCCAAGGGGCGAGGGGGCCCTTTTGTGCAAATATTTGTACCCCCACCACCAACAAGCCTACACAGCCCCCGAcccc                          >  2:546437/1‑139 (MQ=255)
                                                                                                                  gTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCCGAGGGGCGAGGGGACCGTATTGTGCAAATATTGTTACCCCAGCAACAAACAGGCTCATACAGCCCCTAACCCTTTCa                      >  2:265240/1‑140 (MQ=255)
                                                                                                                  gTCCGACCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGTATTGTGCAAATATTGTTACCCCAGCAACAAACAGGCTCATACAGCCCCTAACCCTTTCa                      >  1:1525326/1‑140 (MQ=255)
                                                                                                                       aCCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGTATTGTGCAAATATTGTTACCCCAGCAACAAACAGGCTCATACAGCCCCTAACCCTTTCATGGCg                 <  1:545407/140‑1 (MQ=255)
                                                                                                                       aCCGGAGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGGATTGTGCAAATATTGTTACCCCAGCAACAAACAGGCTCATACAGCCCCTAACCCTTTCATGGCg                 >  1:284478/1‑140 (MQ=255)
                                                                                                                        ccGGAGCAGGCTGCGGCAGGGGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGTATTGTGCAAATATTGTTACCCCAGCAACAAACAGGCTCATACAGCCCCTAACCCTTTCATGGCg                 <  2:257916/140‑1 (MQ=255)
                                                                                                                            aGCAGGCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGGGGGGACCGTATTGTGCAAATATTGTTACCCCAGCAACAAACAGGCTCATACAGCCCCTAACCCCTTCATGGCGATGGc            >  2:1187161/1‑140 (MQ=255)
                                                                                                                                ggCTGCGGCA‑‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGTATTGTGCAAATATTGTTACCCCAGCAACAAACAGGCTCATACAGCCCCTAACCCTTTCATGGCGATGGCTGGGa       <  2:548/140‑1 (MQ=255)
                                                                                                                                ggCTGCGGCA‑‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGTATTGTGCAAATATTGTTACCCCAGCAACAAACAGGCTCATACAGCCCCTAACCCTTTCATGGCGATGGCTGGGa       <  1:524481/140‑1 (MQ=255)
                                                                                                                                 gCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGTATTGTGCAAATATTGTTACCCCAGCAACAAACAGGCTCATACAGCCCCTAACCCTTTCATGGCGATGGCTGGGa       <  1:1182212/140‑1 (MQ=255)
                                                                                                                                 gCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGTATTGTGCAAATATTGTTACCCCAGCAACAAACAGGCTCATACAGCCCCTAACCCTTTCATGGCGATGGCTGGGa       <  1:1170546/140‑1 (MQ=255)
                                                                                                                                 gCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGTATTGTGCAAATATTGTTACCCCAGCAACAAACAGGCTCATACAGCCCCTAACCCTTTCATGGCGATGGCTGGGa       <  2:117385/140‑1 (MQ=255)
                                                                                                                                 gCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGTATTGTGCAAATATTGTTACCCCAGCAACAAACAGGCTCATACAGCCCCTAACCCTTTCATGGCGATGGCTGGGa       <  2:1014460/140‑1 (MQ=255)
                                                                                                                                 gCTGCGGCAG‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGTATTGTGCAAATATTGTTACCCCAGCAACAAACAGGCTCATACAGCCCCTAACCCTTTCATGGCGATGGCTGGGa       <  1:331212/140‑1 (MQ=255)
                                                                                                                                     cGGCA‑‑GGGGGGGCGC‑TTTTCCCCTCACCCCAAACCTCTCCCCCGAGGGGGGAGGGGGCCGTATTGTGGAAATATTTTTTCCCCCCCAAAAAAAAGGCCCCTACAGCCCCCCACCCCTTTCTGGCGCTGGCTggggggggt  >  2:517455/1‑134 (MQ=255)
                                                                                                                                          |                                                                                                                                         
TATTGTTGATGCTTGTTGTGCCTGAAAATCAGGCGATTCGTCGTTTTAGTAAACAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCA‑‑GGGGGGGCGC‑TTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGTATTGTGCAAATATTGTTACCCCAGCAACAAACAGGCTCATACAGCCCCTAACCCTTTCATGGCGATGGCTGGGACGGTT  >  NC_000913/1351052‑1351324

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A