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
A19 F50 I0 R1 80 46.5 1794022 91.0% 1632560 142.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 699,559 A→G 7.7% intergenic (‑382/+15) asnB ← / ← umpH asparagine synthetase B/UMP phosphatase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913699,5590AG 7.7% 135.1 / 3.0 52intergenic (‑382/+15)asnB/umpHasparagine synthetase B/UMP phosphatase
Reads supporting (aligned to +/- strand):  ref base A (25/23);  new base G (2/2);  total (27/25)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.40e-01

TCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAACACCAGAAAGCACCAGAATCGTCTCCAGACCTGCCTGGAAGCCGG  >  NC_000913/699421‑699701
                                                                                                                                          |                                                                                                                                              
tCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACg                                                                                                                                            <  1:492511/143‑1 (MQ=255)
    gCCGCATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCTGCGGACGTGGt                                                                                                                                        <  1:472271/143‑1 (MQ=255)
      tggATGCGTTGTTAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCTGCGGACGTGGTTg                                                                                                                                      <  1:56079/142‑1 (MQ=21)
      cGGATGCGGGGTGAACGCCGTATCCGGACTACAAAAGCGTGAAAATTCAAGATGTTGCAGGGGCTGCGTAGGCGTGATAAGCGTAGCGCAGCAGGCAGGTGGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTg                                                                                                                                      <  2:775660/143‑1 (MQ=255)
        gacgcggcgTGAACGCCTTATCCGGCCTACAAAAGCATGACAATTCAATATATTGCAGGAGCTGCGTACGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCt                                                                                                                                    <  1:133756/140‑1 (MQ=255)
        gATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCCTTTGTCATCAGAGCCAACCACGTCCCAAGACGTGGTTGCt                                                                                                                                    >  2:111875/1‑143 (MQ=255)
           gcggcgTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTACGGGGGGTTCATGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGAAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGAAGTGGGTGCTAtt                                                                                                                                 >  2:191079/1‑143 (MQ=21)
              gcgTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAg                                                                                                                              >  1:40299/1‑143 (MQ=255)
              gcgTGAACGCCTTATCCGGCCTACAAAAGCATAAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAg                                                                                                                              >  2:191990/1‑143 (MQ=255)
                tggAACGCCTTATCCGGCCTACAAAGGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGAt                                                                                                                            <  2:456093/141‑1 (MQ=255)
                          tATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGAtt                                                                                                                  >  2:881442/1‑143 (MQ=255)
                           aTCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGCCGGGGGTGTTATTAACAGAACGTCGAttt                                                                                                                 >  2:530314/1‑143 (MQ=25)
                                             tGAAAATTCAATATATTGCAGGAGCTGCGTCAGCAAATGTTTCGTATCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTaaa                                                                                               <  2:866335/143‑1 (MQ=255)
                                             tGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGGGCATCATCGAGTTTGGCGTTTATCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTaaa                                                                                               <  2:58393/143‑1 (MQ=38)
                                              gAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAAt                                                                                              >  1:14196/1‑143 (MQ=255)
                                              gAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAAt                                                                                              >  1:509395/1‑143 (MQ=255)
                                              gAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGAAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTCTTCAGATAAGGTCGCTTTCAGCGACTGACGGGTAAAt                                                                                              >  1:29826/1‑143 (MQ=255)
                                                        tatatTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTgggg                                                                                    <  2:673009/143‑1 (MQ=255)
                                                           atTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCgg                                                                                 >  1:401863/1‑143 (MQ=255)
                                                              gCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGaaa                                                                              <  2:40299/143‑1 (MQ=255)
                                                              gCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGaaa                                                                              <  2:126237/143‑1 (MQ=255)
                                                              gCAGGAGCTGCGGAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTGTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGaaa                                                                              <  1:397860/143‑1 (MQ=255)
                                                                    gCTGCGTAGGCCTGATATGCGTAGGGCAGCAGGCAGGTTGGCGTTTGTCATCAGGGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATTCAGCTGGGGCGGAAAGGCATa                                                                        <  2:689356/143‑1 (MQ=255)
                                                                            ggCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGat                                                                <  2:14196/143‑1 (MQ=255)
                                                                               cTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGCGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGGAAATCCAGCTGGGGCGGAAAGGCATACCGTCGctatg                                                             >  1:192187/1‑142 (MQ=255)
                                                                               cTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGCTAACGTCGATTTCAGCCACTGACGCGTAAATCCAGCTGGGGCGCCAAGGCATCCTCTCgtcagc                                                             >  2:56353/1‑138 (MQ=38)
                                                                                tGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATTACGTCGCTTTCAGCGACTGACGGGTACATCCAGGTGGGGCGGAAAAGCGTACTGTCGATTtcg                                                            >  2:244121/1‑143 (MQ=38)
                                                                                tGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAAACAAGCGGGGGCGGACAGGCATACTGTCGaactcg                                                            >  2:545169/1‑138 (MQ=39)
                                                                                  aTAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACATCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATCCTGTCGATAtcgtc                                                          >  1:448052/1‑143 (MQ=255)
                                                                                        gTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGcga                                                    <  1:679211/143‑1 (MQ=255)
                                                                                            tgcggcAGGCAGTTTGGCGTTTGGAGTCAGAGCCAACCACGTGCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGaa                                                <  2:326780/138‑1 (MQ=255)
                                                                                              taTCTGGCAGTTTGGCGGTTGTCATCAGAGCCAGCCACGTCCGCAGGCGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAac                                              <  2:773766/142‑1 (MQ=255)
                                                                                                tCAGGCAGTTTCGCGTTTGTCATCAGAGCCAGCCACGTCCGCAGTCGTGGTGCCTATTCCGATAACGTCGATTTCAGCGACTGACGGGTAAATAAAGATGGGGCCGCGGGATAGCGGGTCGATATCGCCGAGCGACGAAacac                                            <  2:401863/143‑1 (MQ=255)
                                                                                                tCAGGCAGGGTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGACAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAacac                                            <  1:447924/143‑1 (MQ=255)
                                                                                                tCAGGCACTGTGGCGGTTGTCATCAGCGCCAACCACTTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGCCGGGTAAACCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAacac                                            <  2:340048/143‑1 (MQ=255)
                                                                                                     cAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGCCGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAACCCCCAGaa                                       >  2:840130/1‑143 (MQ=255)
                                                                                                        tttGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCCTACTGTCGATTTCGTCGTGCCCCGAAAAACCAGaaacc                                    >  1:72890/1‑141 (MQ=255)
                                                                                                        tttGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCAACGAAACACCAGAAAGc                                    >  1:759963/1‑143 (MQ=255)
                                                                                                             cGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAACACCAGAGTGcagcag                               >  1:324835/1‑143 (MQ=255)
                                                                                                               tttGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAACACCAGAAAGCACCAGaa                             >  2:417634/1‑143 (MQ=255)
                                                                                                               tttGTCATCAGAGCCAACCACGGCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAACACCAGAAAGCACCAGaa                             <  1:725970/143‑1 (MQ=255)
                                                                                                                      tcaGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGCGCGACGAGACACCGGAAAGCACCAGAATCGgctc                      >  1:753764/1‑143 (MQ=255)
                                                                                                                        agagCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAACACCAGAAAGCACCAGACTCGTCTCCa                    >  2:895568/1‑143 (MQ=255)
                                                                                                                        agagCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAACACCAGAAAGCACCAGAATCGTCTCCa                    >  1:704379/1‑143 (MQ=255)
                                                                                                                          agCCAACCACGTCCGCAGAGGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAACACCAGAAAGCACCAGAATCGTCTCCAGa                  <  1:258534/143‑1 (MQ=255)
                                                                                                                             cAACCACGTCTGCGGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATAATGTCGATCTCGTCGAGCGCCGAAACACCAGAAAGCACCAAAAACGACTCCAGaacg               >  2:488490/1‑140 (MQ=255)
                                                                                                                              aaCCACGTCTGCGGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAACACCAGAAAGCACCAGACTCGTCTCCAGAcctg              >  1:359742/1‑143 (MQ=255)
                                                                                                                               aCCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCCTACTGTCGATATCGTCGAGCGACGAAACACCAGAAAGCACCAGAATCGTCCCCAGAcctgc             >  2:205951/1‑143 (MQ=255)
                                                                                                                                ccACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAACACCAGAAAGCACCAGAATCGTCTCCAGAcctgcc            <  1:191990/143‑1 (MQ=255)
                                                                                                                                   cGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAACACCAGAAAGCACCAGAATCGTCTCCAGACCTGCCTgg         <  1:881442/143‑1 (MQ=255)
                                                                                                                                     tCCGCAGACGTGGTTGCTATTTAGTTAGCGTCGATTTCAGCTACTGACGGGTAAATCCAGCTGGGGGGGGAAGGCATACTGTCGATATCGTCGAGCGACGAAACACCAGAAAGCACCAGAATCGTCTCCAGACCTGCCTGGaa       <  1:111875/143‑1 (MQ=255)
                                                                                                                                      ccGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAAGACCAGAAAGCACTAGAATCGACTCCAGAcgtgactctaag      >  1:405054/1‑138 (MQ=255)
                                                                                                                                          aGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAACACCAGAAAGCACCAGAATCGTCTCCAGACCTGCCTGGAAGCCgg  <  2:295511/143‑1 (MQ=255)
                                                                                                                                          aGACGGGGTTGCTATTCAGACAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATAGCGTCGAGCGACGAAACACCAGAAAGCACCAGAATCGTCTCCAGACCTGCCTGGAAGCCgg  <  1:191079/143‑1 (MQ=255)
                                                                                                                                          |                                                                                                                                              
TCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAACACCAGAAAGCACCAGAATCGTCTCCAGACCTGCCTGGAAGCCGG  >  NC_000913/699421‑699701

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A