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 139 53.6 1844736 98.1% 1809686 138.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,489,590 T→C R453R (CGT→CGC)  aldA → aldehyde dehydrogenase A

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,489,5900TC96.3% 187.7 / ‑0.0 54coding (1359/1440 nt)aldAaldehyde dehydrogenase A
Reads supporting (aligned to +/- strand):  ref base T (0/0);  major base C (25/27);  minor base . (1/1);  total (26/28)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.94e-01

TTACGGCCTGACCTCATCAATCTATACCCAAAATCTGAACGTCGCGATGAAAGCCATTAAAGGGCTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGTAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAGGTGGTTTATTTACAGTCTTAATGAGTGAAAGAGGCGGAGGTTTTTTCCTCCGCCTGTGCGCGTCAGAGTTT  >  NC_000913/1489455‑1489721
                                                                                                                                       |                                                                                                                                   
ttACGGCCTGACCTCATCAATCTATACCCAAAATCTGAACGTCGCGATGAAAGCCATTAAAGGGCTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAAt                                                                                                                                 <  1:183009/140‑1 (MQ=255)
        tGACCTCATCAATCTATACCCAAAATCTGAACGTCGCGATGAAAGCCATTAAAGGGCTGAAGTTTGGTG‑AACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTg                                                                                                                        >  1:342716/1‑140 (MQ=255)
                tcaATCTATACCCAAAATCTGAACGTCGCGATGAAAGCCATTAAAGGGCTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCG‑CAATCCGGTATTGGCGGCGCa                                                                                                                >  1:749165/1‑140 (MQ=255)
                 caATCTATACCCAAAATCTGAACGTCGCGATGAAAGCCATTAAAGGGCTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCa                                                                                                                <  1:178385/140‑1 (MQ=255)
                    tCTATACCCAAAATCTGAACGTCGCGATGAAAGCCATTAAAGGGCTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGAt                                                                                                             >  2:456381/1‑140 (MQ=255)
                    tCTATACCCAAAATCTGAACGTCGCGATGAAAGCCATTAAAGGGCTGAAGTTTGGTG‑AACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATg                                                                                                            <  2:342716/140‑1 (MQ=255)
                         aCCCAAAATCTGAACGTCGCGATGAAAGCCATTAAAGGGCTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTaa                                                                                                        >  1:155857/1‑140 (MQ=255)
                          cccAAAATCTGAACGTCGCGATGAAAGCCATTAAAGGGCTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGgcgc                                                                                                                 <  2:794678/130‑1 (MQ=255)
                          cccAAAATCTGAACGTCGCGATGAAAGCCATTAAAGGGCTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGgcgc                                                                                                                 >  1:794678/1‑130 (MQ=255)
                           ccAAAATCTGAACGTCGCGATGAAAGCCATTAAAGGGCTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAAc                                                                                                      <  1:251081/140‑1 (MQ=255)
                             aaaaTCTGAACGTCGCGATGAAAGCCATTAAAGGGCTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACAt                                                                                                    >  1:323795/1‑140 (MQ=255)
                              aaaTCTGAACGTCGCGATGAAAGCCATTAAAGGGCTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATg                                                                                                   >  2:884725/1‑140 (MQ=255)
                              aaaTCTGAACGTCGCGATGAAAGCCATTAAAGGGCTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATg                                                                                                   >  2:763921/1‑140 (MQ=255)
                              aaaTCTGAACGTCGCGATGAAAGCCATTAAAGGGCTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCG‑CAATCCGGTATTGGCGGCGCAGATGGTAAACATgg                                                                                                  <  2:749165/140‑1 (MQ=255)
                               aaTCTGAACGTCGCGATGAAAGCCATTAAAGGGCTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATgg                                                                                                  <  2:266062/140‑1 (MQ=255)
                                aTCTGAACGTCGCGATGAAAGCCATTAAAGGGCTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGc                                                                                                 <  1:677336/140‑1 (MQ=255)
                                  cTGAACGTCGCGATGAAAGCCATTAAAGGGCTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCtt                                                                                               >  1:494816/1‑140 (MQ=255)
                                     aaCGTCGCGATGAAAGCCATTAAAGGGCTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCa                                                                                            <  2:155857/140‑1 (MQ=255)
                                     aaCGTCGCGATGAAAGCCATTAAAGGGCTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCa                                                                                            >  2:796490/1‑140 (MQ=255)
                                          cgcgATGAAAGCCATTAAAGGGCTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAat                                                                                       >  2:589129/1‑140 (MQ=255)
                                                 aaaGCCATTAAAGGGCTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCa                                                                                <  1:456381/140‑1 (MQ=255)
                                                 aaaGCCATTAAAGGGCTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCa                                                                                <  2:136725/140‑1 (MQ=255)
                                                   aGCCATTAAAGGGCTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGa                                                                              >  2:728318/1‑140 (MQ=255)
                                                           aaGGGCTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAggtg                                                                      >  2:854338/1‑140 (MQ=255)
                                                            aGGGCTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAggtgg                                                                     <  1:854338/140‑1 (MQ=255)
                                                                cTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGAc                                                                             >  2:91553/1‑128 (MQ=255)
                                                                cTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGAc                                                                             <  1:91553/128‑1 (MQ=255)
                                                                cTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAggt                                                                       <  2:112540/134‑1 (MQ=255)
                                                                cTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAggt                                                                       >  1:112540/1‑134 (MQ=255)
                                                                cTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAGGTGGttta                                                                 >  1:659417/1‑140 (MQ=255)
                                                                cTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAGGTGGttta                                                                 >  1:631844/1‑140 (MQ=255)
                                                                cTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAGGTGGttta                                                                 >  1:314793/1‑140 (MQ=255)
                                                                    aGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAGGTGGtttattta                                                             <  2:450725/140‑1 (MQ=255)
                                                                    aGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAGGTGGtttattta                                                             <  2:659417/140‑1 (MQ=255)
                                                                    aGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAGGTGGtttattta                                                             <  1:796490/140‑1 (MQ=255)
                                                                    aGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAGGTGGtttattta                                                             <  1:13882/140‑1 (MQ=255)
                                                                              aaCTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAGGTGGTTTATTTACAGTCTTAAt                                                   <  2:314793/140‑1 (MQ=255)
                                                                              aaCTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAGGTGGTTTATTTACAGTCTTAAt                                                   <  1:589129/140‑1 (MQ=255)
                                                                                          ccGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAGGTGGTTTATTTACAGTCTTAATGAGTGAAAGAgg                                       >  2:813542/1‑140 (MQ=255)
                                                                                          ccGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAGGTGGTTTATTTACAGTCTTAATGAGTGAAAGAgg                                       >  1:520225/1‑140 (MQ=255)
                                                                                             tGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAGGTGGTTTATTTACAGTCTTAATGAGTGAAAGAGGCgg                                    >  1:117902/1‑140 (MQ=255)
                                                                                             tGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAGGTGGTTTATTTACAGTCTTAATGAGTGAAAGAGGCgg                                    <  2:494816/140‑1 (MQ=255)
                                                                                             tGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAGGTGGTTTATTTACAGTCTTAATGAGTGAAAGAGGCgg                                    >  1:900237/1‑140 (MQ=255)
                                                                                                             aTGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAGGTGGTTTATTTACAGTCTTAATGAGTGAAAGAGGCGGAGGTTTTTTCCTCCGc                    <  2:117902/140‑1 (MQ=255)
                                                                                                             aTGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAGGTGGTTTATTTACAGTCTTAATGAGTGAAAGAGGCGGAGGTTTTTTCCTCCGc                    <  2:900237/140‑1 (MQ=255)
                                                                                                              tGCAAGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAGGTGGTTTATTTACAGTCTTAATGAGTGAAAGAGGCGGAGGGTTTTTCCTCCGcc                   >  2:793201/1‑140 (MQ=255)
                                                                                                                  aGGCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAGGTGGTTTATTTACAGTCTTAATGAGTGAAAGAGGCGGAGGTTTTTTCCTCCGCCtgtg               <  2:396634/140‑1 (MQ=255)
                                                                                                                    gCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAGGTGGTTTATTTACAGTCTTAATGAGTGAAAGAGGCGGAGGTTTTTTCCTCCGCCTGTgcg             <  2:520225/140‑1 (MQ=255)
                                                                                                                    gCTTCCACGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAGGTGGTTTATTTACAGTCTTAATGAGTGAAAGAGGCGGAGGTTTTTTCCTCCGCCTGTgcg             <  1:884725/140‑1 (MQ=255)
                                                                                                                           cGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAGGTGGTTTATTTACAGTCTTAATGAGTGAAAGAGGCGGAGGTTTTTTCCTCCGCCTGTGcgcg           >  2:716923/1‑135 (MQ=255)
                                                                                                                           cGCCGGATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAGGTGGTTTATTTACAGTCTTAATGAGTGAAAGAGGCGGAGGTTTTTTCCTCCGCCTGTGcgcg           <  1:716923/135‑1 (MQ=255)
                                                                                                                               ggATGGCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAGGTGGTTTATTTACAGTCTTAATGAGTGAAAGAGGCGGAGGTTTTTTCCTCCGCCTGTGCGCGTCAGAGttt  >  2:395879/1‑140 (MQ=255)
                                                                                                                                   ggCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAGGTGGTTTATTTACAGTCTTAATGAGTGAAAGAGGCGGAGGTTTTTTCCTCCGCCTGTGCGCGTc         >  1:900881/1‑129 (MQ=255)
                                                                                                                                   ggCGCAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAGGTGGTTTATTTACAGTCTTAATGAGTGAAAGAGGCGGAGGTTTTTTCCTCCGCCTGTGCGCGTc         <  2:900881/129‑1 (MQ=255)
                                                                                                                                       |                                                                                                                                   
TTACGGCCTGACCTCATCAATCTATACCCAAAATCTGAACGTCGCGATGAAAGCCATTAAAGGGCTGAAGTTTGGTGAAACTTACATCAACCGTGAAAACTTCGAAGCTATGCAAGGCTTCCACGCCGGATGGCGTAAATCCGGTATTGGCGGCGCAGATGGTAAACATGGCTTGCATGAATATCTGCAGACCCAGGTGGTTTATTTACAGTCTTAATGAGTGAAAGAGGCGGAGGTTTTTTCCTCCGCCTGTGCGCGTCAGAGTTT  >  NC_000913/1489455‑1489721

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