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
A14 F19 I0 R1 34 56.7 1876034 94.8% 1778480 147.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913_3_pae_tpiA 2,795,396 C→A 100% Q382K (CAG→AAG)  gabP → gamma‑aminobutyrate transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913_3_pae_tpiA2,795,3960CA100.0% 167.2 / ‑6.7 52Q382K (CAG→AAG) gabPgamma‑aminobutyrate transporter
Reads supporting (aligned to +/- strand):  ref base C (0/0);  major base A (31/20);  minor base G (1/0);  total (32/20)
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

CCGTACGTGGCGGTGTTACTCTCCACCGGCGCGGCATTCTTAACGGTGGTGGTGAACTATTACGCGCCTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCACAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTAT‑TACCTTTGTGTTGGTAGTGATGCTATTCCGTCCGGCGCA  >  NC_000913_3_pae_tpiA/2795252‑2795532
                                                                                                                                                |                                                                                                                                         
ccGTACGTGGCGGTGTTACTCTCCACCGGCGCGGCATTCTTAACGGTGGTGGTGAACTATTACGCGCCTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGtt                                                                                                                                       >  2:887275/1‑149 (MQ=255)
 cGTACGTGGCGGTGTTACTCTCCACCGGCGCGGCATTCTTAACGGTGGTGGTGAAATATTACGCGCCTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGttt                                                                                                                                      >  2:739041/1‑148 (MQ=255)
  gTACGTGGCGGTGTTACTCTCCACCGGCGCGGCATTCTTAACGGTGGTGGTGAACTATTACGCGCCTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGTCATGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGc                                                                                                                                     >  2:182446/1‑149 (MQ=255)
   tACGTGGCGGTGTTACTCTCCACCGGCGCGGCATTCTTAACGGTGGTGGTGAACTATTACGCGCCTGCGAAGGTATTTGAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCg                                                                                                                                    <  2:472628/149‑1 (MQ=255)
   tACGTGGCGGTGTTACTCTCCACCGGCGCGGCATTCTTAACGGTGGTGGTGAACTATTACGCGCCTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCg                                                                                                                                    >  1:56941/1‑149 (MQ=255)
     cGTGGCGGTGTTACTCTCCACCGGCGCGGCATTCTTAACGGTGGTGGTGAACTATTACGCGCCTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGa                                                                                                                                  <  1:655088/149‑1 (MQ=255)
       tGGCGGTGTTACTCTCCACCGGCGCGGCATTCTTAACGGTGGTGGTGAACTATTACGCGCCTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATg                                                                                                                                <  2:16278/149‑1 (MQ=255)
        ggCGGTGTTACTCTCCACCGGCGCGGCATTCTTAACGGTGGTGGTGAACTATTACGCGCCTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTGATCGCCGTTTCAAAGTTGCGGATgc                                                                                                                               >  1:133011/1‑149 (MQ=255)
        ggCGGTGTTACTCTCCACCGGCGCGGCATTCTTAACGGTGGTGGTGAACTATTACGCGCCTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATgc                                                                                                                               >  2:11976/1‑149 (MQ=255)
        ggCGGTGTTACTCTCCACCGGCGCGGCATTCTTAACGGTGGTGGTGAACTATTACGCGCCTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATgc                                                                                                                               >  1:202904/1‑149 (MQ=255)
                   tctcCACCGGCGCGGCATTCTTAACGGTGGCGGTGAACTATTACGCGCCCGCGAAGGTATTTAAATCTCTGATCGCCAGCTCCGCCGCTATCGCCCTGCTGGTTTATTTAGCCATCGCCGTGTCAAACTTGCGAACGCGCAAACTTCTg                                                                                                                    >  2:885381/1‑149 (MQ=255)
                      ccACCGGCGCGTCATTCTGAACGGAGGTGGTGAACTATTACGCGCCTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGa                                                                                                                 <  1:273408/149‑1 (MQ=255)
                            gcgcGGCATTCTTAACGGTGGTGGTGAACTATTACGCGCCTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAGAGTTGCGGATGCGCAAAATTCTGCGAGCAgaa                                                                                                           >  1:270322/1‑149 (MQ=255)
                                   aTTCTTAACGGTGGTGGTGAACTATTACGCGCCTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCCGATCCGCCAAATTCTGCGAGCAGAAGGAcgcg                                                                                                    >  2:16310/1‑149 (MQ=255)
                                           cGGTGGTGGTGAACTATTACGCGCCTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGACATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGc                                                                                            <  1:672122/149‑1 (MQ=255)
                                             gtggtggtgAACTATTACGCGCCTGCGAAGGTATTTCAATTTCGGAGCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCtt                                                                                          >  1:228566/1‑149 (MQ=255)
                                             gtggtggtgAACTATTACGCGCCTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCtt                                                                                          >  1:551949/1‑149 (MQ=255)
                                                   gtgAACTATTACGCGCCTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAAt                                                                                    <  2:900244/149‑1 (MQ=255)
                                                      aaCTATTACGCGCCTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAAtgtg                                                                                 >  1:885439/1‑149 (MQ=255)
                                                        cTATTACGCGCCTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTCTTTCGTCATCCCCGTTTCAAAGTTGCCGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGCAATTCGCTTGCGAATCTGGc                                                                               >  1:302414/1‑149 (MQ=255)
                                                         tATTACGCGCCTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCt                                                                              <  2:766669/149‑1 (MQ=255)
                                                          aTTACGCGCCTGCGAAGGGATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCtt                                                                             <  2:299073/149‑1 (MQ=255)
                                                             gcgcgCCTGCGGAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTTCTGGTTTATTTAGTCATCGCGGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTAt                                                                          <  2:187151/148‑1 (MQ=255)
                                                                   cTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAATCACTGACCTCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTgg                                                                    >  1:677630/1‑149 (MQ=255)
                                                                    tGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCCGATGCGCAAACTTCTGCGAGCAGACGGAAGCCAAATTCCCTTGCGAATGTGGCTCTAGCCGTGGc                                                                   >  2:31984/1‑149 (MQ=255)
                                                                           gTATTTAAATTTCGGATCGACAGATCCGGCGCTATCGCAGTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCTCTTGCGAATGTGTCTTTATCCGTGGCTGTCCTg                                                            >  1:811704/1‑149 (MQ=255)
                                                                              tttAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCt                                                         >  2:491325/1‑149 (MQ=255)
                                                                              tttAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCt                                                         >  2:136471/1‑149 (MQ=255)
                                                                                    tttCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCAt                                                   >  1:897210/1‑149 (MQ=255)
                                                                                     ttCTGATCGACAGCTCCGTCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGGAGCGCAAAATTCTCCGAGCAGAAGGAAGCGAAGTTCGCTTGCGAATGTGGCTATATCAGTGGCACACCTGTCTAgacctc                                                  >  2:139189/1‑144 (MQ=255)
                                                                                      tCTGATCGACAGCTCCGGCTCTATCGCCTTGCTGGTTTATTTAGGCATCGCCGGTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCg                                                 <  2:92898/149‑1 (MQ=255)
                                                                                       cTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGAAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCgg                                                >  1:316215/1‑149 (MQ=255)
                                                                                                 gCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTATCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCCCCCGGCTAGTCATCGGCTTTAT‑TAcc                                     <  1:542902/149‑1 (MQ=255)
                                                                                                  cTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTAT‑TACCt                                    <  1:887275/149‑1 (MQ=255)
                                                                                                    ccGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTAT‑TACCttt                                  <  1:11976/149‑1 (MQ=255)
                                                                                                     cGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTAT‑TACCTTtg                                 >  1:657130/1‑149 (MQ=255)
                                                                                                      ggtgcTATCGCCCTGCTTGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGTTCACCTGGCTAGTCATCGGCTTTAT‑TACCTTtgt                                <  1:236582/146‑1 (MQ=255)
                                                                                                      ggCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTAT‑TACCTTtgt                                >  1:768932/1‑149 (MQ=255)
                                                                                                           tATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTGACCTGGCTAGTCATCGGCTTTAT‑TACCTTTGTGTTgg                           >  1:373886/1‑149 (MQ=255)
                                                                                                             tCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCCTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTAT‑TACCTTTGTGTTGGTa                         <  1:933008/149‑1 (MQ=255)
                                                                                                                        ttttatttaCTCATCTCCGTTTCAAATTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAATCGAAATTCGCTTGCTAATGTTGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTAT‑TACCTTTGTGTTGGTAGTGATGCTAtt              <  2:173998/148‑1 (MQ=255)
                                                                                                                        gTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTAT‑TACCTTTGTGTTGGTAGTGATGCTAtt              <  2:56941/149‑1 (MQ=255)
                                                                                                                        gTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTAT‑TACCGTTGTGTTGGTAGGTATGATAtt              >  2:756915/1‑149 (MQ=255)
                                                                                                                          ttatttaGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTCTATCCGAGGCTGCACTGGCTAGTCATCGGCTTTCTCTCACGATG‑GGTGGTAGTGATGCTAttac            >  2:849599/1‑147 (MQ=255)
                                                                                                                          ttatttaGTCATCGCCGTTTAAAAGTTTCGGATGCGCAAAATTCTGCGAGCGGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCGAGTCATCGGCTTTAT‑TACCTTTGTGTTGGTAGTGATGCTATtcc            <  1:720208/149‑1 (MQ=255)
                                                                                                                               taGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTAT‑TACCTTTGTGTTGGTAGTGATGCTATtccgtccg       >  2:808556/1‑149 (MQ=255)
                                                                                                                                  tCATCGCCGTTTCAAAGTTGCGGATGCGCGAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTAT‑TACCTTTGTGTTGGTAGTGATGCTATTCCGTCCGgcg    >  1:613529/1‑149 (MQ=255)
                                                                                                                                    aTCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAg                                                                                                                <  2:479190/40‑1 (MQ=255)
                                                                                                                                    aTCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAg                                                                                                                >  1:479190/1‑40 (MQ=255)
                                                                                                                                    aTCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTAT‑TACCTTTGTGTTGGTAGTGATGCTATTCCGTCCGGCGCa  >  1:591295/1‑149 (MQ=255)
                                                                                                                                            ttCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTAT‑TAc                                      <  2:611025/105‑1 (MQ=255)
                                                                                                                                            ttCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTAT‑TAc                                      >  1:611025/1‑105 (MQ=255)
                                                                                                                                                |                                                                                                                                         
CCGTACGTGGCGGTGTTACTCTCCACCGGCGCGGCATTCTTAACGGTGGTGGTGAACTATTACGCGCCTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCACAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTAT‑TACCTTTGTGTTGGTAGTGATGCTATTCCGTCCGGCGCA  >  NC_000913_3_pae_tpiA/2795252‑2795532

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A