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 260 73.5 2514320 99.3% 2496719 138.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,794,731 T→C V160A (GTC→GCC)  gabP → 4‑aminobutyrate:H(+) symporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,794,7310TC98.2% 187.4 / ‑3.4 54coding (479/1401 nt)gabP4‑aminobutyrate:H(+) symporter
Reads supporting (aligned to +/- strand):  ref base T (0/0);  major base C (33/20);  minor base . (0/1);  total (33/21)
Fisher's exact test for biased strand distribution p-value = 3.89e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ATCCTGCACTCATGGGTTCCAGGCATTCCCATCTGGTTATTTTCCCTCGTCATTACCCTCGCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGTCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGCGGGATCTCAAGATTGTGGGATAGCGGCGGCTTTATGCCCAACGGTTTCGGTGCGGTATT  >  NC_000913/2794598‑2794863
                                                                                                                                     |                                                                                                                                    
aTCCTGCACTCATGGGTTCCAGGCATTCCCATCTGGTTATTTTCCCTCGTCATTACCCTCGCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGc                                                                                                                                >  2:1098354/1‑140 (MQ=255)
           aTGGGTTCCAGGCATTCCCATCTGGTTATTTTCCCTCGTCATTACCCTCGCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCg                                                                                                                                 >  1:778015/1‑128 (MQ=255)
           aTGGGTTCCAGGCATTCCCATCTGGTTATTTTCCCTCGTCATTACCCTCGCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCg                                                                                                                                 <  2:778015/128‑1 (MQ=255)
           aTGGGTTCCAGGCATTCCCATCTGGTTATTTTCCCTCGTCATTACCCTCGCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATc                                                                                                                            <  2:658881/133‑1 (MQ=255)
           aTGGGTTCCAGGCATTCCCATCTGGTTATTTTCCCTCGTCATTACCCTCGCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATc                                                                                                                            >  1:658881/1‑133 (MQ=255)
           aTGGGTTCCAGGCATTCCCATCTGGTTATTTTCCCTCGTCATTACCCTCGCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCt                                                                                                                     >  2:925919/1‑140 (MQ=255)
           aTGGGTTCCAGGCATTCCCATCTGGTTATTTTCCCTCGTCATTACCCTCGCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCt                                                                                                                     >  2:885965/1‑140 (MQ=255)
           aTGGGTTCCAGGCATTCCCATCTGGTTATTTTCCCTCGTCATTACCCTCGCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCt                                                                                                                     >  2:731689/1‑140 (MQ=255)
           aTGGGTTCCAGGCATTCCCATCTGGTTATTTTCCCTCGTCATTACCCTCGCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCt                                                                                                                     >  1:357998/1‑140 (MQ=255)
           aTGGGTTCCAGGCATTCCCATCTGGTTATTTTCCCTCGTCATTACCCTCGCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCt                                                                                                                     >  2:617099/1‑140 (MQ=255)
                  ccAGGCATTCCCATCTGGTTATTTTCCCTCGTCATTACCCTCGCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTAtttt                                                                                                              >  1:597228/1‑140 (MQ=255)
                   cAGGCATTCCCATCTGGTTATTTTCCCTCGTCATTACCCTCGCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTc                                                                                                             >  2:498715/1‑140 (MQ=255)
                   cAGGCATTCCCATCTGGTTATTTTCCCTCGTCATTACCCTCGCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTc                                                                                                             >  2:275519/1‑140 (MQ=255)
                     ggCATTCCCATCTGGTTATTTTCCCTCGTCATTACCCTCGCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCt                                                                                                           >  2:497078/1‑140 (MQ=255)
                     ggCATTCCCATCTGGTTATTTTCCCTCGTCATTACCCTCGCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCt                                                                                                           >  1:788628/1‑140 (MQ=255)
                          tCCCATCTGGTTATTTTCCCTCGTCATTACCCTCGCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTg                                                                                                      <  2:754661/140‑1 (MQ=255)
                           cccATCTGGTTATTTTCCCTCGTCATTACCCTCGCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGc                                                                                                     >  2:198463/1‑140 (MQ=255)
                           cccATCTGGTTATTTTCCCTCGTCATTACCCTCGCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGc                                                                                                     >  2:815107/1‑140 (MQ=255)
                                  ggTTATTTTCCCTCGTCATTACCCTCGCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCa                                                                                              <  1:885965/140‑1 (MQ=255)
                                   gTTATTTTCCCTCGTCATTACCCTCGCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCaa                                                                                             >  2:616159/1‑140 (MQ=255)
                                             cTCGTCATTACCCTCGCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGttt                                                                                   >  1:482876/1‑140 (MQ=255)
                                                   aTTACCCTCGCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTAccc                                                                             <  1:807580/140‑1 (MQ=255)
                                                           cGCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCg                                                                     >  2:1115782/1‑140 (MQ=255)
                                                           cGCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCg                                                                     <  1:1098354/140‑1 (MQ=255)
                                                            gCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGa                                                                    >  1:1076197/1‑140 (MQ=255)
                                                            gCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGa                                                                    >  2:1231658/1‑140 (MQ=255)
                                                            gCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGATGGCACTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGa                                                                    >  2:262671/1‑140 (MQ=255)
                                                                 aaCTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGa                                                               >  1:499908/1‑140 (MQ=255)
                                                                   cTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGc                                                             <  2:482876/140‑1 (MQ=255)
                                                                     ggCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGCgg                                                           <  1:497078/140‑1 (MQ=255)
                                                                     ggCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGCgg                                                           <  1:1115782/140‑1 (MQ=255)
                                                                        aGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGCGGGAt                                                        >  2:13469/1‑140 (MQ=255)
                                                                        aGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGCGGGAt                                                        <  1:617099/140‑1 (MQ=255)
                                                                           aaCTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGCGGGAtctc                                                     <  2:1076197/140‑1 (MQ=255)
                                                                             cTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGCGGGATCTCaa                                                   <  2:499908/140‑1 (MQ=255)
                                                                                  taAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGCGGGATCTCAAGATtg                                              >  1:1134018/1‑140 (MQ=255)
                                                                                      cGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGCGGGATCTCAAGATTGTggg                                          >  2:723072/1‑140 (MQ=255)
                                                                                      cGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGCGGGATCTCAAGATTGTggg                                          >  2:334108/1‑140 (MQ=255)
                                                                                       gTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGCGGGATCTCAAGATTGTGGGa                                         >  1:738470/1‑140 (MQ=255)
                                                                                       gTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGCGGGATCTCAAGATTGTGGGa                                         >  2:41068/1‑140 (MQ=255)
                                                                                        ttAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGCGGGATCTCAAGATTGTGGGAt                                        >  2:1023103/1‑140 (MQ=255)
                                                                                               cTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGCGGGATCTCAAGATTGTGGGATAgcggcg                                 <  1:731689/140‑1 (MQ=255)
                                                                                               cTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGCGGGATCTCAAGATTGTGGGATAgcggcg                                 <  1:498715/140‑1 (MQ=255)
                                                                                                tACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGCGGGATCTCAAGATTGTGGGATAGcggcgg                                >  2:1160371/1‑140 (MQ=255)
                                                                                                  cGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGCGGGATCTCAAGATTGTGGGATAgcggc                                  >  1:1035639/1‑136 (MQ=255)
                                                                                                  cGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGCGGGATCTCAAGATTGTGGGATAgcggc                                  <  2:1035639/136‑1 (MQ=255)
                                                                                                  cGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGCGGGATCTCAAGATTGTGGGATAGCGGCGGCt                              >  1:42636/1‑140 (MQ=255)
                                                                                                          ttGAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGCGGGATCTCAAGATTGTGGGATAGCGGCGGCTTTATGccc                      <  1:815107/140‑1 (MQ=255)
                                                                                                            gAGTTCTGGCTGGCGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGCGGGATCTCAAGATTGTGGGATAGCGGCGGCTTTATGCCCaa                    <  2:616659/140‑1 (MQ=255)
                                                                                                                   ggctggcGCTGTGCAAAG‑CCTCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGCGGGATCTCAAGATTGTGGGATAGCGGCGGCTTTATGCCCAACGGTTTCg            <  1:82586/140‑1 (MQ=255)
                                                                                                                    gctggcGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGCGGGATCTCAAGATTGTGGGATAGCGGCGGCTTTATGCCCAACGGTTTCg            <  1:723072/140‑1 (MQ=255)
                                                                                                                    gctggcGCTGTGCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGCGGGATCTCAAGATTGTGGGATAGCGGCGGCTTTATGCCCAACGGTTTCg            <  1:198463/140‑1 (MQ=255)
                                                                                                                              tgCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGCGGGATCTCAAGATTGTGGGATAGCGGCGGCTTTATGCCCAACGGTTTCGGTGCGGTAtt  <  1:1160371/140‑1 (MQ=255)
                                                                                                                              tgCAAAGCCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGCGGGATCTCAAGATTGTGGGATAGCGGCGGCTTTATGCCCAACGGTTTCGGTGCGGTAtt  >  1:1156199/1‑140 (MQ=255)
                                                                                                                                     |                                                                                                                                    
ATCCTGCACTCATGGGTTCCAGGCATTCCCATCTGGTTATTTTCCCTCGTCATTACCCTCGCCTTAACTGGCAGTAACTTATTAAGCGTTAAAAACTACGGCGAATTTGAGTTCTGGCTGGCGCTGTGCAAAGTCATCGCTATCCTGGCCTTTATTTTCCTTGGTGCAGTCGCAATTAGCGGTTTTTACCCGTATGCCGAAGTGAGCGGGATCTCAAGATTGTGGGATAGCGGCGGCTTTATGCCCAACGGTTTCGGTGCGGTATT  >  NC_000913/2794598‑2794863

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