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
A7 F28 I1 R1 252 48.5 1661298 98.8% 1641362 138.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,714,096 T→C V443A (GTG→GCG)  dtpA → dipeptide/tripeptide:H(+) symporter DtpA

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,714,0960TC87.8% 126.2 / 8.7 49V443A (GTG→GCG) dtpAdipeptide/tripeptide:H(+) symporter DtpA
Reads supporting (aligned to +/- strand):  ref base T (2/4);  new base C (22/21);  total (24/25)
Fisher's exact test for biased strand distribution p-value = 6.67e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.56e-01

CTGATGATCTCTGGTCTGGGTCTGGCAATGGTTGCTCAACTCGTTCCGCAGCGTCTGATGGGCTTCATTATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGTGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCTTGCAGATTGGTGTCGCTACTGCCGTTATTGCAGTACTGATGCTGCTGACCGCGCCGAAACTGCACCGCAT  >  NC_000913/1713957‑1714222
                                                                                                                                           |                                                                                                                              
cTGATGATCTCTGGTCTGGGTCTGGCAATGGTTGCTCAACTCGTTCCGCAGCGTCTGATGGGCTTCATTATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCtgt                                                                                                                                >  1:810620/1‑140 (MQ=255)
  gatgatCTCTGGTCTGGGTCTGGCAATGGTTGCTCAACTCGTTCCGCAGCGTCTGATGGGCTTCATTATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTgcgc                                                                                                                              >  1:724974/1‑140 (MQ=255)
    tgatCTCTGGTCTGGGTCTGGCAATGGTTGCTCAACTCGTTCCGCAGCGTCTGATGGGCTTCATTATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGTGCCg                                                                                                                            <  2:429695/140‑1 (MQ=255)
      atCTCTGGTCTGGGTCTGGCAATGGTTGCTCAACTCGTTCCGCAGCGTCTGATGGGCTTCATTATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGa                                                                                                                          <  1:653047/140‑1 (MQ=255)
         tctggtctggGTCTGGCAATGGTTGCTAAACTCGTTCCGCAGCGTCTGATGGGCTTCATTATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATaa                                                                                                                       >  2:12818/1‑140 (MQ=255)
           tggtctggGTCTGGCAATGGTTGCTCAACTCGTTCCGCAGCGTCTGATGGGCTTCATTATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACg                                                                                                                     >  2:205797/1‑140 (MQ=255)
                  ggtctggCAATGGTTGCTCAACTCGTTCCGCAGCGTCTGATGGGCTTCATTATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGa                                                                                                              >  1:179351/1‑140 (MQ=255)
                            tGGTTGCTCAACTCGTTCCGCAGCGTCTGATGGGCTTCATTATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATg                                                                                                    >  1:288760/1‑140 (MQ=255)
                              gTTGCTCAACTCGTTCCGCAGCGTCTGATGGGCTTCATTATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGTGCCGGATAACGTTACCGATCCGCTGATGTc                                                                                                  >  2:731297/1‑140 (MQ=255)
                                  cTCAACTCGTTCCGCAGCGTCTGATGGGCTTCATTATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTg                                                                                              >  2:275693/1‑140 (MQ=255)
                                   tCAACTCGTTCCGCAGCGTCTGATGGGCTTCATTATGGGTAGCTGGTTCCTGATCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTgg                                                                                             <  2:515769/140‑1 (MQ=255)
                                   tCAACTCGTTCCGCAGCGTCTGATGGGCTTCATTATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTgg                                                                                             >  1:529992/1‑140 (MQ=255)
                                        tCGTTCCGCAGCGTCTGATGGGCTTCATTATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTc                                                                                        >  2:614659/1‑140 (MQ=255)
                                         cGTTCCGCAGCGTCTGATGGGCTTCATTATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGaa                                                                                           >  2:812303/1‑136 (MQ=255)
                                         cGTTCCGCAGCGTCTGATGGGCTTCATTATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGaa                                                                                           <  1:812303/136‑1 (MQ=255)
                                          gTTCCGCAGCGTCTGATGGGCTTCATTATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTGTGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTa                                                                                      <  1:45209/140‑1 (MQ=255)
                                          gTTCCGCAGCGTCTGATGGGCTTCATTATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTa                                                                                      >  1:743410/1‑140 (MQ=255)
                                            tCCGCAGCGTCTGATGGGCTTCATTATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATg                                                                                    <  1:275693/140‑1 (MQ=255)
                                            tCCGCAGCGTCTGATGGGCTTCATTATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATg                                                                                    <  1:12818/140‑1 (MQ=255)
                                                  gCGTCTGATGGGCTTCATTATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTcgcg                                                                              <  1:688955/140‑1 (MQ=255)
                                                    gTCTGATGGGCTTCATTATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGTGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTa                                                                            <  1:731297/140‑1 (MQ=255)
                                                    gTCTGATGGGCTTCATTATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTa                                                                            >  2:31957/1‑140 (MQ=255)
                                                         aTGGGCTTCATTATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCtt                                                                       <  1:614659/140‑1 (MQ=255)
                                                         aTGGGCTTCATTATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCtt                                                                       <  2:724974/140‑1 (MQ=255)
                                                             gCTTCATTATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCTTGCAg                                                                   >  1:700798/1‑140 (MQ=255)
                                                                   ttATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTcgcg                                                                              <  2:340911/123‑1 (MQ=255)
                                                                   ttATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTcgcg                                                                              >  1:340911/1‑123 (MQ=255)
                                                                        ggTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGTGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCTTGCAGATTGgtgt                                                           >  1:645578/1‑137 (MQ=255)
                                                                        ggTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGTGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCTTGCAGATTGgtgt                                                           <  2:645578/137‑1 (MQ=255)
                                                                           aGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCTTGCAGATTGGTGTCGCTAc                                                     >  1:556178/1‑140 (MQ=255)
                                                                           aGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCTTGCAGATTGGTGTCGCTAc                                                     >  2:226506/1‑140 (MQ=255)
                                                                            gCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCTTGCAGATTGGTGTCGCTACt                                                    >  2:215125/1‑140 (MQ=255)
                                                                                 ttCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCTTGCAGATTGGTGTCGCTACTGCCGt                                               <  2:584421/140‑1 (MQ=255)
                                                                                 ttCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCTTGCAGATTGGTGTCGCTACTGCCGt                                               <  1:215125/140‑1 (MQ=255)
                                                                                 ttCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCTTGCAGATTGGTGTCGCTACTGCCGt                                               <  1:629329/140‑1 (MQ=255)
                                                                                  tCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCTTGCAGATTGGTGTCGCTACTGCCGtt                                              <  2:288760/140‑1 (MQ=255)
                                                                                    cTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCTTGCAGATTGGTGTCGCTACTGCCGTTAt                                            <  1:508790/140‑1 (MQ=255)
                                                                                      gACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGTGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCTTGCAGATTGGTGTCGCTACTGCCGTTATTg                                          <  1:339822/140‑1 (MQ=255)
                                                                                       aCCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCTTGCAGATTGGTGTCGCTACTGCCGTTATTGc                                         >  1:779114/1‑140 (MQ=255)
                                                                                              ccGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCTTGCAGATTGGTGTCGCTACTGCCGTTATTGCAGTACTg                                  >  1:175362/1‑140 (MQ=255)
                                                                                               cGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCTTGCAGATTGGTGTCGCTACTGCCGTTATTGCAGTACTGa                                 <  1:205797/140‑1 (MQ=255)
                                                                                                            aTTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCTTGCAGATTGGTGTCGCTACTGCCGTTATTGCAGTAc                                    <  2:236900/124‑1 (MQ=255)
                                                                                                            aTTGGTGGTTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCTTGCAGATTGGTGTCGCTACTGCCGTTATTGCAGTAc                                    >  1:236900/1‑124 (MQ=255)
                                                                                                            aTTGGTGGGTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATTCGCTGATGGCAGTGGAAGTCTATGGTCGCGTATTCTTGCAGATTGGTGTCGCTACTGCCGTTATTGCAGTACTGATGCTGCTGACcgc                    >  2:614835/1‑140 (MQ=255)
                                                                                                                 tggtTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCTTGCAGATTGGTGTCGCTACTGCCGTTATTGCAGTACTGATGCTGCTGACCGCGCCGa               <  2:179351/140‑1 (MQ=255)
                                                                                                                   gtTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCTTGCAGATTGGTGTCGCTACTGCCGTTATTGCAGTACTGATGCTGCTGACCGCGCCGaa              >  1:685794/1‑139 (MQ=255)
                                                                                                                   gtTATGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCTTGCAGATTGGTGTCGCTACTGCCGTTATTGCAGTACTGATGCTGCTGACCGCGCCGaa              <  2:685794/139‑1 (MQ=255)
                                                                                                                      aTGTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCTTGCAGATTGGTGTCGCTACTGCCGTTATTGCAGTACTGATGCTGCTGACCGCGCCGAGACTg          >  2:763379/1‑140 (MQ=255)
                                                                                                                        gTTGCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCTTGCAGATTGGTGTCGCTACTGCCGTTATTGCAGTACTGATGCTGCTGACCGCGCCGAAACTGCa        <  1:763379/140‑1 (MQ=255)
                                                                                                                           gCGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCTTGCAGATTGGTGTCGCTACTGCCGTTATTGCAGTACTGATGCTGCTGACCGCGCCGAAACTGCACCg     >  2:16726/1‑140 (MQ=255)
                                                                                                                            cGGGTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCTTGCAGATTGGTGTCGCTACTGCCGTTATTGCAGTACTGATGCTGCTGACCGCGCCGAAACTGCACCGc    >  1:667223/1‑140 (MQ=255)
                                                                                                                              ggTATGATGGCTGCGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCTTGCAGATTGGTGTCGCTACTGCCGTTATTGCAGTACTGATGCTGCTGACCGCGCCGAAACTGCACCGCAt  <  1:824998/140‑1 (MQ=255)
                                                                                                                                           |                                                                                                                              
CTGATGATCTCTGGTCTGGGTCTGGCAATGGTTGCTCAACTCGTTCCGCAGCGTCTGATGGGCTTCATTATGGGTAGCTGGTTCCTGACCACTGCCGGTGCAAACCTGATTGGTGGTTATGTTGCGGGTATGATGGCTGTGCCGGATAACGTTACCGATCCGCTGATGTCACTGGAAGTCTATGGTCGCGTATTCTTGCAGATTGGTGTCGCTACTGCCGTTATTGCAGTACTGATGCTGCTGACCGCGCCGAAACTGCACCGCAT  >  NC_000913/1713957‑1714222

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