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
A11 F28 I1 R1 134 60.5 2175152 94.0% 2044642 138.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,148,923 T→C S343P (TCT→CCT)  gpr → L‑glyceraldehyde 3‑phosphate reductase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,148,9230TC100.0% 142.6 / NA 42S343P (TCT→CCT) gprL‑glyceraldehyde 3‑phosphate reductase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (20/22);  total (20/22)

CGGTATTGATTGGTGCCAGCCGCGCGGAGCAACTAGAGGAGAACGTGCAGGCGCTGAATAATCTGACATTTAGCACCAAGGAGCTGGCGCAGATTGATCAGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGTCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGAGTCAGTCGGTCAAGATAGCCCATCACAAATGCAGAAAGCACAAACGTCAGATGGATAATGACGTACC  >  NC_000913/3148786‑3149059
                                                                                                                                         |                                                                                                                                        
cGGTATTGATTGGTGCCAGCCGCGCGGAGCAACTAGAGGAGAACGTGCAGGCGCTGAATAATCTGACATTTAGCACCAAGGAGCTGGCGCAGATTGATCAGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCt                                                                                                                                        >  2:725514/1‑140 (MQ=255)
            gTGCCAGCCGCGCGGAGCAACTAGAGGAGAACGTGCAGGCGCTGAATAATCTGACATTTAGCACCAAGGAGCTGGCGCAGATTGATCAGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAAt                                                                                                                              <  2:52760/138‑1 (MQ=255)
            gTGCCAGCCGCGCGGAGCAACTAGAGGAGAACGTGCAGGCGCTGAATAATCTGACATTTAGCACCAAGGAGCTGGCGCAGATTGATCAGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAAt                                                                                                                              >  1:52760/1‑138 (MQ=255)
            gTGCCAGCCGCGCGGAGCAACTAGAGGAGAACGTGCAGGCGCTGAATAATCTGACATTTAGCACCAAGGAGCTGGCGCAGATTGATCAGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGa                                                                                                                            <  2:650128/140‑1 (MQ=255)
             tGCCAGCCGCGCGGAGCAACTAGAGGAGAACGTGCAGGCGCTGAATAATCTGACATTTAGCACCAAGGAGCTGGCGCAGATTGATCAGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGAc                                                                                                                           >  2:878258/1‑140 (MQ=255)
             tGCCAGCCGCGCGGAGCAACTAGAGGAGAACGTGCAGGCGCTGAATAATCTGACATTTAGCACCAAGGAGCTGGCGCAGATTGATCAGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGAc                                                                                                                           <  2:109094/140‑1 (MQ=255)
              gCCAGCCGCGCGGAGCAACTAGAGGAGAACGTGCAGGCGCTGAATAATCTGACATTTAGCACCAAGGAGCTGGCGCAGATTGATCAGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGAcc                                                                                                                          <  2:842940/140‑1 (MQ=255)
              gCCAGCCGCGCGGAGCAACTAGAGGAGAACGTGCAGGCGCTGAATAATCTGACATTTAGCACCAAGGAGCTGGCGCAGATTGATCAGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGAcc                                                                                                                          <  2:333051/140‑1 (MQ=255)
                       gcgGAGCAACTAGAGGAGAACGTGCAGGCGCTGAATAATCTGACATTTAGCACCAAGGAGCTGGCGCAGATTGATCAGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTtaataa                                                                                                                 >  2:332399/1‑140 (MQ=255)
                        cgGAGCAACTAGAGGAGAACGTGCAGGCGCTGAATAATCTGACATTTAGCACCAAGGAGCTGGCGCAGATTGATCAGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAAc                                                                                                                >  2:3406/1‑140 (MQ=255)
                           aGCAACTAGAGGAGAACGTGCAGGCGCTGAATAATCTGACATTTAGCACCAAGGAGCTGGCGCAGATTGATCAGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAACggg                                                                                                             <  2:212866/140‑1 (MQ=255)
                                          aCGTGCAGGCGCTGAATAATCTGACATTTAGCACCAAGGAGCTGGCGCAGATTGATCAGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGcc                                                                                              >  1:1012314/1‑140 (MQ=255)
                                               cAGGCGCTGAATAATCTGACATTTAGCACCAAGGAGCTGGCGCAGATTGATCAGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAat                                                                                         <  1:58451/140‑1 (MQ=255)
                                                       gAATAATCTGACATTTAGCACCAAGGAGCTGGCGCAGATTGATCAGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAatcagatcag                                                                                 >  2:507317/1‑140 (MQ=255)
                                                                  cATTTAGCACCAAGGAGCTGGCGCAGATTGATCAGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACg                                                                      >  1:1044898/1‑140 (MQ=255)
                                                                      tAGCACCAAGGAGCTGGCGCAGATTGATCAGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGagtc                                                                  >  1:216826/1‑140 (MQ=255)
                                                                             aaGGAGCTGGCGCAGATTGATCAGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGAGTCAGTCGGt                                                           <  2:1044898/140‑1 (MQ=255)
                                                                                   cTGGCGCAGATTGATCAGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGagtcag                                                                >  1:259495/1‑129 (MQ=255)
                                                                                   cTGGCGCAGATTGATCAGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGagtcag                                                                <  2:259495/129‑1 (MQ=255)
                                                                                          aGATTGATCAGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGAGTCAGTCGGTCAAGATAGCCCAt                                              <  1:725514/140‑1 (MQ=255)
                                                                                          aGATTGATCAGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGAGTCAGTCGGTCAAGATAGCCCAt                                              <  1:906045/140‑1 (MQ=255)
                                                                                            aTTGATCAGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGAGTCAGTCGGTCAAGATAGCCCATca                                            <  2:945523/140‑1 (MQ=255)
                                                                                             ttGATCAGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGAGTCAGTCGGTCAAGATAGCCCATcac                                           <  2:216826/140‑1 (MQ=255)
                                                                                                aTCAGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGAGTCAGTCGGTCAAGATAGCCCAt                                              >  1:66135/1‑134 (MQ=255)
                                                                                                aTCAGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGAGTCAGTCGGTCAAGATAGCCCAt                                              <  2:66135/134‑1 (MQ=255)
                                                                                                   aGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGAGTCAGTCGGTGAAGATAGCCCATCACAAATGc                                     >  2:871695/1‑140 (MQ=255)
                                                                                                      atatCGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGAGTCAGTCGGTCAAGATAGCCCATCACAAATGCAGa                                  >  2:410565/1‑140 (MQ=255)
                                                                                                          cGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGAGTCAGTCGGTCAAGATAGCCCATCACAAAt                                       >  1:686574/1‑131 (MQ=255)
                                                                                                          cGCCGATGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGAGTCAGTCGGTCAAGATAGCCCATCACAAAt                                       <  2:686574/131‑1 (MQ=255)
                                                                                                               aTGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGAGTCAGTCGGTCAAGATAGCCCATCACAAATGCAGAAAGCACaaa                         >  1:471418/1‑140 (MQ=255)
                                                                                                               aTGGCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGAGTCAGTCGGTCAAGATAGCCCATCACAAATGCAGAAAGCACaaa                         >  2:118442/1‑140 (MQ=255)
                                                                                                                  gCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGAGTCAGTCGGTCAAGATAGCCCATCACAAATGCAGAAAGCACAAACGt                      <  2:372560/140‑1 (MQ=255)
                                                                                                                  gCGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGAGTCAGTCGGTCAAGATAGCCCATCACAAATGCAGAAAGCACAAACGt                      <  2:789395/140‑1 (MQ=255)
                                                                                                                   cGAGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGAGTCAGTCGGTCAAGATAGCCCATCACAAATGCAGAAAGCACAAACGTc                     >  1:558984/1‑140 (MQ=255)
                                                                                                                     aGCTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGAGTCAGTCGGTCAAGATAGCCCATCACAAATGCAGAAAGCACAAACGTCAg                   <  1:507317/140‑1 (MQ=255)
                                                                                                                       cTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGAGTCAGTCGGTCAAGATAGCCCATCACAAATGCAGAAAGCACAAACGTCAGAt                 <  1:432554/140‑1 (MQ=255)
                                                                                                                       cTGAATCTGTGGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGAGTCAGTCGGTCAAGATAGCCCATCACAAATGCAGAAAGCACAAACGTCAGAt                 >  1:348016/1‑140 (MQ=255)
                                                                                                                              tgtgGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGAGTCAGTCGGTCAAGATAGCCCATCACAAATGCAGAAAGCACAAACGTCAGATGGATAAt          <  1:508063/140‑1 (MQ=255)
                                                                                                                                tgGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGAGTCAGTCGGTCAAGATAGCCCATCACAAATGCAGAAAGCACAAACGTCAGATGGATAATGa        <  1:410565/140‑1 (MQ=255)
                                                                                                                                tgGCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGAGTCAGTCGGTCAAGATAGCCCATCACAAATGCAGAAAGCACAAACGTCAGATGGATAATGa        >  1:15235/1‑140 (MQ=255)
                                                                                                                                 ggCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGAGTCAGTCGGTCAAGATAGCCCATCACAAATGCAGAAAGCACAAACGTCAGATGGATa            >  2:90847/1‑135 (MQ=255)
                                                                                                                                 ggCAGGCGCCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGAGTCAGTCGGTCAAGATAGCCCATCACAAATGCAGAAAGCACAAACGTCAGATGGATa            <  1:90847/135‑1 (MQ=255)
                                                                                                                                      gcgcCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGAGTCAGTCGGTCAAGATAGCCCATCACAAATGCAGAAAGCACAAACGTCAGATGGATAATGACGTAcc  >  1:566970/1‑140 (MQ=255)
                                                                                                                                         |                                                                                                                                        
CGGTATTGATTGGTGCCAGCCGCGCGGAGCAACTAGAGGAGAACGTGCAGGCGCTGAATAATCTGACATTTAGCACCAAGGAGCTGGCGCAGATTGATCAGCATATCGCCGATGGCGAGCTGAATCTGTGGCAGGCGTCTTCCGATAAATGACCTGTTAATAACGGGCGCGCGAACCGCGCCCGAATCAGATCAGTGATTATGACGAGTCAGTCGGTCAAGATAGCCCATCACAAATGCAGAAAGCACAAACGTCAGATGGATAATGACGTACC  >  NC_000913/3148786‑3149059

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