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
A6 F1 I2 R1 67 27.9 1239648 95.3% 1181384 112.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,706,066 T→C E353E (GAA→GAG)  lepA ← back‑translocating elongation factor EF4, GTPase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,706,0660TC100.0% 77.2 / NA 21E353E (GAA→GAG) lepAback‑translocating elongation factor EF4, GTPase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (11/10);  total (11/10)

GGCAGCTTGGATGGGCTGTCGACGTAGATAACTTCTCTTGACGTGGTTTCAACTTCATACACTACGGTCGGCGCAGTGGTGATCAGATCCAGATCGTATTCACGTTCCAGACGTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCGGCTCATAGAACAGTGAGGCATCGTTCAGGCTGAGTTTACCCAGCGCGTCACGGA  >  NC_000913/2705953‑2706196
                                                                                                                 |                                                                                                                                  
ggcagCTTGGATGGGCTGTCGACGTAGATAACTTCTCTTGACGTGGTTTCAACTTCATACACTACGGTCGGCGCAGTGGTGATCAGATCCAGATCGTATTCACGTTCCAGACGCTCCTGGATGATCTCCATGTgcagca                                                                                                           >  1:352279/1‑139 (MQ=255)
         gATGGGCTGTCGACGTAGATAACTTCTCTTGACGTGGTTTCAACTTCATACACTACGGTCGGCGCAGTGGTGATCAGATCCAGATCGTATTCACGTTCCAGACGCTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGa                                                                                                  <  1:246049/139‑1 (MQ=255)
                     aCGTAGATAACTTCTCTTGACGTGGTTTCAACTTCATACACTACGGTCGGCGCAGTGGTGATCAGATCCAGATCGTATTCACGTTCCAGACGCTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGa                                                                                      <  2:352279/139‑1 (MQ=255)
                                                 cAACTTCATACACTACGGTCGGCGCAGTGGTGATCAGATCCAGATCGTATTCACGTTCCAGACGCTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTc                                                          <  2:566993/139‑1 (MQ=255)
                                                     ttCATACACTACGGTCGGCGCAGTGGTGATCAGATCCAGATCGTATTCACGTTCCAGACGCTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCGGc                                                      <  1:371954/139‑1 (MQ=255)
                                                              tACGGTCGGCGCAGTGGTGATCAGATCCAGATCGTATTCACGTTCCAGACGCTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCg                                                        >  2:571254/1‑128 (MQ=255)
                                                              tACGGTCGGCGCAGTGGTGATCAGATCCAGATCGTATTCACGTTCCAGACGCTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCg                                                        <  1:571254/128‑1 (MQ=255)
                                                                cGGTCGGCGCAGTGGTGATCAGATCCAGATCGTATTCACGTTCCAGACGCTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCg                                                        <  2:530212/126‑1 (MQ=255)
                                                                cGGTCGGCGCAGTGGTGATCAGATCCAGATCGTATTCACGTTCCAGACGCTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCg                                                        >  1:530212/1‑126 (MQ=255)
                                                                cGGTCGGCGCAGTGGTGATCAGATCCAGATCGTATTCACGTTCCAGACGCTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCGGCTCATAGAACAg                                           >  1:103078/1‑139 (MQ=255)
                                                                 ggTCGGCGCAGTGGTGATCAGATCCAGATCGTATTCACGTTCCAGACGCTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCGGCTCATAGAACAGt                                          >  2:110786/1‑139 (MQ=255)
                                                                   tCGGCGCAGTGGTGATCAGATCCAGATCGTATTCACGTTCCAGACGCTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCGGCTCATAGAACAGTGa                                        >  2:116816/1‑139 (MQ=255)
                                                                      gcgcAGTGGTGATCAGATCCAGATCGTATTCACGTTCCAGACGCTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCGGCTCATAGAACAGTGAGGc                                     >  2:134700/1‑139 (MQ=255)
                                                                                 aTCAGATCCAGATCGTATTCACGTTCCAGACGCTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCGGCTCATAGAACAGTGAGGCATCGTTCAGGc                          <  1:110786/139‑1 (MQ=255)
                                                                                                tATTCACGTTCCAGACGCTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGTAGCCGCAGCGGAAACCAAAGCACAGCGCGCTGGAGCTTTCCGGCTCATAGAACAGTGAGGCATCGTTCAGGCTGAGTTTACCCAgcg           >  2:377414/1‑139 (MQ=255)
                                                                                                tATTCACGTTCCAGACGCTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCGGCTCATAGAACAGTGAGGCATCGTTCAGGCTGAGTTTACCCAgcg           >  1:462442/1‑139 (MQ=255)
                                                                                                tATTCACGTTCCAGACGCTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCGGCTCATAGAACAGTGAGGCATCGTTCAGGCTGAGTTTACCCAgcg           >  2:443327/1‑139 (MQ=255)
                                                                                                       gTTCCAGACGCTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCGGCTCATAGAACAGTGAGGCATCGTTCAGGCTGAGTTTACCCAGCGCGTCACg    <  1:134700/139‑1 (MQ=255)
                                                                                                         tCCAGACGCTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCGGCTCATAGAACAGTGAGGCATCGTTCAGGCTGAGTTTACCCAGCGCGTCACGGa  <  2:462442/139‑1 (MQ=255)
                                                                                                          ccAGACGCTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCGGCTCATAGAACAGTGAGGCATCGTTCAGGCTGAGTTTACCCAGcgcg         <  2:135795/131‑1 (MQ=255)
                                                                                                          ccAGACGCTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCGGCTCATAGAACAGTGAGGCATCGTTCAGGCTGAGTTTACCCAGcgcg         >  1:135795/1‑131 (MQ=255)
                                                                                                                 |                                                                                                                                  
GGCAGCTTGGATGGGCTGTCGACGTAGATAACTTCTCTTGACGTGGTTTCAACTTCATACACTACGGTCGGCGCAGTGGTGATCAGATCCAGATCGTATTCACGTTCCAGACGTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCGGCTCATAGAACAGTGAGGCATCGTTCAGGCTGAGTTTACCCAGCGCGTCACGGA  >  NC_000913/2705953‑2706196

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A