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
A10 F1 I2 R1 67 36.0 1614110 95.1% 1535018 114.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,304,827 C→T A331T (GCC→ACC)  mtr ← tryptophan transporter of high affinity

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,304,8270CT100.0% 72.5 / NA 22A331T (GCC→ACC) mtrtryptophan transporter of high affinity
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (13/9);  total (13/9)

ATTGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGCCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAGCCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAACCCAGCGTTACGCCGAGGAACGAACTCGCTACCGCAAAGTTTGAGAACACGACC  >  NC_000913/3304736‑3304960
                                                                                           |                                                                                                                                     
aTTGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGCCCCCCCACAACTGGCGGGGTAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAGCCGAGTCGTCGa                                                                                        <  1:427912/139‑1 (MQ=255)
 ttGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGCCCCCCCACAACTGGCGGGGTAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAGCCGAGTCGTCGaa                                                                                       <  1:413694/139‑1 (MQ=255)
  tGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGCCCCCCCACAACTGGCGGGGTAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAGCCGAGTCGTCGaaa                                                                                      <  1:403038/139‑1 (MQ=255)
      gccCAGATGGTAGCCGCTAAACAAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGCCCCCCCACAACTGGCGGGGTAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAGCCGACTCGTCGAAACCaa                                                                                  >  2:163228/1‑139 (MQ=255)
                      cTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGCCCCCCCACAACTGGCGGGGTAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAGCCGAGTCGTCGAAACCAAACAGATCTGCCAGATa                                                                  >  1:55025/1‑139 (MQ=255)
                             aGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGCCCCCCCACAACTGGCGGGGTAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAGCCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTcaaac                                                           <  2:190703/139‑1 (MQ=255)
                               cATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGCCCCCCCACAACTGGCGGGGTAAAGGTGAGCAATGCCGTTTTCAAGCGGCCCACAGCCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTcaaacaa                                                         >  1:503667/1‑139 (MQ=255)
                                  aaCCAATGGCGTACAGGAATCCGTTCGGGAACAACAGCCCCCCCACAACTGGCGGGGTAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAGCCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAAcc                                                      <  2:55025/139‑1 (MQ=255)
                                        tGGCGTACAGGAATCCGTTCGGGAACAACAGCCCCCCCACAACTGGCGGGGTAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAGCCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAACCCAGCGt                                                >  2:23881/1‑139 (MQ=255)
                                         ggCGTACAGGAATCCGTTCGGGAATAACAGCCCCCCCACAACTGGCGGGGTAAAGGTCAGCAATg                                                                                                                         >  2:546008/1‑65 (MQ=255)
                                         ggCGTACAGGAATCCGTTCGGGAACAACAGCCCCCCCACAACTGGCGGGGTAAAGGTCAGCAATg                                                                                                                         <  1:546008/65‑1 (MQ=255)
                                            gTACAGGAATCCGTTCGGGAACAACAGCCCCCCCACAACTGGCGGGGTAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAGCCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAACCCAGCGTTACg                                            >  2:230139/1‑139 (MQ=255)
                                            gTACAGGAATCCGTTCGGGAACAACAGCCCCCCCACAACTGGCGGGGTAAAGGTCAGCAATGCCGCTTTCAAGCGGCCCACAGCCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAACCCAGCGTTACg                                            >  2:785347/1‑139 (MQ=255)
                                             tACAGGAATCCGTTCGGGAACAACAGCCCCCCCACAACTGGCGGGGTAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAGCCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAACCCAGCGTTACGc                                           >  1:778696/1‑139 (MQ=255)
                                                     tCCGTTCGGGAACAACAGCCCCCCCACAACTGGCGGGGTAAAGGTCAGCAATGCCGTTTTCAAGCGGCCca                                                                                                       >  1:777050/1‑71 (MQ=255)
                                                     tCCGTTCGGGAACAACAGCCCCCCCACAACTGGCGGGGTAAAGGTCAGCAATGCCGTTTTCAAGCGGCCca                                                                                                       <  2:777050/71‑1 (MQ=255)
                                                     tCCGTTCGGGAACAACAGCCCCCCCACAACTGGCGGGGTAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAGCCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAACCCAGCGTTACGCCGAGgaac                                   >  1:765549/1‑139 (MQ=255)
                                                         ttCGGGAACAACAGCCCCCCCACAACTGGCGGGGTAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAGCCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAACCCAGCGTTACGCCGAGgaacgaaa                               >  1:68173/1‑138 (MQ=255)
                                                                 caacaGCCCCCCCACAACTGGCGGGGTAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAGCCGAGTCGTAGAAACCAAACAGATCTGCCAGATAGTCAAACAAACCCAGCGTTACGCCGAGGAACGAACTCGCTAcc                       >  2:657946/1‑139 (MQ=255)
                                                                       cccccccACAACTGGCGGGGTAAAGGTCAGCAATGCCGTTTTCAAGCGGcc                                                                                                         <  2:213099/51‑1 (MQ=255)
                                                                       cccccccACAACTGGCGGGGTAAAGGTCAGCAATGCCGTTTTCAAGCGGcc                                                                                                         >  1:213099/1‑51 (MQ=255)
                                                                                      cGGGGTAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAGCCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAACCCAGCGTTACGCCGAGGAACGAACTCGCTACCGCAAAGTTTGAGAACACGAcc  <  1:23881/139‑1 (MQ=255)
                                                                                           |                                                                                                                                     
ATTGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGCCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAGCCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAACCCAGCGTTACGCCGAGGAACGAACTCGCTACCGCAAAGTTTGAGAACACGACC  >  NC_000913/3304736‑3304960

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A