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
A3 F1 I1 R1 57 49.8 2216334 94.8% 2101084 113.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 602,603 G→A L215L (CTG→CTA)  pheP → phenylalanine transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913602,6030GA100.0% 61.2 / NA 19L215L (CTG→CTA) phePphenylalanine transporter
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (7/12);  total (7/12)

GATCGGCTTTGGCCTGTGGCTGCTGTTTTCTGGTCACGGCGGCGAGAAAGCCAGTATCGACAACCTCTGGCGCTACGGTGGTTTCTTCGCCACCGGCTGGAATGGGCTGATTTTGTCGCTGGCGGTAATTATGTTCTCCTTCGGCGGTCTGGAGCTGATTGGGATTACTGCCGCTGAAGCGCGCGATCCGGAAAAAAGCATTCCAAAAGCGGTAAATCAGGTGGTGTATCGCA  >  NC_000913/602483‑602715
                                                                                                                        |                                                                                                                
gATCGGCTTTGGCCTGTGGCTGCTGTTTTCTGGTCACGGCGGCGAGAAAGCCAGTATCGACAACCTCTGGCGCTACGGTGGTTTCTTCGCCACCGGCTGGAATGGGCTGATTTTGTCGCTAGCGGTAATTATGTTCTcc                                                                                                <  1:8539/139‑1 (MQ=255)
  tCGGCTTTGGCCTGTGGCTGCTGTTTTCTGGTCACGGCGGCGAGAAAGCCAGTATCGACAACCTCTGGCGCTACGGTGGTTTCTTCGCCACCGGCTGGAATGGGCTGATTTTGTCGCTAGCGGTAATTATGTTCTCCtt                                                                                              <  1:339353/139‑1 (MQ=255)
    ggCTTTGGCCTGTGGCTGCTGTTTTCTGGTCACGGCGGCGAGAAAGCCAGTATCGACAACCTCTGGCGCTACGGTGGTTTCTTCGCCACCGGCTGGAATGGGCTGATTTTGTCGCTAGCGGTAATTATGTTCTCCTTcg                                                                                            >  2:414284/1‑139 (MQ=255)
     gCTTTGGTCTGTGGCTGCTGTTTTCTGGTCACGGCGGCGAGAAAGCCAGTATCGACAACCTCTGGCGCTACGGTGGTTTCTTCGCCGCCGGCTGGAATGGGCTGATTTTGTCGCTAGCGGTAATTATGTTCTCCTTcgg                                                                                           <  1:213557/139‑1 (MQ=255)
       tttGGCCTGTGGCTGCTGTTTTCTGGTCACGGCGGCGAGAAAGCCAGTATCGACAACCTCTGGCGCTACGGTGGTTTCTTCGCCACCGGCTGGAATGGGCTGATTTTGTCGCTAGCGGTAATTATGTTCTCCTTcggcg                                                                                         >  1:287859/1‑139 (MQ=255)
                tgGCTGCTGTTTTCTGGTCACGGCGGCGAGAAAGCCAGTATCGACAACCTCTGGCGCTACGGTGGTTTCTTCGCCACCGGCTGGAATGGGCTGATTTTGTCGCTAGCGGTAATTATGTTCTCCTTCGGCGGTCTGGAGc                                                                                >  1:40646/1‑139 (MQ=255)
                tgGCTGCTGTTTTCTGGTCACGGCGGCGAGAAAGCCAGTATCGACAACCTCTGGCGCTACGGTGGTTTCTTCGCCACCGGCTGGAATGGGCTGATTTTGTCGCTAGCGGTAATTATGTTCTCCTTCGGCGGTCTGGAGc                                                                                >  2:1049730/1‑139 (MQ=255)
                    tgctgTTTTCTGGTCACGGCGGCGAGAAAGCCAGTATCGACAACCTCTGGCGCTACGGTGGTTTCTTCGCCACCGGCTGGAATGGGCTGATTTTGTCGCTAGCGGTAATTATGTTCTCCTTCGGCGGTCTGGAGCTGAt                                                                            <  2:680360/139‑1 (MQ=255)
                         ttttCTGGTCACGGCGGCGAGAAAGCCAGTATCGACAACCTCTGGCGCTACGGTGGTTTCTTCGCCACCGGCTGGAATGGGCTGATTTTGTCGCTAGCGGTAATTATGTTCTCCTTCGGCGGTCTGGAGCTGATTGGGa                                                                       <  2:40646/139‑1 (MQ=255)
                          tttCTGGTCACGGCGGCGAGAAAGCCAGTATCGACAACCTCTGGCGCTACGGTGGTTTCTTCGCCACCGGCTGGAATGGGCTGATTTTGTCGCTAGCgg                                                                                                              <  1:1107513/99‑1 (MQ=255)
                          tttCTGGTCACGGCGGCGAGAAAGCCAGTATCGACAACCTCTGGCGCTACGGTGGTTTCTTCGCCACCGGCTGGAATGGGCTGATTTTGTCGCTAGCgg                                                                                                              >  2:1107513/1‑99 (MQ=255)
                                   aCGGCGGCGAGAAAGCCAGTATCGACAACCTCTGGCGCTACGGTGGTTTCTTCGCCACCGGCTGGAATGGGCTGATTTTGTCGCTAGCGGTAATTATGTTCTCCTTCGGCGGTCTGGAGCTGATTGGGATTACTGCCGc                                                             >  1:86597/1‑139 (MQ=255)
                                            agaAAGCCAGTATCGACAACCTCTGGCGCTACGGTGGTTTCTTCGCCACCGGCTGGAATGGGCTGATTTTGTCGCTAGCGGTAATTATGTTCTCCTTCGGCGGTCTGGAGCTGATTGGGATTACTGCCGCTGAAgcgcg                                                    <  1:602486/139‑1 (MQ=255)
                                            agaAAGCCAGTATCGACAACCTCTGGCGCTACGGTGGTTTCTTCGCCACCGGCTGGAATGGGCTGATTTTGTCGCTAGCGGTAATTATGTTCTCCTTCGGCGGTCTGGAGCTGATTGGGATTACTGCCGCTGAAgcgcg                                                    <  2:256674/139‑1 (MQ=255)
                                                           aCAACCTCTGGCGCTACGGTGGTTTCTTCGCCACCGGCTGGAATGGGCTGATTTTGTCGCTAGCGGTAATTATGTTCTCCTTCGGCGGTCTGGAGCTGATTGGGATTACTGCCGCTGAAGCGCGCGATCCGGAAAAAAg                                     >  2:887714/1‑139 (MQ=255)
                                                                               ggtTTCTTCGCCACCGGCTGGAATGGGCTGATTTTGTCGCTAGCGGTAATTATGTTCTCCTTCGGCGGTCTGGAGCTGATTGGGATTACTGCCGCTGAAGCGCGCGATCCGGAAAAAAGCATTCCAAAAGCGGTAAATc                 <  2:287859/139‑1 (MQ=255)
                                                                                 tttCTTCGCCACCGGCTGGAATGGGCTGATTTTGTCGCTAGCGGTAATTATGTTCTCCTTCGGCGGTCTGGAGCTGATTGGGATTACTGCCGCTGAAGCGCGCGATCCGGAAAAAAGCATTCCAAAAGCGGTAAATCAg               <  1:916790/139‑1 (MQ=255)
                                                                                  ttcttcGCCACCGGCTGGAATGGGCTGATTTTGTCGCTAGCGGTAATTATGTTCTCCTTCGGCGGTCTGGAGCTGATTGGGATTACTGCCGCTGAAGCGCGCGATCCGGAAAAAAGCATTCCAAAAGCGGTAAATCAgg              <  1:414284/139‑1 (MQ=255)
                                                                                              ggCTGGAATGGGCTGATTTTGTCGCTAGCGGTAATTATGTTCTCCTTCGGCGGTCTGGAGCTGATTGGGATTACTGCCGCTGAAGCGCGCGATCCGGAAAAAAGCATTCCAAAAGCGGTAAATCAGGTGGTGTATCGCa  <  1:892649/139‑1 (MQ=255)
                                                                                                                        |                                                                                                                
GATCGGCTTTGGCCTGTGGCTGCTGTTTTCTGGTCACGGCGGCGAGAAAGCCAGTATCGACAACCTCTGGCGCTACGGTGGTTTCTTCGCCACCGGCTGGAATGGGCTGATTTTGTCGCTGGCGGTAATTATGTTCTCCTTCGGCGGTCTGGAGCTGATTGGGATTACTGCCGCTGAAGCGCGCGATCCGGAAAAAAGCATTCCAAAAGCGGTAAATCAGGTGGTGTATCGCA  >  NC_000913/602483‑602715

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A