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
A19 F30 I1 R1 21 20.2 686622 99.1% 680442 139.3

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,465,445 C→A E246* (GAA→TAA)  treB ← trehalose‑specific PTS enzyme IIBC component

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,465,4450CA100.0% 33.2 / NA 11E246* (GAA→TAA) treBtrehalose‑specific PTS enzyme IIBC component
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base A (8/3);  total (8/3)

CCGCGAGGATCAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGCCTACTTTGGCGATGCTGAACATGCCAAAGTCCCACACTTCCGGCAGCTGCTGCCCGAGCAGATAAGCGTTCATCAGCT  >  NC_000913/4465370‑4465579
                                                                           |                                                                                                                                      
ccGCGAGGATCAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTAAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGCCTACTTTg                                                                        >  1:134496/1‑140 (MQ=255)
           aGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTAAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGCCTACTTTGGCGATGCTGaa                                                             >  2:102491/1‑140 (MQ=255)
                                   aGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTAAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGCCTACTTTGGCGATGCTGAACATGCCAAAGTCCCACACTTCCgg                                     >  1:57333/1‑140 (MQ=255)
                                      tAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTAAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGCCTACTTTGGCGATGCTGAACATGCCAAAGTCCCACACTTCCGGCAg                                  >  2:194175/1‑140 (MQ=255)
                                       agagGTAATCCGGCACGATGCGTTTAAGGCGAGTTTAAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGCCTACTTTGGCGATGCTGAACATGCCAAAGTCCCACACTTCCGGCAgc                                 >  1:244639/1‑140 (MQ=255)
                                           gTAATCCGGCACGATGCGTTTAAGGCGAGTTTAAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGCCTACTTTGGCGATGCTGAACATGCCAAAGTCCCACACTTCCGGCAgctgct                             >  1:298395/1‑140 (MQ=255)
                                                    cACGATGCGTTTAAGGCGAGTTTAAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGCCTACTTTGGCGATGCTGAACATGCCAAAGTCCCACACTTCCGGCAGCTGCTGCCCGAGCa                    >  2:246008/1‑140 (MQ=255)
                                                          gCGTTTAAGGCGAGTTTAAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGCCTACTTTGGCGATGCTGAACATGCCAAAGTCCCACACTTCCGGCAGCTGCTGCCCGAGCAGATAAg              <  1:311549/140‑1 (MQ=255)
                                                                 aGGCGAGTTTAAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGCCTACTTTGGCGATGCTGAACATGCCAAAGTCCCACACTTCCGGCAGCTGCTGCCCGAGCAGATAAGCGTtcat       <  2:134496/140‑1 (MQ=255)
                                                                      aGTTTAAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGCCTACTTTGGCGATGCTGAACATGCCAAAGTCCCACACTTCCGGCAGCTGCTGCCCGAGCAGATAAGCGTTCATCAGCt  >  1:289170/1‑140 (MQ=255)
                                                                      aGTTTAAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGCCTACTTTGGCGATGCTGAACATGCCAAAGTCCCACACTTCCGGCAGCTGCTGCCCGAGCAGATAAGCGTTCATCAGCt  <  2:27699/140‑1 (MQ=255)
                                                                           |                                                                                                                                      
CCGCGAGGATCAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGCCTACTTTGGCGATGCTGAACATGCCAAAGTCCCACACTTCCGGCAGCTGCTGCCCGAGCAGATAAGCGTTCATCAGCT  >  NC_000913/4465370‑4465579

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