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
A2 F1 I1 R1 748 32.0 1685426 92.6% 1560704 103.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,860,416 G→A *219* (TAG→TAA)  pphB → serine/threonine‑specific protein phosphatase 2

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,860,4160GA100.0% 57.7 / NA 19*219* (TAG→TAA) pphBserine/threonine‑specific protein phosphatase 2
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (10/9);  total (10/9)

GGCGCTGATTATTTTATATTTGGACATATGATGTTTGATAACATTCAGACGTTCGCTAACCAGATTTATATTGATACCGGATCGCCGAACAGCGGGCGGCTGTCATTTTATAAAATAAAGTAGTCTCATGCTTCTTCTGTGAAGCATGAGTAACCCGGTGTTATTGCAGGCCATTATTCATTTTTCGCTACCAGCAAAGAGAGATCCTGCTTCACCAGCGCGCGACTGGCACTCTCCGGCAAACCGTCGTCT  >  NC_000913/2860294‑2860545
                                                                                                                          |                                                                                                                                 
ggCGCTGATTATTTTATATTTGGACATATGATGTTTGATAACATTCAGACGTTCGCTAACCAGATTTATATTGATACCGGATCGCCGAACAGCGGGCGGCTGTCATTTTATAAAATAAAGTAATCTCATGC‑TCTTCtgt                                                                                                                  <  2:491359/139‑1 (MQ=255)
       attattTTATATTTGGACATATGATGTTTGATAACATTCAGACGTTCGCTAACCAGATTTATATTGATACCGGATCGCCGAACAGCGGGCGGCTGTCATTTTATAAAATAAAGTAATCTCATGC‑TCTTCTGTGAAGCAt                                                                                                           <  2:650360/139‑1 (MQ=255)
                             gatgTTTGATAACATTCAGACGTTCGCTAACCAGATTTATATTGATACCGGATCGCCGAACAGCGGGCGGCTGTCATTTTATAAAATAAAGTAATCTCATGC‑TCTTCTGTGAAGCATGAGTAAcc                                                                                                   >  1:714700/1‑125 (MQ=255)
                             gatgTTTGATAACATTCAGACGTTCGCTAACCAGATTTATATTGATACCGGATCGCCGAACAGCGGGCGGCTGTCATTTTATAAAATAAAGTAATCTCATGC‑TCTTCTGTGAAGCATGAGTAAcc                                                                                                   <  2:714700/125‑1 (MQ=255)
                                       aaCATTCAGACGTTCGCTAACCAGATTTATATTGATACCGGATCGCCGAACAGCGGGCGGCTGTCATTTTATAAAATAAAGTAATCTCATg                                                                                                                            <  1:693243/91‑1 (MQ=255)
                                       aaCATTCAGACGTTCGCTAACCAGATTTATATTGATACCGGATCGCCGAACAGCGGGCGGCTGTCATTTTATAAAATAAAGTAATCTCATg                                                                                                                            >  2:693243/1‑91 (MQ=255)
                                                aCGTTCGCTAACCAGATTTATATTGATACCGGATCGCCGAACAGCGGGCGGCTGTCCTTTTATAAAATAAAGTAATCTCATGC‑TCTTCTGTGAAGCATGAGTAAcc                                                                                                   >  2:558042/1‑106 (MQ=255)
                                                aCGTTCGCTAACCAGATTTATATTGATACCGGATCGCCGAACAGCGGGCGGCTGTCATTTTATAAAATAAAGTAATCTCATGC‑TCTTCTGTGAAGCATGAGTAAcc                                                                                                   <  1:558042/106‑1 (MQ=255)
                                                    tCGCTAACCAGATTTATATTGATACCGGATCGCCGAACAGCGGGCGGCTGTCATTTTATAAAATAAAGTAATCTCATGct                                                                                                                          <  2:280285/80‑1 (MQ=255)
                                                    tCGCTAACCAGATTTATATTGATACCGGATCGCCGAACAGCGGGCGGCTGTCATTTTATAAAATAAAGTAATCTCATGct                                                                                                                          >  1:280285/1‑80 (MQ=255)
                                                                         aTACCGGATCGCCGAACAGCGGGCGGCTGTCATTTTATAAAATAAAGTAATCTCATGC‑TCTTCTGTGAAGCATGAGTAACCCGGTGTTATTGCAGGCCATTATTCATTTTTCGCTACCAGCAAAGAGAGATCCTGCTTc                                         >  1:75503/1‑139 (MQ=255)
                                                                         aTACCGGATCGCCGAACAGCGGGCGGCTGTCATTTTATAAAATAAAGTAATCTCATGC‑TCTTCTGTGAAGCATGAGTAACCCGGTGTTATTGCAGGCCATTATTCATTTTTCGCTACCAGCAAAGAGAGATCCTGCTTc                                         >  1:349500/1‑139 (MQ=255)
                                                                                           gcgggcggCTGTCAGTTTATAAAATAAAGTAATCTCATGC‑TCTTCTGTGAAGCATGAGTAACTCGCTGTTATTGCAGGCCATTATTCGTTTTTCGCTACCAGCAAAGAGAGATCCTGCTTCACCAGCGCGCGACTGGCa                       <  1:514434/139‑1 (MQ=255)
                                                                                              ggcggcTGTCATTTTATAAAATAAAGTAATCTCATGC‑TCTTCtgt                                                                                                                  >  2:510343/1‑45 (MQ=255)
                                                                                              ggcggcTGTCATTTTATAAAATAAAGTAATCTCATGC‑TCTTCTGTGAAGCAt                                                                                                           >  1:378348/1‑52 (MQ=255)
                                                                                              ggcggcTGTCATTTTATAAAATAAAGTAATCTCATGC‑TCTTCTGTGAAGCAt                                                                                                           <  2:378348/52‑1 (MQ=255)
                                                                                              ggcggcTGTCATTTTATAAAATAAAGTAATCTCATGC‑TCTTCTGTGAAGCATGAGTAACCCGGTGTTATTGCAGGCCATTATTCATTTTTCGCTACCAGCAAAGAGAGATCCTGCTTCACCAGCGCGCGACTGGCActc                    >  1:262927/1‑139 (MQ=255)
                                                                                              ggcggcTGTCATTTTATAAAATAAAGTAATATCATGC‑TCTTCtgt                                                                                                                  <  1:510343/45‑1 (MQ=255)
                                                                                                                aaataaaGTAATCTCATGC‑TCTTCTGTGAAGCATGAGTAACCCGGTGTTATTGCAGGCCATTATTCATTTTTCGCTACCAGCAAAGAGAGATCCTGCTTCACCAGCGCGCGACTGGCACTCTCCGGCAAACCGTCGTCt  >  1:146781/1‑139 (MQ=255)
                                                                                                                          |                                                                                                                                 
GGCGCTGATTATTTTATATTTGGACATATGATGTTTGATAACATTCAGACGTTCGCTAACCAGATTTATATTGATACCGGATCGCCGAACAGCGGGCGGCTGTCATTTTATAAAATAAAGTAGTCTCATGCTTCTTCTGTGAAGCATGAGTAACCCGGTGTTATTGCAGGCCATTATTCATTTTTCGCTACCAGCAAAGAGAGATCCTGCTTCACCAGCGCGCGACTGGCACTCTCCGGCAAACCGTCGTCT  >  NC_000913/2860294‑2860545

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A