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 81 28.9 1316934 95.8% 1261622 113.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 663,640 A→G G108G (GGT→GGC)  dacA ← D‑alanyl‑D‑alanine carboxypeptidase (penicillin‑binding protein 5)

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913663,6400AG100.0% 56.9 / NA 17G108G (GGT→GGC) dacAD‑alanyl‑D‑alanine carboxypeptidase (penicillin‑binding protein 5)
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (7/10);  total (7/10)

CAGCGGCAAAATCGGCCATGGCGACACAAGCATCGTTACCCGATTGCAGGTTAATACCGCGGATCAGCTGAGAAACCGGAACCTGCATGCCCGGTTTGAGGAACATCAGCGAAGAACCTTTAAACACCGGGTTACCGGTGGCCCATGCGTCGTTGCCGATAGTGACTAAATCAGTTTCTTTAAATTTACCGGCTTTCATTGCCTGGCCGATAACGTAACTGGTCATCATTTTGGTCAGGCTGGCAGGATCGCGGCGGACATCT  >  NC_000913/663507‑663769
                                                                                                                                     |                                                                                                                                 
cAGCGGCAAAATCGGCCATGGCGACACAAGCATCGTTACCCGATTGCAGGTTAATACCGCGGATCAGCTGAGAAACCGGAACCTGCATGCCCGGTTTGAGGAACATCAGCGAAGAACCTTTAAACACCGGGTTGCCGGt                                                                                                                              <  2:506486/139‑1 (MQ=255)
     gCAAAATCGGCCATGGCGACACAAGCATCGTTACCCGATTGCAGGTTAATACCGCGGATCAGCTGAGAAACCGGAACCTGCATGCCCGGTTTGAGGAACATCAGCGAAGAACCTTTAAACACCGGGTTGCCGGTGGccc                                                                                                                         >  2:164583/1‑139 (MQ=255)
            cGGCCATGGCGACACAAGCATCGTTACCCGATTGCAGGTTAATACCGCGGATCAGCTGAGAAACCGGAACCTGCATGCCCGGTTTGAGGAACATCAGCGAAGAACCTTTAAACACCGGGTTGCCGGTGGCCCATGcgtc                                                                                                                  <  2:541812/139‑1 (MQ=255)
                        cacaAGCATCGTTACCCGATTGCAGGTTAATACCGCGGATCAGCTGAGAAACCGGAACCTGCATGCCCGGTTTGAGGAACATCAGCGAAGAACCTTTAAACACCGGGTTGCCGGTGGCCCATGCGTCGTTGCCGATAGt                                                                                                      <  1:120805/139‑1 (MQ=255)
                                  gTTACCCGATTGCAGGTTAATACCGCGGATCAGCTGAGAAACCGGAACCTGCATGCCCGGTTTGAGGAACATCAGCGAAGAACCTTTAAACACCGGGTTGCCGGTGGCCCATGCGTCGTTGCCGATAGTGACTAAATCa                                                                                            >  2:12680/1‑139 (MQ=255)
                                           ttGCAGGTTAATACCGCGGATCAGCTGAGAAACCGGAACCTGCATGCCCGGTTTGAGGAACATCAGCGAAGAACCTTTAAACACCGGGTTGCCGGTGGCCCATGcgtc                                                                                                                  >  2:109213/1‑108 (MQ=255)
                                           ttGCAGGTTAATACCGCGGATCAGCTGAGAAACCGGAACCTGCATGCCCGGTTTGAGGAACATCAGCGAAGAACCTTTAAACACCGGGTTGCCGGTGGCCCATGcgtc                                                                                                                  <  1:109213/108‑1 (MQ=255)
                                                     aTACCGCGGATCAGCTGAGAAACCGGAACCTGCATGCCCGGTTTGAGGAACATCAGCGAAGAACCTTTAAACACCGGGTTGCCGGTGGCCCATGCGTCGTTGCCGATAGTGACTAAATCAGTTTCTTTAAATTTACCgg                                                                         >  2:318382/1‑139 (MQ=255)
                                                           cgGATCAGCTGAGAAACCGGAACCTGCATGCCCGGTTTGAGGAACATCAGCGAAGAACCTTTAAACACCGGGTTGCCGGTGGCCCATGCGTCGTTGCCGATAGTGACTAAATCAGTTTCTTTAAATTTACCGGCTTTCa                                                                   >  1:66990/1‑139 (MQ=255)
                                                                cAGCTGAGAAACCGGAACCTGCATGCCCGGTTTGAGGAACATCAGCGAAGAACCTTTAAACACCGGGTTGCCGGTGGCCCATGCGTCGTTGCCGATAGTGACTAAATCAGTTTCTTTAAATCTACCGGCTTTCATTGcc                                                              <  1:376360/139‑1 (MQ=255)
                                                                        aaaCCGGAACCTGCATGCCCGGTTTGAGGAACATCAGCGAAGAACCTTTAAACACCGGGTTGCCGGTGGCCCATGCGTCGTTGCCGATAGTGACTAAATCAGTTTCTTTAAATTTACCGGCTTTCATTGCCTGGCCGAt                                                      >  2:586207/1‑139 (MQ=255)
                                                                                  cTGCATGCCCGGTTTGAGGAACATCAGCGAAGAACCTTTAAACACCGGGTTGCCGGTGGCCCATGCGTCGTTGCCGATAGTGACTAAATCAGTTTCTTTAAATTTACCGGCTTTCATTGCCTGGCCGATAACGTAACTg                                            >  2:418112/1‑139 (MQ=255)
                                                                                         cccGGTTTGAGGAACATCAGCGAAGAACCTTTAAACACCGGGTTGCCGGTGGCCCATGCGTCGTTGCCGATAGTGACTAAATCAGTTTCTTTAAATTTACCGGCTTTCATTGCCTGGCCGATAACGTAACTGGtcatca                                     <  1:164583/139‑1 (MQ=255)
                                                                                           cGGTTTGAGGAACATCAGCGAAGAACCTTTAAACACCGGGTTGCCGGTGGCCCATGCGTCGTTGCCGATAGTGACTAAATCAGTTTCTTTAAATTTACCGGCTTTCATTGCCTGGCCGATAACGTAACTGGTCATCAtt                                   <  1:586207/139‑1 (MQ=255)
                                                                                                 gAGGAACATCAGCGAAGAACCTTTAAACACCGGGTTGCCGGTGGCCCATGCGTCGTTGCCGATAGTGACTAAATCAGTTTCTTTAAATTTACCGGCTTTCATTGCCTGGCCGATAACGTAACTGGTCATCATTTTGGTc                             <  2:66990/139‑1 (MQ=255)
                                                                                                                agaaCCTTTAAACACCGGGTTGCCGGTGGCCCATGCGTCGTTGCCGATAGTGACTAAATCAGTTTCTTTAAATTTACCGGCTTTCATTGCCTGGCCGATAACGTAACTGGTCATCATTTTGGTCAGGCTGGCAGGATcg              <  1:418112/139‑1 (MQ=255)
                                                                                                                            cacCGGGTTGCCGGTGGCCCATGCGTCGTTGCCGATAGTGACTAAATCAGTTTCTTTAAATTTACCGGCTTTCATTGCCTGGCCGATAACGTAACTGGTCATCATTTTGGTCAGGCTGGCAGGATCGCGGCGGACATCt  <  2:647808/139‑1 (MQ=255)
                                                                                                                                     |                                                                                                                                 
CAGCGGCAAAATCGGCCATGGCGACACAAGCATCGTTACCCGATTGCAGGTTAATACCGCGGATCAGCTGAGAAACCGGAACCTGCATGCCCGGTTTGAGGAACATCAGCGAAGAACCTTTAAACACCGGGTTACCGGTGGCCCATGCGTCGTTGCCGATAGTGACTAAATCAGTTTCTTTAAATTTACCGGCTTTCATTGCCTGGCCGATAACGTAACTGGTCATCATTTTGGTCAGGCTGGCAGGATCGCGGCGGACATCT  >  NC_000913/663507‑663769

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