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 F50 I2 R1 193 39.9 1341687 91.8% 1231668 149.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,524,787 T→C A639A (GCT→GCC)  mrcA → penicillin‑binding protein 1a, murein transglycosylase and transpeptidase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,524,7870TC100.0% 107.0 / NA 30A639A (GCT→GCC) mrcApenicillin‑binding protein 1a, murein transglycosylase and transpeptidase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (16/14);  total (16/14)

ATCAGCAAAATTGAAAACGATCAGGGCGGCGTGATTTTCGAAGCGAAACCGAAAGTAGCCTGCCCGGAATGCGATATTCCGGTGATTTACGGTGATACGCAGAAATCGAACGTGCTGGAAAATAACGATGTTGAAGATGTCGCTATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAATGCCGCAGCTGGAGCAGGCAAATCAGGCGTTAGTGGCGAAGACTGGCGCGCAGGAGTACGCACCGCACGTCATCAACACTCCGCTGGCATTCCTGATTAAGAGTGCTTTG  >  NC_000913/3524644‑3524931
                                                                                                                                               |                                                                                                                                                
aTCAGCAAAATTGAAAACGATCAGGGCGGCGTGATTTTCGAAGCGAAACCGAAAGTAGCCTGCCCGGAATGCGATATTCCGGTGATTTACGGTGATACGCAGAAATCGAACGTGCTGGAAAATAACGATGTTGAAGATGTCGCCATCTcc                                                                                                                                            <  1:223813/150‑1 (MQ=255)
     cAAAATTGAAAACGATCAGGGCGGCGTGATTTTCGAAGCGAAACCGAAAGTAGCCTGCCCGGAATGCGATATTCCGGTGATTTACGGTGATACGCAGAAATCGAACGTGCTGGAAAATAACGATGTTGAAGATGTCGCCATCTCCCGCGag                                                                                                                                      <  1:63435/151‑1 (MQ=255)
                          cggcgTGATTTTCGAAGCGAAACCGAAAGTAGCCTGCCCGGAATGCGATATTCCGGTGATTTACGGTGATACGCAGAAATCGAACGTGCTGGAAAATAACGATGTTGAAGATGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTAcc                                                                                                                  >  2:623133/1‑150 (MQ=255)
                           ggcgTGATTTTCGAAGCGAAACCGAAAGTAGCCTGCCCGGAATGCGATATTCCGGTGATTTACGGTGATACGCAGAAATCGAACGTGCTGGAAAATAACGATGTTGAAGATGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTACCa                                                                                                                 >  2:565579/1‑150 (MQ=255)
                            gcgTGATTTTCGAAGCGAAACCGAAAGTAGCCTGCCCGGAATGCGATATTCCGGTGATTTACGGTGATACGCAGAAATCGAACGTGCTGGAAAATAACGATGTTGAAGATGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAAt                                                                                                               >  1:167223/1‑151 (MQ=255)
                              gTGATTTTCGAAGCGAAACCGAAAGTAGCCTGCCCGGAATGCGATATTCCGGTGATTTACGGTGATACGCAGAAATCGAACGTGCTGGAAAATAACGATGTTGAAGATGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAATGc                                                                                                             >  2:374221/1‑151 (MQ=255)
                                gATTTTCGAAGCGAAACCGAAAGTAGCCTGCCCGGAATGCGATATTCCGGTGATTTACGGTGATACGCAGAAATCGAACGTGCTGGAAAATAACGATGTTGAAGATGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAATGCCg                                                                                                           <  1:242041/151‑1 (MQ=255)
                                 aTTTTCGAAGCGAAACCGAAAGTAGCCTGCCCGGAATGCGATATTCCGGTGATTTACGGTGATACGCAGAAATCGAACGTGCTGGAAAATAACGATGTTGAAGATGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAATGCCGc                                                                                                          <  1:624601/151‑1 (MQ=255)
                                     tCGAAGCGAAACCGAAAGTAGCCTGCCCGGAATGCGATATTCCGGTGATTTACGGTGATACGCAGAAATCGAACGTGCTGGAAAATAACGATGTTGAAGATGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAATGCCGCAGCt                                                                                                      >  2:60299/1‑151 (MQ=255)
                                        aaGCGAAACCGAAAGTAGCCTGCCCGGAATGCGATATTCCGGTGATTTACGGTGATACGCAGAAATCGAACGTGCTGGAAAATAACGATGTTGAAGATGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAATGCCGCAGCTGGa                                                                                                   <  1:565574/151‑1 (MQ=255)
                                                 cGAAAGTAGCCTGCCCGGAATGCGATATTCCGGTGATTTACGGTGATACGCAGAAATCGAACGTGCTGGAAAATAACGATGTTGAAGATGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAATGCCGCAGCTGGAGCAGGCaaa                                                                                          <  1:179221/151‑1 (MQ=255)
                                                          ccTGCCCGGAATGCGATATTCCGGTGATTTACGGTGATACGCAGAAATCGAACGTGCTGGAAAATAACGATGTTGAAGATGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAATGCCGCAGCTGGAGCAGGCAAATCAGGCGtt                                                                                 <  2:495884/151‑1 (MQ=255)
                                                             gCCCGGAATGCGATATTCCGGTGATTTACGGTGATACGCAGAAATCGAACGTGCTGGAAAATAACGATGTTGAAGATGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAATGCCGCAGCTGGAGCAGGCAAATCAGGCGTTAGt                                                                              <  1:392696/151‑1 (MQ=255)
                                                                      gCGATATTCCGGTGATTTACGGTGATACGCAGAAATCGAACGTGCTGGAAAATAACGATGTTGAAGATGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAATGCCGCAGCTGGAGCAGGCAAATCAGGCGTTAGTGGCGAAGa                                                                      <  1:231058/150‑1 (MQ=255)
                                                                         atatTCCGGTGATTTACGGTGATACGCAGAAATCGAACGTGCTGGAAAATAACGATGTTGAAGATGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAATGCCGCAGCTGGAGCAGGCAAATCAGGCGTTAGTGGCGAAGACt                                                                    >  1:647049/1‑149 (MQ=255)
                                                                           atTCCGGTGATTTACGGTGATACGCAGAAATCGAACGTGCTGGAAAATAACGATGTTGAAGATGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAATGCCGCAGCTGGAGCAGGCAAATCAGGCGTTAGTGGCGAAGACTGgcg                                                                >  2:516273/1‑151 (MQ=255)
                                                                             tCCGGTGATTTACGGTGATACGCAGAAATCGAACGTGCTGGAAAATAACGATGTTGAAGATGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAATGCCGCAGCTGGAGCAGGCAAATCAGGCGTTAGTGGCGAAGACTGgcgc                                                               <  2:127559/150‑1 (MQ=255)
                                                                                     tttACGGTGATACGCAGAAATCGAACGTGCTGGAAAATAACGATGTTGAAGATGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAATGCCGCAGCTGGAGCAGGCAAATCAGGCGTTAGTGGCGAAGACTGGCGCGCAGGAGt                                                       >  1:115484/1‑150 (MQ=255)
                                                                                      ttACGGTGATACGCAGAAATCGAACGTGCTGGAAAATAACGATGTTGAAGATGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAATGCCGCAGCTGGAGCAGGCAAATCAGGCGTTAGTGGCGAAGACTGGCGCGCAGGAGTa                                                      >  2:105085/1‑150 (MQ=255)
                                                                                       tACGGTGATACGCAGAAATCGAACGTGCTGGAAAATAACGATGTTGAAGATGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAATGCCGCAGCTGGAGCAGGCAAATCAGGCGTTAGTGGCGAAGACTGGCGCGCAGGAGTAcg                                                    >  2:545325/1‑151 (MQ=255)
                                                                                       tACGGTGATACGCAGAAATCGAACGTGCTGGAAAATAACGATGTTGAAGATGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAATGCCGCAGCTGGAGCAGGCAAATCAGGCGTTAGTGGCGAAGACTGGCGCGCAGGAGTAc                                                     <  2:597797/150‑1 (MQ=255)
                                                                                             gATACGCAGAAATCGAACGTGCTGGAAAATAACGATGTTGAAGATGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAATGCCGCAGCTGGAGCAGGCAAATCAGGCGTTAGTGGCGAAGACTGGCGCGCAGGAGTAcgcaccg                                               <  2:466881/150‑1 (MQ=255)
                                                                                                          cGAACGTGCTGGAAAATAACGATGTTGAAGATGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAATGCCGCAGCTGGAGCAGGCAAATCAGGCGTTAGTGGCGAAGACTGGCGCGCAGGAGTACGCACCGCACGTCATCAacac                                 >  2:153862/1‑151 (MQ=255)
                                                                                                          cGAACGTGCTGGAAAATAACGATGTTGAAGATGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAATGCCGCAGCTGGAGCAGGCAAATCAGGCGTTAGTGGCGAAGACTGGCGCGCAGGAGTACGCACCGCACGTCATCAacac                                 >  2:611615/1‑151 (MQ=255)
                                                                                                            aaCGTGCTGGAAAATAACGATGTTGAAGATGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAATGCCGCAGCTGGAGCAGGCAAATCAGGCGTTAGTGGCGAAGACTGGCGCGCAGGAGTACGCACCGCACGTCATCAACACTc                               <  1:168457/151‑1 (MQ=255)
                                                                                                                           aaCGATGTTGAAGATGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAATGCCGCAGCTGGAGCAGGCAAATCAGGCGTTAGTGGCGAAGACTGGCGCGCAGGAGTACGCACCGCACGTCATCAACACTCCGCTGGCATTCCTg                 >  1:204682/1‑150 (MQ=255)
                                                                                                                                tGTTGAAGATGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAATGCCGCAGCTGGAGCAGGCAAATCAGGCGTTAGTGGCGAAGACTGGCGCGCAGGAGTACGCACCGCACGTCATCAACACTCCGCTGGCATTCCTGATTa             >  2:387231/1‑149 (MQ=255)
                                                                                                                                     aaGATGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAATGCCGCAGCTGGAGCAGGCAAATCAGGCGTTAGTGGCGAAGACTGGCGCGCAGGAGTACGCACCGCACGTCATCAACACTCCGCTGGCATTCCTGATTAAGAGTGc      >  1:79468/1‑151 (MQ=255)
                                                                                                                                     aaGATGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAATGCCGCAGCTGGAGCAGGCAAATCAGGCGTTAGTGGCGAAGACTGGCGCGCAGGAGTACGCACCGCACGTCATCAACACTCCGCTGGCATTCCTGATTAAGAGTGc      <  2:603693/151‑1 (MQ=255)
                                                                                                                                         tGTCGCCATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAATGCCGCAGCTGGAGCAGGCAAATCAGGCGTTAGTGGCGAAGACTGGCGCGCAGGAGTACGCACCGCACGTCATCAACACTCCGCTGGCATTCCTGATTAAGAGTGCTTTg  >  1:407878/1‑151 (MQ=255)
                                                                                                                                               |                                                                                                                                                
ATCAGCAAAATTGAAAACGATCAGGGCGGCGTGATTTTCGAAGCGAAACCGAAAGTAGCCTGCCCGGAATGCGATATTCCGGTGATTTACGGTGATACGCAGAAATCGAACGTGCTGGAAAATAACGATGTTGAAGATGTCGCTATCTCCCGCGAGCAGCAGAATGTTTCTGTACCAATGCCGCAGCTGGAGCAGGCAAATCAGGCGTTAGTGGCGAAGACTGGCGCGCAGGAGTACGCACCGCACGTCATCAACACTCCGCTGGCATTCCTGATTAAGAGTGCTTTG  >  NC_000913/3524644‑3524931

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A