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
A14 F1 I2 R1 774 49.2 2112398 96.9% 2046913 118.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,044,891 G→A intergenic (+267/‑47) asnT → / → yeeJ tRNA‑Asn/putative adhesin

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,044,8910GA100.0% 131.1 / NA 41intergenic (+267/‑47)asnT/yeeJtRNA‑Asn/putative adhesin
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (20/21);  total (20/21)

ATAAAACTTGAGTTATTCAGTAGTCTCCCCTCTTGCAACTCACACCCAAAACTGCCTAACGAAAAGTTATTAATTTTCAATCATATTGCTATCAGTATTTACATTTTTTCGCTGTGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATGGCTACGAAGAAGAGAAGTGGAGAAGAAATAAATGACCGACAAATATTATGCGGGATGGGAATTAAACTACGCCG  >  NC_000913/2044778‑2045014
                                                                                                                 |                                                                                                                           
ataAAACTTGAGTTATTCAGTAGTCTCCCCTCTTGCAACTCACACCCAAAACTGCCTAACGAAAAGTTATTAATTTTCAATCATATTGCTATCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTa                                                                                                    <  2:677334/139‑1 (MQ=255)
         gAGTTATTCAGTAGTCTCCCCTCTTGCAACTCACACCCAAGACAGCCTAACGAAAAGTTATTAATTTTCAATCATATTGCTATCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCa                                                                                           <  1:949452/139‑1 (MQ=255)
          aGTTATTCAGTAGTCTCCCCTCTTGCAACTCACACCCAAAACTGCCTAACGAAAAGTTATTAATTTTCAATCATATTGCTATCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAg                                                                                          <  1:992210/139‑1 (MQ=255)
           gTTATTCAGTAGTCTCCCCTCTTGCAACTCACACCCAAAACTGCCTAACGAAAAGTTATTAATTTTCAATCATATTGCTATCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAgg                                                                                         <  1:582450/139‑1 (MQ=255)
           cagaTTCAGTAGTCTCCCCTCTTGCAACTCACACCCAAAACTGCCTAACGAAAAGTTATTAATTTTCAATCATATTGCTATCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAgg                                                                                         <  1:665420/136‑1 (MQ=255)
                tCAGTAGTCTCCCCTCTTGCAACTCACACCCAAAACTGCCTAACGAAAAGTTATTAATTTTCAATCATATTGCTATCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAgg                                                                                    >  1:258232/1‑139 (MQ=255)
                       tctcCCCTCTTGCAACTCACACCCAAAACTGCCTAACGAAAAGTTATTAATTTTCAATCATATTGCTATCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCAt                                                                             <  2:924066/139‑1 (MQ=255)
                         tcCCCTCTTGTAACTCACACCCAAAACTGCCTAACGAAAAGTTATTAATTTTCAATCATATTGCTATCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAggg                                                                                        <  2:744205/126‑1 (MQ=255)
                         tcCCCTCTTGTAACTCACACCCAAAACTGCCTAACGAAAAGTTATTAATTTTCAATCATATTGCTATCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAggg                                                                                        >  1:744205/1‑126 (MQ=255)
                         tcCCCTCTTGCAACTCACACCCAAAACTGCCTAACGAAAAGTTATTAATTTTCAATCATATTGCTATCAGTATTTACATTTTTTCGCTATGCTAGCAAGGGAGCATTTATGTTAGCTCGTTCATGGAAGGTAAGCactg                                                                           >  2:665420/1‑136 (MQ=255)
                         tcCCCTCTTGCAACTCACACCCAAAACTGCCTAACGAAAAGTTATTAATTTTCAATCATATTGCTATCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATgg                                                                           >  2:852945/1‑139 (MQ=255)
                                   cAACTCACACCCAAAACTGCCTAACGAAAAGTTATTAATTTTCAATCATATTGCTATCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATGGCTACgaagaa                                                                 <  1:497719/139‑1 (MQ=255)
                                      cTCACACCCAAAACTGCCTAACGAAAAGTTATTAATTTTCAATCATATTGCTATCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATGGCTACGAagaagag                                                              <  2:56306/139‑1 (MQ=255)
                                        cacaCCCAAAACTGCCTAACGAAAAGTTATTAATTTTCAATCATATTGCTATCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATGGCTACGAagaagagaa                                                            >  1:857751/1‑139 (MQ=255)
                                         acacCCAAAACTGCCTAACGAAAAGTTATTAATTTTCAATCATATTGCTATCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATGGCTACGAagaagagaag                                                           <  2:1051240/139‑1 (MQ=255)
                                         acacCCAAAACTGCCTAACGAAAAGTTATTAATTTTCAATCATATTGCTATCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATGGCTACGAagaagagaag                                                           <  1:736719/139‑1 (MQ=255)
                                             ccAAAACTGCCTAACGAAAAGTTATTAATTTTCAATCATATTGCTATCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATGGCTACGAAGAAGAGAAGTGga                                                       <  1:187460/139‑1 (MQ=255)
                                                                aGTTATTAATTTTCAATCATATTGCTATCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATGGCTACGAAGAAGAGAAGTGGAGAAGAAATAAATGACCGAc                                    <  1:281262/139‑1 (MQ=255)
                                                                    attaATTTTCAATCATATTGCTATCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATGGCTACGAAGAAGAGAAGTGGAGAAGAAATAAATGACCGACAAat                                >  2:325444/1‑139 (MQ=255)
                                                                     ttaATTTTCAATCATATTGCTATCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCTGGGAAGGTAAGCATGGCTACGAAGAAGAGAAGTGGAGAAGAAATAAATGACCGAc                                    >  2:232292/1‑134 (MQ=255)
                                                                     ttaATTTTCAATCATATTGCTATCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATGGCTACGAAGAAGAGAAGTGGAGAAGAAATAAATGACCGAc                                    <  1:232292/134‑1 (MQ=255)
                                                                            tCAATCATATTGCTATCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATGGCTACGAAGAAGAGAAGTGGAGAAGAAATAAATGACCGACAAATATTATGCg                        >  1:546265/1‑139 (MQ=255)
                                                                                    atTGCTATCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCa                                                                              <  1:719842/77‑1 (MQ=255)
                                                                                    atTGCTATCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGAGAAGGTAAGCa                                                                              >  2:719842/1‑77 (MQ=255)
                                                                                          aTCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATGGCTACGAAGAAGAGAAGTGGAGAAGAAATAAATGACCGAc                                    >  1:879357/1‑113 (MQ=255)
                                                                                          aTCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATGGCTACGAAGAAGAGAAGTGGAGAAGAAATAAATGACCGAc                                    <  2:879357/113‑1 (MQ=255)
                                                                                          aTCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATGGCTACGAAGAAGAGAAGTGGAGAAGAAATAAATGACCGACAAATATTATg                          >  2:464765/1‑123 (MQ=255)
                                                                                          aTCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATGGCTACGAAGAAGAGAAGTGGAGAAGAAATAAATGACCGACAAATATTATg                          <  1:464765/123‑1 (MQ=255)
                                                                                          aTCAGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATGGCTACGAAGAAGAGAAGTGGAGAAGAAATAAATGACCGACAAATATTATGCGGGATGGGAATTaaa          >  2:770739/1‑139 (MQ=255)
                                                                                             aGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATGGCTACGAAGAAGAGAATTGGAGAAGAAATAAATGACCGACAAATATTATGCGGGATGGGAATTAAACTa       >  2:553919/1‑139 (MQ=255)
                                                                                             aGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATGGCTACGAAGAAGAGAAGTGGAGAAGAAATAAATGACCGACAAATATTATGCGGGATGGGAATTAAACTa       <  1:325444/139‑1 (MQ=255)
                                                                                             aGTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATGGCTACGAAGAAGAGAAGTGGAGAAGAAATAAATGACCGACAAATATTATGCGGGATGGGAATTAAACTa       >  2:682848/1‑139 (MQ=255)
                                                                                              gTATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATGGCTACGAAGAAGAGAAGTGGAGAAGAAATAAATGACCGACAAATATTATGCGGGATGGGAATTAAACTAc      >  1:519609/1‑139 (MQ=255)
                                                                                               tATTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATGGCTACGAAGAAGAGAAGTGGAGAAGAAATAAATGACCGACAAATATTATGCGGGATGGGAATTAAACTAcg     >  1:912556/1‑139 (MQ=255)
                                                                                                aTTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCAt                                                                             <  1:68878/66‑1 (MQ=255)
                                                                                                aTTTACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCAt                                                                             >  2:68878/1‑66 (MQ=255)
                                                                                                  ttACATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATGGCTACGAAGAAGAGAAGTGGAGAAGAAATAAATGACCGACAAATATTATGCGGGATGGGAATTAAACTAcgccg  >  2:435314/1‑139 (MQ=255)
                                                                                                     cATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATGGCTACGAAGAAGAGAAGTGGAGAAGAAATAAATGAcc                                       >  2:286207/1‑99 (MQ=255)
                                                                                                     cATTTTTTCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATGGCTACGAAGAAGAGAAGTGGAGAAGAAATAAATGAcc                                       <  1:286207/99‑1 (MQ=255)
                                                                                                         ttttCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATGGCTACGAAGAAGAGAAGTGGAGAAGAAATAAATGACCGACAAATATTATg                          >  2:50371/1‑108 (MQ=255)
                                                                                                         ttttCGCTATGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATGGCTACGAAGAAGAGAAGTGGAGAAGAAATAAATGACCGACAAATATTATg                          <  1:50371/108‑1 (MQ=255)
                                                                                                                 |                                                                                                                           
ATAAAACTTGAGTTATTCAGTAGTCTCCCCTCTTGCAACTCACACCCAAAACTGCCTAACGAAAAGTTATTAATTTTCAATCATATTGCTATCAGTATTTACATTTTTTCGCTGTGCTAGAAAGGGCGCATTTATGTTAGCTCGTTCAGGGAAGGTAAGCATGGCTACGAAGAAGAGAAGTGGAGAAGAAATAAATGACCGACAAATATTATGCGGGATGGGAATTAAACTACGCCG  >  NC_000913/2044778‑2045014

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