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
A10 F1 I2 R1 757 38.1 1607544 96.5% 1551279 117.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,503,125 G→A *223* (TAG→TAA)  ydcL → lipoprotein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,503,1250GA100.0% 103.6 / NA 34*223* (TAG→TAA) ydcLlipoprotein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (18/16);  total (18/16)

GTTATCAAAGTCGTTCGTCAGGGCGAAGGTAAAGACCTGAATAACGAAAGTACGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAGTTCCAGACGCGCCATCGTTAGATGGCGCTTTTTATCCGGTGCGCCGTAAAACCCCATCCTTCAGGGCGGGGATATAAGGCGCGGTTTTCCACCTGACCAGGTGTTTGCTGTTGTTCAATGTATTGGCG  >  NC_000913/1502991‑1503253
                                                                                                                                      |                                                                                                                                
gTTATCAAAGTCGTTCGTCAGGGCGAAGGTAAAGACCTGAATAACGAAAGTACGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTcc                                                                                                                              >  1:687671/1‑139 (MQ=255)
  tATCAAAGTCGTTCGTCAGGGCGAAGGTAAAGACCTGAATAACGAAAGTACGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAg                                                                                                                            >  1:702184/1‑139 (MQ=255)
       aaGTCGTTCGTCAGGGCGAAGGTAAAGACCTGAATAACGAAAGTACGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGAcgcg                                                                                                                       <  2:687671/139‑1 (MQ=255)
        aGTCGTTCGTCAGGGCGAAGGTAAAGGCCTGAATAACGAAAGTACGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACgcgc                                                                                                                      <  1:511419/139‑1 (MQ=255)
        aGTCGTTCGTCAGGGCGAAGGTAAAGACCTGAATAACGAAAGTACGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACgcgc                                                                                                                      <  2:702184/139‑1 (MQ=255)
             ttcgtCAGGGCGAAGGTAAAGACCTGAATAACGAAAGTACGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCg                                                                                                                 >  1:163742/1‑139 (MQ=255)
                              aaaGACCTGAATAACGAAAGTACGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTgg                                                                                                <  2:116910‑M1/139‑3 (MQ=255)
                                       aaTAACGAAAGTACGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTggtgatgctgc                                                                                       >  1:27619‑M1/1‑128 (MQ=255)
                                                    cGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTggtgatgctgccaacttactgatt                                                                          <  2:195483‑M1/139‑25 (MQ=255)
                                                    cGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTggtgatgctgccaacttactgatt                                                                          <  2:163742‑M1/139‑25 (MQ=255)
                                                              tttCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTggtgatgctgccaacttactgatttagtgtatga                                                                <  2:196075‑M1/139‑35 (MQ=255)
                                                                            aaCAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTggtgatgctgccaactta                                                                                <  1:269301‑M1/109‑19 (MQ=255)
                                                                            aaCAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTggtgatgctgccaactta                                                                                >  2:269301‑M1/1‑91 (MQ=255)
                                                                                          gaCATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggctt                                    >  2:29265‑M1/1‑77 (MQ=255)
                                                                                           aCATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttc                                   >  1:237768‑M1/1‑76 (MQ=255)
                                                                                           aCATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTggtgatgctgccaacttactgatt                                                                          >  1:469511‑M1/1‑76 (MQ=255)
                                                                                           aCATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTggtgatgctgccaacttactgatt                                                                          <  2:469511‑M1/100‑25 (MQ=255)
                                                                                            cATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACgcgc                                                                                                                      >  1:165674/1‑55 (MQ=255)
                                                                                            cATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACgcgc                                                                                                                      <  2:165674/55‑1 (MQ=255)
                                                                                               ggCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtt                               >  2:781104‑M1/1‑72 (MQ=255)
                                                                                                   aCCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttcta                           >  2:376778‑M1/1‑68 (MQ=255)
                                                                                                      gATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatca                        <  2:51557‑M1/139‑75 (MQ=255)
                                                                                                       aTGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcag                       >  2:630086‑M1/1‑64 (MQ=255)
                                                                                                       aTGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTggtgatgctgccaacttactgat                                                                           >  2:263158‑M1/1‑64 (MQ=255)
                                                                                                       aTGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTggtgatgctgccaacttactgat                                                                           <  1:263158‑M1/87‑24 (MQ=255)
                                                                                                               aTGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccct               <  1:376778‑M1/139‑84 (MQ=255)
                                                                                                                  tttGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTggtgatgctgccaacttactgatttagtgtatgatggtgtttttgagg                                                  <  2:205854‑M1/101‑49 (MQ=255)
                                                                                                                  tttGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTggtgatgctgccaacttactgatttagtgtatgatggtgtttttgagg                                                  >  1:205854‑M1/1‑53 (MQ=255)
                                                                                                                  tttGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTggtgatgctgccaa                                                                                    >  1:272150‑M1/1‑53 (MQ=255)
                                                                                                                  tttGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTggtgatgctgccaa                                                                                    <  2:272150‑M1/67‑15 (MQ=255)
                                                                                                                         ttAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagc     <  1:29265‑M1/139‑94 (MQ=255)
                                                                                                                           aaCAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagcta   >  1:116388‑M1/1‑44 (MQ=255)
                                                                                                                           aaCAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagcta   >  1:676015‑M1/1‑44 (MQ=255)
                                                                                                                            aCAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTggtgatgctgccaactaactgatttggtgtatgattgtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagctac  >  1:66076‑M1/1‑43 (MQ=255)
                                                                                                                                      |                                                                                                                                
GTTATCAAAGTCGTTCGTCAGGGCGAAGGTAAAGACCTGAATAACGAAAGTACGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAGTTCCAGACGCGCCATCGTTAGATGGCGCTTTTTATCCGGTGCGCCGTAAAACCCCATCCTTCAGGGCGGGGATATAAGGCGCGGTTTTCCACCTGACCAGGTGTTTGCTGTTGTTCAATGTATTGGCG  >  NC_000913/1502991‑1503253

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A