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
A1 F1 I2 R1 730 35.1 2107516 91.4% 1926269 80.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,152,454 A→G E73E (GAA→GAG)  metC → cystathionine beta‑lyase/L‑cysteine desulfhydrase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,152,4540AG100.0% 153.1 / NA 44E73E (GAA→GAG) metCcystathionine beta‑lyase/L‑cysteine desulfhydrase
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (21/23);  total (21/23)

AATCGCGCCAATGGAGAGTTGTTCTATGGACGGCGCGGAACGTTAACCCATTTCTCCTTACAACAAGCGATGTGTGAACTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGGGCGGCAGCGGTTGCTAATTCCATTCTTGCTTTTATCG  >  NC_000913/3152377‑3152530
                                                                             |                                                                            
aaTCGCGCCAATGGAGAGTTGTTCTATGGACGGCGCGGAACGTTAACCCATTTCTCCTTACAACAAGCGATGTGTGAGCTg                                                                           >  1:583642/1‑81 (MQ=255)
 aTCGCGCCAATGGAGAGTTGTTCTATGGACGGCGCGGAACGTTAACCCATTTCTCCTTACAACAAGCGATGTGTGAGCTg                                                                           <  1:583595/80‑1 (MQ=255)
  tCGCGCCAATGGAGAGTTGTTCTATGGACGGCGCGGAACGTTAACCCATTTCTCCTTACAACAAGCGATGTGTGAGCTgg                                                                          >  1:583630/1‑80 (MQ=255)
        cAATGGAGAGTTGTTCTATGGACGGCGCGGAACGTTAACCCATTTCTCCTTACAACAAGCGATGTGTGAGCTGGAAGGTgg                                                                   <  1:583596/81‑1 (MQ=255)
         aaTGGAGAGTTGTTCTATGGACGGCGCGGAACGTTAACCCATTTCTCCTTACAACAAGCGATGTGTGAGCTGGAAGGTGgc                                                                  >  1:583643/1‑81 (MQ=255)
                     ttCTATGGACGGCGCGGAACGTTAACCCATTTCTCCTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTg                                                      <  1:583597/81‑1 (MQ=255)
                      tCTATGGACGGCGCGGAACGTTAACCCATTTCTCCTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGc                                                     >  1:583637/1‑81 (MQ=255)
                       cTATGGACGGCGCGGAACGTTAACCCATTTCTCCTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGc                                                     <  1:583598/80‑1 (MQ=255)
                            gACGGCGCGGAACGTTAACCCATTTCTCCTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTc                                               >  2:583660/1‑81 (MQ=255)
                            gACGGCGCGGAACGTTAACCCATTTCTCCTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTc                                               >  1:583639/1‑81 (MQ=255)
                             aCGGCGCGGAACGTTAACCCATTTCTCCTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTcc                                              <  2:583599/81‑1 (MQ=255)
                             aCGGCGCGGAACGTTAACCCATTTCTCCTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTcc                                              >  1:583662/1‑81 (MQ=255)
                              cGGCACGGAACGTTAACCCATTTCTCCTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTccc                                             <  1:583600/81‑1 (MQ=255)
                               ggCGCGGAACGTTAACCCATTTCTCCTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCt                                            >  2:583654/1‑81 (MQ=255)
                                 cgcgGAACGTTAACCCATTTCTCCTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGc                                          >  2:583646/1‑81 (MQ=255)
                                 cgcgGAACGTTAACCCATTTCTCCTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGc                                          <  2:583601/81‑1 (MQ=255)
                                    ggAACGTTAACCCATTTCTCCTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCggg                                       >  1:583668/1‑81 (MQ=255)
                                    ggAACGTTAACCCATTTCTCCTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCggg                                       <  1:583602/81‑1 (MQ=255)
                                      aaCGTTAACCCATTTCTCCTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGggc                                     <  1:583603/81‑1 (MQ=255)
                                      aaCGTTAACCCATTTCTCCTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGggc                                     <  2:583604/81‑1 (MQ=255)
                                         gTTAACCCATTTCTCCTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGggcggc                                  <  2:583605/81‑1 (MQ=255)
                                         gTTAACCCATTTCTCCTTACAACAAGCGATGAGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGggcggc                                  <  2:583606/81‑1 (MQ=255)
                                             aCCCATTTCTCCTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGGGCGGCAGc                               <  1:583607/80‑1 (MQ=255)
                                             aCCCATTTCTCCTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGGGCGGCAGc                               <  2:583609/80‑1 (MQ=255)
                                             aCCCATTTCTCCTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGGGCGGCAGc                               <  1:583608/80‑1 (MQ=255)
                                               ccATTTCTCCTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGGGCGGCAGCGGt                            >  2:583644/1‑81 (MQ=255)
                                                cATTTCTCCTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGGGCGGCAGCGGtt                           <  2:583610/81‑1 (MQ=255)
                                                 aTTTCTCCTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGGGCGGCAGCGGTTg                          <  2:583611/81‑1 (MQ=255)
                                                  tttCTCCTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGGGCGGCAGCGGTTGc                         >  1:583649/1‑81 (MQ=255)
                                                    tctcCTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGGGCGGCAGCGGTTGCt                        <  2:583612/80‑1 (MQ=255)
                                                    tctcCTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGGGCGGCAGCGGTTGCt                        <  2:583613/80‑1 (MQ=255)
                                                      tcCTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGGGCGGCAGCGGTTGCTAAt                     >  2:583661/1‑81 (MQ=255)
                                                        cTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGGGCGGCAGCGGTTGCTAAtt                    <  1:583615/80‑1 (MQ=255)
                                                        cTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGGGCGGCAGCGGTTGCTAAtt                    <  2:583614/80‑1 (MQ=255)
                                                        cTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGGGCGGCAGCGGTTGCTAATTc                   >  2:583651/1‑81 (MQ=255)
                                                        cTTACAACAAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGGGCGGCAGCGGTTGCTAATTc                   >  2:583655/1‑81 (MQ=255)
                                                           acaacaAGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGGGCGGCAGCGGTTGCTAATTCCAt                >  2:583628/1‑81 (MQ=255)
                                                             aacaaGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGGGTGGCAGCGGTTGCTAATTCCATTc              >  1:583647/1‑81 (MQ=255)
                                                             aacaaGCGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGGGCGGCAGCGGTTGCTAATTCCATTc              <  1:583616/81‑1 (MQ=255)
                                                                   cGATGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGGGCGGCAGCGGTTGCTAATTCCATTCTTGCtt        >  1:583682/1‑81 (MQ=255)
                                                                     aTGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGGGCGGCAGCGGTTGCTAATTCCATTCTTGCtttt      <  1:583617/81‑1 (MQ=255)
                                                                     aTGTGTGAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGGGCGGCAGCGGTTGCTAATTCCATTCTTGCttt       >  1:583666/1‑80 (MQ=255)
                                                                         gtgAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGGGCGGCAGCGGTTGCTAATTCCATTCTTGCTTTTATc   >  2:583663/1‑80 (MQ=255)
                                                                          tgAGCTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGGGCGGCAGCGGTTGCTAATTCCATTCTTGCTTTTATCg  >  1:583670/1‑80 (MQ=255)
                                                                             |                                                                            
AATCGCGCCAATGGAGAGTTGTTCTATGGACGGCGCGGAACGTTAACCCATTTCTCCTTACAACAAGCGATGTGTGAACTGGAAGGTGGCGCAGGCTGCGTGCTATTTCCCTGCGGGGCGGCAGCGGTTGCTAATTCCATTCTTGCTTTTATCG  >  NC_000913/3152377‑3152530

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A