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
A12 F28 I1 R1 227 52.0 1764248 99.3% 1751898 138.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 149,662 (G)5→4 intergenic (‑61/+53) panB ← / ← yadC 3‑methyl‑2‑oxobutanoate hydroxymethyltransferase/fimbrial tip‑adhesin YadC

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913149,6580G.100.0% 167.2 / NA 39intergenic (‑57/+57)panB/yadC3‑methyl‑2‑oxobutanoate hydroxymethyltransferase/fimbrial tip‑adhesin YadC
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base . (23/16);  total (23/16)

CTATAGTCATAAGCGGTGATGGTCGCGAAACGTTTTTTTTCCTGTTTGTACTTCTGCAGTAAGGAGATGGTGGTCGGTTTCATAACGTATCCTGATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGTGGGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAGGGATAGGTTACCTGGAAAGTACTGGTGGCTTTAAATTCGCCGGGTTCGATAGCAATATTCCCGTCTTGCTTTAA  >  NC_000913/149519‑149792
                                                                                                                                           |                                                                                                                                      
cTATAGTCATAAGCGGTGATGGTCGCGAAACGTTTTTTTTCCTGTTTGTACTTCTGCAGTAAGGAGATGGTGGTCGGTTTCATAACGTATCCTGATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATtggtg                                                                                                                                        >  2:718064/1‑140 (MQ=255)
          aaGCGGTGATGGTCGCGAAACGTTTTTTTTCCTGTTTGTACTTCTGCAGTAAGGAGATGGTGGTCGGTTTCATAACGTATCCTGATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGAt                                                                                                                             >  1:444476/1‑140 (MQ=255)
          aaGCGGTGATGGTCGCGAAACGTTTTTTTTCCTGTTTGTACTTCTGCAGTAAGGAGATGGTGGTCGGTTTCATAACGTATCCTGATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGAt                                                                                                                             >  1:56905/1‑140 (MQ=255)
           aGCGGTGATGGTCGCGAAACGTTTTTTTTCCTGTTTGTACTTCTGCAGTAAGGAGATGGTGGTCGGTTTCATAACGTATCCTGATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGAtt                                                                                                                            >  1:101719/1‑140 (MQ=255)
                         cgAAACGTTTTTTTTCCTGTTTGTACTTCTGCAGTAAGGAGATGGTGGTCGGTTTCATAACGTATCCTGATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAgcagca                                                                                                              <  1:795834/140‑1 (MQ=255)
                             aCGTTTTTTTTCCTGTTTGTACTTCTGCAGTAAGGAGATGGTGGTCGGTTTCATAACGTATCCTGATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGc                                                                                                          <  1:220428/140‑1 (MQ=255)
                                        ccTGTTTGTACTTCTGCAGTAAGGAGATGGTGGTCGGTTTCATAACGTATCCTGATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGAc                                                                                               <  2:300611/140‑1 (MQ=255)
                                             ttGTACTTCTGCAGTAAGGAGATGGTGGTCGGTTTCATAACGTATCCTGATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGa                                                                                                >  1:326850/1‑134 (MQ=255)
                                             ttGTACTTCTGCAGTAAGGAGATGGTGGTCGGTTTCATAACGTATCCTGATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGa                                                                                                <  2:326850/134‑1 (MQ=255)
                                                tACTTCTGCAGTAAGGAGATGGTGGTCGGTTTCATAACGTATCCTGATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGtgctgc                                                                                       <  1:718064/140‑1 (MQ=255)
                                                    tCTGCAGTAAGGAGATGGTGGTCGGTTTCATAACGTATCCTGATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACg                                                                                   <  1:626165/140‑1 (MQ=255)
                                                      tGCAGTAAGGAGATGGTGGTCGGTTTCATAACGTATCCTGATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGtt                                                                                 >  1:628916/1‑140 (MQ=255)
                                                            aaGGAGATGGTGGTCGGTTTCATAACGTATCCTGATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAgg                                                                           <  2:111427/140‑1 (MQ=255)
                                                             aGGAGATGGTGGTCGGTTTCATAACGTATCCTGATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAggg                                                                          >  2:674036/1‑140 (MQ=255)
                                                             aGGAGATGGTGGTCGGTTTCATAACGTATCCTGATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAggg                                                                          >  2:395930/1‑140 (MQ=255)
                                                               gagaTGGTGGTCGGTTTCATAACGTATCCTGATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAGGGAt                                                                        >  2:682098/1‑140 (MQ=255)
                                                                  aTGGTGGTCGGTTTCATAACGTATCCTGATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAg                                                                            >  1:568904/1‑133 (MQ=255)
                                                                  aTGGTGGTCGGTTTCATAACGTATCCTGATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAg                                                                            <  2:568904/133‑1 (MQ=255)
                                                                  aTGGTGGTCGGTTTCATAACGTATCCTGATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAGGGATAgg                                                                     >  2:745071/1‑140 (MQ=255)
                                                                         tCGGTTTCATAACGTATCCTGATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAGGGATAGGTTACCTg                                                              >  2:781128/1‑140 (MQ=255)
                                                                              ttCATAACGTATCCTGATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAGGGATAGGTTACCTGGAAAg                                                         <  1:781128/140‑1 (MQ=255)
                                                                                     cGTATCCTGATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAGGGATAGGTTACCTGGAAAGTACtggt                                                  <  2:646523/140‑1 (MQ=255)
                                                                                       tATCCTGATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAGGGATAGGTTACCTGGAAAGTACtggtgg                                                >  2:250824/1‑140 (MQ=255)
                                                                                       tATCCTGATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGAT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAGGGATAGGTTACCTGGAAAGTACtggtgg                                                >  2:88749/1‑140 (MQ=255)
                                                                                         tCCTGATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAGGGATAGGTTACCTGGAAAGTACTGGTGGCt                                              >  2:2577/1‑140 (MQ=255)
                                                                                             gATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAGGGATAGGTTACCTGGAAAGTACTGGTGGCTTTaa                                          >  2:255228/1‑140 (MQ=255)
                                                                                              aTAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAGGGATAGGTTACCTGGAAAGTACTGGTGGCTTTaaa                                         >  1:670346/1‑140 (MQ=255)
                                                                                               tAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAGGGATAGGTTACCTGGAAAGTACTGGTGGCTTTAAAt                                        >  2:562378/1‑140 (MQ=255)
                                                                                                    tGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAGGGATAGGTTACCTGGAAAGTACTGGTGGCTTTAAATTCGcc                                   <  1:745071/140‑1 (MQ=255)
                                                                                                     gATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAGGGATAGGTTACCTGGAAAGTACTGGTGGCTTTAAATTCGCCg                                  >  2:376107/1‑140 (MQ=255)
                                                                                                            tgCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGGCAGTGCTGCTACGTTATCAGGGATAGGTTACCTGGAAAGTACTGGTGGCTTTAAATTCGCCGGGTTCGa                           >  2:871857/1‑140 (MQ=255)
                                                                                                             gCTGTCTGGCATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAGGGATAGGTTACCTGGAAAGTACTGGTGGCTTTAAATTCGCCGGGTTCGAt                          <  1:250824/140‑1 (MQ=255)
                                                                                                                      cATTTTATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAGGGATAGGTTACCTGGAAAGTACTGGTGGCTTTAAATTCGCCGGGTTCGATAGCAATAtt                 >  1:95747/1‑140 (MQ=255)
                                                                                                                           tATCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAGGGATAGGTTACCTGGAAAGTACTGGTGGCTTTAAATTCGCCGGGTTCGATAGCAATATTCCCGt            >  2:190474/1‑140 (MQ=255)
                                                                                                                            aTCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAGGGATAGGTTACCTGGAAAGTACTGGTGGCTTTAAATTCGCCGGGTTCGATAGCAATATTCCCGTc           <  2:444476/140‑1 (MQ=255)
                                                                                                                            aTCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAGGGATAGGTTACCTGGAAAGTACTGGTGGCTTTAAATTCGCCGGGTTCGATAGCAATATTCCCGTc           <  2:560749/140‑1 (MQ=255)
                                                                                                                             tCAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAGGGATAGGTTACCTGGAAAGTACTGGTGGCTTTAAATTCGCCGGGTTCGATAGCAATATTCCCGTCt          <  1:255228/140‑1 (MQ=255)
                                                                                                                              cAGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAGGGATAGGTTACCTGGAAAGTACTGGTGGCTTTAAATTCGCCGGGTTCGATAGCAATATTCCCGTCtt         >  2:134155/1‑140 (MQ=255)
                                                                                                                               aGTCACATTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAGGGATAGGTTACCTGGAAAGTACTGGTGGCTTTAAATTCGCCGGGTTCGATAGCAATATTCCCGTCTTg        <  2:95747/140‑1 (MQ=255)
                                                                                                                                     aTTGGT‑GGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAGGGATAGGTTACCTGGAAAGTACTGGTGGCTTTAAATTCGCCGGGTTCGATAGCAATATTCCCGTCTTGCTTTaa  >  2:121178/1‑140 (MQ=255)
                                                                                                                                           |                                                                                                                                      
CTATAGTCATAAGCGGTGATGGTCGCGAAACGTTTTTTTTCCTGTTTGTACTTCTGCAGTAAGGAGATGGTGGTCGGTTTCATAACGTATCCTGATAAATTGATGTTGTGCTGTCTGGCATTTTATCAGTCACATTGGTGGGGGCAATGATTTATCCGTAGCAGCACTGCCAGAAGGTGACAGTGCTGCTACGTTATCAGGGATAGGTTACCTGGAAAGTACTGGTGGCTTTAAATTCGCCGGGTTCGATAGCAATATTCCCGTCTTGCTTTAA  >  NC_000913/149519‑149792

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A