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
A9 F28 I1 R1 151 87.4 2971636 99.2% 2947862 138.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,402,585 T→C T421A (ACT→GCT)  nuoC ← NADH:quinone oxidoreductase subunit CD

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,402,5850TC100.0% 166.5 / NA 48T421A (ACT→GCT) nuoCNADH:quinone oxidoreductase subunit CD
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (24/24);  total (24/24)

TAAGCATTACGCGGGTGTAGCAGTCAGAAACGCCACCACCCACCGGGATTTCAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCAGACGTTTCGGCATCCAGTCGAGGAACTCACGCAG  >  NC_000913/2402450‑2402720
                                                                                                                                       |                                                                                                                                       
tAAGCATTACGCGGGTGTAGCAGTCAGAAACGCCACCACCCACCGGGATTTCAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAgcggtg                                                                                                                                     >  2:860121/1‑140 (MQ=255)
  aGCATTACGCGGGTGTAGCAGTCAGAAACGCCACCACCCACCGGGATTTCAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGcc                                                                                                                                   >  2:981171/1‑140 (MQ=255)
    cATTACGCGGGTGTAGCAGTCAGAAACGCCACCACCCACCGGGATTTCAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGcccc                                                                                                                                 <  1:934853/140‑1 (MQ=255)
      ttACGC‑GGTGTAGCAGTCAGAAACGCCACCACCCACCGGGATTTCAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACt                                                                                                                              <  2:845682/140‑1 (MQ=255)
         cgcgGGTGTAGCAGTCAGAAACGCCACCACCCACCGGGATTTCAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTcc                                                                                                                            >  2:565101/1‑140 (MQ=255)
              gtgtAGCAGTCAGAAACGCCACCACCCACCGGGATTTCAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAgcgc                                                                                                                       >  2:674853/1‑140 (MQ=255)
               tgtAGCAGTCAGAAACGCCACCACCCACCGGGATTTCAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGcc                                                                                                                      <  2:850523/140‑1 (MQ=255)
                 tAGCAGTCAGAAACGCCACCACCCACCGGGATTTCAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCctc                                                                                                                    >  1:92791/1‑140 (MQ=255)
                       tCAGAAACGCCACCACCCACCGGGATTTCAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTcgc                                                                                                              >  2:937681/1‑140 (MQ=255)
                        cAGAAACGCCACCACCCACCGGGATTTCAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAgcgc                                                                                                                       >  2:738365/1‑130 (MQ=255)
                        cAGAAACGCCACCACCCACCGGGATTTCAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAgcgc                                                                                                                       <  1:738365/130‑1 (MQ=255)
                        cAGAAACGCCACCACCCACCGGGATTTCAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTcgcg                                                                                                             >  2:121285/1‑140 (MQ=255)
                        cAGAAACGCCACCACCCACCGGGATTTCAAAGGCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTcgcg                                                                                                             <  2:425003/140‑1 (MQ=255)
                               gCCACCACCCACCGGGATTTCAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAgg                                                                                                      <  2:849372/140‑1 (MQ=255)
                                    cacccaccGGGATTTCAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCa                                                                                                 <  1:674853/140‑1 (MQ=255)
                                    cacccaccGGGATTTCAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCa                                                                                                 <  2:695821/140‑1 (MQ=255)
                                     gcccaccGGGATTTCAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCaa                                                                                                <  2:589051/139‑1 (MQ=255)
                                     acccaccGGGATTTCAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCaa                                                                                                <  2:1009626/140‑1 (MQ=255)
                                         accGGGATTTCAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGcc                                                                                            <  1:981171/140‑1 (MQ=255)
                                           cGGGATTTCAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGcccg                                                                                          >  1:442473/1‑139 (MQ=255)
                                             ggATTTCAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATa                                                                                                        <  2:710719/124‑1 (MQ=255)
                                             ggATTTCAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATa                                                                                                        >  1:710719/1‑124 (MQ=255)
                                             ggATTTCAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTgg                                                                                        >  1:1088498/1‑140 (MQ=255)
                                                tttCAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGaa                                                                                     >  1:1006246/1‑140 (MQ=255)
                                                tttCAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGaa                                                                                     <  1:565101/140‑1 (MQ=255)
                                                   cAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGa                                                                                  <  2:919613/140‑1 (MQ=255)
                                                   cAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGa                                                                                  <  2:92791/140‑1 (MQ=255)
                                                   cAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGa                                                                                  <  2:1006246/140‑1 (MQ=255)
                                                          gAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCa                                                                           >  1:816893/1‑140 (MQ=255)
                                                             gTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGaa                                                                        <  1:121285/140‑1 (MQ=255)
                                                             gTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGaa                                                                        <  1:1483521/140‑1 (MQ=255)
                                                                                ggACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGcgccgc                                                     >  2:643708/1‑140 (MQ=255)
                                                                                   cgcgCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCttt                                                  >  1:832960/1‑140 (MQ=255)
                                                                                     cgcCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTtct                                                >  1:1428816/1‑140 (MQ=255)
                                                                                     cgcCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTtct                                                >  2:758862/1‑140 (MQ=255)
                                                                                     cgcCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTtct                                                >  1:372069/1‑140 (MQ=255)
                                                                                     cgcCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTtct                                                >  1:966770/1‑140 (MQ=255)
                                                                                                  tCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGCCGCCAg                                   >  2:1451778/1‑140 (MQ=255)
                                                                                                  tCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGCCGCCAg                                   >  2:913283/1‑140 (MQ=255)
                                                                                                   cGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGCCGCCAGa                                  <  2:966770/140‑1 (MQ=255)
                                                                                                                     cACGCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGCCGCCAGACGTTTCGGCATCCAGTCg                >  2:580503/1‑140 (MQ=255)
                                                                                                                        gCAGGCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGCCGCCAGACGTTTCGGCATCCAGTCGAgg             >  1:1201190/1‑140 (MQ=255)
                                                                                                                            gCCCGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGCCGCCAGACGTTTCGGCATCCAGTCGAGGAACt         >  2:655485/1‑140 (MQ=255)
                                                                                                                              ccGCGCCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGCCGCCAGACGTTTCGGCATCCAGTCGAGGAACTCa       <  2:816893/140‑1 (MQ=255)
                                                                                                                                 cgcCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGCCGCCAGACGTTTCGGCATCCAGTCGAGGAACTCACgc    >  1:1458677/1‑140 (MQ=255)
                                                                                                                                  gcCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGCCGCCAGACGTTTCGGCATCCAGTCGAGGAACTCACgca   <  2:1201190/140‑1 (MQ=255)
                                                                                                                                  gcCAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGCCGCCAGACGTTTCGGCATCCAGTCGAGGAACTCACgca   <  2:1088498/140‑1 (MQ=255)
                                                                                                                                   ccAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTTTTTTGCAGCGCCGCTTTCTCGTAAGCCGCCAGACGTTTCGGCATCCAGTCGAGGAACTCACgcag  <  2:1309953/140‑1 (MQ=255)
                                                                                                                                   ccAGCGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGCCGCCAGACGTTTCGGCATCCAGTCGAGGAACTCACgcag  <  1:643708/140‑1 (MQ=255)
                                                                                                                                       |                                                                                                                                       
TAAGCATTACGCGGGTGTAGCAGTCAGAAACGCCACCACCCACCGGGATTTCAAAGTCGAAGTTTTCATAGCCAGAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCAGACGTTTCGGCATCCAGTCGAGGAACTCACGCAG  >  NC_000913/2402450‑2402720

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A