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
A40 F60 I1 R1 18 90.9 3062178 99.0% 3031556 138.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,035,631 A→G noncoding (101/1542 nt) rrsA → 16S ribosomal RNA

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,035,6310AG100.0% 29.5 / NA 16noncoding (101/1542 nt)rrsA16S ribosomal RNA
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (9/7);  total (9/7)

AACGGTAACAGGAAGAAGCTTGCTTCTTTGCTGACGAGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAGGGGTACCTTCGGGCCTCTTGCCATCGGATGTGCC  >  NC_000913/4035595‑4035764
                                    |                                                                                                                                     
aaCGGTAACAGGAAGAAGCTTGCTTCTTTGCTGACGGGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAGGGGt                                >  1:1499206/1‑140 (MQ=11)
aaCGGTAACAGGAAGAAGCTTGCTTCTTTGCTGACGGGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAGGGGt                                <  2:1144709/140‑1 (MQ=11)
 aCGGTAACAGGAAGAAGCTTGCTTCTTTGCTGACGGGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAGGGGTa                               >  2:1331183/1‑140 (MQ=14)
      aaCAGGAAGAAGCTTGCTTCTTTGCTGACGGGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAGGGGTACCTTc                          <  1:133878/140‑1 (MQ=17)
       aCAGGAAGAAGCTTGCTTCTTTGCTGACGGGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAGGGGTACCTTCg                         >  1:412576/1‑140 (MQ=17)
           gaagaaGCTTGCTTCTTTGCTGACGGGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAGGGGTACCTTCGGGcc                     >  1:1413979/1‑140 (MQ=17)
               aagCTTGCTTCTTTGCTGACGGGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAGGGGTACCTTCGGGCCTCtt                 >  2:408823/1‑140 (MQ=17)
                   ttgcttCTTTGCTGACGGGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAGGGGTACCTTCGGGCCTCTTGCCa             >  2:639428/1‑140 (MQ=17)
                    tgcttCTTTGCTGACGGGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAGGGGTACCTTCGGGCCTCTTGCCAt            <  2:836168/140‑1 (MQ=17)
                     gcttCTTTGCTGACGGGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAGGGGTACCTTCGGGCCTCTTGCCATc           >  1:1526625/1‑140 (MQ=17)
                      cttcttTGCTGACGGGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAGGGGTACCTTCGGGCCTCTTGCCATCg          >  2:1002805/1‑140 (MQ=17)
                        tcttTGCTGACGGGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAGGGGTACCTTCGGGCCTCTTGCCATCGGa        <  1:1002805/140‑1 (MQ=17)
                        tcttTGCTGACGGGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAGGGGTACCTTCGGGCCTCTTGCCATCGGa        <  2:73542/140‑1 (MQ=17)
                          tttGCTGACGGGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAGGGGTACCTTCGGGCCTCTTGCCATCGGAtg      >  2:214967/1‑140 (MQ=17)
                             gCTGACGGGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAGGGGTACCTTCGGGCCTCTTGCCATCGGATGTGc   <  2:1413979/140‑1 (MQ=17)
                              cTGACGGGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAGGGGTACCTTCGGGCCTCTTGCCATCGGATGTGcc  <  1:408823/140‑1 (MQ=17)
                                    |                                                                                                                                     
AACGGTAACAGGAAGAAGCTTGCTTCTTTGCTGACGAGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAGGGGTACCTTCGGGCCTCTTGCCATCGGATGTGCC  >  NC_000913/4035595‑4035764

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A