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
A13 F87 I0 R1 87 48.8 1893308 89.3% 1690724 142.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 710,595 G→T 100% P18T (CCT→ACT)  fur ← DNA‑binding transcriptional dual regulator Fur

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913710,5950GT100.0% 120.4 / NA 40P18T (CCT→ACT) furDNA‑binding transcriptional dual regulator Fur
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base T (25/15);  total (25/15)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGGAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCATTAGAAGAAGTGACAGAATTTGCTCTTGAGATAATGCGTATCATTATA  >  NC_000913/710455‑710729
                                                                                                                                            |                                                                                                                                      
gtcgtcAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTaa                                                                                                                                      >  1:237959/1‑143 (MQ=255)
gtcgtcAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTaa                                                                                                                                      >  2:506781/1‑143 (MQ=255)
          tGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACttt                                                                                                                            >  1:939829/1‑143 (MQ=255)
            gTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAGCGAGTAAGCGGTACTTTCa                                                                                                                          >  1:411596/1‑143 (MQ=255)
                  tACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGCAGAACTTCCAGGATTTCTGAATGCGTAAGCGGCACCTCCAGGCCac                                                                                                                    >  1:26565/1‑142 (MQ=255)
                       gttataGCGTATCCAGGCGAATTTCTTCACCCATATCGATCAGACGTTTTTATAAATCTTCCACACTGACGTGATGATTGTGCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGctttc                                                                                                               <  1:311233/141‑1 (MQ=255)
                        atatACCGTAGCCCGACCAATTTCTTCACCCATATCGATCCGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGCAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGctttct                                                                                                              <  2:945997/143‑1 (MQ=255)
                           taCCGTAGCCAGACCAATTTCTTCACCCATTTCGATCAGTCGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTa                                                                                                           <  2:456407/143‑1 (MQ=255)
                             ccGTAGCCAGACCAATTTCTTCCCCCATATCGAACAGCCGTCTGTTAAAATCGTCCACAAAAGAGTGGTGGTTGTCCGGCTCCTGAACCCCGTCCAGGATTTTTAATCTAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAgg                                                                                                         <  1:840771/143‑1 (MQ=255)
                              cGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAggg                                                                                                        <  2:534526/143‑1 (MQ=255)
                               gTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTTAGCGTTACTTTCAGGCCAGCATTCTTTAGGGc                                                                                                       >  1:396256/1‑143 (MQ=255)
                                tAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCg                                                                                                      <  1:99377/143‑1 (MQ=255)
                                   ccAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTACGCGTTACTCTCAGGCCAGCTTTCTTTAGGGCGGTa                                                                                                   >  2:888699/1‑143 (MQ=255)
                                       aCCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTGGGGCGGTATTGt                                                                                               >  1:116339/1‑143 (MQ=255)
                                       aCCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTCACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCCGGATTTTTAAGCGAGTAACCGTTACTTTCAGGACCGCTTTCTCTAGAGCGGAATTGt                                                                                               >  2:451933/1‑143 (MQ=255)
                                          aaTTTCCTCACCCATGTCGATCAGACGTTTGTATAAATCTTCCGCACTGACGGGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTAt                                                                                            <  2:136856/143‑1 (MQ=255)
                                            gttcttcACCCGTATCGATCAGACGTTTGTATAAATCTTCCGCACTGTCGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCa                                                                                          <  2:141539/142‑1 (MQ=255)
                                                   aCCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCCGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGc                                                                                   >  1:921629/1‑143 (MQ=255)
                                                     ccATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAACATCCAGGCTTTTTAAACGAGTAAGCGTTACTTTCAGGCCAACTTTCTTTAGGGCGGTATTGTTATCAGTCATGCgg                                                                                 >  2:418041/1‑143 (MQ=255)
                                                                 gACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGACCTCCCAGGCTTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGCGCGGTACTGTTATGCGTCATGCGGAATCGGTCCTgc                                                                     >  2:591421/1‑142 (MQ=255)
                                                                 gACGTTTGTATAAATCTTCCGCACTGACGAGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCGGTCATGCGGAATCTGTCCTgc                                                                     >  2:591431/1‑142 (MQ=255)
                                                                     tttGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTACGGGGAACGGTCAGGCGGGGTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGtgatg                                                                 >  2:451049/1‑139 (MQ=255)
                                                                       tGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTaa                                                               <  2:237959/143‑1 (MQ=255)
                                                                       tGTATAAATCTTCCCCACTGACGGGAGGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTaa                                                               <  2:487045/143‑1 (MQ=255)
                                                                                 ttCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAGGCGGTTCACt                                                     >  1:208368/1‑143 (MQ=255)
                                                                                 ttCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTACGCGGTTCACt                                                     >  1:301752/1‑143 (MQ=255)
                                                                                      cACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCATCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCAtt                                                >  1:845288/1‑143 (MQ=255)
                                                                                       aCTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGATTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCATTa                                               <  1:563570/143‑1 (MQ=255)
                                                                                             gTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGCATCTGTCCTGCTACTAAACGGTCAACTTCATTaaaagca                                         >  2:433775/1‑141 (MQ=255)
                                                                                             gTGATGGTTGTCCGGCTCCTGAAGAACTACCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGACATCAGGTTTTAATAGTGTTACTAAGCGGTTCACTTCATTAgaagaa                                         >  2:913738/1‑143 (MQ=255)
                                                                                               gATGGTTGTCCCGCTCCTGAATGACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGTGCGGTATCGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCATTAGAAGAAGt                                       <  2:299855/143‑1 (MQ=255)
                                                                                                  ggTTGTCCGGCTCCTGAAGAAATTACAGGAATATTAAACGAGTAAGCGTTACTTTCAGGCCAGCATTGTTTAGGGCGGTATTGTTATCAATCATGCGGAATCTGTCCTGATACTAAGCGGTTCACTTGATTAGAAGAAGAGAc                                    >  2:115214/1‑143 (MQ=255)
                                                                                                       tCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCATTAGAAGAAGTGACAGAAt                               >  1:619361/1‑143 (MQ=255)
                                                                                                        ccGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCATTAGAAGAAGTGACAGAAtt                              <  2:869371/143‑1 (MQ=255)
                                                                                                                        ttCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCATTAGAAGAAGTGACAGAATTTGCTCTTGCGATAATg              >  1:269802/1‑143 (MQ=255)
                                                                                                                        ttCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCATTAGAAGAAGTGACAGAATTTGCTCTTGAGATAATg              >  1:745339/1‑143 (MQ=255)
                                                                                                                            aGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCATTAGAAGAAGTGACAGAATTTGCTCTTGAGATAATGCGTa          >  2:284164/1‑143 (MQ=255)
                                                                                                                                tttttAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCATTAGAAGAAGTGACAGAATTTGCTCTTGAGATAATGCGTATCAt      >  1:418936/1‑143 (MQ=255)
                                                                                                                                 ttttAAACGAGTATGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGGCCTGGTACTATGCGGTTCACTTCATTAGAAGAAGTGACAGAATTTGCTCTTGAGATAATGCGTATCAtt     <  2:618119/143‑1 (MQ=255)
                                                                                                                                    tAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCATTAGAAGAAGTGACAGAATTTGCTCTTGAGATAATGCGTATCATtata  <  1:651818/143‑1 (MQ=255)
                                                                                                                                            |                                                                                                                                      
GTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGGAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCATTAGAAGAAGTGACAGAATTTGCTCTTGAGATAATGCGTATCATTATA  >  NC_000913/710455‑710729

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A