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
A4 F1 I1 R1 765 39.6 1867486 94.4% 1762906 108.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,936,931 T→C F450L (TTC→CTC)  fucI → L‑fucose isomerase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,936,9310TC100.0% 69.2 / NA 20F450L (TTC→CTC) fucIL‑fucose isomerase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (7/13);  total (7/13)

CGCGACAGCGAAGGTAACCCGACGATGAAGCCACACTGGGAAATCTCTCAGCAAGAGGCTGACGCTTGCCTCGCCGCTACCGAATGGTGCCCGGCGATCCACGAATACTTCCGTGGCGGCGGTTACTCTTCCCGCTTCCTTACCGAAGGCGGCGTCCCGTTCACCATGACTCGTGTCAACATCATCAAAGGCCTGGGACCGGTACTGCAAATCGCGGAAGGCTGGAGCGTGGAATTGCCGAAGGATGTGCATGACATCCTCAACAA  >  NC_000913/2936796‑2937061
                                                                                                                                       |                                                                                                                                  
cgcgACAGCGAAGGTAACCCGACGATGAAGCCACACTGGGAAATCTCTCAGCAAGAGGCTGACGCTTGCCTCGCCGCTACCGAATGGTGCCCGGCGATCCACGAATACTTCCGTGGCGGTGGTTACTCTTCCCGCCTcc                                                                                                                                 <  1:620412/139‑1 (MQ=255)
cgcgACAGCGAAGGTAACCCGACGAAGAAGCCACACTGGGAAATCTCTCAGCAAGAGGCTGACGCTTGCCTCGCCGCTACCGAATGGTGCCCGGCGATCCACGAATACTTCCGTGGCGGCGGTTACTCTTCCCGCCTcc                                                                                                                                 >  2:331251/1‑139 (MQ=255)
              tAACCCGACGATGAAGCCACACTGGGAAATCTCTCAGCAAGAGGCTGACGCTTGCCTCGCCGCTACCGAATGGTGCCCGGCGATCCACGAATACTTCCGTGGCGGCGGTTACTCTTCCCGCCTCCTTACCGAAggcggc                                                                                                                   <  1:11462/139‑1 (MQ=255)
              tAACCCGACGATGAAGCCACACTGGGAAATCTCTCAGCAAGAGGCTGACGCTTGCCTCGCCGCTACCGAATGGTGCCCGGCGATCCACGAATACTTCCGTGGCGGCGGTTACTCTTCCCGCCTCCTTACCGAAggcggc                                                                                                                   <  2:82604/139‑1 (MQ=255)
                            aGCCACACTGGGAAATCTCTCAGCAAGAGGCTGACGCTTGCCTCGCCGCTACCGAATGGTGCCCGGCGATCCACGAATACTTCCGTGGCGGCGGTTACTCTTCCCGCCTCCTTACCGAAGGCGGCGTCCCGtt                                                                                                           >  1:644331/1‑133 (MQ=255)
                            aGCCACACTGGGAAATCTCTCAGCAAGAGGCTGACGCTTGCCTCGCCGCTACCGAATGGTGCCCGGCGATCCACGAATACTTCCGTGGCGGCGGTTACTCTTCCCGCCTCCTTACCGAAGGCGGCGTCCCGtt                                                                                                           <  2:644331/133‑1 (MQ=255)
                                acacTGGGAAATCTCTCAGCAAGAGGCTGACGCTTGCCTCGCCGCTACCGAATGGTGCCCGGCGATCCACGAATACTTCCGTGGCGGCGGTTACTCTTCCCGCCTCCTTACCGAAGGCGGCGTCCCGTTCACCATGACt                                                                                                 <  2:499488/139‑1 (MQ=255)
                                              ctcAGCAAGAGGCTGACGCTTGCCTCGCCGCTACCGAATGGTGCCCGGCGATCCACGAATACTTCCGTGGCGGCGGTTACTCTTCCCGCCTCCTTACCGAAGGCGGCGTCCCGTTCACCATGACTCGTGTCAAcatcat                                                                                   >  2:592108/1‑139 (MQ=255)
                                                     agagGCTGACGCTTGCCTCGCCGCTACCGAATGGTGCCCGGCGATCCACGAATACTTCCGTGGCGGCGGTTACTCTTCCCGCCTCCTTACCGAAGGCGGCGTCCCGTTCACCATGACTCGTGTCAACATCATCAAAGGc                                                                            <  2:786318/139‑1 (MQ=255)
                                                                   gCCTCGCCGCTACCGAATGGTGCCCGGCGATCCACGAATACTTCCGTGGCGGCGGTTACTCTTCCCGCCTCCTTACCGAAGGCGGCGTCCCGTTCACCATGACTCGTGTCAACATCATCAAAGGCCTGGGACCGGTACt                                                              <  1:111979/139‑1 (MQ=255)
                                                                    ccTCGCCGCTACCGAATGGTGCCCGGCGATCCACGAATACTTCCGTGGCGGCGGTTACTCTTCCCGCCTCCTTACCGAAGGCGGCGTCCCGTTCACCATGACTCGTGTCAACATCATCAAAGGCCTGGGACCGGTACTg                                                             <  1:592108/139‑1 (MQ=255)
                                                                                                 tCCACGAATACTTCCGTGGCGGCGGTTACTCTTCCCGCCTCCTTACCGAAGGCGGCGTCCCGTTCACCATGACTCGTGTc                                                                                           <  1:498097/80‑1 (MQ=255)
                                                                                                 tCCACGAATACTTCCGTGGCGGCGGTTACTCTTCCCGCCTCCTTACCGAAGGCGGCGTCCCGTTCACCATGACTCGTGTc                                                                                           >  2:498097/1‑80 (MQ=255)
                                                                                                     cGAATACTTCCGTGGCGGCGGTTAGTCTTCCCGCCTCCTTACCGAAGGCGGCGTCCCGTTCACCATGACTCGTGTCAACATCATCAAAGGTCTGGGAc                                                                     <  2:609719/98‑1 (MQ=255)
                                                                                                     cGAATACTTCCGTGGCGGCGGTTACTCTTCCCGCCTCCTTACCGAAGGCGGCGTCCCGTTCACCATGACTCGTGTCAACATCATCAAAGGCCTGGGAc                                                                     >  1:609719/1‑98 (MQ=255)
                                                                                                                    cggcggTTACTCTTCCCGCCTCCTTACCGAAGGCGGCGTCCCGTTCAGCATGACTCGTGTCAACATCATCAAAGGCCTGGGAc                                                                     >  2:900114/1‑83 (MQ=255)
                                                                                                                    cggcggTTACTCTTCCCGCCTCCTTACCGAAGGCGGCGTCCCGTTCAGCATGACTCGTGTCAACATCATCAAAGGCCTGGGAc                                                                     <  1:900114/83‑1 (MQ=255)
                                                                                                                    cggcggTTACTCTTCCCGCCTCCTTACCGAAGGCGGCGTCCCGTTCACCATGACTCGTGTCAACATCATCAAAGGCCTGGGACCGGTACTGCAAATcg                                                      >  2:284555/1‑98 (MQ=255)
                                                                                                                    cggcggTTACTCTTCCCGCCTCCTTACCGAAGGCGGCGTCCCGTTCACCATGACTCGTGTCAACATCATCAAAGGCCTGGGACCGGTACTGCAAATcg                                                      <  1:284555/98‑1 (MQ=255)
                                                                                                                               ctTCCCGCCTCCTTACCGAAGGCGGCGTCCAGTTCACCATGACTCGTGTCAACATCATCAAAGGCCCGGGAACGGTACTGCAAATCGCGGAAGGCTGGAGCGTGGAATTGCCGAAGGATGTGCATGACATCCTcaacaa  <  1:737599/139‑1 (MQ=255)
                                                                                                                                       |                                                                                                                                  
CGCGACAGCGAAGGTAACCCGACGATGAAGCCACACTGGGAAATCTCTCAGCAAGAGGCTGACGCTTGCCTCGCCGCTACCGAATGGTGCCCGGCGATCCACGAATACTTCCGTGGCGGCGGTTACTCTTCCCGCTTCCTTACCGAAGGCGGCGTCCCGTTCACCATGACTCGTGTCAACATCATCAAAGGCCTGGGACCGGTACTGCAAATCGCGGAAGGCTGGAGCGTGGAATTGCCGAAGGATGTGCATGACATCCTCAACAA  >  NC_000913/2936796‑2937061

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A