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
A2 F1 I2 R1 764 42.0 2018750 95.5% 1927906 109.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,250,629 (C)5→6 coding (210/1071 nt) dhaK ← dihydroxyacetone kinase, PTS‑dependent, dihydroxyacetone‑binding subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,250,6241.C100.0% 164.6 / NA 46A72G (GCC→GGC) dhaKdihydroxyacetone kinase, PTS‑dependent, dihydroxyacetone‑binding subunit
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base C (20/26);  total (20/26)

TCGCTGTTTCAAAGTTAAGAATATCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGG‑CCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGCTCGGGTGACATACACCGGATCCTGATGCAGTGTCA  >  NC_000913/1250490‑1250762
                                                                                                                                       |                                                                                                                                          
tCGCTGTTTCAAAGTTAAGAATATCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGG‑cccc                                                                                                                                        >  2:215468/1‑139 (MQ=255)
                aaGAATATCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTg                                                                                                                         <  2:762796/139‑1 (MQ=255)
                 aGAATATCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGa                                                                                                                        <  2:450992/139‑1 (MQ=255)
                 aGAATATCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGa                                                                                                                        <  1:217745/139‑1 (MQ=255)
                   aaTATCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGAcc                                                                                                                      <  2:76596/139‑1 (MQ=255)
                        cGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGatat                                                                                                                 >  2:746124/1‑139 (MQ=255)
                        cGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGat                                                                                                                   <  1:567622/137‑1 (MQ=255)
                        cGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGat                                                                                                                   >  2:567622/1‑137 (MQ=255)
                        cGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGAATTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGatat                                                                                                                 >  1:591673/1‑139 (MQ=255)
                          ccGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGATATaa                                                                                                               <  2:591673/139‑1 (MQ=255)
                                             tCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCgt                                                                                            >  1:199039/1‑139 (MQ=255)
                                             tCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGG‑c                                                                                                                                           >  1:468951/1‑91 (MQ=255)
                                             tCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGG‑c                                                                                                                                           <  2:468951/91‑1 (MQ=255)
                                                       acCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTgcc                                                                                  >  1:560370/1‑139 (MQ=255)
                                                         cTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGAcc                                                                                                                      <  2:198116/101‑1 (MQ=255)
                                                         cTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGAcc                                                                                                                      >  1:198116/1‑101 (MQ=255)
                                                         cTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTgccgc                                                                                <  2:749276/139‑1 (MQ=255)
                                                         cTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTgccgc                                                                                >  2:111763/1‑139 (MQ=255)
                                                          ttCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTgccgcc                                                                               >  2:744889/1‑139 (MQ=255)
                                                           tCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGAcc                                                                                                                      <  2:224530/99‑1 (MQ=255)
                                                           tCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGAcc                                                                                                                      >  1:224530/1‑99 (MQ=255)
                                                            cgccgcCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCAc                                                                             >  2:823306/1‑139 (MQ=255)
                                                              ccgccATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCAccc                                                                           >  2:710666/1‑139 (MQ=255)
                                                                 ccATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGAcc                                                                                                                      >  1:520936/1‑93 (MQ=255)
                                                                 ccATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGAcc                                                                                                                      <  2:520936/93‑1 (MQ=255)
                                                                       aCTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAgg                                                                  <  1:746124/139‑1 (MQ=255)
                                                                             aTGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGAcc                                                                                                                      >  2:364007/1‑81 (MQ=255)
                                                                             aTGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGAcc                                                                                                                      <  1:552230/81‑1 (MQ=255)
                                                                             aTGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGAcc                                                                                                                      >  2:552230/1‑81 (MQ=255)
                                                                             aTGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGAcc                                                                                                                      <  1:364007/81‑1 (MQ=255)
                                                                                  gcATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTcc                                                       <  1:111763/139‑1 (MQ=255)
                                                                                        aaaGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAAc                                                 <  1:710666/139‑1 (MQ=255)
                                                                                               ttATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCa                                          <  1:714662/139‑1 (MQ=255)
                                                                                                tATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGc                                                                >  1:866358/1‑116 (MQ=255)
                                                                                                tATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGc                                                                <  2:866358/116‑1 (MQ=255)
                                                                                                    gggCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGc                                     >  2:809052/1‑139 (MQ=255)
                                                                                                      gCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCgtgt                                                                                          <  2:990875/84‑1 (MQ=255)
                                                                                                      gCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCgtgt                                                                                          >  1:990875/1‑84 (MQ=255)
                                                                                                       cGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCAt                                         <  2:646270/132‑1 (MQ=255)
                                                                                                       cGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCAt                                         >  1:646270/1‑132 (MQ=255)
                                                                                                        gTCGGTGAGGTGAAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGCTCgg                                 <  1:809052/139‑1 (MQ=255)
                                                                                                             tgaggtgaAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGCTCGGGTGAc                            <  1:899888/139‑1 (MQ=255)
                                                                                                              gaggtgaAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGCTCGGGTGACa                           <  1:744889/139‑1 (MQ=255)
                                                                                                                ggtgaAAATTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGCTCGGGTGACATa                         <  2:199039/139‑1 (MQ=255)
                                                                                                                    aaaaTTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCa                                                   <  2:143681/109‑1 (MQ=255)
                                                                                                                    aaaaTTTCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCa                                                   >  1:143681/1‑109 (MQ=255)
                                                                                                                         ttCGCCCGGACAGGCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGCTCGGGTGACATACACCGGATc                <  2:560370/139‑1 (MQ=255)
                                                                                                                                ggACAGGCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCa                                                                              >  2:533977/1‑70 (MQ=255)
                                                                                                                                ggACAGGCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCa                                                                              <  1:533977/70‑1 (MQ=255)
                                                                                                                                      g‑CCCCCCAAAGCATCCCCTGACCGATAAAAACACAGTGCCTCGGCCCCTGTCCCCTGCCCCCCCCCCGCCGCAGGGCGGCTTTTCCCTCAACAAGGGCATCCGCCCGGGTGACATACACCCGAACCTGATGCAgtgttc  >  1:475936/1‑137 (MQ=255)
                                                                                                                                       |                                                                                                                                          
TCGCTGTTTCAAAGTTAAGAATATCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGG‑CCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGCTCGGGTGACATACACCGGATCCTGATGCAGTGTCA  >  NC_000913/1250490‑1250762

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