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 F1 I2 R1 92 50.6 2362856 94.3% 2228173 111.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,447,579 G→A A63A (GCC→GCT)  rplX ← 50S ribosomal subunit protein L24

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,447,5790GA100.0% 188.7 / NA 54A63A (GCC→GCT) rplX50S ribosomal subunit protein L24
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (27/27);  total (27/27)

CTCCAAATTACTTGATAGTTTCGCTGTTAGACTTGAAGAAACGGACTTTTTTACCGTCTTCGAATCTAAAGCCTACACGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCGGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGTTTCTTAACCAGGTTGATACCTTCAACAATGACCTTGCCGGAAGACAGGACATTCTTAACTTTACCGCGTT  >  NC_000913/3447446‑3447706
                                                                                                                                     |                                                                                                                               
ctCCAAATTACTTGATAGTTTCGCTGTTAGACTTGAAGAAACGGACTTTTTTACCGTCTTCGAATCTAAAGCCTACACGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGcttc                                                                                                                            >  1:1164895/1‑139 (MQ=255)
     aaTTACTTGATAGTTTCGCTGTTAGACTTGAAGAAACGGACTTTTTTACCGTCTTCGAATCTAAAGCCTACACGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCttttt                                                                                                                       >  2:241285/1‑139 (MQ=255)
     aaTTACTTGATAGTTTCGCTGTTAGACTTGAAGAAACGGACTTTTTTACCGTCTTCGAATCTAAAGCCTACACGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCttt                                                                                                                         >  1:681498/1‑137 (MQ=255)
     aaTTACTTGATAGTTTCGCTGTTAGACTTGAAGAAACGGACTTTTTTACCGTCTTCGAATCTAAAGCCTACACGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCttt                                                                                                                         <  2:681498/137‑1 (MQ=255)
                 gTTTCGCTGTTAGACTTGAAGAAACGGACTTTTTTACCGTCTTCGAATCTAAAGCCTACACGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCAc                                                                                                           <  1:777220/139‑1 (MQ=255)
                  tttCGCTGTTAGACTTGAAGAAACGGACTTTTTTACCGTCTTCGAATCTAAAGCCTACACGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCAcc                                                                                                          >  1:1010675/1‑139 (MQ=255)
                    tCGCTGTTAGACTTGAAGAAACGGACTTTTTTACCGTCTTCGAATCTAAAGCCTACACGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCg                                                                                                        >  1:954734/1‑139 (MQ=255)
                    tCGCTGTTAGACTTGAAGAAACGGACTTTTTTACCGTCTTCGAATCTAAAGCCTACACGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCg                                                                                                        >  1:394354/1‑139 (MQ=255)
                                  gaagaaACGGACTTTTTTACCGTCTTCGAATCTAAAGCCTACACGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCAc                                                                                                           <  1:657335/122‑1 (MQ=255)
                                  gaagaaACGGACTTTTTTACCGTCTTCGAATCTAAAGCCTACACGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCAc                                                                                                           >  2:657335/1‑122 (MQ=255)
                                  gaagaaACGGACTTTTTTACCGTCTTCGAATCTAAAGCCTACACGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGcc                                                                                          >  2:305262/1‑139 (MQ=255)
                                    agaaACGGACTTTTTTACCGTCTTCGAATCTAAAGCCTACACGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCgg                                                                                        >  1:69278/1‑139 (MQ=255)
                                            aCTTTTTTACCGTCTTCGAATCTAAAGCCTACACGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCt                                                                                <  2:1164895/139‑1 (MQ=255)
                                                        tCTTCGAATCTAAAGCCTACACGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTTGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCggt                                                                                                      <  2:637544/105‑1 (MQ=255)
                                                        tCTTCGAATCTAAAGCCTACACGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCggt                                                                                                      >  1:637544/1‑105 (MQ=255)
                                                          ttCGAATCTAAAGCCTACACGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGTTTc                                                                     >  2:194185/1‑136 (MQ=255)
                                                          ttCGAATCTAAAGCCTACACGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGTTTc                                                                     <  1:194185/136‑1 (MQ=255)
                                                            cGAATCTAAAGCCTACACGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGTTTCTTAAc                                                                <  2:394354/139‑1 (MQ=255)
                                                                   aaaGCCTACACGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGTTTCTTAACCAGGTTg                                                         <  2:1010675/139‑1 (MQ=255)
                                                                   aaaGCCTACACGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGTTTCTTAACCAGGTTg                                                         <  2:417670/139‑1 (MQ=255)
                                                                   aaaGCCTACACGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGTTTCTTAACCAGGTTg                                                         <  2:69278/139‑1 (MQ=255)
                                                                     aGCCTACACGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGTTTCTTAACCAGGTTGAt                                                       <  2:672080/139‑1 (MQ=255)
                                                                           cacGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGc                                                                                 <  1:619279/107‑1 (MQ=255)
                                                                           cacGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGc                                                                                 >  2:619279/1‑107 (MQ=255)
                                                                           cacGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGTTTCTTAACCAGGTTGATACCTTc                                                 >  1:637046/1‑139 (MQ=255)
                                                                            acGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGTTTCTTAACCAGGTTGATACCTTca                                                >  2:379059/1‑139 (MQ=255)
                                                                                tCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAAcc                                                                                    >  2:505995/1‑99 (MQ=255)
                                                                                tCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAAcc                                                                                    <  1:505995/99‑1 (MQ=255)
                                                                                 cAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGa                                                                                                                 >  2:528357/1‑69 (MQ=255)
                                                                                 cAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGa                                                                                                                 <  1:528357/69‑1 (MQ=255)
                                                                                  aGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGc                                                                                 <  1:1087129/100‑1 (MQ=255)
                                                                                  aGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGc                                                                                 >  2:1087129/1‑100 (MQ=255)
                                                                                      ttGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGTTTCTTAACCAGGTTGATACCTTCAACAATGACCt                                      <  2:212073/139‑1 (MQ=255)
                                                                                        gCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGTTTCTTAACCAGGTTGATACCTTCAACAATGACCTTg                                    <  1:241285/139‑1 (MQ=255)
                                                                                              tGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGTTTCTTAACCAGGTTg                                                         <  2:591312/112‑1 (MQ=255)
                                                                                              tGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGTTTCTTAACCAGGTTg                                                         >  1:591312/1‑112 (MQ=255)
                                                                                                               cTACGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGTTTCTTAACCAGGTTGATACCTTCAACAATGACCTTGCCGGAAGACAGGACATTCTTAAc             >  1:927000/1‑139 (MQ=255)
                                                                                                                  cGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGa                                                                           >  2:331843/1‑74 (MQ=255)
                                                                                                                  cGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGa                                                                           <  1:331843/74‑1 (MQ=255)
                                                                                                                  cGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGttt                                                                      <  1:680510/79‑1 (MQ=255)
                                                                                                                  cGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGttt                                                                      >  2:680510/1‑79 (MQ=255)
                                                                                                                  cGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGTTTCTTAACCAGGTTg                                                         <  2:1123851/92‑1 (MQ=255)
                                                                                                                  cGTTGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGTTTCTTAACCAGGTTg                                                         >  1:1123851/1‑92 (MQ=255)
                                                                                                                     tGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGTTTCTTAAc                                                                <  1:675394/82‑1 (MQ=255)
                                                                                                                     tGGAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGTTTCTTAAc                                                                >  2:675394/1‑82 (MQ=255)
                                                                                                                       gAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACGCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGTTTCTTAACCAGGTTGATACCTTCAACAATGACCTTGCCGGAAGACAGGACATTCTTAACTTTACcgc     >  1:501384/1‑139 (MQ=255)
                                                                                                                       gAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCggt                                                                                                      <  1:197321/42‑1 (MQ=255)
                                                                                                                       gAAACCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCggt                                                                                                      >  2:197321/1‑42 (MQ=255)
                                                                                                                         aaCCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGTTTCTTAACCAGGTTGATACCTTCAACAATGACCTTGCCGGAAGACAGGACATTCTTAACTTTACCGCGt   <  2:572830/139‑1 (MQ=255)
                                                                                                                          aCCTGAATAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGTTTCTTAACCAGGTTGATACCTTCAACAATGACCTTGCCGGAAGACAGGACATTCTTAACTTTACCGCGtt  <  1:305262/139‑1 (MQ=255)
                                                                                                                               aaTAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGTTTCTTAACCAGGTTGATACCTTCAACAATGACCTTGCCGGAAGACAGGACATTCTTAACTTTACCGCGtt  <  2:460040/134‑1 (MQ=255)
                                                                                                                               aaTAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGTTTCTTAACCAGGTTGATACCTTCAACAATGACCTTGCCGGAAGACAGGACATTCTTAACTTTACCGCGtt  >  1:460040/1‑134 (MQ=255)
                                                                                                                                 tAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGttt                                                                      <  2:461423/64‑1 (MQ=255)
                                                                                                                                 tAGCAGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGttt                                                                      >  1:461423/1‑64 (MQ=255)
                                                                                                                                     |                                                                                                                               
CTCCAAATTACTTGATAGTTTCGCTGTTAGACTTGAAGAAACGGACTTTTTTACCGTCTTCGAATCTAAAGCCTACACGGTCAGCCTTGCCGGTTGCCGCATTGAAGATTGCTACGTTGGAAACCTGAATAGCGGCTTCTTTTTCAACGATGCCACCCGGTTGGTTCAGGGCCGGAACCGGCTTCTGATGTTTCTTAACCAGGTTGATACCTTCAACAATGACCTTGCCGGAAGACAGGACATTCTTAACTTTACCGCGTT  >  NC_000913/3447446‑3447706

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