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
A10 F28 I1 R1 180 66.5 2263572 99.4% 2249990 138.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,821,952 T→C G20G (GGA→GGG)  alaS ← alanine‑‑tRNA ligase/DNA‑binding transcriptional repressor

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,821,9520TC94.9% 121.9 / ‑2.3 39G20G (GGA→GGG) alaSalanine‑‑tRNA ligase/DNA‑binding transcriptional repressor
Reads supporting (aligned to +/- strand):  ref base T (1/1);  new base C (18/19);  total (19/20)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GAAGTGGTAGCGCGGGAATAATTACGCTTGTCGAGCCCAAGGAACACATCCTTGAACTGGTTCATCCCGGCGTTGGTAAACAACAAAGTTGGGTCGTTATGGGGTACCAGGGAGCTGCTGGCAACTACCTGATGTCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGCTCTTGCTCATAATTATCCTGAAATCAAGCTAACGAAATATCGCCACCAGCTCCAGCGTGTCTTAACCGCCGGGCTGGTA  >  NC_000913/2821818‑2822080
                                                                                                                                      |                                                                                                                                
gAAGTGGTAGCGCGGGAATAATTACGCTTGTCGAGCCCAAGGAACACATCCTTGAACTGGTTCATCCCGGCGTTGGTAAACAACAAAGTTGGGTCGTTATGGGGTACCAGGGAGCTGCTGGCAACTACCTGATGCCCCtt                                                                                                                             >  2:5593/1‑140 (MQ=255)
    tGGTAGCGCGGGAATAATTACGCTTGTCGAGCCCAAGGAACACATCCTTGAACTGGTTCATCCCGGCGTTGGTAAACAACAAAGTTGGGTCGTTATGGGGTACCAGGGAGCTGCTGGCAACTACCTGATGCCCCTTACTa                                                                                                                         >  1:985784/1‑140 (MQ=255)
         gcgcGGGAATAATTACGCTTGTCGAGCCCAAGGAACACATCCTTGAACTGGTTCATCCCGGCGTTGGTAAACAACAAAGTTGGGTCGTTATGGGGTACCAGGGAGCTGCTGGCAACTACCTGATGCCCCTTACTATGGaa                                                                                                                    >  1:359375/1‑140 (MQ=255)
         gcgcGGGAATAATTACGCTTGTCGAGCCCAAGGAACACATCCTTGAACTGGTTCATCCCGGCGTTGGTAAACAACAAAGTTGGGTCGTTATGGGGTACCAGGGAGCTGCTGGCAACTACCTGATGCCCCTTACTATGGaa                                                                                                                    >  1:554997/1‑140 (MQ=255)
              ggAATAATTACGCTTGTCGAGCCCAAGGAACACATCCTTGAACTGGTTCATCCCGGCGTTGGTAAACAACAAAGTTGGGTCGTTATGGGGTACCAGGGAGCTGCTGGCAACTACCTGATGCCCCTTACTATGGAAAAAGt                                                                                                               >  1:293789/1‑140 (MQ=255)
              ggAATAATTACGCTTGTCGAGCCCAAGGAACACATCCTTGAACTGGTTCATCCCGGCGTTGGTAAACAACAAAGTTGGGTCGTTATGGGGTACCAGGGAGCTGCTGGCAACTACCTGATGCCCCTTACTATGGAAAAAGt                                                                                                               >  1:869695/1‑140 (MQ=255)
                     ttACGCTTGTCGAGCCCAAGGAACACATCCTTGAACTGGTTCATCCCGGCGTTCGTAAACAACAAAGTTGGGTCGTTATGGGGTACCAGGGAGCTGCTGGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGaaa                                                                                                        <  2:985784/140‑1 (MQ=255)
                       aCGCTTGTCGAGCCCAAGGAACACATCCTTGAACTGGTTCATCCCGGCGTTGGTAAACAACAAAGTTGGGTCGTTATGGGGTACCAGGGAGCTGCTGGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACg                                                                                                      <  2:1106516/140‑1 (MQ=255)
                         gCTTGTCGAGCCCAAGGAACACATCCTTGAACTGGTTCATCCCGGCGTTGGTAAACAACAAAGTTGGGTCGTTATGGGGTACCAGGGAGCTGCTGGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGcc                                                                                                    >  1:528354/1‑140 (MQ=255)
                           ttGTCGAGCCCAAGGAACACATCCTTGAACTGGTTCATCCCGGCGTTGGTAAACAACAAAGTTGGGTCGTTATGGGGTACCAGGGAGCTGCTGGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTg                                                                                                  >  1:553451/1‑140 (MQ=255)
                              tCGAGCCCAAGGAACACATCCTTGAACTGGTTCATCCCGGCGTTGGTAAACAACAAAGTTGGGTCGTTATGGGGTACCAGGGAGCTGCTGGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACg                                                                                               <  2:869695/140‑1 (MQ=255)
                                gAGCCCAAGGAACACATCCTTGAACTGGTTCATCCCGGCGTTGGTAAACAACAAAGTTGGGTCGTTATGGGGTACCAGGGAGCTGCTGGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGa                                                                                             <  1:749295/140‑1 (MQ=255)
                                        ggAACACATCCTTGAACTGGTTCATCCCGGCGTTGGTAAACAACAAAGTTGGGTCGTTATGGGGTACCAGGGAGCTGCTGGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCg                                                                                     <  2:528354/140‑1 (MQ=255)
                                            cacaTCCTTGAACTGGTTCATCCCGGCGTTGGTAAACAACAAAGTTGGGTCGTTATGGGGTACCAGGGAGCTGCTGGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGc                                                                                 >  2:1004216/1‑140 (MQ=255)
                                                   ttGAACTGGTTCATCCCGGCGTTGGTAAACAACAAAGTTGGGTCGTTATGGGGTACCAGGGAGCTGCTGGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGCTCTTGCt                                                                          <  2:198998/140‑1 (MQ=255)
                                                   ttGAACTGGTTCATCCCGGCGTTGGTAAACAACAAAGTTGGGTCGTTATGGGGTACCAGGGAGCTGCTGGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGCTCTTGCt                                                                          <  2:293789/140‑1 (MQ=255)
                                                        cTGGTTCATCCCGGCGTTGGTAAACAACAAAGTTGGGTCGTTATGGGGTACCAGGGAGCTGCTGGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGCTCTTGCTCATaa                                                                     <  2:359375/140‑1 (MQ=255)
                                                           gTTCATCCCGGCGTTGGTAAACAACAAAGTTGGGTCGTTATGGGGTACCAGGGAGCTGCTGGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGCTCTTGCTCATAATTa                                                                  >  2:209112/1‑140 (MQ=255)
                                                                    ggCGTTGGTAAACAACAAAGTTGGGTCGTTATGGGGTACCAGGGAGCTGCTGGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGCTCTTGCTCATAATTATCCTGAAAt                                                         <  1:5593/140‑1 (MQ=255)
                                                                          ggTAAACAACAAAGTTGGGTCGTTATGGGGTACCAGGGAGCTGCTGGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGCTCTTGCTCATAATTATCCTGAAATCAAGCt                                                   >  1:1013539/1‑140 (MQ=255)
                                                                                          gggTCGTTATGGGGTACCAGGGAGCTGCTGGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGCTCTTGCTCATAATTATCCTGAAATCAAGCTAACGAAATATCGccac                                   <  2:680521/140‑1 (MQ=255)
                                                                                                ttATGGGGTACCAGGGAGCTGCTGGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGCTCTTGCTCATAATTATCCTGAAATCAAGCTAACGAAATATCGCCACCAGCTc                             >  2:572007/1‑140 (MQ=255)
                                                                                                   tGGGGTACCAGGGAGCTGCTGGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGCTCTTGCTCATAATTATCCTGAAATCAAGCTAACGAAATATCGCCACCAGCTCCAg                          <  1:1004216/140‑1 (MQ=255)
                                                                                                   tGGGGTACCAGGGAGCTGCTGGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGCTCTTGCTCATAATTATCCTGAAATCAAGCTAACGAAATATCGCCACCAGCTCCAg                          <  2:258963/140‑1 (MQ=255)
                                                                                                    ggggTACCAGGGAGCTGCTGGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGCTCTTGCTCATAATTATCCTGAAATCAAGCTAACGAAATATCGCCACCAGCTCCAGc                         <  1:209112/140‑1 (MQ=255)
                                                                                                         aCCAGGGAGCTGCTGGCAACTACCTGATGTCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGCTCTTGCTCATAATTATCCTGAAATCAAGCTAACGAAATATCGCCACCAGCTCCAGc                         <  2:334813/135‑1 (MQ=255)
                                                                                                         aCCAGGGAGCTGCTGGCAACTACCTGATGTCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGCTCTTGCTCATAATTATCCTGAAATCAAGCTAACGAAATATCGCCACCAGCTCCAGc                         >  1:334813/1‑135 (MQ=255)
                                                                                                         aCCAGGGAGCTGCTGGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGCTCTTGCTCATAATTATCCTGAAATCAAGCTAACGAAATATCGCCACCAGCTCCAGCGTGTc                    >  1:611730/1‑140 (MQ=255)
                                                                                                           cAGGGAGCTGCTGGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGCTCTTGCTCATAATTATCCTGAAATCAAGCTAACGAAATATCGCCACCAGCTCCAGCGTGTCtt                  >  1:693015/1‑140 (MQ=255)
                                                                                                             gggAGCTGCTGGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGCTCTTGCTCATAATTATCCTGAAATCAAGCTAACGAAATATCGCCACCAGCTCCAGCGTGTCTTaa                >  1:183965/1‑140 (MQ=255)
                                                                                                                  ctgctgGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGCTCTTGCTCATAATTATCCTGAAATCAAGCTAACGAAATATCGCCACCAGCTCCAGCGTGTCTTAAccgcc           >  1:335773/1‑140 (MQ=255)
                                                                                                                  ctgctgGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGCTCTTGCTCATAATTATCCTGAAATCAAGCTAACGAAATATCGCCACCAGCTCCAGCGTGTCTTAAccgcc           <  1:934884/140‑1 (MQ=255)
                                                                                                                  ctgctgGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGCTCTTGCTCATAATTATCCTGAAATCAAGCTAACGAAATATCGCCACCAGCTCCAGCGTGTCTTAAccgcc           <  1:572007/140‑1 (MQ=255)
                                                                                                                  ctgctgGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGCTCTTGCTCATAATTATCCTGAAATCAAGCTAACGAAATATCGCCACCAGCTCCAGCGTGTCTTAAccgcc           >  2:934884/1‑140 (MQ=255)
                                                                                                                  ctgctgGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGCTCTTGCTCATAATTATCCTGAAATAAAGCTAACGAAATATCGCCACCAGCTCCAGCGTGTCTTAAccgcc           <  2:133547/140‑1 (MQ=255)
                                                                                                                    gctgGCAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGCTCTTGCTCATAATTATCCTGAAATCAAGCTAACGAAATATCGCCACCAGCTCCAGCGTGTCTTAACCGCCgg         <  2:611730/140‑1 (MQ=255)
                                                                                                                         cAACTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGCTCTTGCTCATAATTATCCTGAAATCAAGCTAACGAAATATCGCCACCAGCTCCAGCGTGTCTTAACCGCCGGGCTgg    <  2:335773/140‑1 (MQ=255)
                                                                                                                         aaaCTCCCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACCCCTGACGGATCTCGGCGGTGCTCTTGCTCATAATTACCCTAAAATAAAGCAACGGAAATACCGCCACCAGCTCCGGGGTGTCTTAACCGCCGGGCTgg    <  2:553451/139‑1 (MQ=255)
                                                                                                                          aaCTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGCTCTTGCTCATAATTATCCTGAAATCAAGCTAACGAAATATCGCCACCAGCTCCAGCGTGTCTTAACCGCCGGGCTGGt   >  1:743826/1‑140 (MQ=255)
                                                                                                                           aCTACCTGATGCCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGCTCTTGCTCATAATTATCCTGAAATCAAGCTAACGAAATATCGCCACCAGCTCCAGCGTGTCTTAACCGCCGGGCTGGTa  <  2:479/140‑1 (MQ=255)
                                                                                                                                      |                                                                                                                                
GAAGTGGTAGCGCGGGAATAATTACGCTTGTCGAGCCCAAGGAACACATCCTTGAACTGGTTCATCCCGGCGTTGGTAAACAACAAAGTTGGGTCGTTATGGGGTACCAGGGAGCTGCTGGCAACTACCTGATGTCCCTTACTATGGAAAAAGTCGAGAAACGCCTGACGGATCTCAGCGGTGCTCTTGCTCATAATTATCCTGAAATCAAGCTAACGAAATATCGCCACCAGCTCCAGCGTGTCTTAACCGCCGGGCTGGTA  >  NC_000913/2821818‑2822080

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A