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
A1 F28 I1 R1 163 52.9 1786516 99.3% 1774010 139.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,183,644 G→A intergenic (‑93/+169) yqiD ← / ← ribB protein YqiD/3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,183,6440GA100.0% 148.8 / NA 43intergenic (‑93/+169)yqiD/ribBprotein YqiD/3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (26/17);  total (26/17)

AGCAATCAATACAATCCAGTACCAGGCGATAAACATCCTTTTACCCTTAATATTTAACAATACTAAACATTTAGCGTATAAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACGGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGCGGAATTAACATCTTGCATAGCAGGGAAAAATAAAAACCGAAGCCTGCTACAACTTCGGTT  >  NC_000913/3183516‑3183779
                                                                                                                                |                                                                                                                                       
agCAATCAATACAATCCAGTACCAGGCGATAAACATCCTTTTACCCTTAATATTTAACAATACTAAACATTTAGCGTATAAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATtata                                                                                                                              <  1:742202/140‑1 (MQ=255)
agCAATCAATACAATCCAGTACCAGGCGATAAACATCCTTTTACCCTTAATATTTAACAATACTAAACATTTAGCGTATAAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATtata                                                                                                                              >  2:669569/1‑140 (MQ=255)
agCAATCAATACAATCCAGTACCAGGCGATAAACATCCTTTTACCCTTAATATTTAACAATACT‑AACATTTAGCGTATAAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATTatat                                                                                                                             >  1:517473/1‑140 (MQ=255)
            aaTCCAGTACCAGGCGATAAACATCCTTTTACCCTTAATATTTAACAATACTAAACATTTAGCGTATAAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCa                                                                                                                  <  2:225166/140‑1 (MQ=255)
              tCCAGTACCAGGCGATAAACATCCTTTTACCCTTAATATTTAACAATACTAAACATTTAGCGTATAAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATa                                                                                                                >  2:450840/1‑140 (MQ=255)
              tCCAGTACCAGGCGATAAACATCCTTTTACCCTTAATATTTAACAATACTAAACATTTAGCGTATAAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATa                                                                                                                >  2:642884/1‑140 (MQ=255)
                   tACCAGGCGATAAACATCCTTTTACCCTTAATATTTAACAATACTAAACATTTAGCGTATAAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGaa                                                                                                           >  2:647883/1‑140 (MQ=255)
                      cAGGCGATAAACATCCTTTTACCCTTAATATTTAACAATACTAAACATTTAGCGTATAAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGaaaaa                                                                                                        >  1:142059/1‑140 (MQ=255)
                       aGGCGATAAACATCCTTTTACCCTTAATATTTAACAATACTAAACATTTAGCGTATAAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAg                                                                                                       <  1:450840/140‑1 (MQ=255)
                        ggCGATAAACATCCTTTTACCCTTAATATTTAACAATACTAAACATTTAGCGTATAAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGa                                                                                                      >  2:151373/1‑140 (MQ=255)
                        ggCGATAAACATCCTTTTACCCTTAATATTTAACAATACTAAACATTTAGCGTATAAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGa                                                                                                      >  1:374032/1‑140 (MQ=255)
                                   tCCTTTTACCCTTAATATTTAACAATACTAAACATTTAGCGTATAAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGatat                                                                                           <  1:823537/140‑1 (MQ=255)
                                   tCCTTTTACCCTTAATATTTAACAATACTAAACATTTAGCGTATAAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGatat                                                                                           >  2:706878/1‑140 (MQ=255)
                                               tAATATTTAACAATACTAAACATTTAGCGTATAAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAAtttt                                                                               >  2:171457/1‑140 (MQ=255)
                                                              cTAAACATTTAGCGTATAAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGaa                                                                <  1:428142/140‑1 (MQ=255)
                                                                   cATTTAGCGTATAAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATG‑AAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGCGGaa                                                          >  2:670003/1‑140 (MQ=255)
                                                                      ttAGCGTATAAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGCGGAAtt                                                        <  2:374032/140‑1 (MQ=255)
                                                                       tAGCGTATAAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGCGGAATTa                                                       <  1:647883/140‑1 (MQ=255)
                                                                       tAGCGTATAAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGCGGAATTa                                                       >  2:517824/1‑140 (MQ=255)
                                                                       tAGCGTATAAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGCGGAATTa                                                       <  2:768318/140‑1 (MQ=255)
                                                                        aGCGTATAAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGc                                                              <  1:685325/132‑1 (MQ=255)
                                                                        aGCGTATAAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGc                                                              >  2:685325/1‑132 (MQ=255)
                                                                        aGCGTATAAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGCGGAATTaa                                                      >  1:205898/1‑140 (MQ=255)
                                                                         gCGTATAAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGCGGAATTAAc                                                     <  1:625403/140‑1 (MQ=255)
                                                                          cGTATAAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGCGGAATTAACa                                                    >  2:191650/1‑140 (MQ=255)
                                                                            tataAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGTGAAGCGGAATTAACATc                                                  <  1:706878/140‑1 (MQ=255)
                                                                            tataAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGCGGAATTAACATc                                                  <  1:151373/140‑1 (MQ=255)
                                                                                      acaTATCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGCGGAATTAACATCTTGCATAGCa                                        >  2:189171/1‑140 (MQ=255)
                                                                                           tCCTTTTTCGGATATATTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGCGGAATTAACATCTTGCATAGCAGGGaa                                   >  1:882529/1‑140 (MQ=255)
                                                                                                     gATATATTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGCGGAATTAACATCTTGCATAGCAGGGAAAAATAAAAAc                         >  2:787682/1‑140 (MQ=255)
                                                                                                       tatatTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGCGGAATTAACATCTTGCATAGCAGGGAAAAATAAAAACCg                       <  2:142059/140‑1 (MQ=255)
                                                                                                       tatatTCATATGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGCGGAATTAACATCTTGCATAGCAGGGAAAAATAAAAACCg                       >  2:631775/1‑140 (MQ=255)
                                                                                                          tgcgatatGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGCGGAATTAACATCTTGCATAGCAGGGAAAAATAAAAACCGAAg                    <  1:651931/136‑1 (MQ=255)
                                                                                                                atGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGCGGAATTAACATCTTGCATAGCAGGGAAAAATAAAAACCGAAg                    >  1:88541/1‑134 (MQ=255)
                                                                                                                atGGTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGCGGAATTAACATCTTGCATAGCAGGGAAAAATAAAAACCGAAg                    <  2:88541/134‑1 (MQ=255)
                                                                                                                   gTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGCGGAATTAACATCTTGCATAGCAGGGAAAAATAAAAACCGAAGCCTGCTACa           >  1:607047/1‑140 (MQ=255)
                                                                                                                   gTCGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGCGGAATTAACATCTTGCATAGCAGGGAAAAATAAAAACCGAAGCCTGCTACa           >  2:716139/1‑140 (MQ=255)
                                                                                                                     cGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGCGGAATTAACATCTTGCATAGCAGGGAAAAATAAAAACCGAAGCCTGCTACAAc         >  2:64789/1‑140 (MQ=255)
                                                                                                                     cGCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGCGGAATTAACATCTTGCATAGCAGGGAAAAATAAAAACCGAAGCCTGCTACAAc         >  2:834353/1‑140 (MQ=255)
                                                                                                                      gCATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGCGGAATTAACATCTTGCATAGCAGGGAAAAATAAAAACCGAAGCCTGCTACAACt        <  1:171457/140‑1 (MQ=255)
                                                                                                                       cATAATAACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGCGGAATTAACATCTTGCATAGCAGGGAAAAATAAAAACCGAAGCCTGCTACAACtt       >  1:48929/1‑140 (MQ=255)
                                                                                                                        ataataACAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGCGGAATTAACATCTTGCATAGCAGGGAAAAATAAAAACCGAAGCCTGCTACAACTTc      >  1:295639/1‑140 (MQ=255)
                                                                                                                            taaCAGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGCGGAATTAACATCTTGCATAGCAGGGAAAAATAAAAACCGAAGCCTGCTACAACTTCGGtt  <  2:882529/140‑1 (MQ=255)
                                                                                                                                |                                                                                                                                       
AGCAATCAATACAATCCAGTACCAGGCGATAAACATCCTTTTACCCTTAATATTTAACAATACTAAACATTTAGCGTATAAATTTCACATATCCTTTTTCGGATATATTCATATGGTCGCATAATAACGGAACAATTATATGATTTTGATCATAATGAAAAAGAATGCCTGATATTAATGAAATTTTCTCATAGAAAGAGAAGCGGAATTAACATCTTGCATAGCAGGGAAAAATAAAAACCGAAGCCTGCTACAACTTCGGTT  >  NC_000913/3183516‑3183779

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