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
A7 F1 I1 R1 776 60.0 3074904 90.1% 2770488 104.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,475,562 (G)6→7 coding (126/1815 nt) yjgL → SopA‑central‑domain‑like hexapeptide repeat protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,475,5561.G100.0% 146.4 / NA 42A40A (GCC→GCG) yjgLSopA‑central‑domain‑like hexapeptide repeat protein
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base G (24/18);  total (24/18)

TCAAGGAGTTCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑GGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGTAGAAATATGATGGCTCA  >  NC_000913/4475423‑4475687
                                                                                                                                      |                                                                                                                                   
tCAAGGAGTTCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑ggggg                                                                                                                                <  1:74253/139‑1 (MQ=255)
  aaGGAGTTCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑ggggggg                                                                                                                              >  2:1410892/1‑138 (MQ=255)
      aGTTCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑gggggggcagg                                                                                                                          <  1:1410892/139‑6 (MQ=255)
       cttCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGa                                                                                                                          <  2:750498/138‑1 (MQ=255)
        ttCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑ggggggg                                                                                                                              <  2:1276844/133‑2 (MQ=255)
        ttCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑ggggggg                                                                                                                              >  1:1276844/1‑132 (MQ=255)
         tCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑gggggggc                                                                                                                             <  2:323030/133‑3 (MQ=255)
         tCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑gggggggc                                                                                                                             >  1:323030/1‑131 (MQ=255)
          cGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATaa                                                                                                                       >  2:1221729/1‑139 (MQ=255)
                           cAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATAttcttt                                                                                                      >  1:635635/1‑139 (MQ=255)
                           cAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑ggggg                                                                                                                                <  1:698648/112‑1 (MQ=255)
                           cAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑ggggg                                                                                                                                >  2:698648/1‑112 (MQ=255)
                                        ttCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCAtt                                                                                         >  2:711309/1‑139 (MQ=255)
                                        ttCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑gggggggcag                                                                                                                           >  1:1275294/1‑100 (MQ=255)
                                        ttCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑gggggggcag                                                                                                                           <  2:1275294/104‑5 (MQ=255)
                                             aaCACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTag                                                                                    >  2:14272/1‑139 (MQ=255)
                                             aaCACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTag                                                                                    >  1:458293/1‑139 (MQ=255)
                                               cacaTTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGa                                                                                                                   >  2:36683/1‑106 (MQ=255)
                                               cacaTTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGa                                                                                                                   <  1:36683/106‑1 (MQ=255)
                                               cacaTTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTagag                                                                                  >  1:1273016/1‑139 (MQ=255)
                                                    tacattaGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGttttt                                                                             >  1:429389/1‑139 (MQ=255)
                                                        ttaGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCa                                                                         <  1:596923/139‑1 (MQ=255)
                                                        ttaGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCa                                                                         <  2:635635/139‑1 (MQ=255)
                                                           gCCGACAATTTTAAACAAAAAAGTGAAGGTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAg                                                                      >  1:418835/1‑139 (MQ=255)
                                                            ccGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGa                                                                     >  2:1418111/1‑139 (MQ=255)
                                                            ccGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑ggggggg                                                                                                                              <  1:720067/81‑2 (MQ=255)
                                                            ccGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑ggggggg                                                                                                                              >  2:720067/1‑80 (MQ=255)
                                                               aCAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGatat                                                                  <  2:429389/139‑1 (MQ=255)
                                                               aCAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGatat                                                                  <  2:458293/139‑1 (MQ=255)
                                                                cAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATAtt                                                                 >  1:224213/1‑139 (MQ=255)
                                                                cAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑ggggggg                                                                                                                              >  1:557425/1‑76 (MQ=255)
                                                                cAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑ggggggg                                                                                                                              <  2:557425/77‑2 (MQ=255)
                                                                    tttAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTAcc                                                             <  1:1418111/139‑1 (MQ=255)
                                                                                                 cTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCaaa                                     <  2:946753/134‑1 (MQ=255)
                                                                                                 cTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCaaa                                     >  1:946753/1‑134 (MQ=255)
                                                                                                   ggCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAg                                                                                                                 <  2:111977/56‑1 (MQ=255)
                                                                                                   ggCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAg                                                                                                                 >  1:111977/1‑56 (MQ=255)
                                                                                                   ggCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTg                                                                            <  1:404845/93‑1 (MQ=255)
                                                                                                   ggCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTg                                                                            >  2:404845/1‑93 (MQ=255)
                                                                                                   ggCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCaa                                                                        <  1:237177/97‑1 (MQ=255)
                                                                                                   ggCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCaa                                                                        >  2:237177/1‑97 (MQ=255)
                                                                                                    gCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCaa                             >  2:642839/1‑139 (MQ=255)
                                                                                                     cGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑ggggg                                                                                                                                <  2:1357702/38‑1 (MQ=255)
                                                                                                     cGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑ggggg                                                                                                                                >  1:1357702/1‑38 (MQ=255)
                                                                                                        gtTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGatat                                                                  >  1:638474/1‑98 (MQ=255)
                                                                                                        gtTGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGatat                                                                  <  2:638474/98‑1 (MQ=255)
                                                                                                         ttGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGaa                         <  2:382174/138‑1 (MQ=255)
                                                                                                         ttGGAATGAATGATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGaa                         >  1:382174/1‑138 (MQ=255)
                                                                                                             aatgaatgATTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCggg                    <  1:642839/139‑1 (MQ=255)
                                                                                                              atgaatgaTTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGt                   <  1:711309/139‑1 (MQ=255)
                                                                                                                 aatgaTTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAg                                                                                             <  2:1454269/62‑1 (MQ=255)
                                                                                                                 aatgaTTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAg                                                                                             >  1:1454269/1‑62 (MQ=255)
                                                                                                                  atgaTTTTGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGTAGaa               >  1:460886/1‑139 (MQ=255)
                                                                                                                       tttGCCCGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGTAGAAATatg          >  1:363915/1‑139 (MQ=255)
                                                                                                                           cccGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGTAGAAATATGATgg      >  1:1215773/1‑139 (MQ=255)
                                                                                                                            ccGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGTAGAAATATGATGGc     <  1:196980/139‑1 (MQ=255)
                                                                                                                             cGTATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGTAGAAATATGATGGCt    <  2:1215773/139‑1 (MQ=255)
                                                                                                                               tATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGTAGAAATATGATGGCTCa  >  2:85726/1‑139 (MQ=255)
                                                                                                                               tATTGCCGGGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGTAGAAATATGATGGCTCa  >  1:881290/1‑139 (MQ=255)
                                                                                                                                      |                                                                                                                                   
TCAAGGAGTTCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑GGGGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGTAGAAATATGATGGCTCA  >  NC_000913/4475423‑4475687

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A