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
A8 F1 I2 R1 765 53.2 2691310 93.4% 2513683 103.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,330,357 +T coding (1395/1434 nt) dacB → D‑alanyl‑D‑alanine carboxypeptidase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,330,3531.T100.0% 166.8 / NA 53R464L (CGT→CTT) dacBD‑alanyl‑D‑alanine carboxypeptidase
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base T (26/27);  total (26/27)

TGCAGGGGGTATATAACCTGGCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCG‑TTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAGTCAAAAAGAAACCCCGGCACATGGCCGGGGCTTCAGATTATTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTAAACGCCTTATCC  >  NC_000913/3330224‑3330486
                                                                                                                                  |                                                                                                                                     
tGCAGGGGGTATATAACCTGGCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCG‑tttttgaaa                                                                                                                              <  1:1103213/139‑6 (MQ=255)
tGCAGGGGGTATATAACCTGGCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCG‑tttttgaaa                                                                                                                              >  2:1103213/1‑134 (MQ=255)
     ggggTATATAACCTGGCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGt                                                                                                                          <  1:1295250/139‑1 (MQ=255)
     ggggTATATAACCTGGCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGt                                                                                                                          <  2:329063/139‑1 (MQ=255)
        gTATATAACCTGGCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTg                                                                                                                       <  2:1047235/139‑1 (MQ=255)
          atataACCTGGCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGta                                                                                                                     <  1:1180409/139‑1 (MQ=255)
                 cTGGCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGt                                                                                                                      >  1:1058663/1‑131 (MQ=255)
                 cTGGCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGt                                                                                                                      <  2:1058663/131‑1 (MQ=255)
                 cTGGCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGat                                                                                                              >  1:698082/1‑139 (MQ=255)
                   ggCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGt                                                                                                                          <  1:732688/125‑1 (MQ=255)
                   ggCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGt                                                                                                                          >  2:732688/1‑125 (MQ=255)
                   ggCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGatat                                                                                                            >  2:622066/1‑139 (MQ=255)
                     cGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGT‑TTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTa                                                                                                         >  1:310483/1‑139 (MQ=255)
                       ggATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTAt                                                                                                        <  1:931084/139‑1 (MQ=255)
                         aTTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCa                                                                                                      >  1:262771/1‑139 (MQ=255)
                                     agcgagcgGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTaatc                                                                                          >  2:69183/1‑136 (MQ=255)
                                       cgagcgGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGt                                                                                                                          >  1:298923/1‑105 (MQ=255)
                                       cgagcgGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGt                                                                                                                          <  2:298923/105‑1 (MQ=255)
                                           cgGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGt                                                                                                                          >  1:211667/1‑101 (MQ=255)
                                           cgGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGt                                                                                                                          <  2:211667/101‑1 (MQ=255)
                                           cgGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGata                                                                                                             >  2:206406/1‑114 (MQ=255)
                                           cgGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGata                                                                                                             <  1:206406/114‑1 (MQ=255)
                                           cgGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATA‑TTATCAGAACAATTAATCAAAAAGa                                                                                   <  2:698082/139‑1 (MQ=255)
                                           cgGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGT‑TTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGa                                                                                   <  2:310483/139‑1 (MQ=255)
                                            gggCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGa                                                                                   <  1:622066/139‑1 (MQ=255)
                                                 aCGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAAccc                                                                              <  2:66943/139‑1 (MQ=255)
                                                       ggCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGcac                                                                        <  2:936955/139‑1 (MQ=255)
                                                         cGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACAt                                                                      >  1:705375/1‑139 (MQ=255)
                                                             tgtgCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGcc                                                                  <  1:69183/139‑1 (MQ=255)
                                                             tgtgCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTACTCTGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACGCCGGCACATGAcc                                                                  >  2:889471/1‑139 (MQ=255)
                                                              gtgCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGCCg                                                                 <  2:262771/139‑1 (MQ=255)
                                                               tgCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGCCg                                                                 <  1:709943/138‑1 (MQ=255)
                                                               tgCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGCCg                                                                 >  2:709943/1‑138 (MQ=255)
                                                                         ttCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCa                                                                                         <  2:789568/104‑1 (MQ=255)
                                                                         ttCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCa                                                                                         >  1:789568/1‑104 (MQ=255)
                                                                         ttCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGCCGGGGCTTCAGat                                                      >  2:214882/1‑139 (MQ=255)
                                                                              gCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGcac                                                                        >  2:385832/1‑116 (MQ=255)
                                                                              gCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGcac                                                                        <  1:385832/116‑1 (MQ=255)
                                                                              gCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGCCGGGGCTTCAGATTATTg                                                 >  2:1087876/1‑139 (MQ=255)
                                                                              gCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCG‑tttttgaaa                                                                                                                              <  1:162600/61‑6 (MQ=255)
                                                                              gCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCG‑tttttgaaa                                                                                                                              >  2:162600/1‑56 (MQ=255)
                                                                                    cAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGt                                                                                                                          <  1:308278/60‑1 (MQ=255)
                                                                                    cAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGt                                                                                                                          >  2:308278/1‑60 (MQ=255)
                                                                                     aGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGCCGGGGCTTCAGATTATTGACAAAGt                                          <  1:1087876/139‑1 (MQ=255)
                                                                                            ccTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGCCGGGGCTTCAGATTATTGACAAAGTGCGCttt                                   >  1:549295/1‑139 (MQ=255)
                                                                                               gCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCg                                                                                                                                        >  1:284699/1‑35 (MQ=255)
                                                                                               gCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCg                                                                                                                                        <  2:284699/35‑1 (MQ=255)
                                                                                               gCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTAt                                                                                                        <  2:100597/67‑1 (MQ=255)
                                                                                               gCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTAt                                                                                                        >  1:100597/1‑67 (MQ=255)
                                                                                               gCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAg                                                                                                     >  1:399217/1‑70 (MQ=255)
                                                                                               gCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAg                                                                                                     <  2:399217/70‑1 (MQ=255)
                                                                                               gCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGCCGGGGCTTCAGATTATTGACaa                                             <  2:412658/126‑1 (MQ=255)
                                                                                               gCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGCCGGGGCTTCAGATTATTGACaa                                             >  1:412658/1‑126 (MQ=255)
                                                                                                   aTCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTAt                                                                                                        <  1:1232148/63‑1 (MQ=255)
                                                                                                   aTCAGCGTAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTAt                                                                                                        >  2:1232148/1‑63 (MQ=255)
                                                                                                          tAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGCCGGGGCTTCAGa                                                       <  2:7227/105‑1 (MQ=255)
                                                                                                          tAATCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGCCGGGGCTTCAGa                                                       >  1:7227/1‑105 (MQ=255)
                                                                                                             tCGCCGTATTCCGTTAGTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGCCGGGGCTTCAGATTATTGACAAAGTGCGCTTTGTTTATGCCGGATgcgg                  >  2:63650/1‑139 (MQ=255)
                                                                                                                             gTGCGTTTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAATCAAAAAGAAACCCCGGCACATGGCCGGGGCTTCAGATTATTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTAAACGCCTTATcc  >  1:446554/1‑139 (MQ=255)
                                                                                                                                  |                                                                                                                                     
TGCAGGGGGTATATAACCTGGCGGGATTCATTACCACAGCGAGCGGGCAACGAATGGCGTTTGTGCAATATCTTTCTGGCTATGCAGTAGAACCTGCGGATCAGCGTAATCGCCGTATTCCGTTAGTGCG‑TTTTGAAAGCCGTTTGTATAAAGATATTTATCAGAACAATTAGTCAAAAAGAAACCCCGGCACATGGCCGGGGCTTCAGATTATTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTAAACGCCTTATCC  >  NC_000913/3330224‑3330486

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A