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 I2 R1 766 64.2 3232166 90.9% 2938038 104.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
JC JC NC_000913 883,665 IS1 (–) +9 bp [mdfA] [mdfA]

New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 258675NA (NA)56 (0.880) 39/208 0.4 100% noncoding (1/768 nt) IS1 repeat region
?NC_000913 883665 = 0 (0.000)intergenic (‑277/‑8) ybjG/mdfA undecaprenyl pyrophosphate phosphatase/multidrug efflux system protein
* ? NC_000913 = 8836730 (0.000)84 (1.320) 51/208 0.1 100% coding (1/1233 nt) mdfA multidrug efflux system protein
?NC_000913 = 1050545 NA (NA)noncoding (768/768 nt) IS1 repeat region

GATGTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/258539‑258675
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCGGCAACGATATGATTCAACCCGGTATGTTGGCCGTGG  >  NC_000913/883665‑883802
                                                                                                                                                                                                                                                                                   
GATGTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGA                                                                                                                                          >  1:1296874/1‑139
         CGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATG                                                                                                                                 <  2:1296874/139‑1
              CTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAA                                                                                                                            >  2:255688/1‑139
                       TTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGC                                                                                                                   <  1:169720/139‑1
                         ACGCACCA‑CCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTC                                                                                                                <  2:431701/139‑1
                                 CCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCC                                                                                                         >  2:776164/1‑139
                                    CGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGG                                                                                                      >  1:1468516/1‑139
                                        AGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTG                                                                                                  <  1:255688/139‑1
                                            GCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACG                                                                                              >  2:1554530/1‑139
                                            GCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACG                                                                                              <  1:1554530/139‑1
                                                   AGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCG                                                                                       <  2:1468516/139‑1
                                                     GAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTT                                                                                     >  1:728157/1‑139
                                                     GAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATG                                                                                                                                 >  1:507857/1‑95
                                                     GAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATG                                                                                                                                 <  2:507857/95‑1
                                                          ACAGCTGATAGAAACAGAAGCCACTGGAGCACTTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATG                                                                                                                                 >  1:1492345/1‑90
                                                          ACAGCTGATAGAAACAGAAGCCACTGGAGCACTTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATG                                                                                                                                 <  2:1492345/90‑1
                                                          ACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTT                                                                                >  1:372988/1‑139
                                                           CAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTT                                                                               >  2:209105/1‑139
                                                               TGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCT                                                                           <  1:1134044/139‑1
                                                               TGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTC                                                                                            >  1:668117/1‑122
                                                               TGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTC                                                                                            <  2:668117/122‑1
                                                                 ATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCT                                                                         <  1:209105/139‑1
                                                                        CAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCT                                                                         >  2:162046/1‑132
                                                                        CAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCT                                                                         <  1:162046/132‑1
                                                                        CAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTT                                                                               <  1:413920/126‑1
                                                                        CAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTT                                                                               >  2:413920/1‑126
                                                                                  TGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACG                                                        <  2:1057588/139‑1
                                                                                   GGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGA                                                       <  1:776164/139‑1
                                                                                         CCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCG                                                                                                                                           <  1:1516815/49‑1
                                                                                         CCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCG                                                                                                                                           >  2:1516815/1‑49
                                                                                            CAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAAC                                              <  1:917770/139‑1
                                                                                            CAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATCTTCAAC                                              <  2:372988/139‑1
                                                                                              AAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCT                                                                           >  1:1481581/1‑108
                                                                                              AAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCT                                                                           <  2:1481581/108‑1
                                                                                                    CCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCG                                      >  2:654947/1‑139
                                                                                                    CCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCT                                                                         <  1:741971/104‑1
                                                                                                    CCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCT                                                                         >  2:741971/1‑104
                                                                                                      ATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCGGC                                    <  2:1136526/139‑1
                                                                                                       TCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCGGCA                                   >  2:894826/1‑139
                                                                                                       TCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCGGCA                                   >  1:1468380/1‑139
                                                                                                               TAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCGGCAACGATATG                           >  2:1035217/1‑139
                                                                                                                 AATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCGGCAACGATATGAT                         >  2:450577/1‑139
                                                                                                                 AATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCA                                                                                           <  1:1153391/73‑1
                                                                                                                 AATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCA                                                                                           >  2:1153391/1‑73
                                                                                                                  ATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCGGCAACGAT                              <  1:304466/133‑1
                                                                                                                  ATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCGGCAACGAT                              >  2:304466/1‑133
                                                                                                                       TAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTAT                                          >  2:404437/1‑116
                                                                                                                       TAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTAT                                          <  1:404437/116‑1
                                                                                                                        AAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCGGCAACGATATGATTCAACCC                  <  1:450577/139‑1
                                                                                                                                   ATCACCGAAATTGCCTGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCG                                                                                       <  1:1144392/59‑1
                                                                                                                                   ATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCG                                                                                       >  2:1144392/1‑59
                                                                                                                                   ATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGC                                                                                                          >  1:1595610/1‑40
                                                                                                                                   ATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGC                                                                                                          <  2:1595610/40‑1
                                                                                                                                        CGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCGGCAACGATATGATTCAACCCGGTATGTTGGCCGTGG  <  2:1468380/139‑1
                                                                                                                                        CGAAATTGCATGCAAAATAAATTAGCTTCCGGTGC                                                                                                          <  2:1255132/35‑1
                                                                                                                                        CGAAATTGCATGCAAAATAAATTAGCTTCCGGTGC                                                                                                          >  1:1255132/1‑35
                                                                                                                                                                                                                                                                                   
GATGTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/258539‑258675
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCGGCAACGATATGATTCAACCCGGTATGTTGGCCGTGG  >  NC_000913/883665‑883802

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: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.

GATK/CNVnator alignment

N/A