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
A0 F0 I1 R1 715 38.4 1606192 96.6% 1551581 120.0

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)42 (1.060) 34/238 0.2 100% 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)46 (1.160) 31/238 0.2 100% coding (1/1233 nt) mdfA multidrug efflux system protein
?NC_000913 = 1050545 NA (NA)noncoding (768/768 nt) IS1 repeat region

CGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/258548‑258675
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCGGCAACGATATGATTCAACCCGGTATGTT  >  NC_000913/883665‑883794
                                                                                                                                                                                                                                                                  
CGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATG                                                                                                                         <  2:676133/139‑1
     CTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAA                                                                                                                    >  2:764745/1‑139
     CTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAA                                                                                                                    >  2:612384/1‑139
             GTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAG                                                                                                            <  1:729082/139‑1
                 CGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTC                                                                                                        <  2:552894/139‑1
                      CACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTG                                                                                                   >  1:358528/1‑139
                       ACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGC                                                                                                  <  2:358528/139‑1
                        CCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCCACTCAAAAACACCATCATACATTAACTCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCC                                                                                                 >  1:753274/1‑139
                           CGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGG                                                                                              >  2:37008/1‑139
                             TCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCT                                                                                            <  2:140888/139‑1
                               AGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTG                                                                                          <  1:149555/139‑1
                                   GCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACG                                                                                      >  1:264526/1‑139
                                     TGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTC                                                                                    <  1:37008/139‑1
                                       AACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAG                                                                                  >  1:712625/1‑139
                                            GAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTT                                                                             <  2:412201/139‑1
                                              GGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTAC                                                                           <  1:612384/139‑1
                                                  CAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTT                                                                       <  1:56838/139‑1
                                                    GCTGATAGAAACAGAAGCCACTGGAGCACATCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCC                                                                     >  1:461776/1‑139
                                                      TGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCT                                                                   <  2:801071/139‑1
                                                               CAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTGCTTTTCCCTCT                                                                 <  1:465048/132‑1
                                                               CAGAAGCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCT                                                                 >  2:465048/1‑132
                                                                    GCCACTGGAGCACCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCT                                                     >  2:635101/1‑139
                                                                                CCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAACATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTC                                         >  2:476374/1‑139
                                                                                CCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGC                                                                                                  >  2:227766/1‑82
                                                                                CCTCAAAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGC                                                                                                  <  1:227766/82‑1
                                                                                     AAAACACCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTAC                                                 >  1:106062/1‑126
                                                                                     AAAACACCATCATACATTAAATCAGTAAGTTAGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTAC                                                 <  2:106062/126‑1
                                                                                           CCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCG                              >  2:277331/1‑139
                                                                                           CCATCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCCGGTGCTTTACGAATTTTCAACCTATATCG                              >  1:4231/1‑139
                                                                                              TCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCGGCA                           >  2:193290/1‑139
                                                                                              TCATACATTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCGGCA                           <  1:277331/139‑1
                                                                                                    atTAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCGGCAACGATA                     <  2:438428/137‑1
                                                                                                      TAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGG                                                                                 >  1:585586/1‑77
                                                                                                      TAAATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGG                                                                                 <  2:585586/77‑1
                                                                                                        AATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCT                                                                   <  2:25043/89‑1
                                                                                                        AATCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCT                                                                   >  1:25043/1‑89
                                                                                                          TCAGTAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCGGCAACGATATGAATC               <  2:96984/139‑1
                                                                                                              TAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCT                                                                                            <  1:18924/58‑1
                                                                                                              TAAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCT                                                                                            >  2:18924/1‑58
                                                                                                               AAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGGATTTTCAACCTATATCGGCAACGATATGATTCAACCC          <  2:749037/139‑1
                                                                                                               AAGTTGGCAGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCGGCAACGATATGATTCAACCC          <  1:726997/139‑1
                                                                                                                       AGCATCACCGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCGGCAACGATATGATTCAACCCGGTATGTT  >  1:529850/1‑139
                                                                                                                                                                                                                                                                  
CGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/258548‑258675
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCGGCAACGATATGATTCAACCCGGTATGTT  >  NC_000913/883665‑883794

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ 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