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
A23 F184 I2 R1 13 42.0 1528396 89.7% 1370971 142.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
JC JC NC_000913 1,293,032 IS1 (–) +8 bp intergenic (‑110/‑488) hns ← / → tdk global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase

New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 1050545NA (NA)50 (1.200) 43/282 0.0 100% noncoding (768/768 nt) IS1 repeat region
?NC_000913 = 1293039 0 (0.000)intergenic (‑117/‑488) hns/tdk global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase
* ? NC_000913 1293032 =0 (0.000)52 (1.250) 41/282 0.1 100% intergenic (‑110/‑495) hns/tdk global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase
?NC_000913 = 1979270 NA (NA)noncoding (1/768 nt) IS1 repeat region

CGGTATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/1050405‑1050545
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATTCT  <  NC_000913/1293039‑1292900
                                                                                                                                                                                                                                                                                          
CGGTATAGCCTGACGCTTGGGCAGCTCCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAATGTCATCGGGCATTATCTGTACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCG                                                                                                                                            <  2:681496/143‑1
        CCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAA‑AACACTCTCAATAAGTTGGAGTCATTACCCGGCACAAAc                                                                                                                                    >  1:4631/1‑142
         CTGAATCTGAGGCAGCACCTGGGACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGGCATTACCCGGGACAAAAT                                                                                                                                   >  2:519600/1‑143
         CTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGCACATAA‑AACACTATCAATAAGTCGGAGTCATTACCCGGCACAAAAc                                                                                                                                   >  2:311053/1‑142
         CTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAAT                                                                                                                                   >  1:330327/1‑143
         CTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCAACAAAT                                                                                                                                   >  2:353671/1‑143
          TGAATCTGAGGCAGCACCTGGCACGGGTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAA‑ATCACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATA                                                                                                                                  >  2:726922/1‑143
            gcgCTGGGGCAGCAGCTGGAGCGGCTGGGACGGAAGCCGCTGTCGGTCTCAAAAGCGGTGGAGCTGCAGGACAAAGTCATCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAA                                                                                                                                <  2:416400/140‑1
                    GCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGCACAATg                                                                                                                        >  2:515834/1‑142
                      AGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAACATAAAGAACAATTTa                                                                                                                      >  2:431458/1‑142
                              GCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTGTCTGAACATAA‑AACATTATCAATAAGTTGGAGTCATTATCCGGCACAAAATCAAGAACAATTTTGAATTCCT                                                                                                              >  2:324336/1‑143
                              GCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT                                                                                                              >  1:10412/1‑143
                              GCACGGCTGGGACGGAAGTCGCTGTCGTGCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT                                                                                                              <  2:244261/143‑1
                               CACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTT                                                                                                             <  1:659898/143‑1
                                ACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTA                                                                                                            >  2:110017/1‑143
                                  GGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACA                                                                                                          >  1:1997/1‑143
                                         ACGCAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGG                                                                                                   <  2:511979/143‑1
                                          CGGAAGGCGCTGTCGTTCTCAAACTCGGTGGAGCTTCATGACAAAGTCATCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGC                                                                                                  <  2:238198/143‑1
                                           GGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCT                                                                                                 >  1:361061/1‑143
                                              AGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATT                                                                                              >  1:61017/1‑143
                                                    TGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAA                                                                                        >  1:320057/1‑143
                                                            TCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTT                                                                                >  1:14414/1‑143
                                                             CAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTA                                                                               >  1:690769/1‑143
                                                               AAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAACGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAG                                                                             <  2:18329/143‑1
                                                                  TCGGTGGAGCTGCATGACAAAGGCATCGGGCATTATCTGCACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCT                                                                          <  1:136663/143‑1
                                                                        GAGCTGCATGACACAGTCATCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTA                                                                    <  1:120630/143‑1
                                                                        GAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTA                                                                    <  1:536393/143‑1
                                                                         AGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAA‑AACACTATCGATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACACTTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTAT                                                                   <  2:727051/143‑1
                                                                          GCTGCATGACAAAGTCATCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGCGTGTAAGGCTCTCTTATT                                                                  >  1:465629/1‑143
                                                                                  ACAAAGTCATCGGGCATTATCTGAACATAA‑AACACTATCAATGAGTTGGAGTCATTACCCGGCACAACATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAATGCTCTATTCTTACCTCAAC                                                          >  1:749048/1‑143
                                                                                  ACAAAGTCATCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAAC                                                          >  2:476635/1‑143
                                                                                    AAAGTCATCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAA                                                        <  2:462400/143‑1
                                                                                      AGTCATCGGGCATTATCTGAACATAACACCACTA‑GATGCAGTTTGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAAC                                                      <  2:156176/143‑1
                                                                                           TCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGG                                                                                                   >  2:272079/1‑93
                                                                                           TCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGG                                                                                                   <  1:272079/93‑1
                                                                                           TCGGGCATTATCGGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCC                                                 <  2:31813/143‑1
                                                                                            CGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCC                                                >  1:661267/1‑143
                                                                                               GCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCACCAAACCACCCCAAT                                             >  2:616968/1‑143
                                                                                                 ATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAACTCCTTACATTCCTGGCTATTGCACAACTGAATTTACGGCTCTATTCTTACCTCAACACACCACCCCACTAT                                           >  2:703272/1‑143
                                                                                                  TTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAGCAAACCACCCCAATATA                                          >  1:129927/1‑143
                                                                                                     TCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGT                                       <  1:65976/143‑1
                                                                                                      CTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTT                                      >  1:93655/1‑143
                                                                                                       TGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTT                                     >  1:603866/1‑143
                                                                                                              AA‑AACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCTCAATATAAGTTTGAGATTA                              >  1:59057/1‑143
                                                                                                                     CTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAA                        <  2:190114/143‑1
                                                                                                                       ATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATG                      <  1:159549/143‑1
                                                                                                                             AAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAA                <  2:586174/143‑1
                                                                                                                               GTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGC              <  1:555672/143‑1
                                                                                                                                TTGGAGTCATTACCCGGCACAAAATGAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATGTACGGTTGCGGGGACTTCAAGCAGCGAAGCc             >  2:444506/1‑142
                                                                                                                                           ACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACAACAATGAGCGAAGCACTTAcactcct  >  1:669478/1‑136
                                                                                                                                                                                                                                                                                          
CGGTATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAA‑AACACTATCAATAAGTTGGAGTCATTACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/1050405‑1050545
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATTCT  <  NC_000913/1293039‑1292900

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ 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