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 F110 I1 R1 16 43.2 1568152 90.1% 1412904 142.7

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 257908 =NA (NA)44 (1.030) 36/284 0.2 100% 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)50 (1.170) 42/284 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

ATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/258035‑257908
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATTCT  <  NC_000913/1293039‑1292900
                                                                                                                                                                                                                                                                             
ATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCCGCAC‑AAAAAAAAG                                                                                                                               >  2:228467/1‑143
       GCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGACAC‑AAAACAAAGAACACTT                                                                                                                        >  2:500701/1‑143
       GCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCGCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGCCATTACCCGGCAC‑AAAATAAAGAACAATT                                                                                                                        <  1:738968/143‑1
        CAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCAC‑AAAATAAAGAACAATTT                                                                                                                       <  1:459438/143‑1
         AGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCAC‑AAAATAAAGAACAATTTT                                                                                                                      <  1:341000/143‑1
         AGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCAC‑AAAACAAAAAACAATATT                                                                                                                      >  2:537545/1‑143
          GCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCAC‑AAAATAAAGAACAATTTTG                                                                                                                     <  2:416309/143‑1
                       CTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATT                                                                                                        >  1:517910/1‑143
                        gGGGACGGAAGGCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTC                                                                                                       <  2:334720/142‑1
                                 AGTCGCGGTCGTTCTCAAAATGTGCGGCGCTGCATGACAAAGTGATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCAC‑AAAATAAACAACAATTTTTAATTCCTTACATTCCTGGCTATT                                                                                              <  2:576810/143‑1
                                    CGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCAC‑ACAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCA                                                                                           >  2:31292/1‑143
                                             TCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAAT                                                                                  >  2:703067/1‑143
                                                 AAAAGCGGTGGAGCGGCGTGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAA                                                                              <  2:357883/143‑1
                                                          GGAGCTGCATGACAAAGTCATCGTGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATT                                                                     <  1:154345/143‑1
                                                          GGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATT                                                                     <  2:358495/143‑1
                                                            AGCTGCATGACAAAGTCATCGGGCAGTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTAT                                                                   <  2:371208/143‑1
                                                                 ccgGACAAAGTGATCGGGCATTATCGGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCT                                                              <  1:754391/140‑1
                                                                 CATGACAAGGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCT                                                              <  1:574881/143‑1
                                                                       AAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTCCCTCAACAA                                                        >  2:691098/1‑143
                                                                       AAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCATCAA                                                        >  2:371753/1‑143
                                                                       AAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCCAAACAA                                                        >  2:220807/1‑143
                                                                           TCATCGGGCATTATCTGAACATAAAACACTATCTATGAGTTGGAGTCATCACCCGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCA                                                    <  1:25033/143‑1
                                                                           TCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCAC‑AAAATTGCGCCCAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCA                                                    <  1:180408/143‑1
                                                                              TCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCC                                                 >  1:645908/1‑143
                                                                              TCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCC                                                 <  2:358198/143‑1
                                                                                 GGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTCAATTTAAGGCTCTATTATTACCTCACCACACCACCCCcc                                              >  2:555562/1‑141
                                                                                   cagTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATA                                            <  2:131277/140‑1
                                                                                    ATTATCTGAACATAAAGCATGATCAATAAGTTGGAGTCATTACCCGGCAC‑AAAATAAATAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATAT                                           <  2:74363/143‑1
                                                                                    ATTATCTGAACATAAAACACTATCAATCAGTTTTGTTCATT‑CCCGTGACAAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATAT                                           <  2:585618/143‑1
                                                                                     TTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCAA‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATA                                          >  1:215635/1‑143
                                                                                           GAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTG                                    >  1:638536/1‑143
                                                                                            AACATAAAGCAATGTCCATAAGTTAGAGTCATTACCCGGTAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAATGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGA                                   <  2:420913/143‑1
                                                                                            AACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGA                                   <  1:777946/143‑1
                                                                                            AACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCAC‑AAAATAAAGAACAATTTTGAATTCCTGACATTCCTGGCTATTGCACAACTGAATTTAAGGCGCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGA                                   <  2:276575/143‑1
                                                                                              CATAAAAAACTAGCAATAAGTTGGAGTCAATAAACGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGA                                 <  1:670871/143‑1
                                                                                                 atatCACTATCAAAAAGTTGGAGTCATTACCCGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTA                              <  1:352919/139‑1
                                                                                                   AACACTATCAATAAGTTGGAGTCATTACCCGGCAC‑AAACTAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATATAAGGCTCTATTATTACCCAAACAAACCCCCCCCATCAAAATTTGAGATTACT                            >  2:485096/1‑143
                                                                                                         ATCAATAAGTTGGAGTCATTACCCGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATG                      <  1:537545/143‑1
                                                                                                               AAGTTGGAGTCATTACCCGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAA                >  2:33045/1‑143
                                                                                                               AAGTTGGAGTCATTACCCGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAA                <  1:485659/143‑1
                                                                                                                      gGTCATGACCCGGCAC‑AAAATAAAGAACACTTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAATGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATTAGCTAAGCACTTA         <  2:641655/142‑1
                                                                                                                          ATTACCCGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCGATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCAGTTAAAAT     >  1:658974/1‑143
                                                                                                                           TTACCCGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGCGCGAAGCACTTAAAATT    >  1:241043/1‑143
                                                                                                                             ACCCGGCAC‑AAAATCAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATTCT  <  2:451496/143‑1
                                                                                                                                                                                                                                                                             
ATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/258035‑257908
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CGGCAC‑AAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATTCT  <  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