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
A3 F44 I1 R1 27 48.3 2078744 90.6% 1883342 142.8

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 DNA‑binding transcriptional dual regulator H‑NS/thymidine/deoxyuridine kinase

New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 257908 =NA (NA)48 (0.830) 42/284 0.3 100% noncoding (768/768 nt) IS1 repeat region
?NC_000913 = 1293039 0 (0.000)intergenic (‑117/‑488) hns/tdk DNA‑binding transcriptional dual regulator H‑NS/thymidine/deoxyuridine kinase
* ? NC_000913 1293032 =0 (0.000)49 (0.850) 42/284 0.3 100% intergenic (‑110/‑495) hns/tdk DNA‑binding transcriptional dual regulator H‑NS/thymidine/deoxyuridine kinase
?NC_000913 = 1979270 NA (NA)noncoding (1/768 nt) IS1 repeat region

GGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/258047‑257908
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATTCTGA  <  NC_000913/1293039‑1292898
                                                                                                                                                                                                                                                                                          
GGCATAACCTGACTCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGG                                                                                                                                             <  1:311709/143‑1
    TAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCCCA                                                                                                                                         >  1:586807/1‑143
         gGAATCTGAGGCAGACGCTGGCGCGGCGGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATA                                                                                                                                    <  2:948102/142‑1
         TGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATA                                                                                                                                    >  1:504230/1‑143
           AATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAA                                                                                                                                  <  1:692023/143‑1
           AATCGGCGGCGGCACCCGGCACGGCTGGCACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAA                                                                                                                                  <  2:656037/143‑1
                   GCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAACTAAAGAACAATT                                                                                                                          >  2:667189/1‑143
                       CACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGA                                                                                                                      >  1:300829/1‑143
                          CTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATT                                                                                                                   >  2:868702/1‑143
                               ACGGCTGGGCCGGAGGTCGCTGTCGTTCTCAAAGTCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAACTCCTTA                                                                                                              <  2:152874/143‑1
                                        ACGGAGGGCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGG                                                                                                     <  2:807622/143‑1
                                          GGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCCTTAGCCGGCGCGCAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCT                                                                                                   >  2:455453/1‑143
                                              GTCGCTGTCGGTCTCAAAATCGGTGGATCTGCATGACACATGCATCGGGCCTTATCTGAACATAAAACAATATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTTAATTCCTTACATTCCTGGCTATTG                                                                                               <  2:247922/143‑1
                                                   TGTCCTCCTCAAAATCGGTGGAGCCGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCACTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAA                                                                                          <  2:515612/143‑1
                                                     TCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACT                                                                                        >  1:616202/1‑143
                                                       GTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGA                                                                                      >  1:438921/1‑143
                                                        TTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTACTTACATTCCTGGCAATTGCACCACTAAA                                                                                     >  2:32982/1‑143
                                                         gCTCAAAATCCGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAAT                                                                                    <  2:359565/142‑1
                                                          CTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATT                                                                                   >  1:527954/1‑143
                                                           TCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAATACACTATCAATCAGTTGGAGTCATTACCCCGCACACAATAAAGAACAAGTTTGAATTCCTTACCTTCCTGACTATTGCCCAACTGAATTT                                                                                  >  2:49207/1‑143
                                                                    GTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCATACCGTCCTGGCTATTGCACAACTGAATTTAAGGCTATA                                                                         >  2:211789/1‑143
                                                                       GAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGACAAATTTTGAATTCCTTACATTCCTGGCTATTGCCCACCTGACTTTAAGGATCTATTA                                                                      >  1:410679/1‑143
                                                                       GAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTA                                                                      <  1:858463/143‑1
                                                                         GCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATT                                                                    <  2:258717/143‑1
                                                                           TGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTAC                                                                  >  2:745848/1‑143
                                                                            gccTGACAACGTCATCGCGCATTATCTGAACATACCACCCTCTCAATCAGTTCGAGTCATTACCCGGCACCAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACC                                                                 <  1:66182/140‑1
                                                                                  CAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACA                                                           >  1:399692/1‑143
                                                                                  CAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACA                                                           >  1:879402/1‑143
                                                                                  CAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTCAAGGCTCTATTATTACCTCAACA                                                           >  2:257527/1‑143
                                                                                        cagCGGGCATTATCTGAACATAAAACACTATCAATACGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCAC                                                     <  2:851133/140‑1
                                                                                          TCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCC                                                   <  1:1036839/143‑1
                                                                                                ATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGCCACAAAATACAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGCATTCAAGGCTCTGTTATTACCTCCCCAAACCCCCCCACTAT                                             >  1:951356/1‑143
                                                                                                      TGAACATAAAACACTATGAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATATTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATAATTAGATGAACAAACCACCCAAATATAAGTaa                                       >  2:556234/1‑141
                                                                                                      TGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACAGAATATAATGCACTATTATTACCTCAACAAACCAACCAAAGATACGTTT                                       >  2:556785/1‑143
                                                                                                        AACATAAACCACTATCAATAAGTTGGCGTCATTACCCGGCACAAAATACAGAACAATTTTGAATTCCTTACATTCCTGGCTATCGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGA                                     <  1:819727/143‑1
                                                                                                         ACATAAAACACTATCGACTAGTTGGAGTCCTTTCCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACCAACCACCCCAATATAAGTTTGAG                                    <  2:1025809/143‑1
                                                                                                         ACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAG                                    <  2:438921/143‑1
                                                                                                             AAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTCGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCCCCCCAATATAAGTTTGAGATTA                                >  2:283319/1‑143
                                                                                                                      TCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGA                       <  2:527954/143‑1
                                                                                                                       CAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAACCCACCCCAATATACGTTTGACATTACTACCATGAa                      >  2:997885/1‑142
                                                                                                                         ATAAGTTGGCGTCATTACCCGCCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTAGTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCG                    <  2:785955/143‑1
                                                                                                                              TTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAGTTCCTTACATTCCTGGCTATTGCACAACTGACTTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATCAGTTTGAGATTACTACAATGAGCGAAGCA               >  2:737300/1‑143
                                                                                                                                 GAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGAGAAGCACTT            >  1:744750/1‑143
                                                                                                                                  AGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTA           >  1:925081/1‑143
                                                                                                                                        TACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATTC     <  2:812010/143‑1
                                                                                                                                         ACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATTCT    <  1:1016741/143‑1
                                                                                                                                         ACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATTCT    <  2:616202/143‑1
                                                                                                                                           CCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATTCTGA  >  2:229779/1‑143
                                                                                                                                                                                                                                                                                          
GGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/258047‑257908
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATTCTGA  <  NC_000913/1293039‑1292898

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