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
A27 F74 I1 R1 23 45.7 1836232 90.6% 1663626 141.1

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)54 (1.100) 50/280 0.0 100% 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)56 (1.140) 44/280 0.1 100% 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

GCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/258049‑257908
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATTCTGA  <  NC_000913/1293039‑1292898
                                                                                                                                                                                                                                                                                            
GCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGCACATAAAACACCATCAATAAGTCGGAGTCATTACCC                                                                                                                                               >  2:32621/1‑143
  GGCAGAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGG                                                                                                                                             <  1:450452/143‑1
   GCATAACCTGAATCTGAGGCAGCACCTGGCACGACTAAGAATTGATGCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGC                                                                                                                                            >  2:408715/1‑143
       AACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAA                                                                                                                                        >  1:825357/1‑143
          CTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTGGGAGTCAATAGCCGGCACAAAAT                                                                                                                                     >  2:419738/1‑143
             AATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAA                                                                                                                                  <  1:738150/143‑1
              ATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAG                                                                                                                                 <  2:825357/143‑1
               TCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGA                                                                                                                                >  1:42979/1‑143
                     GCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCACAATCGGTGGAGCTGCATGACAAGGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACGAAATAAAGAACAATT                                                                                                                          >  1:61378/1‑143
                     GCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATT                                                                                                                          <  1:54223/143‑1
                      CAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAAGGTACAACACCATCAATAAGTTGGAGTCATTACCCGGCACAAAACAAAGAACAATTT                                                                                                                         >  2:890675/1‑143
                            CTGGCACGGCTGGGACGGAAGTCGCTGTCGTTATCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTAACTGAACATAAAACACTATCAATAAGTTGGAGTCATTACACGGCACAAAATAAAAAAAAATATTGAATT                                                                                                                   >  2:359131/1‑143
                                   GGCTGGGACGGAAGTCGCTGTCGTTCACAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACA                                                                                                            >  1:808548/1‑143
                                          ACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGTCACAAAATAAAGAACAATTTTGAAATCCTTACATTCCTGa                                                                                                     >  2:540277/1‑142
                                          ACGGAAGTCGCTGTCGTTCACAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGG                                                                                                     <  2:808548/143‑1
                                                     TGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGCCAGCTGGTGAAGTCCTTACATTCCTGGCTATTGCACAA                                                                                          >  2:885607/1‑143
                                                     TGTCGTTCACAAAAGCGGTGGAGCTGCAGGACAAAGTCATCGGGCATTAGCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAA                                                                                          <  1:237368/143‑1
                                                               AAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTC                                                                                                         <  1:702979/118‑1
                                                               AAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTC                                                                                                         >  2:702979/1‑118
                                                                     GGTGGAGCTGCATGACAAAGTAATCAGACATTATCTGAACATAAAACACTATCAATAAGTTAGAGTCATTACCCGGCACAAAATAAAGAACAATTTCGAATTCCTTACATTCCTGGCTAATGCCCCAATGAAATAAAGGCTac                                                                          >  2:705712/1‑141
                                                                     GGTGGACCTGCATGCCAAAGAAAAAAGGCATTATCTGAACATAAAACACTATCAATAAGTTAGAGTCATTACCCAGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCATGGCTATTGCACAACTGAATTTAAGGCcac                                                                          >  2:724752/1‑140
                                                                      GTGGAGCTGCATGACAAAGTCATCGGGCATTCTCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACACAATAAACAAACATTTTGAATTCCTTACACTCCTCGCCATTGCACAACTGCATTTAAGGCacca                                                                         >  2:793359/1‑139
                                                                        ggtGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCATTTTTTTGGTGTCATTACCCGGGAGAAAAGAAAGAACAAGGTTGAATTCCTTACATGCCTGGCTATTGCACAACTGAATTTAAGGCTCTATT                                                                       <  1:725665/140‑1
                                                                           GCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATT                                                                    >  1:641562/1‑143
                                                                           GCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATT                                                                    >  1:192874/1‑143
                                                                            CTGCATGACAATGTCATCGGGCATTATCTGAACATATAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTA                                                                   <  1:135406/143‑1
                                                                              GCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACC                                                                 >  1:276186/1‑143
                                                                                ATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGGATTTAAGGCTCTATTATTACCTC                                                               >  1:384531/1‑143
                                                                                 TGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGACCAATTTTGAATTCCTTACATTCCTCGCTATTGCACAACTTAATTTAAGGCACAATTATTACCTCA                                                              >  2:285455/1‑143
                                                                                  GACAAAGCCATCCGCCATTATCTGATCATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAA                                                             <  1:75330/143‑1
                                                                                    CAAAGTCATAGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTACTTACATTCCTGGCTATAGCAAAACTCAATATAAGGCCCTATTATTACCTCAACA                                                           >  2:370940/1‑143
                                                                                         TCATCGGGCATTATCTGAACATAAAACACTATCAATTATTTTGTGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCA                                                      <  1:94749/143‑1
                                                                                         TCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCA                                                      >  2:198031/1‑143
                                                                                           ATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACC                                                    >  2:511553/1‑143
                                                                                            TCGGGGATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATCAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCC                                                   <  2:633843/143‑1
                                                                                               GGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAA                                                >  1:146591/1‑143
                                                                                                  ATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGTTCTATTATTACCTCAACAACCCACCCCAATAT                                             >  2:203117/1‑143
                                                                                                   TTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACATGAACAAACCAACGCAATATA                                            >  1:247221/1‑143
                                                                                                    TATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAA                                           <  2:276186/143‑1
                                                                                                       CTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCAAACTTTCCTTGCTATTGCACAACTGAATTTCAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTT                                        >  1:770466/1‑143
                                                                                                           cCATGAAACACTGTAGATAAGTCGGAGGCATTACCCGGCACAAAAGAAAGAACAATTTTGAATTCCTTACATTCCTGGCTACTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAG                                    <  2:14684/142‑1
                                                                                                              TAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATT                                 >  1:210020/1‑143
                                                                                                                   CACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTAC                            >  1:478947/1‑143
                                                                                                                      TATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAAT                         <  2:42979/143‑1
                                                                                                                        TCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGGACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGA                       <  1:632592/143‑1
                                                                                                                        TCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCGAATATAAGTTTGAGATTACTACAATGA                       >  2:171038/1‑143
                                                                                                                           ATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTCCATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTAACATGAGCa                    >  2:829324/1‑142
                                                                                                                           ATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATCAGTTTGACATTACTACAATGACCG                    >  2:346453/1‑143
                                                                                                                            TAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTCTTACCTCAACACACCACCCCAATATAAGTTTCAAATTACTACAATGAGCGA                   >  2:831536/1‑143
                                                                                                                             AAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAA                  <  1:175118/143‑1
                                                                                                                                   GAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCGCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAGGCACTT            >  1:301372/1‑143
                                                                                                                                      TCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAAAATAAGTTTGAAATTACTACACTGAGCGACGCACTTAca         >  2:656212/1‑141
                                                                                                                                        ATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGCGATTACTACAATGAGCGACGCACTTAAAAT       >  2:376877/1‑143
                                                                                                                                             CCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATTCTGA  >  1:269841/1‑143
                                                                                                                                                                                                                                                                                            
GCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/258049‑257908
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑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 < 27 ≤ 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