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 F108 I1 R1 17 38.6 1469306 86.0% 1263603 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 257908 =NA (NA)53 (1.380) 46/284 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)44 (1.150) 36/284 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

GCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/258049‑257908
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATTCTG  <  NC_000913/1293039‑1292899
                                                                                                                                                                                                                                                                                           
gccGCAGAACCCGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCC                                                                                                                                              <  2:564167/140‑1
         CCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCCTTATCTGCACATAAAACACTATCCATAAGTTGGAGTCATTACCCGGCCCAAAA                                                                                                                                     >  1:263586/1‑143
             atTCTCAGGCAGCACCTCGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGTAGCTGCTTGACAAAGTCATCGGGCATTATCTGAACATAACACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAA                                                                                                                                 <  1:385124/141‑1
             AATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAAAATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAA                                                                                                                                 <  1:498748/143‑1
             AATCTGAGGCAGCACCCGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAATTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAA                                                                                                                                 <  2:101908/143‑1
                 TGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAAC                                                                                                                             >  1:103801/1‑143
                  GAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGCAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATGAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACA                                                                                                                            >  2:697516/1‑143
                     GCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATT                                                                                                                         <  2:43158/143‑1
                       AGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTT                                                                                                                       <  1:513068/143‑1
                       AGCACCTGACACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTT                                                                                                                       >  2:423958/1‑143
                          ACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGTTGTATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGGTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAA                                                                                                                    <  1:172047/143‑1
                          ACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGAACAAAATAAAGAACAATTTTGAA                                                                                                                    >  2:330625/1‑143
                                            GGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCAGGCACAAAATAAAGAACAACTTTGAATTCATTACCTTCCTGGCT                                                                                                  >  2:240099/1‑143
                                             tAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGCACATCAAACACTATCAATAAGTTGGAGTCATTACACGGATAAAAATAAAGAAAAATTTTGAATTCCTTACATTCCTGGCTA                                                                                                 >  1:689413/2‑143
                                              AAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGTGTCATTACCCGGCACAAAATAAAGAACAATATTGAATTACTTAAATTCCTGGCTAT                                                                                                >  1:609343/1‑143
                                              AAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTCCATTCCTGGCTAT                                                                                                >  1:721554/1‑143
                                                 TCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTCGAATTCCTTACATTACTGGCTTTTGC                                                                                             >  2:426152/1‑143
                                                   GCTGTCGTTCTCAAAATCGGTGGAGCTGAATGTCAACGATTTCGAGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCAC                                                                                           <  1:689782/143‑1
                                                     TGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGAAGTCATTACCCGGCACAAAATAAAGAACAATTTTGTATTCCTTACATTCCTGGCTATTGCAAAA                                                                                         >  2:587287/1‑143
                                                          ttggtatAATCGGTGGAGCTGCATGACAAAGCTATCGGGCATTATCTGAACATAAAACACTATCAATAAGACAGAGTTTTTTTCCCCCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAA                                                                                    <  2:151314/136‑1
                                                              CAAAATGGTTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACTCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTA                                                                                <  2:690979/143‑1
                                                               AAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAA                                                                               >  2:163425/1‑143
                                                                 aacCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATACAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGG                                                                             <  1:659445/140‑1
                                                                 AATGGGTGGAGCGGCACGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAAGAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGG                                                                             <  2:358125/143‑1
                                                                  gTCGATGGAGCTGGATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGC                                                                            <  2:263586/142‑1
                                                                       TGGAGCTGCATGACAAAGTCATCGGGCATGAGCGGAACGTAAAACGGTATCGATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCGTTACATTCCTGGCTATGGCACAACTGGGTTTTGGTCTCTAT                                                                       >  1:537911/1‑143
                                                                          AGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTAT                                                                    >  2:677579/1‑143
                                                                            CTGCAGGGCAAAGTCGTCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAATTAAAGAGCAATTTTGAATTCCTTACGTTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTA                                                                  <  2:126580/143‑1
                                                                              GCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATATAAGACTATATTATTACC                                                                >  2:732529/1‑143
                                                                               aATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTAGCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCT                                                               <  1:50724/142‑1
                                                                                ATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATATGTTGGCGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTC                                                              <  1:162179/143‑1
                                                                                ATGACAAAGTCATCCGGTATTATCTTAACATAAAACTCTATCTATTATTTGGAGTTATTACCTGGCACAAAATAAAGAACAAGTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTC                                                              <  1:624234/143‑1
                                                                                  GACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAA                                                            <  1:423958/143‑1
                                                                                   ACAAAGTCATCGGGCATTATCTGAACATATAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTTTATTATTACGTCAAC                                                           >  2:291249/1‑143
                                                                                    CAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAAGCGCTATCATTACCTCAACA                                                          >  2:340109/1‑143
                                                                                    CAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCAAAACTGAAATTAAGGCTCTATTATTACCTCAAaa                                                          >  2:498025/1‑141
                                                                                       AGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCACTATTATTACATCAACAAAC                                                       >  1:618938/1‑143
                                                                                        GTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGCACAATTTTGAATTCCTTACACTCCTACCAATTGCACAACTAAATTTAAGGCTCTATTATTACCTCAACAAACC                                                      >  1:609313/1‑143
                                                                                         TCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCA                                                     >  2:167954/1‑143
                                                                                                    TATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAACCTAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTTCACAACTAAATTTAAAAATCTATTATTACCTCAACAAACCACCCCAATATca                                          >  1:396854/1‑141
                                                                                                       CTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGct                                       >  2:327511/1‑141
                                                                                                          AACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGA                                    <  1:697516/143‑1
                                                                                                          AACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGATATATTATTACCTAAACAAACCACCCCAATATAAGTTTGA                                    >  1:67675/1‑143
                                                                                                               AAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTA                               >  1:355185/1‑143
                                                                                                                             aatTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAA                 <  2:519508/140‑1
                                                                                                                              AGTTGTAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTACTGGATAATGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAG                <  1:163425/143‑1
                                                                                                                                     GTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTTATAGCTATTGCACAACTGAATGTAAGGCTCTATTATTACTTCAACAAACAACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGaaagtaa         >  2:85686/1‑136
                                                                                                                                     GTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAA         <  1:677579/143‑1
                                                                                                                                      TCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAA        >  1:67708/1‑143
                                                                                                                                         TTACCCGGCACAAAATAAAGATCAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATT     <  1:410380/143‑1
                                                                                                                                          TACCCGGCAAAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATACGTTTGAGATTACTACACTGAGCGAAGCACTTAAAATTC    <  1:153532/143‑1
                                                                                                                                           ACCCGTCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATTCT   <  2:103801/143‑1
                                                                                                                                            CCCGGCACAAAAGAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATTCTG  <  1:498025/143‑1
                                                                                                                                                                                                                                                                                           
GCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/258049‑257908
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATTCTG  <  NC_000913/1293039‑1292899

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