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
A1 F113 I2 R1 19 51.3 1830242 91.7% 1678331 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 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)51 (1.000) 43/284 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)54 (1.060) 48/284 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

CGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/258048‑257908
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATTCT  <  NC_000913/1293039‑1292900
                                                                                                                                                                                                                                                                                          
CGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGCTGGAGTCATTACCCG                                                                                                                                             >  2:634716/1‑143
         CTGAATCTGAGGCAGCACCTGGCACGGCTGGGGCGGAAGTCGCTGTCGTTCTCAAAATCGGTAGAGCTGCATGACAAAGTCATAGGGCATTATCTGAACATAAAACATCATCAATAAGTCGGAGCAATTACACGGCACAAAca                                                                                                                                    >  2:288870/1‑141
         CTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCACTACCCGCCACACAAg                                                                                                                                    >  2:168667/1‑142
         CTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGGCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAAT                                                                                                                                    >  2:110883/1‑143
            cATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAA                                                                                                                                 <  2:74701/142‑1
              TCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGGTGGAGTCATTACCCGGCAGAAAATAAAGA                                                                                                                               >  2:565932/1‑143
               CTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAA                                                                                                                              >  2:259347/1‑143
                TGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACAATATCAATAAGTGGGACTCATTAACCGGCACAAAATAAAGAAC                                                                                                                             >  2:351571/1‑143
                     CAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTT                                                                                                                        <  2:662561/143‑1
                      AGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTT                                                                                                                       >  2:441491/1‑143
                                ACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGGTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TA                                                                                                            <  1:873539/143‑1
                                  GGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGACATTACCCGGCACAAAATAAAGAACAATTTTGAATTACT‑TACA                                                                                                          >  2:770745/1‑143
                                        ggCGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAGACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTG                                                                                                    <  2:108672/141‑1
                                        GACGGGAGGCGCGGTCGTTCTTAAAGTCGGTGGAGCTGCATGACAAAGTCATCGGGCATTAGCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTG                                                                                                    <  2:465005/143‑1
                                            GAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTA                                                                                                <  1:867020/143‑1
                                               GTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTG                                                                                             <  2:746607/143‑1
                                                TCGCTTTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGC                                                                                            >  1:912439/1‑143
                                                    TGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGACTATTGCACAA                                                                                        >  2:695917/1‑143
                                                      TCGTTCTCAAAATCGGGGGAGCTGCATGACACAGCCATCGGGCATTATCTGAACCTAAAACACTATCAATAAGCTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACT                                                                                      <  1:464019/143‑1
                                                      TCGTTCTCAAAACTGGTCGAGCTGCATGACAAAGTCATCGGGCATTAGCTGAACATAAATCACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACT                                                                                      <  2:450694/143‑1
                                                          TCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCACTAAGTTGGAATCATTCCCCAGCACAAAATCAAGAACAATTTTGAATTCCT‑TCCATTCCTGGCTATTGCACAcatgact                                                                                  >  1:294399/1‑136
                                                           CTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACTGAATT                                                                                 <  1:181012/143‑1
                                                                      TGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTAT                                                                      <  1:259347/143‑1
                                                                         AGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAAGAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTAT                                                                   >  1:696542/1‑143
                                                                            TGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTAC                                                                <  1:775503/143‑1
                                                                                    AAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATCACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAA                                                        >  2:331215/1‑143
                                                                                      AGTCATCGGGCATCATCTGAACATAAAACACTATCAGTAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAAGTTTGAATTCCG‑TACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAAC                                                      <  2:231054/143‑1
                                                                                       GTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACCTTACTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACC                                                     >  1:864524/1‑143
                                                                                         CATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAACTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACTGAATTTAAGGCCCTATTCTTAACTCAACAGACCAC                                                   >  2:753368/1‑143
                                                                                            CGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTAATAGACCTT‑ATATTGAGTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCC                                                >  1:906132/1‑143
                                                                                              GGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAA                                              >  1:113893/1‑143
                                                                                                       TGAACATAAATCACTATCAATAAGTTGGAGTCAGTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATAGAAGTTT                                     <  2:548294/143‑1
                                                                                                       TGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTT                                     >  1:602888/1‑143
                                                                                                         AACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGA                                   <  1:94330/143‑1
                                                                                                         AACATAAAAACTTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTAGTAGTACCTCAACAAACCACCCCAATATAAGTTTGA                                   <  2:294399/143‑1
                                                                                                          ACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAG                                  <  1:608517/143‑1
                                                                                                            ATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTAGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCACAAACTAAGTTGGATAT                                >  2:311065/1‑143
                                                                                                             TAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATT                               >  1:465709/1‑143
                                                                                                              AAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTA                              <  2:69315/143‑1
                                                                                                              AAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACACCAATATAAGTTTGAGATTA                              >  1:159342/1‑143
                                                                                                                AACACTATCAATAAGTTGGAGTCATCACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACT                            <  2:263059/143‑1
                                                                                                                   ACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTCGAATTCCT‑TACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACA                         >  2:250339/1‑143
                                                                                                                     TATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGATTTTACACAACTTAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATATGTTTGAGATTACTACAAT                       >  1:342310/1‑143
                                                                                                                        ccagcAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAG                    <  1:552569/138‑1
                                                                                                                         AATCAGTTGGGGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGC                   <  2:258175/143‑1
                                                                                                                         AATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGC                   >  2:633749/1‑143
                                                                                                                         AATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGC                   <  2:120663/143‑1
                                                                                                                          ATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTCCTACAATGAGCG                  >  2:508085/1‑143
                                                                                                                          ATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCG                  >  2:578090/1‑143
                                                                                                                                       ATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAAT     <  2:610790/143‑1
                                                                                                                                          ACCCGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATTCT  <  1:619951/143‑1
                                                                                                                                                                                                                                                                                          
CGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/258048‑257908
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CGGCACAAAATAAAGAACAATTTTGAATTCCT‑TACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATTCT  <  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