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
A5 F20 I1 R1 20 47.4 1967890 90.0% 1771101 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 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)53 (0.980) 46/282 0.1 100% 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)55 (1.020) 42/282 0.2 100% 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
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATT  <  NC_000913/1293039‑1292902
                                                                                                                                                                                                                                                                                      
GGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGATGAATGACAAAGTAATCGGGCATTATATGAACATAAAAAAATATCAATAAAATGAAGTAATTAACCGG                                                                                                                                         >  1:915146/1‑143
 GCATAACCTGAATCTGAGGCAGCACCAGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGC                                                                                                                                        <  1:211024/143‑1
        CTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATCAAACACTATCAATAAGTAGGAGTCATTCCCCAACACAAAAT                                                                                                                                 >  2:505475/1‑143
        CTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAAT                                                                                                                                 >  1:478600/1‑143
         TGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATA                                                                                                                                >  1:749033/1‑143
          GAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAA                                                                                                                               <  1:541273/143‑1
           AATCTGATGCAGCAGCTGGGACGGCTGGGACGGAAGCCGCTGTCGTGCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATATGTTGGAGTCATTACCCGGCACAAAATAAA                                                                                                                              <  1:795608/143‑1
           AATCGGAGGCAGCACCTGGCACGGCGGGGACGGACGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAA                                                                                                                              <  2:732886/143‑1
             gcgGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGA                                                                                                                            <  1:770361/140‑1
                GAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACA                                                                                                                         >  1:879968/1‑143
                   GCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATT                                                                                                                      >  2:559870/1‑143
                   GCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGCGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACACAATAAAGAACAATT                                                                                                                      >  1:511375/1‑143
                     AGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTT                                                                                                                    <  1:228902/143‑1
                      cCACCTGGCACGGCTGGGACGGACGTCGCTGTCGTTCTTAAGATGGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTG                                                                                                                   <  1:484443/142‑1
                        ACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCAGCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGGCATCACCCGGCACAAACTCAAAAACAAGTATGAg                                                                                                                 >  2:768479/1‑142
                          CTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATAGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGACATTACCCGGCACAAAATAAAGAACAAATTTGAATT                                                                                                               >  2:308080/1‑143
                             GCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT                                                                                                            <  1:980850/143‑1
                             GCACGGCGGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCT                                                                                                            <  2:419640/143‑1
                                    TGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTC                                                                                                     >  2:975327/1‑143
                                      ggcCGGAAGTCGCTGGCGTGCTCAATATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATCAGTTTGAGTCATTACCCGGCACATAATAAAGAACAATTTTGAATTCCTTACATTCCT                                                                                                   <  2:209810/140‑1
                                              GTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCCGAACATAAAACCCTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTG                                                                                           <  1:744129/143‑1
                                                 GCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGCACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACACACTCCTGACCAATTTTGAATTCCTTACATACCTGGCTAATACAC                                                                                        >  1:2945/1‑143
                                                  CTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACA                                                                                       <  1:102756/143‑1
                                                     TCGTTGTCAAATTCGGTGGAGCTGCAGGACAAAGTCATTGGTCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACT                                                                                    <  2:588709/143‑1
                                                       GTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGA                                                                                  <  1:548652/143‑1
                                                           TCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCATGGCTATTACACAACCGAATTT                                                                              >  2:834180/1‑143
                                                             gAAAGCGGTGGAGGTGCGGGACATAGTGATCGGGCCTTATCGGAACATAAAAGACTATCAATAAGTGGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACAGTCCTGGCTATTGCACAACTGAATTTAA                                                                            <  2:736363/142‑1
                                                             AAAATCGGTGGAGCTGCATGACAAAGGCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAA                                                                            <  1:734415/143‑1
                                                              AAATCGGTGGAGCTGCATGACAAAGTAATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAG                                                                           <  2:827832/143‑1
                                                               AATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGG                                                                          <  1:513752/143‑1
                                                                     TGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTAT                                                                    >  1:219806/1‑143
                                                                           cGCATGACAAAGTCATCGCGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTAC                                                              <  2:750651/142‑1
                                                                           TGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGCGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTAC                                                              >  1:30164/1‑143
                                                                             CATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCT                                                            <  1:881180/143‑1
                                                                             CATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCT                                                            >  2:135337/1‑143
                                                                                GACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAA                                                         >  2:448994/1‑143
                                                                                             GGCATTATCTGCACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAA                                            <  2:426065/143‑1
                                                                                             GGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTCCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAA                                            <  1:936287/143‑1
                                                                                             GGCATTATCTGAACATAAAACACTATCAAGAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAA                                            <  1:136277/143‑1
                                                                                                  TATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAA                                       >  1:194774/1‑143
                                                                                                     CTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTT                                    >  2:277555/1‑143
                                                                                                      TGAATAGAAAACACTATCTATAAGTTGGAGTCATTACCCGGCACTAAATAAAGAACATTTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTT                                   <  2:91593/143‑1
                                                                                                      TGAACATACAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCATTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCACCAAACCACTCGAATATAAGTTT                                   >  1:640183/1‑143
                                                                                                       GAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTG                                  >  1:327099/1‑143
                                                                                                         ACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGTATTTATTGCTCTTTTATTACCTCAACAAACCACCCCAATATAAGTTTGAG                                <  1:268787/143‑1
                                                                                                             AAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTA                            <  1:689670/143‑1
                                                                                                              AAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGCACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATATAAGGCTCTATTATCACCTCAACAAACCACACCAATATAAGATTGAACTTAC                           >  2:767538/1‑143
                                                                                                                ACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTA                         <  1:559870/143‑1
                                                                                                                          TAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCGATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGA               >  1:439846/1‑143
                                                                                                                           acGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAA              <  1:387852/141‑1
                                                                                                                                 GAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTGCAATGAGCGAAGCACTT        >  1:199147/1‑143
                                                                                                                                     CATCACCCGGCACAAAATAAAGAACAATTTTGCATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTCTGAGATTACTACAATGAGCGAAGCACTTAAAA    <  1:505475/143‑1
                                                                                                                                       TTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATT  >  1:321773/1‑143
                                                                                                                                                                                                                                                                                      
GGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/258047‑257908
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCTATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATT  <  NC_000913/1293039‑1292902

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