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
A29 F119 I0 R1 76 56.4 2152892 90.0% 1937602 142.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
JC JC NC_000913 1,293,032 IS1 (–) +8 bp 100% 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)46 (0.850) 37/264 NT 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)54 (0.990) 49/264 NT 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

CGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/258048‑257908
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCT‑ATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATTCTGA  <  NC_000913/1293039‑1292898
                                                                                                                                                                                                                                                                                            
CGGCATAACCTGAAGCTGAGGGAGCACCTGGCACGGCCGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCG                                                                                                                                               <  1:1062497/143‑1
   CATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCA                                                                                                                                            <  1:672583/143‑1
       ACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAA                                                                                                                                        <  1:912022/143‑1
         CTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCCAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAACCACTGTCAATAGGTTGGAGTCATTACCCGGCACAAAAT                                                                                                                                      >  1:527941/1‑143
          TGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATA                                                                                                                                     >  2:964266/1‑143
                 GAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTAGGAGTCATTACCCGGCACAAAATAAAGAACA                                                                                                                              >  2:865452/1‑143
                  AGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACGAGGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAA                                                                                                                             >  1:874889/1‑143
                  AGGCAGCACCTGGCACAGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAA                                                                                                                             >  1:804391/1‑143
                     tAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGATAATGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGTACAAAATAAAGAACAATTT                                                                                                                          <  2:123539/142‑1
                     CAGCACCCGGCGCGGCTGGGACGGAAGTCGCTGTCGTTCTCAACATCGGTGGAGCTTCATGACAAAGTCATCGTGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTT                                                                                                                          <  2:243753/143‑1
                       GCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTG                                                                                                                        <  2:720068/143‑1
                         ACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCAGCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAA                                                                                                                      <  1:753316/143‑1
                           CTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATT                                                                                                                    >  1:542313/1‑143
                            tggtgCGGCTGCGACGGAAGTCCCTGTCGTTCTCAGACTCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAGCATAAAACACTATCAATAAGTTCGAGTCATTACCCTGCACAAAATAAAGAACAATTTTGAATTC                                                                                                                   <  2:1030059/138‑1
                            TGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTC                                                                                                                   >  1:363784/1‑143
                            TGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTC                                                                                                                   <  1:441774/143‑1
                               CACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTT                                                                                                                >  2:674012/1‑143
                                tCGGCTTGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGCGCTGGAGGACATAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTA                                                                                                               <  2:803841/142‑1
                                ACGGCTGGGACGGAAGCCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGGCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTA                                                                                                               <  2:868113/143‑1
                                              AGTCGCTGTCGTTCTAAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCT‑ATT                                                                                                <  1:119737/143‑1
                                                      TCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTTAACATAAAACACTATCATTATGTTGGAGTCATTACCCGGCACAAAAGAAAGAACAATTTTGAATTCCTTACATTCCTGGCT‑ATTGCACAACT                                                                                        <  1:72112/143‑1
                                                      TCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCT‑ATTGCACAACT                                                                                        <  1:179677/143‑1
                                                        GTTCTCAAAAGCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACACTTTTGAATTCCTTACATTCATGGTC‑AGTGCACAACTaa                                                                                      >  1:390762/1‑141
                                                         tgCTCAAAACCGGGGCAGCTGCATGACAAAGGCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAACAACAACTTTGAATTCCTTACATTCCTGGCT‑ATTGCACAACTGAA                                                                                     <  2:585265/141‑1
                                                         TTCTCAAATTCGGTGGGGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCGATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCT‑ATTGCACAACTGAA                                                                                     <  2:864303/143‑1
                                                             CAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCT‑ATTGCACAACTGAATTTA                                                                                 >  2:599362/1‑143
                                                             CAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCT‑ATCGCACAACTGACTTTA                                                                                 >  2:460444/1‑143
                                                                              CATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCT‑ATTGCACAACTGAATTTAAGGCTCTATTATTACCT                                                                >  1:812405/1‑143
                                                                                  ACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACCTGCC‑GGCTGGAAGTACAACTGAATTTAAAGCTCTATTCTTACCTCAAC                                                            >  2:754914/1‑143
                                                                                    AAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCT‑ATTGCACAACTGAATTTAAGGCTCTATTATTAACTCAACAA                                                          >  1:994154/1‑143
                                                                                           TCGGGCATTATCTGAACATAAAACACGAGCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCT‑ATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCC                                                   <  2:620467/143‑1
                                                                                               GCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCT‑ATTGCACAACTGAATTTAAGGCTCTATTATTACCACCACAAACCACCACAAT                                               >  2:114871/1‑143
                                                                                                  TTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAGTTCCTTACATTCCTGGCT‑ATTGCACAACTGAATTTAAGGCTCTATTCTCACCCCAACAAACCACCCCAAcaaa                                            >  2:176381/1‑139
                                                                                                  TTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCT‑ATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAAaaga                                            >  2:535488/1‑139
                                                                                                   tagCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCT‑ATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAA                                           <  2:962747/140‑1
                                                                                                      CTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCT‑ATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTT                                        >  1:280361/1‑143
                                                                                                       TGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAGTTTTGAATTCCTTACATTCCTGGCT‑ATTGCACAACTGACTTTAAGGCTCCCTTATTACCTCAACAAACCACCCGCCTATAAGTTT                                       >  2:672747/1‑143
                                                                                                       TGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCT‑ATTGCACAACTGAATTTAAGGCTCTCTTATTACCTCAACAAACCACCCCAATATAAGTTT                                       >  1:512503/1‑143
                                                                                                        GAACATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCT‑ATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTG                                      <  1:929470/143‑1
                                                                                                          ACATAAAACACCATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCT‑ATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAG                                    <  2:123010/143‑1
                                                                                                           CATAAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCT‑ATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAACATAAGTTTGAGA                                   >  1:101190/1‑143
                                                                                                              AAAACACTATCAATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCT‑ATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCGACATAAGATTGAGAGTA                                <  2:713381/143‑1
                                                                                                                       TCAATAAGTTGGAGTCATTACCCAGCACAAAATAAAGAACAATTTTGAATTCCTTAGATTCCCCGCG‑ATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGA                       >  1:730303/1‑143
                                                                                                                         AATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCT‑ATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGC                     >  2:961798/1‑143
                                                                                                                          ATAAGTTGGAGTCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCT‑ATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCG                    >  1:714102/1‑143
                                                                                                                            gaggTGGAGTCATTACCCGGGGCAAAATAAAGAACAATTTGGAATTCGTGACATTCCTGGCT‑ATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATAGAAGTTTTAGATTACTACAATGAGCGAA                  <  2:1008282/139‑1
                                                                                                                               TTGGAGTCATTACCAGGCACAAAATAAAGAATAATTTTGAATTCCTTACATCCCTAGCT‑ATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCA               <  2:522613/143‑1
                                                                                                                                     TCATTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCT‑ATTGCACAACAGATTGTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCAATTAAA         >  2:426829/1‑143
                                                                                                                                        TTACCCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCT‑ATTGCACAACTGAATTTAAGGCTCTATTATTACCTAAACAAATCACCACAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATT      >  1:184003/1‑143
                                                                                                                                            CCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCT‑ATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAGCAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATTCTGA  <  1:674012/143‑1
                                                                                                                                            CCGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCT‑ATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATTCTGA  >  1:254372/1‑143
                                                                                                                                                                                                                                                                                            
CGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/258048‑257908
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CGGCACAAAATAAAGAACAATTTTGAATTCCTTACATTCCTGGCT‑ATTGCACAACTGAATTTAAGGCTCTATTATTACCTCAACAAACCACCCCAATATAAGTTTGAGATTACTACAATGAGCGAAGCACTTAAAATTCTGA  <  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