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 NC_000913 4,049,991 Δ12 bp noncoding (93‑104/109 nt) spf → Spot 42 sRNA antisense regulator of galK translation, Hfq‑dependent

New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 40499901 (0.030)46 (1.210) 42/282 0.0 97.9% noncoding (92/109 nt) spf Spot 42 sRNA antisense regulator of galK translation, Hfq‑dependent
?NC_000913 4050003 = NA (NA)noncoding (105/109 nt) spf Spot 42 sRNA antisense regulator of galK translation, Hfq‑dependent

AATTACAAAAAGTGCTTTCTGAACTGAACAAAAAAGAGTAAAGTTAGTCGCGTAGGGTACAGAGGTAAGATGTTCTATCTTTCAGACCTTTTACTTCACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAAT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/4049848‑4049990
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tTTTTATTGGGCGAAAGAAAAGATCCGTAATGCCTGATGCGCTATGTTTATCAGGCCAACGGTAGAATTGTAATCTATTGAATTTACGGGCCGGATACGCCACATCCGGCACAAGCATTAAGGCAAGAAAATTATTCGCCGTC  >  NC_000913/4050003‑4050144
                                                                                                                                                                                                                                                                                             
AATTACAAAAAGTGCTTTCTGAACTGAACAAAAAAGAGTAAAGTTAGTCGCGTAGGGTACAGAGGTAAGATGTTCTATCTTTCAGACCTTTTACTTCACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAAT                                                                                                                                                <  1:248368/143‑1
   TACAAAAAGTGCTTTCTGAACTGAACAAAAAAGAGTAAAGTTAGTCGCGTAGGGTACAGAGGTAAGATGTTCTATCTTTCAGACCTTTTACTTCACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAATTTT                                                                                                                                             <  2:227316/143‑1
      AAAAAGTGCTTTCTGAACTGAACAAAAAAGAGTAAAGTTAGTCGCGTAGGGTACAGAGGTAAGATGTTCTATCTTTCAGACCTTTTACTTCACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCATTCAGTAATTTTTct                                                                                                                                          >  2:541952/1‑141
       AAAAGTGCTTTCTGAACTGAACAAAAAAGAGTAAAGTTAGTCGCGTAGGGTACAGAGGTAAGATGTTCTATCTTTCAGACCTTTTACTTCACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAATTTTTATT                                                                                                                                         <  2:359036/143‑1
          AGTGGTTTCTGAAGCGAACAAAAAAGAGGAAAGGGAGTCGCGGAGGGTACAGAGGTAAGATGTTCTATCTTTCAGACCTTTTACTTCACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAATTTTTATTGGG                                                                                                                                      <  1:150880/143‑1
                  CTGAACTGAACAAAAAAGAGTAAAGTTAGTCGCGTAGGGTACAGAGGTAAGATGTTCTATCTTTCAGACCTTTTACTTCACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAATTTTTATTGGGAGAAAGAA                                                                                                                              >  1:467310/1‑143
                  CTGAACTGAACAAAAAAGAGTAAAGTTAGTCGCGTAGGGTACAGAGGTAAGATGTTCTATCTTTCAGACCTTTTACTTCACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAATATATATAGGGCGAAAAAA                                                                                                                              >  1:573614/1‑143
                    gaaccaAACAAGAAAGAGTAAAGTTAGTCGCGTAGGGTACAGAGGTAAGATGTTCTATCTTTCAGACCTTTTACTTCACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAATTTTTATTGGGCGAAAGAAAA                                                                                                                            <  1:226017/137‑1
                       CTGAACAAAAAAGAGTAAAGTTAGTCGCGTAGGGTACAGAGGTAAGATGTTCTATCTTTCAGACCTTTTACTTCACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAATTTTTATTGGGCGAAAGAAAAGAT                                                                                                                         >  2:482517/1‑143
                        TGAACAAAAAAGAGTAAAGTTAGTCGCGTAGGGTACAGAGGTAAGATGTTCTATCTTTCAGACCTTTTACTTCACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAATTTTTATTGGGCGGATGAACAGATC                                                                                                                        >  1:673249/1‑143
                         GAACAAAAAAGAGTTAAGTTAGTCGCGTATTTTATAGAGTTAAGATGTTCTATCTTTCAGACCTTTTACTTCACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAATTTTTATTGGGCGAAAGAAAAGATCC                                                                                                                       <  1:272506/143‑1
                            CAAAAAAGAGTAAAGTTAGTCGCGTAGGGTACAGAGGTAAGATGTTCTATCTTTCAGACCTTTTACTTCACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTACTTTTTATTGGGCGAAAGAAAAGATCCGTA                                                                                                                    >  1:168109/1‑143
                            CAAAAAAGAGTAAAGTTAGTCGCGTAGGGTACAGAGGTAAGATGTTCTATCTTTCAGACCTTTTACTTCACGTAATCGGATTTGGCTGAATATTATAGAAGCAAAAGTCAGTAATTTTTATTGGGCGAAAGAAAAGATCCGTA                                                                                                                    >  1:190281/1‑143
                                    AGTAAAGTTAGTCGCGTAGGGTACAGAGGTAAGATGTTCTATCTTTCAGACCTTTTACTTCACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAATTTTTATTGGGCGAAAGAAAAGATCCGTAAGGCCTGA                                                                                                            <  2:472596/143‑1
                                            TAGTCGCGTAGGGTACAGAGGGAAGATGTTCTATCTTTTAGGGCTTGTATTTCACGTGAGCGGATTTGGCTGGGTATTTTGGCGGCCGCAGTCAGTAATTTTTATTGGGCGAAAGAAAAGATCCGTAATGCCTGATGCGCTAT                                                                                                    >  1:705168/1‑143
                                                CGCGTAGGGTACAGAGGTAAGATGTTCTATCTTTCAGACCTTTTACTTCACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAATTTTTATTGGGCGAAAGAAAAGATCCGTAATGCCTGATGCGCTATGTTT                                                                                                <  2:460352/143‑1
                                                  CGTAGGGTACAGAGGTAAGATGTTCTATCTTTCAGACCTTTTACTTCACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAATTTTTTTTGTGCGAAAGAAAAGATCCGTAATGCCTGATACGCTATGTTTAT                                                                                              >  1:121868/1‑143
                                                  CGTAGGGTACAGAGGTAAGATGTTCTATCTTTCAGACCTTTTACTTCACGTAATCGGATTTGGCTGAATATATTAGCCGCCCCAGTCAGTAATTTTTACTGGGCGAAAGAAAAGATCCGTAATGCGTGATTCGATATGTTTAT                                                                                              >  2:456488/1‑143
                                                    TAGGGTACAGAGGTAAGATGTTCTATCTTTCAGACCTTTTACTTCACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTATTTTTTTTTTGTCTTATGAAAAGATCCATAATGCCTGATGCGCTATATTTATaa                                                                                            >  1:55177/1‑141
                                                     ttgtTACAGTGGTTATATGTTCTATCCTTCAGACCTTTTACTTCACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAATTTTTATTGGGCGAAAGAAAAGATCCGTAATGCCTGATGCGCTATGTTTATCAG                                                                                           <  1:452976/139‑1
                                                            AGAGGTAAGATGTTCTATCTTTCAGACCTTTTACTTCACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAATTTTTATTGGGCGAAAGAAAAGATCCGTAATGCCTGATGCGCTATGTTTATCAGGCCAACG                                                                                    >  1:381979/1‑143
                                                                  aattttTTCTATCTTTCATATCTTGTACTTCACGGAATCGGAATTGGCTGAATAGTTTAGCCGCCCCAGTCAGTAATTTTTATTGGGCGAAAGAAAAGATCCGTAATGCCTGATGCGCTATGTTTATCAGGCCAACGGTAGAA                                                                              <  1:563083/137‑1
                                                                             TCTTTCATACTTTTTTCTTGCCGTATGCGGGTGTGGTTGAATATTTTAGCCGCCCCAGTCAGTAATTTTTATTGGGCGAAAGAAAAGATCCGTAATGCCTGATGCGCTATGTTTATCAGGCCAACGGTAGAATTGTAATCTAT                                                                   <  2:722379/143‑1
                                                                             TCTTTCAGACCTTTTACTTCACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCTAGTCAGTAATTTTTATTGGGCGAAAGAAAAGATCCGTAATGCCTGATGCGTTATGTTTATCAGAGCAACGGTAGAATTGTAAacgcg                                                                   >  2:270064/1‑138
                                                                                TTCAGACCTTTTACTTCACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAATTTTTATTGGGCGAAAGAAAAGATCCGTAATGCCTGTTGCGCTATGTTTATAAGGACAACGGTAGAATTGTAATCTATTGA                                                                >  1:86413/1‑143
                                                                                     ACCTTTTCCTTCTCGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAATTTTTATTGGGCGAAAGAAAAGATCCGTAATGCCTGATGCGCTATGTTTATCAGGCCAACGGTAGAATTGTAATCTATTGAATTTA                                                           <  2:409074/143‑1
                                                                                     ACCTTTTACTTCACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAATTTTTATTGGGCGAAAGAAAAGATCCGTAATGCCTGATGCGCTATGTTTATCAGGCCGTCGGTCGAATTGTAATCTATTGAATTTA                                                           >  1:293679/1‑143
                                                                                      CCTGTTACTTCACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAATTTTTATTGGGCGAAAGAAAAGATCCGTAATGCCTGATGCGCTATGTTTATCAGGCCAACGGTAGAATTGTAATCTATTGAATTTAC                                                          <  2:574678/143‑1
                                                                                       CTTTTACTTCACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAATTTTTATTGGGCGAAAGAAAAGATCCGTAATGCCTGCTGCGCTATGTTTATGAGGCCAACGGTAAAATTGTAATCTATTGAATTTACa                                                         >  1:581850/1‑142
                                                                                             CTTCACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAATTTTTATTGGGCGAAAGAAAAGATCCGTAATGCCTGATGCGCTATGTTTATCAGGCCAACGGTAGAATTGTAATCTATTGAATTTACGGGCCGG                                                   >  2:559067/1‑143
                                                                                                CACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAATTTTTATTGGGCGAAAGAAAAGATCCGTAATGCCTGATGCGCTTTGTTTATCAGGCCTACGGTAGATTTGTCATTTATAGAAATTACGAGCCGGATA                                                >  1:240678/1‑143
                                                                                                CACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAATTTTTATTGGGCGAAAGAAAAGATCCGTAATGCCTGATGCGCTATGTTTATCAGGCCAACGGTAGAATTGTAATCTATTGAATTTACGGGCCGGATA                                                >  2:396935/1‑143
                                                                                                 ACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAATTTTTATTGGGCGAAAGAAAAGATCCGTAATGCCTGATGCGCTATGTTTATCAGGCCAACGGTAGAATTGTAATCTATTGAATTTACGGGCCGGATAC                                               >  1:567099/1‑143
                                                                                                  CGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAATTTTTATTGGGCGAAAGAAAAGATCCGTAATGCCTGCTGCGCTATGTTTATCCGGCCAACGGTAGAATTGTAATCTAATGAATTTACGGGCCGGATACG                                              >  1:425100/1‑143
                                                                                                   tTAACCGGATTTGTCTGAATATTTTAGCCGTCACAGTCAGTAATTTTTATTGGGCGAAAGAAAAGATCCGTAATGCCTGATGCGCTATGTTTATCAGGCCAACGGTAGAATTGTAATCTATTGAATTTACGGGCCGGATACGC                                             <  1:643214/142‑1
                                                                                                     AATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAATTTTTATTGGGCGAAAGAAAAGATCCGTAATGCCTGATGCGCTATGTTTATCAGGCCAACGGTAGAATTGTAATCTATTGAATTTACCGACCGGATACGACA                                           >  2:364664/1‑143
                                                                                                         GGATTTGGCTAAATATGTTAGCCGCCCCATTCAGTAATTTTTATTGTGCGAAAGAAAAGATCCGTAATGCCTGATGCGCTATGTGTATCATGCCAACAGTAGAATTGTAATCTATTGAATTTACGGGCCGGATACGCCACATC                                       <  2:329866/143‑1
                                                                                                            TTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAATTTTTATTGGGCGAAAGAAAAGATCCGTAATGCCTGATGCGCTATGTTTATCAGGCCAACGGTAGAATTGTAATCTATTGAATTTACGGGCCGGATACGCCACATCCGG                                    <  1:732089/143‑1
                                                                                                                    AATATTTTAGCCGCCCCAGTCAGTAATTTTTATTGGACGAAAGAAAAGATCCGTAATGCCTGATGCGCTATGTTTATCAGACCAACGGAAGAGTTGTAAACTATGAAATTTACGGGCCGGATACGCGACCACCGGCACAAaga                            >  2:551963/1‑140
                                                                                                                      TATTTTAGCCGCCCCAGTCAGTAATTTTTATTGGGCGAAAGAAAAGATCCGTAATGCCTGATGCGCTATGTTTATCAGGCCAACGGTAGAATTGTAATCTCTTGACTTTACGGGCCGGCTACGCCACATCCGGCACAAGCATT                          >  1:148787/1‑143
                                                                                                                         TTTAGCCTCCCCAGTCAGTGATTTTTCTTGGGCGAAAGAAAAGATCCGTAATGCCTGATGCGCTATGTTTATCAGGCCAACGGTAGAATTGTAATCTATTGAATTTACGGGCCGGATACGCCACATCCGGCACAAGCATTAAG                       <  2:259779/143‑1
                                                                                                                                 CCCCAGTCAGTAATTTTTATTAGGCGAAAGAAAAGATCTGTAATGCCTGATGCGCTATGTTTATCAGGCCAACGGTAGAATTGTAATCTATTGAATTTACGAGCCGGATACGCCACATCAGGCACAAGCATTACGTCAAGAAA               >  2:85346/1‑143
                                                                                                                                    CAGTCAGTAATTTTTATTGGGCGAAAGAAAAGATCCGTAATGCCTGATGCGCTATGTTTATCAGGCCAACGGTAGAATTGTAATCTATTGAATTTACGGGCCGGATACGCCACATCCGGCACCAGCCTTAAGGCAAGAACATT            >  1:633051/1‑143
                                                                                                                                        CAGTAATTTTTATTGGGCGAAAGAAAAGATCCGTAATGCCTGATGCGCTATGTTTATCAGGCCAACGGTAGAATTGTAATCTATTGAATTTACGGGCCGGATACGCCACATCCGGCACAAGCATTAAGGCAAGAAAATTATTC        >  2:21116/1‑143
                                                                                                                                         AGTAATTTTTATTGGGCGAAAGAAAAGATCCGTAATGCCTGATGCGCTATGTTTATCAGGCCAACGGTAGAATTGTACTCTATTGAATTTACGGGCCGGATACGCAAAATCCGGCAAAAGCATTAAGGCAAGAAAATTATTaa       >  1:147462/1‑141
                                                                                                                                            AATTTTTATTGGGCGAAAGAAAAGATCCGTAATGCCTGATGCGCTATGTTTATCAGGCCAACGGTAGAATTGTAATCTATTGAATTTACGGGCCGGATACGCCACATCCGGCACAAGCATTAAGGCAAGAAAATTATTCGCCG    >  2:534334/1‑143
                                                                                                                                             ATTTTTATTGGGCGCAAGAAAAGATCCGTAATGCCTGATGCGCTATGTTTATCAGGCCAACGGTAGAATTGTAATCTATTGAATTTACGGGCCGGATACGCCACATCCGGCACAAACATTAAGGCAAGAAAATTATTCGCCGT   >  2:458666/1‑143
                                                                                                                                              TTTTTATTGGTAGATAGAAAAGATGCGTAATGCCGGATGCGCTGTGTTTATCAGGCCAACGGTAGAATTGTAATCTATTGAATTTACGGGCCGGATACGCCACATCCGGCACAAGCATTAAGGCAAGAAAATTATTCGCCGTC  <  1:79286/143‑1
                                                                                                                                                                                                                                                                                             
AATTACAAAAAGTGCTTTCTGAACTGAACAAAAAAGAGTAAAGTTAGTCGCGTAGGGTACAGAGGTAAGATGTTCTATCTTTCAGACCTTTTACTTCACGTAATCGGATTTGGCTGAATATTTTAGCCGCCCCAGTCAGTAAT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/4049848‑4049990
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tTTTTATTGGGCGAAAGAAAAGATCCGTAATGCCTGATGCGCTATGTTTATCAGGCCAACGGTAGAATTGTAATCTATTGAATTTACGGGCCGGATACGCCACATCCGGCACAAGCATTAAGGCAAGAAAATTATTCGCCGTC  >  NC_000913/4050003‑4050144

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