New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 17557581 (0.050)23 (1.090) 19/284 0.1 95.8% coding (61/1413 nt) pykF pyruvate kinase I
?NC_000913 = 2102943 NA (NA)intergenic (‑32/+1) insH1/wbbL IS5 transposase and trans‑activator/pseudogene, lipopolysaccharide biosynthesis protein

ACCGGATTCGCTTTCCGGCAGTGCGCCCAGAAAGCAAGTTTCTCCCATCCTTCTCAACTTAAAGACTAAGACTGTCATGAAAAAGACCAAAATTGTTTGCACCATCGGACCGAAAACCGAATCTGAAGAGATGTTAGCTAAAATGCTGGACGCTGGCATGAACGTTATGCGTCTGAACTTCTCTCATGGTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGTAAAACCGCCGCTATCCTGCTTGATACCAA  >  NC_000913/1755622‑1755900
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tgccttaattggcgaagaaacggtctaaataggctgattcaaggcatttactggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccTTAGCTaaaa                                                                                                                                          <  1:273143‑M2/10‑1 (MQ=255)
    ttaaatggcgaagaaacggtctaaataggctgattcaaggcatttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccTTAGCTAAAATGCt                                                                                                                                      >  1:159755‑M2/130‑143 (MQ=255)
    ttaaatggcgaagaaacggtctaaataggctgattcaaggcatttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccTTAGCTAAAATGCt                                                                                                                                      >  2:380326‑M2/130‑143 (MQ=255)
     taaatggcgaagaaacggtctaaataggctgattcaaggcatttacgggagaaaaaatcggctcaaacatgaagatatgaaattactgagtcagcagagaagaatttccccgcttattcgcaccttccTTAGCTAAAATGCTg                                                                                                                                     <  1:99068‑M2/15‑1 (MQ=255)
     aaatggcgaagaaacggtctaaataggctgattcaaggcatttacgggagaaaaaaatcggctcaaacatgaagaaatgaaatgactgtgtcagccgagaagaatttccccgcttattcgcaccttccTTAGCTAAAATGCTg                                                                                                                                     <  1:191934‑M2/15‑1 (MQ=255)
      aaatggcgaagaaacggtctaaataggctgattcaaggcatttacgggagaaaaaatcggctcaaacatgaagaagtgtgttgccacaaacagccgagaagaatttccccgcttattcgcaccttccTTAGCTAAAATGCTgg                                                                                                                                    >  1:82344‑M2/128‑143 (MQ=255)
           tttCCGGCAGTGCGCCCAGAAAGCAAGTTTCTCCCATCCTTCTCAACTTAAAGACTAAGACTGTCATGAAAAAGACCAAAATTGTTTGCACCCTCGGACCGAAAACCGAATCTGCAGAGCTCTTAGCTAAAATGCTGGACGCt                                                                                                                               >  2:311918/1‑143 (MQ=255)
               cGGCAGTGCTCCCAGAAAGCAAGTATCACCTGTGCTTTTCGACTTAAGTACGAGGACTGTCATGAAAAAGTCCAAAATTGTTTGCACCATCGGACCGAAAACCGAATCTGAAGAGATGTTAGggaaggtgcgaacaagtccct                                                                                                                           <  2:265265‑M1/143‑22 (MQ=255)
                    gttcgtccatatagcaagtttcttcCATCCTTGTCAACTTAAAGATTAAGACGGTCATGAAAAAGACCAAAATTGTTTGCACCATCGGACCGAAAACCGAATCTGAAGAGATGTTAGggaaggtgcgaacaagtccctgatat                                                                                                                      <  1:156727‑M1/131‑27 (MQ=255)
                     tGCGCCCAGAAAGCAAGTTTCTCCCATCCTTCTCAACTTAAAGACTAAGACTGTACTGAAACAGACCAAAATTGTTCGCACCATCGGACCGAAAACCAAATCTGAGGAGATGTCAGggaacgagcgaacaactccctgataac                                                                                                                     >  2:281035‑M1/1‑116 (MQ=255)
                     ctcccccagaaAGCAATTTCCTCCCTTCCTTCTCAACTTAAAGACTAATACTGTGATGAAAAAGACCAAAATTGTTTGCACCATCGGACCGAAAACCGAATCTGAAGAGATGTTAGggaaggtgcgaacaagtccctgatatg                                                                                                                     <  2:326605‑M1/139‑28 (MQ=255)
                        gacctgaaagcAAGTTCTTCCGCTCCTTCGCTACTTACAGACTCAGACTGTCATGAAAAAGACCAAAATTGTTGGGACCATCGGACCGAAAACCGAATCTGAAGAGATGTTAGggaaggtgcgaacaagtccctgatatgaga                                                                                                                  <  2:171885‑M1/138‑31 (MQ=255)
                             gAAAGCAAGTTTCTCCCATCCTTCTCAACTTAAAGACTAAGACTGTCATGAAAAAGACCAAAATTGTTTGCACCATCGGACCGAAAACCGAATCTGAAGAGATGTTAGggaaggtgcgaacaagtccctgatatgagatcatg                                                                                                             <  1:358963‑M1/143‑36 (MQ=255)
                               aaGCAAGTTTCTCCCATCCTTCTCAACTTAAAGACCAAGACTGTCATGAAAAAGACCTAAATTGTTTGCACCATCGGACCGAAAACCGAATCTGAAGAGATGTTAGggaaggtgcgaacaagtccctgatatgagagcatgtt                                                                                                           <  2:144620‑M1/143‑38 (MQ=255)
                                gctgattcaaggcatttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtaagcagagaagaatttacccgcttaataggaacttccTTAGCTAAAATGCGGGACGCTGGCATgaacgttgtgggggtg                                                                                                          >  2:215336‑M2/102‑137 (MQ=255)
                                aGCAAGTTTCTCCCATCCTTCTCAACTTAAAGACTAAGACTGTCATGAAAAAGACCAAAATTGTTTGCACCATCGGACCGAAAACCGAATCAGAAGAGATGTTAGagaaagaacgaacaagtccctgatatgagatcatgttt                                                                                                          >  1:41040‑M1/1‑105 (MQ=255)
                                     gTTTCTCCCATCCTTCTCAACTTAAATATTTAGTCTGTCATTAAAAAGACCAAAATTGTTTGCACCATCGGACCGAAAACCGAATCTGAAGAGATGTTAGggaaggtgcgaacaagtccctgatatgagatcatgtttgtcat                                                                                                     <  1:209448‑M1/143‑44 (MQ=255)
                                      tcaaggcatttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccATAACTAAAATGCTGAACGCTGACATGAACGAAAAGCGCCTgaacagc                                                                                                    >  1:270816‑M2/96‑140 (MQ=255)
                                       ttCTCCCATCCTTCTCAACTTAAAGACTAAGACTGTCATGAAAAAGACCAAAATTGTTTGCACCATCGGACCGAAAACCGAATCTGAAGAGATGTTAGggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatct                                                                                                   <  2:198767‑M1/143‑46 (MQ=255)
                                        aagtcatttacggaagaaacattcggctcatacatgaagaaatgaaatgactgagtcagccgagaagaattgccccgcttattcgcaccttccTTAGCTAAAATGCTGGACGCTGGCATGAACGTTATGCGTCTGAACTtctc                                                                                                  <  1:156295‑M2/50‑1 (MQ=255)
                                           gcatttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgaaacagccgagaagaatatccccggttattcgcaacttacTTAGCTAAAATGCTGGACGCTAGCCTGAACGTTATACGTCTTAACTTATCTCa                                                                                               >  2:170350‑M2/91‑143 (MQ=255)
                                            ccATCCTTCTCAACTTAAAGACTAAGACTGTCATGAAAAAGACCACAATTGTTTGCACCATCGGACCGAAAACCGAATCTGAAGAGATGTTAGggaaggtgcgaacaagtcactgatatgagatcatgtttgtcatctggagc                                                                                              >  1:290838‑M1/1‑93 (MQ=255)
                                              tttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccaagaagaatttccccgcttattcgcaccttccTTAGCTAAAATGCTGGACGCTGGCATGAACGTTATGCGTATGAACTTCTCTCAAgg                                                                                            >  2:284950‑M2/88‑143 (MQ=255)
                                               caacgtgtgaaaagatcgtctcaaagttgaagaaatgaaatgacggagtcagccgagaagaatttccccgcttagtcgcaccttccTTAGCTAAAATGCTGGACGCTGGCATGAACGTTATGCGTCTGAACTTCTCTCATGGt                                                                                           <  2:284223‑M2/57‑1 (MQ=255)
                                                ccTTCTAATATTAAAGTTTAAGATTGTCATGAAAAAGACCAAAATTGTTTGCACCATCGGACCGAAAACCGAATCTGAAGAGATGTTAGggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccata                                                                                          <  1:163801‑M1/143‑55 (MQ=255)
                                                       aaCTTAAAGACTAAGACTGTCATGAAAAAGACCAAAATTGTTTGCACCATCGGACCGAAAACCGAATCTGAAGAGATGTTAGggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagg                                                                                   >  2:340393‑M1/1‑82 (MQ=255)
                                                       aaCTTAAAGACTAAGACTGTCATGAAAAAGACCAAAATTGTTTGCACCATCGGACCGAAAACCGAATCTGAAGAGATGTTAGggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctgaagacataaaacagg                                                                                   >  1:106955‑M1/1‑82 (MQ=255)
                                                             aagactaagactGTCATGAAAAAGACCAAAATTGTTTGCACCATCGGACCGAAAACCGAATCTGAAGAGATGTTAGggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcat                                                                             <  1:279076‑M1/143‑68 (MQ=255)
                                                              agaccaatgctggcaggaaaAAGACCAAAGTGGTTTGCACCATCGGACCGAAAACCGAATCTGAAGAGATGTTAGggaaggtgcgaacaagtccctgatatgcgctcatgtttgtcatctggagccatagaacagggttcatc                                                                            <  2:60403‑M1/134‑69 (MQ=255)
                                                              agaataagactGTCATGAAAAAGACCAAAATTTTTTGCACCATAGGAAAGAAAAACGAAGCGGAAGAGATGTTAGggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatc                                                                            <  1:112358‑M1/143‑69 (MQ=255)
                                                                tatagaagcgtcgtgcaaaAGGCCAATAGTGTGTGCACCATGGGACCGAAAACCTGATCTGAAGAGATGTTAGggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcat                                                                          <  2:341933‑M1/134‑71 (MQ=255)
                                                                actaagactGTCATGAAAAAGACCAAAATTGTTTGCACCATCGGACCGAAAACCGAATCTGAAGAGATGTTCGggaaggtgcgaacaagtccctgatatgagctcatgtttgtcatctggagccatagaacagggttcaacat                                                                          >  2:176392‑M1/1‑73 (MQ=255)
                                                                   tcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccTTAGCTAAAATGCTGGCCGCTGGCATGACCGTTATGCGTCTGAAATTCTCTCATAGAGACTATGCAAAACACggtaa                                                                       >  1:127595‑M2/67‑141 (MQ=255)
                                                                                   gaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttcaTTAGCCAAAATGCTGCACGCTGGCATGAACGTTATGCGTCTGAACTCATCTCATGGTGACGATGCAGAACACGCGCAGCCGATTCAGAatccg                                                       >  2:374095‑M2/51‑141 (MQ=255)
                                                                                    aaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccTTAGCTAAAATGCTGGACGCTGGCATGAACGTTATGCGTCTGAACTTCTCTCATGGTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTgc                                                      <  1:260392‑M2/94‑1 (MQ=255)
                                                                                             agtcagccgagaagaagttccccgcttattcgcaccttccTTAGCTAAAATGCTGGACGCTGGCATGAACGTTATGCGTCTGAACTTCTCTCATGGTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGtga                                             <  2:151389‑M2/103‑1 (MQ=255)
                                                                                               gcagccgagaagaatttccccgcttattcgcaccttccTTAGCTAAAATGCTGGACGCTGGCATGAACGTTATGCGTCTGAACTTCTCTCATGGTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGtgatg                                           <  2:82344‑M2/105‑1 (MQ=255)
                                                                                                        aagattttcgccgcttattcgccccttccTTAGCTAAAATGCTGGACGCTGGCATGAACGTTATGCGTCTGAACTTCTCTCATGGTAACTATGCAGAACACGGTCAGCGCAGTCAGAACCTGCGCAACGTGATGAGCAAAaca                                  >  2:358793‑M2/30‑142 (MQ=255)
                                                                                                          ggACCGAACACCGAGTCTGAGGAGAGGTTGCgcagggtgcgaacgagtccctgattggagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatcaacttatcttcgccgacagtgaattcagcagtaa                                <  2:92083‑M1/143‑113 (MQ=255)
                                                                                                           aatttccccgcttattcgcaccttccTTAGCTAAAATGCTGGACGCTGGCATGAACGTTATGCGTCTGAACTTCTCTCATGGTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGt                               <  2:225426‑M2/117‑1 (MQ=255)
                                                                                                                      gtattttaattgatgttagggaatgtgtgaacatgttccttatatgaaatcatgttggtcatcgggcgccagagaacagggttcatcatgagtcatcaacttaccttcgccgacagtgaattcagcagtaagcgccgtcagac                    <  1:61337‑M1/132‑125 (MQ=255)
                                                                                                                           cgcaccttccTTAGCTAAAATGCTGGACGCTGGCATGAACGTTATGCGTCTGAACTTCTCTCATGGTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGTAAAAACGCCGCTAtca               >  2:16709‑M2/11‑142 (MQ=255)
                                                                                                                               tcttccTTAGCTACGATGCTGGACGCTGGCATGAACGTTATGCGTCTGAACTTCTCTCATGGTGACTATGCAGAACACGGTCTGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGTAAAACCGCCGCTATCCTGCt           <  2:240599‑M2/137‑1 (MQ=255)
                                                                                                                                agaTGTTAGggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcataaatcatcaacttaccttcgccgacagagaattcagcagtaagcgccgtcagaccagaaaagag          >  1:247604‑M1/1‑9 (MQ=255)
                                                                                                                                  gccTTAGCTAGAGTGCTGGACGCGGGCGTGAACGTTTTGCGTCTGAACTTCTCTCATGGTGACTGTGCAGAACGCGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGTAAAACCGCCGCTATCCTGCTTGa        <  2:151026‑M2/140‑1 (MQ=255)
                                                                                                                                    cTTAGCTAAAGTGCTGGACGCTGGCATGAACGTTATGCGTCTGAACTTCTCTCATGGTGACTATGCAGAACACGGTAAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGTAAAACCGCCGCTATCCTGCTTGATa      <  1:158357‑M2/142‑1 (MQ=255)
                                                                                                                                    cTTAGCTAAAATGCTGGACGCTGGCATGAACGTTATGCGTCTGAACTTCTCTCATGGTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGTAAAACCGCCGCTATCCTGCTTGATa      <  1:198928‑M2/142‑1 (MQ=255)
                                                                                                                                        gggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcagcaacttaccttcgccgacagtgaattcagcagtaagcgccgtcagaccagaaaagagattttctt  <  1:258305‑M1/143‑143 (MQ=255)
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ACCGGATTCGCTTTCCGGCAGTGCGCCCAGAAAGCAAGTTTCTCCCATCCTTCTCAACTTAAAGACTAAGACTGTCATGAAAAAGACCAAAATTGTTTGCACCATCGGACCGAAAACCGAATCTGAAGAGATGTTAGCTAAAATGCTGGACGCTGGCATGAACGTTATGCGTCTGAACTTCTCTCATGGTGACTATGCAGAACACGGTCAGCGCATTCAGAATCTGCGCAACGTGATGAGCAAAACTGGTAAAACCGCCGCTATCCTGCTTGATACCAA  >  NC_000913/1755622‑1755900

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 22 ≤ 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.