New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913_3_vch_tpiA = 120780513 (0.440)31 (1.190) 28/254 0.1 80.0% noncoding (11586/15193 nt) cryptic prophage e14 cryptic prophage e14
?NC_000913_3_vch_tpiA = 1209602 4 (0.150)noncoding (13383/15193 nt) cryptic prophage e14 cryptic prophage e14

GCAATTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCT  >  NC_000913_3_vch_tpiA/1209466‑1209749
                                                                                                                                        |                                                                                                                                                   
gCAATTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaa                                                                                                                                         >  1:513449‑M2/1‑137 (MQ=255)
  aaTTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAAAAAAAGCGGCACCATAGCAATTCAGCCAGCCTGTTGGCGGAGTGGCTCAAGGCACCGGAACCGGGACACACACAGGTACTGCAGACcgttctcccacacc                                                                                                                                       <  2:125618‑M2/149‑15 (MQ=255)
     ttatttGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCTCCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGTCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaag                                                                                                                                    >  2:482648‑M2/1‑132 (MQ=255)
           gTCGTATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGAAGAGCCTTCTCCCAAACCAACGCTTAt                                                                                                                              >  2:90363/1‑149 (MQ=255)
                      cTTTGCCAGTTCCGGGTAATCTTCAGCAGAAAAAGCGGCACCATGGCATGGCAGCCAGCCTGGTGGCGGAGTGGCGGATGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgttt                                                                                                                   >  2:358737‑M2/1‑115 (MQ=255)
                          gCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcac                                                                                                               <  2:184940‑M2/149‑39 (MQ=255)
                            cAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGGAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctccaaaaccaaggttttcgagagccgttttcaccg                                                                                                             <  1:109450‑M2/149‑41 (MQ=255)
                            cAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagcgccgtttgcacag                                                                                                             <  1:26477‑M2/149‑41 (MQ=255)
                                   gggTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGTCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatc                                                                                                      >  1:399785‑M2/1‑102 (MQ=255)
                                   gggTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatc                                                                                                      <  1:371434‑M2/149‑48 (MQ=255)
                                         tcttcAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgattt                                                                                                <  1:324272‑M2/149‑54 (MQ=255)
                                              agcagAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatat                                                                                           <  1:276624‑M2/149‑59 (MQ=255)
                                                                aTTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGa                                                                         <  1:310131/149‑1 (MQ=255)
                                                                    cATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggct                                                                     <  2:205536‑M2/149‑81 (MQ=255)
                                                                      tttCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtg                                                                                                           <  1:48412‑M2/109‑43 (MQ=255)
                                                                      tttCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtg                                                                                                           >  2:48412‑M2/1‑67 (MQ=255)
                                                                       ttCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaa                                                                  >  1:184940‑M2/1‑66 (MQ=255)
                                                                          agccagccTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacag                                                               <  1:87878‑M2/149‑87 (MQ=255)
                                                                           gccagccTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccga                                                                                                   >  2:332383‑M2/1‑62 (MQ=255)
                                                                           gccagccTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccga                                                                                                   <  1:332383‑M2/112‑51 (MQ=255)
                                                                              agccTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagc                                                           <  1:418806‑M2/149‑91 (MQ=255)
                                                                                       gCGGAGGGGCAGAAGGCCACGGAACCGGGACACCAAAAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGt                                                  <  2:139435/149‑1 (MQ=255)
                                                                                          gAGTGGCCGGATGCGACGGAACCGGGCCACCCACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcg                                               >  2:167713‑M2/1‑47 (MQ=255)
                                                                                          gAGTGGATGAAGGCCACGGAACCGGGACACCAACAGGGAATGGAGAGccctctcccacaccacggttttcgagacgagtttccagagcgctctccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcg                                               >  1:229193‑M2/1‑47 (MQ=255)
                                                                                            gTGGCTGGAGGCCAACGAACCGGTACACCAACAGGTAAGGGAGAGccttctcccaaaccaaggttttccagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggt                                             >  2:75871‑M2/1‑45 (MQ=255)
                                                                                                 tGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctccaaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttccggattaacagcagcgcgcgcagtgcggtaagta                                        <  2:262954‑M2/149‑110 (MQ=255)
                                                                                                  gAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaa                                       <  1:458794‑M2/149‑111 (MQ=255)
                                                                                                               ccGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggtttgcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggatttttgcggcttaacagcggcccgcgaagtgcggtaagtaactggtcgtgcggg                          <  2:178495‑M2/149‑124 (MQ=255)
                                                                                                               acgGGACACCAACAGGTAATGCAGAGccttctcccaaaccagggttttcgggagccgtttgcacagtgccatccgagttgatttcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaactggtcgtgccgc                          >  2:41641‑M2/2‑26 (MQ=255)
                                                                                                                cGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgctggaagtaactggtcgggccgcc                         <  1:248715‑M2/149‑125 (MQ=255)
                                                                                                                cGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaagggtttcgagggccgtttgcacagtgccatccgattttatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaactggtcgtgccgcc                         >  2:164095‑M2/1‑25 (MQ=255)
                                                                                                                       ccAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaactggtcgtgccgccccttctc                  >  2:345952‑M2/1‑18 (MQ=255)
                                                                                                                       ccAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaactggtcgtgccgccccttctc                  >  2:458794‑M2/1‑18 (MQ=255)
                                                                                                                          aCAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgttgtcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaactggtcgtgccgccccttctccag               <  1:485986‑M2/149‑135 (MQ=255)
                                                                                                                              gTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACACCg           >  1:364382/1‑149 (MQ=255)
                                                                                                                                   gCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcaaaatgcggtaagtaactggtcgtgccgccccttctccaggctggcacc      <  1:245325‑M2/149‑144 (MQ=255)
                                                                                                                                       agccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaactggtcgtgccgccccttctccaggctggcaccggat  >  1:376105‑M2/1‑2 (MQ=255)
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GCAATTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCT  >  NC_000913_3_vch_tpiA/1209466‑1209749

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ 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.