Predicted mutation
evidence seq id position mutation annotation gene description
MC JC NC_000913 257,908 Δ776 bp [crl] [crl]

Missing coverage evidence...
   seq id start end size ←reads reads→ gene description
* * ÷ NC_000913 257908–258675 258683 9–776 62 [0] [0] 63 [crl] [crl]

New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 2579070 (0.000)58 (0.790) 48/264 0.5 100% intergenic (+8/‑769) crl/crl pseudogene, sigma factor‑binding protein, RNA polymerase holoenzyme formation stimulator,regulator, Surface structures, transcriptional regulator of cryptic csgA gene for curli surface fibers/pseudogene, sigma factor‑binding protein, RNA polymerase holoenzyme formation stimulator,regulator, Surface structures, transcriptional regulator of cryptic csgA gene for curli surface fibers
?NC_000913 258684 = 0 (0.000)pseudogene (9/331 nt) crl pseudogene, sigma factor‑binding protein, RNA polymerase holoenzyme formation stimulator,regulator, Surface structures, transcriptional regulator of cryptic csgA gene for curli surface fibers

CCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCTGAAGGTAAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGTTTTACCTACAGTTACCAGTTTGGT  >  NC_000913/258544‑258826
                                                                                                                                            |                                                                                                                                              
ttaaaaatttgctaaattttgccaatttggtaaaacagttgcatcacaacaggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGt                                                                                                                                              <  2:1102987‑M2/3‑1 (MQ=255)
ttaaaaatttgctaaattttgccaatttggtaaaacagttgcatcacaacaggagatagcaaagacgttacagagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGt                                                                                                                                              >  2:570073‑M2/141‑143 (MQ=255)
  aaaaatttgctaaattttgccaatttggtaaaacagttgcatcacaacaggagatagcaatgacgttaccgagcggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaagggaAGTGc                                                                                                                                            >  1:1111264‑M2/139‑143 (MQ=255)
   aaaatttgctaaattttgccaatttggtaaaacagttgcatcacaacaggagatagcaatgacgttaccgcttggacacccgatgagcagattgatcaaaaaatttacagcactaggcccgtctattcataaagttaAGAgcc                                                                                                                                           >  2:1122388‑M2/138‑142 (MQ=255)
    aaatttgctaaattttgccaatttggtaaaacagttgcatcacaacaggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCaa                                                                                                                                          >  2:771556‑M2/137‑143 (MQ=255)
           ctaaattttgccaatttggtaaaacagttgcatcacaacatgagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattggtgaaggtaagtgaccagctatt                                                                                                                                   >  1:1299070‑M2/130‑133 (MQ=255)
           ctaaattttgccaatttggtaaaacagttgcatcacaacaggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgggagggtaAGTGCAAGGATAAt                                                                                                                                   >  2:1170232‑M2/130‑143 (MQ=255)
            taagttttggcaatttggcagaacaggtgcatcacaacaggagatagcaatgacgttaccgagtggacacccgaagagcagcttgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATACTc                                                                                                                                  <  1:301380‑M2/15‑1 (MQ=255)
               attttgccaatttggtaaaacagttgcatcacaacaggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGAt                                                                                                                               <  2:646773‑M2/18‑1 (MQ=255)
               attttgccaatttggtaaaacagttgcatcacaacaggagatagcaatgacgttaccgagtggacaaccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGAt                                                                                                                               >  2:850428‑M2/126‑143 (MQ=255)
                     ccaatttggtaaaacagttgcatcacaacaggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCtttt                                                                                                                         <  2:535810‑M2/24‑1 (MQ=255)
                        atttggtaaaacagttgcatcacaacaggagatagcaatgacgttaccgagtggacacccgcagagcagctggatcaaaagaacatcggctcgatgcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCg                                                                                                                      <  1:286970‑M2/27‑1 (MQ=255)
                              taaaacagttgcatcacaacaggagatagcaatgacgttaccgagtggacacccgaagagcagattgggcaaaaaatttaccgcacgagggccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTc                                                                                                                <  2:1056062‑M2/33‑1 (MQ=255)
                                 aacagttgcatcacaacaggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTgg                                                                                                             >  2:1009726‑M2/108‑143 (MQ=255)
                                 aacagttgcatcacaacaggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTgg                                                                                                             <  1:964176‑M2/36‑1 (MQ=255)
                                 aacagttgcatcacaacaggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTgg                                                                                                             <  2:13859‑M2/36‑1 (MQ=255)
                                   cagttgcatcacaacaggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCt                                                                                                           <  2:777239‑M2/38‑1 (MQ=255)
                                    agttgcatcacaacaggagatagcaatgacgttaccgagtggacacccgaagagccgattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGGTTGTCTTGCTg                                                                                                          >  2:281770‑M2/105‑143 (MQ=255)
                                           tcagcacagcagatagcaatgacgttaccgagtgaacacccgaagagcagagtgatcaaaaaacttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGAGAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGt                                                                                                   <  2:123376‑M2/46‑1 (MQ=255)
                                           tcacaacaggagatagcaaggacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGt                                                                                                   <  2:433291‑M2/46‑1 (MQ=255)
                                               aacaggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAAc                                                                                               >  1:158543‑M2/94‑143 (MQ=255)
                                               aacaggagatagcaatgacgttaccgagtggacacccgaagagcagaaggagcaaaaaattgaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAAc                                                                                               <  2:456942‑M2/50‑1 (MQ=255)
                                               aacaggagatagcaatgacgtgaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAAc                                                                                               <  2:438504‑M2/50‑1 (MQ=255)
                                               aacaggagaaagcaatgacgttagcgggtggagacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAAc                                                                                               <  2:363191‑M2/50‑1 (MQ=255)
                                                      tatagcaatggcgttaccggttgcgcacgcgaagagcagattgatcaaaaaatttaccgcactatgcccgtatattcgtgaagggaAGTGCATAGATAATCGATTCTTTTTCGATTGTCGGGCTGTATGCGTCAACGTGAAAc                                                                                        <  1:541513‑M2/57‑1 (MQ=255)
                                                      gatagcaaggacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgtcctaggcccgtatatccgtgaaggtaAGTGCAAAGATACTCGATCCTCCTGCGGTTGTCTGGCTGTATGCGTCAACGTGAAAc                                                                                        <  1:665315‑M2/57‑1 (MQ=255)
                                                        tagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCCGGGTGTATGCGTCAACGTGCAACCg                                                                                      >  1:1063290‑M2/85‑143 (MQ=255)
                                                            aatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgaactaggcccgtatattagtgaaggtaAGTGCAAAGATAATCGCTTCTTTTTCGATTGTCTGGCTGTAGTCGTCCACGAGAAACGGGcaa                                                                                  >  1:121789‑M2/81‑142 (MQ=255)
                                                             atgactttaccgagtgaacacccgaagagcagattgatcaaaaaatgtgccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCAcc                                                                                 <  2:510892‑M2/64‑1 (MQ=255)
                                                                 cgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGAGAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGaa                                                                             <  2:398978‑M2/68‑1 (MQ=255)
                                                                      ccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCg                                                                        >  2:92763‑M2/71‑143 (MQ=255)
                                                                       cgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGt                                                                       >  2:402807‑M2/70‑143 (MQ=255)
                                                                       cgaggggacacccggagagcagattgatcaaaaaatttaccgcactaggcccgtatatgcgtgaaggtaAGGGCAAAGATAAGCGATGCTTGTTCGATGGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGt                                                                       <  1:731135‑M2/74‑1 (MQ=255)
                                                                        gagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAACCCGGCACCGCAAGTACGTg                                                                      >  2:1266642‑M2/69‑143 (MQ=255)
                                                                               cacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTg                                                               <  1:1009726‑M2/82‑1 (MQ=255)
                                                                                  ccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGa                                                                                                                     <  1:248308‑M2/28‑1 (MQ=255)
                                                                                  ccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGa                                                                                                                     >  2:248308‑M2/59‑86 (MQ=255)
                                                                                  ccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCCGCACCGGAAGTGCGTGAATTCTgggg                                                            >  2:76555‑M2/59‑143 (MQ=255)
                                                                                    gaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCt                                                          >  2:1107888‑M2/57‑143 (MQ=255)
                                                                                             attgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCCCCGGAAGTGCGTGAATCCTGGGGCTGCtggatgg                                                 >  1:1228437‑M2/48‑143 (MQ=255)
                                                                                               tgctcaaaaaatttacctcactaggcccgtatattcgtgaaggtaAGTCCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAg                                               <  2:1003221‑M2/98‑1 (MQ=255)
                                                                                               tgatcaaaaaatttaccgcactaggcccgtatatgcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAg                                               <  2:1246227‑M2/98‑1 (MQ=255)
                                                                                                 atcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCCCCGGCAGTGCGTCACTTCTCGCGCTGGCGGAGGGAGCt                                             >  1:1142021‑M2/44‑143 (MQ=255)
                                                                                                 atcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCt                                             <  2:755255‑M2/100‑1 (MQ=255)
                                                                                                  tcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTg                                            >  2:421263‑M2/43‑143 (MQ=255)
                                                                                                    aaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGCGTGTGTGGCGGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCGGGa                                          >  1:655979‑M2/41‑143 (MQ=255)
                                                                                                    aaaaaatgtaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGAGGATGGAGCTGGa                                          >  1:31311‑M2/41‑143 (MQ=255)
                                                                                                          gttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTTTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCa                                    <  1:1089635‑M2/109‑1 (MQ=255)
                                                                                                             accgcactcggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGa                                 <  2:580507‑M2/112‑1 (MQ=255)
                                                                                                                  actaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATccc                            >  1:1246627‑M2/27‑143 (MQ=255)
                                                                                                                    taggtccgtttattctttaaggtaTGTGCAAAGATTATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGGGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGt                          <  2:236302‑M2/119‑1 (MQ=255)
                                                                                                                        cccgtatattcgtgacggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGACGTGCGTGAATTCTGGGGCTGGTGGATGGAGCCGGCAGCGCAGGACTCCCgttttc                      >  2:68513‑M2/21‑142 (MQ=255)
                                                                                                                         gcttatattagtgaaggtaAGTACAAAGATTAACGATTATTTTTTGATTGTCTGGCTTTATGCGTCAAAGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGCGCTGGTGGATGGAGCTTTAAGCGCAGGAATCCCGTTTTAc                     <  1:1146710‑M2/124‑1 (MQ=255)
                                                                                                                            tatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGTTTTACCTa                  <  2:862016‑M2/127‑1 (MQ=255)
                                                                                                                              tattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCg                                                                                                                      <  1:182780‑M2/27‑1 (MQ=255)
                                                                                                                              tattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCg                                                                                                                      >  2:182780‑M2/15‑41 (MQ=255)
                                                                                                                              tattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGTTTTACCTACa                <  1:690308‑M2/129‑1 (MQ=255)
                                                                                                                                ttcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAGGCGCAGGAATCCCGTTTTACTTACAGt              >  2:1143323‑M2/13‑143 (MQ=255)
                                                                                                                                    tgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGTAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATACCGTTTTACCTACAGTTAcc          >  1:444655‑M2/9‑143 (MQ=255)
                                                                                                                                        ggtaAGTGCAAAGATAATCGATCCTTTTTCGATTGTCTGGCTGTATACGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGTGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGTTTTACCTACAGTTACCAGtt      <  1:54526‑M2/139‑1 (MQ=255)
                                                                                                                                          gaAGTGCAAAGATACTCCATTCTCTTGCGCTTGTCTGGCTGTAGGCGTCAACGGGAACCCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGTTTTACCTACAGTTACCAGTTTg    <  1:1170232‑M2/141‑1 (MQ=255)
                                                                                                                                           aAGGGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCGGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGTTTTACCTACAGTTACCAGTTTgg   <  2:1109802‑M2/142‑1 (MQ=255)
                                                                                                                                            aGTGCAAAGGTAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAACTGGAAGCGCAGGAATCCCGTTTTACCTACAGTTACCAGTTTGGt  <  2:1020106/143‑1 (MQ=255)
                                                                                                                                            |                                                                                                                                              
CCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCTGAAGGTAAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGTTTTACCTACAGTTACCAGTTTGGT  >  NC_000913/258544‑258826

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.