New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_002947 = 447481351 (0.870)3 (0.050) 3/242 NT 5.8% coding (723/1536 nt) PP_3964 transposase
?NC_002947 = 4474834 50 (0.910)coding (702/1536 nt) PP_3964 transposase

GTAAACCACCGCTTTGAGCCCTGAAAACGGCGTCGTGCTGTACGCCCAGACATAGGCCCGGTGGGTTTTCTTCTCGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACGGCCAAAGATTTTCTCCTGCCGGTACAGCGGCAAGTGATCGGCAAACTTGGCCACCATC  >  NC_002947/4474672‑4474960
                                                                                                                                              |                                                                                                                                                   
gTAAACCACCGCTTTGAGCCCTGAAAACGGCGTCGTGCTGTACGCCCAGACATAGGCCCGGTGGGTTTTCTTCTCGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGt                                                                                                                                               <  6:214102/148‑1 (MQ=255)
gTAAACCACCGCTTTGAGCCCTGAAAACGGCGTCGTGCTGTACGCCCAGACATAGGCCCGGTGGGTTTTCTTCTCGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTg                                                                                                                                              >  6:195377/1‑149 (MQ=255)
    accaccGCTTTGAGCCCTGAAAACGGCGTCGTGCTGTACGCCCAGACATAGGCCCGGTGGGTTTTCTTCTCGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATc                                                                                                                                          <  1:364168/149‑1 (MQ=255)
       accGCTTTGAGCCCTGAAAACGGCGTCGTGCTGTACGCCCAGACATAGGCCCGGTGGGTTTTCTTCTCGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGAc                                                                                                                                       <  3:243773/149‑1 (MQ=255)
              tGAGCCCTGAAAACGGCGTCGTGCTGTACGCCCAGACATAGGCCCGGTGGGTTTTCTTCTCGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTgg                                                                                                                                 <  2:224079/148‑1 (MQ=255)
                          aCGGCGTCGTGCTGTACGCCCAGACATAGGCCCGGTGGGTTTTCTTCTCGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCAgccactggtcgatgcactgcgtgaagccgtgct                                                                                                                    <  5:191422‑M1/149‑34 (MQ=255)
                                tcgtGCTGTACGCCCAGACATAGGCCCGGTGGGTTTTCTTCTCGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGtt                                                                                                              >  4:88968/1‑149 (MQ=255)
                                    gCTGTACGCCCAGACATAGGCCCGGTGGGTTTTCTTCTCGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTc                                                                                                          >  3:150540/1‑149 (MQ=255)
                                    gCTGTACGCCCAGACATAGGCCCGGTGGGTTTTCTTCTCGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTc                                                                                                          >  7:64711/1‑149 (MQ=255)
                                      tGTACGCCCAGACATAGGCCCGGTGGGTTTTCTTCTCGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTcc                                                                                                         >  2:42089/1‑148 (MQ=255)
                                       gTACGCCCAGACATAGGCCCGGTGGGTTTTCTTCTCGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGa                                                                                                       >  1:136524/1‑149 (MQ=255)
                                            cccAGACATAGGCCCGGTGGGTTTTCTTCTCGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCAc                                                                                                  <  8:99393/149‑1 (MQ=255)
                                             ccAGACATAGGCCCGGTGGGTTTTCTTCTCGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCAgccactggtcgatgcactgcgtgaagccgtgc                                                                                                                     <  2:241987‑M1/129‑33 (MQ=255)
                                             ccAGACATAGGCCCGGTGGGTTTTCTTCTCGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCAgccactggtcgatgcactgcgtgaagccgtgc                                                                                                                     >  1:241987‑M1/1‑97 (MQ=255)
                                             ccAGACATAGGCCCGGTGGGTTTTCTTCTCGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACt                                                                                                 >  5:235341/1‑149 (MQ=255)
                                             ccAGACATAGGCCCGGTGGGTTTTCTTCTCGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACt                                                                                                 >  5:339771/1‑149 (MQ=255)
                                                   aTAGGCCCGGTGGGTTTTCTTCTCGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCTTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCa                                                                                           <  8:229783/149‑1 (MQ=255)
                                                   aTAGGCCCGGTGGGTTTTCTTCTCGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTgcgc                                                                                             >  5:134965/1‑147 (MQ=255)
                                                   aTAGGCCCGGTGGGTTTTCTTCTCGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCa                                                                                           <  1:219386/149‑1 (MQ=255)
                                                                gTTTTCTTCTCGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCgagcgagc                                                                              <  5:186702/149‑1 (MQ=255)
                                                                 ttttCTTCTCGCCTGGCGCAAGCATTTGCACCGGTGGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTcgagcgag                                                                               >  1:242638/1‑148 (MQ=255)
                                                                 ttttCTTCTCGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCa                                                                             <  8:226656/149‑1 (MQ=255)
                                                                   ttcttcTCGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGAACAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAAt                                                                           >  4:285911/1‑149 (MQ=255)
                                                                     cttctCGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAAtt                                                                          <  2:120684/148‑1 (MQ=255)
                                                                       tctcGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTc                                                                                      >  8:293520/1‑134 (MQ=255)
                                                                       tctcGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTc                                                                                      <  7:293520/134‑1 (MQ=255)
                                                                         tcGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAg                                                                     >  3:174800/1‑149 (MQ=255)
                                                                                  gcAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACg                                                            >  7:356172/1‑149 (MQ=255)
                                                                                  gcAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACg                                                            >  7:252445/1‑149 (MQ=255)
                                                                                     aGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACGGc                                                          >  8:177919/1‑148 (MQ=255)
                                                                                      gCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACGTcc                                                         >  4:281367/1‑148 (MQ=255)
                                                                                            gCACGGGTGTCTCATCAGCGTGGATCACTCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACGGCCAAAGAt                                                   <  5:328026/148‑1 (MQ=255)
                                                                                              aCCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCgg                                                                <  2:216497/133‑1 (MQ=255)
                                                                                               ccGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTTCCAGCCCGGCACGGCCAAAGATTTtc                                               >  5:302520/1‑149 (MQ=255)
                                                                                               ccGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACGGCCAAAGATTTtc                                               <  4:150540/149‑1 (MQ=255)
                                                                                                   tgtCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACGGCCAAAGATTTTCTCCt                                           <  8:64711/149‑1 (MQ=255)
                                                                                                      tctcATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACGGCCAAAGATTTTCTCCTGc                                         <  8:252445/149‑1 (MQ=255)
                                                                                                        tcatcaGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACGGCCAAAGATTTtc                                               <  3:146345/141‑1 (MQ=255)
                                                                                                        tcatcaGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACGGCCAAAGATTTtc                                               >  4:146345/1‑141 (MQ=255)
                                                                                                          atcaGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACGGCCAAAGATTTTCTCCTGACgg                                      >  7:84881/1‑148 (MQ=255)
                                                                                                                 tGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACGGCCAAAGATTTTCTCCTGCCGGTACAGCgg                              <  2:242638/149‑1 (MQ=255)
                                                                                                                    aTCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACGGCCAAAGATTTTCTCCTGCCGGTACAGCGGc                             >  8:149428/1‑147 (MQ=255)
                                                                                                                    aTCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACGGCCAAAGATTTTCTCCTGCCGGTACAGCGGc                             >  8:144548/1‑147 (MQ=255)
                                                                                                                    aTCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACGGCCAAAGATTTTCTCCTGCCGGTACAGCGGCaa                           <  2:136524/149‑1 (MQ=255)
                                                                                                                      cACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACGGCCAAAGATTTTCTCCTGCCGGTACAGCGGCAAg                          <  6:339771/148‑1 (MQ=255)
                                                                                                                       aCGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACGGCCAAAGATTTTCTCCTGCCGGTACAGCGGCAAGt                         <  8:356172/148‑1 (MQ=255)
                                                                                                                         gCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACGGCCAAAGATTTTCTCCTGCCGGTACAGCGGCAAGTGAt                      <  3:88968/149‑1 (MQ=255)
                                                                                                                          cccTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACGGCCAAAGATTTTCTCCTGCCGGTACAGCGGCAAGTGATc                     <  3:281367/149‑1 (MQ=255)
                                                                                                                            cTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACGGCCAAAGATTTTCTCCTGCCGGTACAGCGGCAAGTGATCgg                   <  5:195377/149‑1 (MQ=255)
                                                                                                                                ttCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACGGCCAAAGATTTTCTCCTGCCGGTACAGCGGCAAGTGATCGGCaa                >  4:352971/1‑148 (MQ=255)
                                                                                                                                   aGCACGGCTTCACGCAGTGCATCGACCAGTGGCtgaagccgtgctgaatcagggcgtgatccacgctgatgagacaccggtgcaaatgcttgcgccaggcgagaagaaaacccaccgggcctatgtctgggcgtacagcacgacgccgt            <  5:191422‑M2/149‑117 (MQ=255)
                                                                                                                                    gCACGGCTTCACGCAGTGCATCGACCAGTGGCtgaagccgtgctgaatcagggcgtgatccacgctgatgagacaccggtgcaaatgcttgcgccaggcgagaagaaaacccaccgggcctatgtctgg                               >  1:241987‑M2/1‑32 (MQ=255)
                                                                                                                                    gCACGGCTTCACGCAGTGCATCGACCAGTGGCtgaagccgtgctgaatcagggcgtgatccacgctgatgagacaccggtgcaaatgcttgcgccaggcgagaagaaaacccaccgggcctatgtctgg                               <  2:241987‑M2/129‑98 (MQ=255)
                                                                                                                                    gCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACGGCCAAAGATTTTCTCCTGCCGGTa                                    <  2:29358/124‑1 (MQ=255)
                                                                                                                                    gCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACGGCCAAAGATTTTCTCCTGCCGGTa                                    >  1:29358/1‑124 (MQ=255)
                                                                                                                                    gCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACGGCCAAAGATTTTCTCCTGCCGGTACAGCGGCAAGTGATCGGCAAACTTg           >  1:345208/1‑149 (MQ=255)
                                                                                                                                    gCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACGGCCAAAGATTTTCTCCTGCCGGTACAGCGGCAAGTGATCGGCAAACTTg           <  7:177919/149‑1 (MQ=255)
                                                                                                                                              aCGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCGGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACGGCCAAAGATTTTCTCCTGCCGGTACAGCGGCAAGTGATCGGCAAACTTGGCCACCATc  <  8:84881/148‑1 (MQ=255)
                                                                                                                                              |                                                                                                                                                   
GTAAACCACCGCTTTGAGCCCTGAAAACGGCGTCGTGCTGTACGCCCAGACATAGGCCCGGTGGGTTTTCTTCTCGCCTGGCGCAAGCATTTGCACCGGTGTCTCATCAGCGTGGATCACGCCCTGATTCAGCACGGCTTCACGCAGTGCATCGACCAGTGGCTGAAGCCGCACGCCGGTTTGTCCGACCCACTGCGCCAGGGTCGAGCGAGCAATTGCCAGCCCGGCACGGCCAAAGATTTTCTCCTGCCGGTACAGCGGCAAGTGATCGGCAAACTTGGCCACCATC  >  NC_002947/4474672‑4474960

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ 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.