New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_002947 670326 =45 (1.070)4 (0.100) 4/246 NT 7.9% coding (1768/2355 nt) pbpC peptidoglycan glycosyltransferase
?NC_002947 670367 = 50 (1.240)coding (1809/2355 nt) pbpC peptidoglycan glycosyltransferase

ATGGATTGGCCGCCCCGACGGTACACCGGTGCCTGGGCAGTTCGGCCTGGCGTCGGCGGCGCCGCTGATGTTGCAGGTGCACGATCTGTTGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCAGCGCTTTGCATGGACCCTGGACGGCACCACGCCGCCAACCTTGCAGGCAGCCGACCAGCCGCTGGGCCTGG  >  NC_002947/670178‑670467
                                                                                                                                                    |                                                                                                                                             
aTGGATTGGCCGCCCCGACGGTACACCGGTGCCTGGGCAGTTCGGCCTGGCGTCGGCGGCGCCGCTGATGTTGCAGGTGCACGATCTGTTGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAata                                                                                                                                               >  3:178528/1‑149 (MQ=255)
   gATTGGCCGCCCCGACGGTACACCGGTGCCTGGGCAGTTCGGCCTGGCGTCGGCGGCGCCGCTGATGTTGCAGGTGCACGATCTGTTGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCg                                                                                                                                            <  2:155329/149‑1 (MQ=255)
    cccgcaagccccgctcgttgacccatacttgttcgcgcaaacccaggcccagcggctggtcggctgcctgcaaggttggcggcgtggtgccgtgcatggtccatgccaaagcgctgacgccgacagttggtgtcctgcttgctcATCgg                                                                                                                                           >  1:52308‑M1/145‑149 (MQ=255)
    aTTGGCCGCCCCGACGGTACACCGGTGCCTGGGCAGTTCGGCCTGGCGTCGGCGGCGCCGCTGATGTTGCAGGTGCACGATCTGTTGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATc                                                                                                                                             >  8:134940/1‑147 (MQ=255)
    aTTGGCCGCCCCGACGGTACACCGGTGCCTGGGCAGTTCGGCCTGGCGTCGGCGGCGCCGCTGATGTTGCAGGTGCACGATCTGTTGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATc                                                                                                                                             <  7:134940/147‑1 (MQ=255)
    aTTGGCCGCCCCGACGGTACACCGGTGCCTGGGCAGTTCGGCCAGGCGTCGGCGGCGCCGCTGATGTTGCAGGTGCACGATCTGTTGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCgg                                                                                                                                           >  1:188635/1‑149 (MQ=255)
     ttGGCCGCCCCGACGGTACACCGGTGCCTGGGCAGTTCGGCCTGGCGTCGGCGGCGCCGCTGATGTTGCAGGTGCACGATCTGTTGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGAAGCGCCGGTACCTGCGAATATCGGc                                                                                                                                          <  4:188897/149‑1 (MQ=255)
     cccgcaagccccgctcgttgacccatacttgttcgcgcaaacccaggcccagcggctggtcggctgcctgcaaggttggcggcgtggtgccgtccagggtccatgcaaagcgctgacgccgacagttggtgtcctgcttgctcATCGGc                                                                                                                                          <  6:59588‑M1/6‑1 (MQ=255)
     cccgcaagccccgctcgttgacccatacttgttcgcgcaaacccaggcccagcggctggtcggctgcctgcaaggttggcggcgtggtgccgtccagggtccatgcaaagcgctgacgccgacagttggtgtcctgcttgctcATCGGc                                                                                                                                          <  2:188635‑M1/6‑1 (MQ=255)
        gccgccCCGACGGTACACCGGTGCCTGGGCAGTTCGGCCTGGCGTCGGCGGCGCCGCTGATGTTGCAGGTGCACGATCTGTTGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAatat                                                                                                                                              <  1:103465/142‑1 (MQ=255)
        gccgccCCGACGGTACACCGGTGCCTGGGCAGTTCGGCCTGGCGTCGGCGGCGCCGCTGATGTTGCAGGTGCACGATCTGTTGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAatat                                                                                                                                              >  2:103465/1‑142 (MQ=255)
             cccgctcgttgacccatacttgttcgcgcaaacccaggcccagcggctggtcggctgcggtgcaaggttggcggcgtggtgccgtccagggtccatgcaaagcgctgacgccgacagttggtgtcctgcttgctcATCGGCGTTGCAGc                                                                                                                                  <  1:212529‑M1/14‑1 (MQ=255)
                          cGGTGCCTGGGCAGTTCGGCCTGGCGTCGGCGGCGCCGCTGATGTTGCAGGTGCACGATCTGTTGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCg                                                                                                                     >  5:150531/1‑149 (MQ=255)
                           ggTGCCTGGGCAGTTCGGCCTGGCGTCGGCGGCGCCGCTGATGTTGCAGGTGCACGATCTGTTGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGc                                                                                                                    <  4:178528/149‑1 (MQ=255)
                              gCCTGGGCAGTTCGGCCTGGCGTCGGCGGCGCCGCTGATGTTGCAGGTGCACGATCTGTTGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTgg                                                                                                                 <  8:102099/149‑1 (MQ=255)
                                          caaacccaggcccagcggctggtcggctgcctgcaaggttggcggcgtggtgccgtccagggtccatgcaaagcgctgacgccgacagttggtgtcctgcttgctcATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGa                                                                                                     >  2:212529‑M1/107‑149 (MQ=255)
                                           aaacccaggcccagcggctggtcggctgcctgcaaggttggcggcgtggtgccgtccagggtccatgcaaagcgctgacgccgacagttggtgtcctgcttgctcATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGag                                                                                                    <  3:183446‑M1/44‑1 (MQ=255)
                                              cccaggcccagcggctggtcggctgcctgcaaggttggcggcgtggtgccgtccagggtccatgcaaagcgctgacgccgacagttggtgtcctgcttgctcATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGagcaa                                                                                                 >  4:183446‑M1/103‑149 (MQ=255)
                                               tGGCGTCGGCGGCGCCGCTGATGTTGCAGGTGCACGATCTGTTGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGagcaag                                                                                                >  8:142488/1‑149 (MQ=255)
                                                                    tGTTGCAGGTGCACGATCTGTTGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGt                                                                           >  7:132837/1‑149 (MQ=255)
                                                                    tGTTGCAGGTGCACGATCTGTTGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGt                                                                           >  7:539/1‑149 (MQ=255)
                                                                      ttGCAGGTGCACGATCTGTTGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCa                                                                         <  7:142488/149‑1 (MQ=255)
                                                                          aGGTGCACGATCTGTTGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCACGCTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGAAGAGCAAGCAGGACACCAACTGTCGGCGTCAtcgc                                                                     >  5:151417/1‑149 (MQ=255)
                                                                            gTGCACGATCTGTTGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCa                                                                         <  6:34291/143‑1 (MQ=255)
                                                                            gTGCACGATCTGTTGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCa                                                                         >  5:34291/1‑143 (MQ=255)
                                                                            gTGCACGATCTGTTGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCAGCGCtt                                                                   >  4:244554/1‑149 (MQ=255)
                                                                            gTGCACGATCTGTTGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCAGCGCtt                                                                   >  7:225670/1‑149 (MQ=255)
                                                                                  gATCTGTTGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCAGCGCTTTGCATg                                                             >  4:38039/1‑149 (MQ=255)
                                                                                       gTTGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCAGCGCTTTGCATGGAccc                                                        >  2:82002/1‑149 (MQ=255)
                                                                                        ttGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGAt                                                                                                       <  6:82075/101‑1 (MQ=255)
                                                                                        ttGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGAt                                                                                                       >  5:82075/1‑101 (MQ=255)
                                                                                        ttGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGCGCAAGCAGGACACCAACTGTCGGCGTCAGCGCTTTGCATGGACCCt                                                       >  7:211265/1‑149 (MQ=255)
                                                                                        ttGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCAGCGCTTTGCATGGa                                                           <  2:25676/145‑1 (MQ=255)
                                                                                          gAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGagcaagc                                                                                               >  4:159176/1‑107 (MQ=255)
                                                                                          gAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGagcaagc                                                                                               <  3:159176/107‑1 (MQ=255)
                                                                                          gAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGagcaagc                                                                                               >  2:92415/1‑107 (MQ=255)
                                                                                            gCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCAGCGCTTTGCATGGACCCTGGAc                                                   <  3:38039/149‑1 (MQ=255)
                                                                                               aTCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCAGCGCTTTGCATGGACCCTGGACGGc                                                <  8:132837/149‑1 (MQ=255)
                                                                                                       aGCCAGCGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCGGGGATCTGTTGGCCGCGGGGTCAGCCGTTGAGCAAGCAGGGCAGCCCCGGTCGGGGTCGGGGCGGTGGGGGGGCCCTGGGCGGGACCAggcg                                        >  2:173470/1‑148 (MQ=255)
                                                                                                            aCGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCAGCGCTTTGCATGGACCCTGGACGGCACCACGCCGCCaa                                   >  7:201496/1‑149 (MQ=255)
                                                                                                                 gCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCAGCGCTTTGCATGGACCCTGGACGGCACCACGCCGCCAACCTTg                              <  8:201496/149‑1 (MQ=255)
                                                                                                                   aTCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCAGCGCTTTGCATGGACCCTGGACGGCACCACGCCGCCAACCTTgca                            <  3:244554/149‑1 (MQ=255)
                                                                                                                   aTCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCAGCGCTTTGCATGGACCCTGGACGGCACCACGCCGCCAACCTTgca                            <  1:82002/149‑1 (MQ=255)
                                                                                                                   aTCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCAGCGCTTTGCATGGACCCTGGACGGCACCACGCCGCCAACCTTg                              >  1:61555/1‑147 (MQ=255)
                                                                                                                     cAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCAGCGCTTTGCATGGACCCTGGACGGCACCACGCCGCCAACCTTgcagg                          >  8:72723/1‑149 (MQ=255)
                                                                                                                      aGCGTCCCGGTAGCGCCGGTAGCTGCGAATATCGGCGTTGGATCGATGTGTTTGCCGTTGGGTCAGCCGACGAGCTAGCAGTACACCAACTGTCGGCGTCAGCGCTTTGCATGGACCCTGGACGGCACCACGCCGCCAACCTTgcaggc                         <  6:151417/149‑1 (MQ=255)
                                                                                                                      aGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCAGCGCTTTGCATGGACCCt                                                       <  7:111542/119‑1 (MQ=255)
                                                                                                                      aGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCAGCGCTTTGCATGGACCCt                                                       >  8:111542/1‑119 (MQ=255)
                                                                                                                      aGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCAGCGCTTTGCATGGACCCTGGACGGCACCACGCCGCCAACCTTgcaggc                         <  7:72723/149‑1 (MQ=255)
                                                                                                                             cGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCAGCGCTTTGCATGGACCCTGGACGGCACCACGCCGCCAACCTTgca                            <  2:20380/139‑1 (MQ=255)
                                                                                                                             cGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCAGCGCTTTGCATGGACCCTGGACGGCACCACGCCGCCAACCTTgca                            >  1:20380/1‑139 (MQ=255)
                                                                                                                             cGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCAGCGCTTTGCATGGACCCTGGACGGCACCACGCCGCCAACCTTGCAGGCAGCCGAc                  >  3:29874/1‑149 (MQ=255)
                                                                                                                             cGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCAGCGCTTTGCATGGACCCTGGACGGCACCACGCCGCCAACCTTGCAGGCAGCCGAc                  <  8:539/149‑1 (MQ=255)
                                                                                                                               gTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCAGCGCTTTGCATGGACCCTGGACGGCACCACGCCGCCAACCTTGCAGGCAGCCGACCa                <  6:150531/149‑1 (MQ=255)
                                                                                                                                        gTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCAGCGCTTTGCATGGACCCTGGACGGCACCACGCCGCCAACCTTGCTGGCAGCCGACCAGCCGCTggg       >  8:139368/1‑149 (MQ=255)
                                                                                                                                            cTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCaa                                                                                     >  7:177626/1‑67 (MQ=255)
                                                                                                                                            cTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCaa                                                                                     <  8:177626/67‑1 (MQ=255)
                                                                                                                                            cTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCAGCGCTTTGCATGGACCCTGGACGGCACCACGCCGCCAACCTTGCAGGCAGCCGACCAGCCGCTGGGCCTg   >  5:81635/1‑149 (MQ=255)
                                                                                                                                            cTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCAGCGCTTTGCATGGACCCTGGACGGCACCACGCCGCCAACCTTGCAGGCAGCCGACCAGCCGCTGGGCCTg   >  1:136416/1‑149 (MQ=255)
                                                                                                                                               cGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCAGCGCTTTGCATGGACCCTGGACGGCACCACGCCGCCAACCTTGCAGGCAGCCGACCAGCCGCTGGGCCTgg  <  8:225670/147‑1 (MQ=255)
                                                                                                                                                    |                                                                                                                                             
ATGGATTGGCCGCCCCGACGGTACACCGGTGCCTGGGCAGTTCGGCCTGGCGTCGGCGGCGCCGCTGATGTTGCAGGTGCACGATCTGTTGAGCAATCGCGACAGCCAACGCGGCATCAGCGTCCCGGTAGCGCCGGTACCTGCGAATATCGGCGTTGCAGCGATCTGTTGGCCGCTGGGTCAGCCGATGAGCAAGCAGGACACCAACTGTCGGCGTCAGCGCTTTGCATGGACCCTGGACGGCACCACGCCGCCAACCTTGCAGGCAGCCGACCAGCCGCTGGGCCTGG  >  NC_002947/670178‑670467

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ 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.