New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_002947 3572354 =48 (0.890)4 (0.080) 4/246 NT 8.2% coding (390/444 nt) PP_3153 hypothetical protein
?NC_002947 3572384 = 44 (0.860)coding (420/444 nt) PP_3153 hypothetical protein

ATGCCCAGGGCCAGCCCGTACTCAGTGTCAGCGATGCCGGGCCGCTGCTGTATGTGCAATTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCTGTGCTCCTGCCTGGGGTCAGGTCACGCCTCGCGAATTCCTGTGCCCGGCAGGCACATCTTTACCAAGTGATTTAGCCAATAGTGGCAATACACTT  >  NC_002947/3572239‑3572528
                                                                                                                                                 |                                                                                                                                                
aTGCCCAGGGCCAGCCCGTACTCAGTGTCAGCGATGCCGGGCCGCTGCTGTATGTGCAATTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGAcc                                                                                                                                               <  8:82421/149‑1 (MQ=255)
 tGCCCAGGGCCAGCCCGTACTCAGTGTCAGCGATGCCGGGCCGCTGCTGTATGTGCAATTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCg                                                                                                                                              <  1:22608/149‑1 (MQ=255)
   taaagatgtgcctgccgggcacaggaattcgcgaggcgtgacctgaccccaggcaggagcacaggcgtactcctgcccgacttttcatcaacgccagttaaggttaacggtcGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGt                                                                                                                                             <  8:136423‑M1/36‑1 (MQ=255)
    ccAGGGCCAGCCCGTACTCAGTGTCAGCGATGCCGGGCCGCTGCTGTATGTGCAATTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGtt                                                                                                                                            >  3:168022/1‑148 (MQ=255)
     cAGGGCCAGCACGTACTCACTGTCAGCGATGCCCGGCCGCAGCTCTAAGTCCAATTGCATACCGCCAAAAACAAGGACATTGGCAATGCCAAAGCCCAGGCAGTGCAGCAGTGGGCGACCGTCACGTGCAAGGCGACCACGACCGATa                                                                                                                                           >  6:8468/1‑148 (MQ=255)
      agatgtgcctgccgggcacaggaattcgcgaggcgtgacctgaccccaggcaggagcacaggcgtactcctgcccgacttttcatcaacgccagttaaggttaacggtcGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAAc                                                                                                                                         >  7:136423‑M1/110‑149 (MQ=255)
      aGGGCCAGCCCGTACTCAGTGTCAGCGATGCCGGGCCGCTGCTGTATGTGCAATTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAAc                                                                                                                                         >  2:192137/1‑149 (MQ=255)
      aGGGCCAGCCCGTACTCAGTGTCAGCGATGCCGGGCCGCTGCTGTATGTGCAATTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAAc                                                                                                                                         <  6:94282/149‑1 (MQ=255)
      aGGGCCAGCCCGTACTAAGTGGCAGCGATCCCGGGCCGCTGCTGTATGTGCAATTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAAc                                                                                                                                         <  2:315658/149‑1 (MQ=255)
        ggCCAGCCCGTACTCAGTGTCAGCGATGCCGGGCCGCTGCTGTATGTGCAATTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCt                                                                                                                                       >  3:192350/1‑149 (MQ=255)
           cAGCCCGTACTCAGTGTCAGCGATGCCGGGCCGCTGCTGTATGTGCAATTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTa                                                                                                                                     >  7:235402/1‑148 (MQ=255)
             gCCCGTACTCAGTGTCAGCGATGCCGGGCCGCTGCTGTATGTGCAATTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACt                                                                                                                                  >  3:316516/1‑149 (MQ=255)
              cccGTACTCAGTGTCAGCGATGCCGGGCCGCTGCTGTATGTGCAATTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTg                                                                                                                                 <  8:105993/149‑1 (MQ=255)
                   aCTAAGTGTAAGCGATGCCTGGCGGTTGCTTTATGTGCATTTGGCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCAAGGAAGTGAAGCAGTGGGCGACCGTCACGGGAAAGGCGCCCACGACCGTTAACCTTAACTGGCg                                                                                                                              <  3:176256/147‑1 (MQ=255)
                     tCAGTGTCAGCGATGCCGGGCCGCTGCTGTATGTGCAATTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGTCCGTTAACCTTAACTGGc                                                                                                                               <  6:84935/144‑1 (MQ=255)
                     tCAGTGTCAGCGATGCCGGGCCGCTGCTGTATGTGCAATTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGc                                                                                                                               >  5:84935/1‑144 (MQ=255)
                       tgggtCAGCTATGCCGGGCCGCTCCTGTATGTCCAATGGCCTCCCGGAAAATACACGGTATTTGGAAATGCCAAAGCCCCGGATGTGCTGCCGGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTtgat                                                                                                                         <  4:64233/144‑1 (MQ=255)
                       aGTGTCAGCGATGCCGGGCCGCTGCTGTATGTGCAATTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTtgat                                                                                                                         <  3:291094/148‑1 (MQ=255)
                         tgtCAGCGATGCCGGGCCGCTGCTGTATGTGCAATTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTtgatga                                                                                                                       >  4:325387/1‑148 (MQ=255)
                              gCGATGCCGGGCCGCTGCTGTATGTGCAATTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTc                                                                                                                 <  4:162897/149‑1 (MQ=255)
                                 ttGCCGGGCCGCTGCTGTATGTGCAATTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGGGGGCTACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCggg                                                                                                              <  1:335141/148‑1 (MQ=255)
                                 aTGCCGGGCCGCTGCTGTATGTGCAATTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCggg                                                                                                              <  4:192350/149‑1 (MQ=255)
                                    ccGGGCCGCTGCTGTATGTGCAATTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCa                                                                                                            <  3:125902/148‑1 (MQ=255)
                                    ccGGGCCGCTGCTGTATGTGCAATTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAg                                                                                                           >  7:58562/1‑149 (MQ=255)
                                    ccGGGCCGCTGCTGTATGTGCAATTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAg                                                                                                           <  1:192137/149‑1 (MQ=255)
                                             ctgaccccaggcaggagcacaggcgtactcctgcccgacttttcatcaacgccagttaaggttaacggtcGTGGGCGACCGTCACGGGCAAGGCGCCCACGa                                                                                                                                                 >  1:160438‑M1/71‑102 (MQ=255)
                                             ctgaccccaggcaggagcacaggcgtactcctgcccgacttttcatcaacgccagttaaggttaacggtcGTGGGCGACCGTCACGGGCAAGGCGCCCACGa                                                                                                                                                 <  2:160438‑M1/32‑1 (MQ=255)
                                               ctgTATGTGCAATTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCtg                                                                                                >  8:122072/1‑149 (MQ=255)
                                                    tgtgCAATTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCg                                                                                                                >  6:43295/1‑128 (MQ=255)
                                                    tgtgCAATTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCTGTGCTc                                                                                           >  6:251926/1‑149 (MQ=255)
                                                    tgtgCAATTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCTGTGCTc                                                                                           >  6:30196/1‑149 (MQ=255)
                                                       gCAATTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCTGTGCTcctg                                                                                        >  5:89542/1‑149 (MQ=255)
                                                        aaaTTGCCTCCCGGAAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTtgat                                                                                                                         <  8:282958/114‑1 (MQ=255)
                                                         aaTTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCAGGCAGGAGCACAGGCGTACTcctgcc                                                                                      <  4:168022/149‑1 (MQ=255)
                                                               cTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTaa                                                                                                                                    <  4:124583/97‑1 (MQ=255)
                                                               cTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTaa                                                                                                                                    >  3:124583/1‑97 (MQ=255)
                                                                             aaGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCTGTGCTCCTGCCTGGGGTCAGGTCACGCCTcg                                                                  >  2:105580/1‑149 (MQ=255)
                                                                              aGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCTGTGCTCCTGCCTGGGGTCAGGTCACGCCTcgc                                                                 <  8:58562/149‑1 (MQ=255)
                                                                                   aTTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCTGTGCTCCTGCCTGGGGTCAGGTCACGCCTCGCGAAt                                                             <  8:235402/148‑1 (MQ=255)
                                                                                    ttGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCTGTGCTCCTGCCTGGGGTCAGGTCACGCCTCGCGAATTc                                                           <  1:105580/149‑1 (MQ=255)
                                                                                      ggCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCTGTGCTCCTGCCTGGGGTCAGGTCACGCCTCGCGAATTcc                                                          <  4:316516/148‑1 (MQ=255)
                                                                                            gCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCTGTGc                                                                                             >  8:323955/1‑107 (MQ=255)
                                                                                            gCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCTGTGc                                                                                             <  7:323955/107‑1 (MQ=255)
                                                                                              cgaaGGGCTGGCAGTGCAGCAGTGTGCGACCGTCAGGGGCAAGGCGCCCACGACCGTTAACCTTAAGTGGCGTTGATGATTAGTCGGGGAGGAGTACGCCTGTGGTCCTGCCTGGGGTCAGGTCTCGCCTCGCTAATTGCTGTGgcctg                                                 <  8:101090/147‑3 (MQ=255)
                                                                                              ccAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCTGTGCTCCTGCCTGGGGTCAGGTCACGCCTCGCGAATTCCTGTGCCCgg                                                 >  8:69144/1‑149 (MQ=255)
                                                                                                aaGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCTGTGCTCCTGCCTGGGGTCAGGTCACGCCTCGCGAATTCCTGTGCCCggca                                               <  5:8468/149‑1 (MQ=255)
                                                                                                         gttaacggtcgtgggcgccttgcccgtgacggtcgcccacGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCTGTGCTCCTGCCTGGGGTCAGGTCACGCCTCGCGAATTCCTGTGCCCGGCAGGCACATCt                                      >  7:136423‑M2/41‑149 (MQ=255)
                                                                                                             acggtcgtgggcgccttgcccgtgacggtcgcccacGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCTGTGCTCCTGCCTGGGGTCAGGTCACGCCTCGCGAATTCCTGTGCCCGGCAGGCACATCTTTa                                   <  8:136423‑M2/112‑1 (MQ=255)
                                                                                                               agcagTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCTGTGCTCCTGCCTGGGGTCAGGTCACGCCTCGCGAATTCCTGTGCCCGGCAGGCACATCTTTAcc                                 >  8:86472/1‑148 (MQ=255)
                                                                                                                gcagTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCTGTGCTCCTGCCTGGGGTCAGGTCACGCCTCGCGAATTCCTGTGCCCGGCAGGCACATCTTTACCaa                               <  7:69144/149‑1 (MQ=255)
                                                                                                                 tcgtgggcgccttgcccgtgacggtcgcccacGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCTGTGCTCCTGCCTGGggtcag                                                                             <  2:160438‑M2/70‑1 (MQ=255)
                                                                                                                 tcgtgggcgccttgcccgtgacggtcgcccacGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCTGTGCTCCTGCCTGGggtcag                                                                             >  1:160438‑M2/33‑102 (MQ=255)
                                                                                                                    TGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCTGTGCTCCTGCCTGGGGTCAGGTCACGCCTCGCGAATTCCTGTGCCCGGCAGGCACATCTTTACCAAGTGa                           >  6:89542‑M1/1‑149 (MQ=255)
                                                                                                                      GGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCTGTGCTCCTGCCTGGGGTCAGGTCACGCCTCGCGAATTCCTGTGCCCGGCAGGCACATCTTTACCAAGTGAtt                         >  3:325387‑M1/1‑149 (MQ=255)
                                                                                                                                aCGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCTGTGCTCCTGCCTGGGGTCAGGTCACGCCTCGCGAATTCCTGTGCCCGGCAGGCACATCTTTACCAAGTGATTTAGCCAATAg               >  3:323218/1‑149 (MQ=255)
                                                                                                                                  gggCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCTGTGCTCCTGCCTGGGGTCAGGTCACGCCTCGCGAATTCCTGTGCCCGGCAGGCACATCTTTACCAAGTGATTTAGCCAATAGTg             >  3:75766/1‑149 (MQ=255)
                                                                                                                                             ccacGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCTGTGCTCCTGCCTGGGGTCAGGTCACGCCTCGCGAATTCCTGTGCCCGGCAGGCACATCTTTACCAAGTGATTTAGCCAATAGTGGCAATACACtt  <  5:251926‑M2/145‑1 (MQ=255)
                                                                                                                                               acGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCTGTGCTCCTGCCTGGGGTCAGGTCACGCCTCGCGAATTCCTGTGCCCGGCAGGCACATCTTTACCAAGTGATTTAGCCAATAGTGGc           <  3:208364‑M2/136‑1 (MQ=255)
                                                                                                                                               acGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCTGTGCTCCTGCCTGGGGTCAGGACACGCCTCGCGAATTCCTGTGCCCGGCAGGCACATCTTTACCAAGTGATTTAGCCAATAGTGGc           >  4:208364‑M2/3‑138 (MQ=255)
                                                                                                                                                 |                                                                                                                                                
ATGCCCAGGGCCAGCCCGTACTCAGTGTCAGCGATGCCGGGCCGCTGCTGTATGTGCAATTGCCTCCCGGCAAATACAAGGTCATTGGCAATGCCCAAGGCCAGGCAGTGCAGCAGTGGGCGACCGTCACGGGCAAGGCGCCCACGACCGTTAACCTTAACTGGCGTTGATGAAAAGTCGGGCAGGAGTACGCCTGTGCTCCTGCCTGGGGTCAGGTCACGCCTCGCGAATTCCTGTGCCCGGCAGGCACATCTTTACCAAGTGATTTAGCCAATAGTGGCAATACACTT  >  NC_002947/3572239‑3572528

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.