New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 3214224	49 (0.860)	3 (0.060)	3/248	NT	5.9%	coding (139/3129 nt)	mexD	multidrug RND transporter MexD
	?	NC_002947	= 3214263	49 (0.910)					coding (178/3129 nt)	mexD	multidrug RND transporter MexD

CCTGGGTCGTGGCGTTGTTCATTTCACTGGCCGGTTTGCTGGTGATTCCATCCTTGCCCGTGGCCCAGTACCCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCCACCAACAACTCCAACGGCGTGGCCGAAGTGATGGTGACCTTCGAGCCAGGCACCGACCCGGACATGGCGCAGGTCGACGTG  >  NC_002947/3214120‑3214406                                                                                                                                                 |                                                                                                                                                ccTGGGTCGTGGCGTTGTTCATTTCACTGGCCGGTTTGCTGGTGATTCCATCCTTGCCCGTGGCCCAGTACCCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTcggtg                                                                                                                                            >  5:205516‑M2/1‑144 (MQ=255)  cTGGGTCGTGGCGTTGTTCATTTCACTGGCCGGTTTGCTGGTGATTCCATCCTTGCCCGTGGCCCAGTACCCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTcggtga                                                                                                                                           >  4:25581‑M2/1‑143 (MQ=255)    gggTCGTGGCGTTGTTCATTTCACTGGCCGGTTTGCTGGTGATTCCATCCTTGCCCGTGGCCCAGTACCCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGAc                                                                                                                                          >  6:71236/1‑148 (MQ=255)     ggTCGTGGCGTTGTTCATTTCACTGGCCGGTTTGCTGGTGATTCCATCCTTGCCCGTGGCGCAGTTCTCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCa                                                                                                                                        <  2:285736/149‑1 (MQ=255)     ggTCGTGGCGTTGTTCATTTCACTGGCCGGTTTGCTGGTGATTCCATCCTTGCCCGTGGCCCAGTACCCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCa                                                                                                                                        <  6:98479/149‑1 (MQ=255)             cGTTGTTCATTTCACTGGCCGGGTTGCTGGTGATTCCATCCTTGCCCGTGGCCCAGTACCCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCatcatc                                                                                                                                <  2:129900/149‑1 (MQ=255)                 gttCATTTCACTGGCCGGTTTGCTGGTGATTCCATCCTTGCCCGTGGCCCAGTACCCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGaa                                                                                                                             >  6:154714/1‑148 (MQ=255)                 gttCATTTCACTGGCCGGTTTGCTGGTGATTCCATCCTTGCCCGTGGCCCAGTACCCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGaa                                                                                                                             <  2:122680/148‑1 (MQ=255)                  ttCATTTCACTGGCCGGTTTGCTGGTGATTCCATCCTTGCCCGTGGCCCAGTACCCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGaa                                                                                                                             >  5:62664/1‑147 (MQ=255)                  ttCATTTCACTGGCCGGTTTGCTGGTGATTCCATCCTTGCCCGTGGCCCAGTACCCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACa                                                                                                                           <  1:347114/149‑1 (MQ=255)                    cATTTCACTGGCCGGTTTGCTGGTGATTCCATCCTTGCCCGTGGCCCAGTACCCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGt                                                                                                                         >  6:130063/1‑149 (MQ=255)                      tttCACTGGCCGGTTTGCTGGTGATTCCATCCTTGCCCGTGGCCCAGTACCCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCg                                                                                                                       >  7:145055/1‑149 (MQ=255)                      tttCACTGGCCGGTTTGCTGGTGATTCCATCCTTGCCCGTGGCCCAGTACCCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCg                                                                                                                       >  3:27195/1‑149 (MQ=255)                            tGGCCGGTTTGCTGGTGATTCCATCCTTGCCCGTGGCTCAGTACCCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACAAGAATCATCGAACAGTCGCTCAAc                                                                                                                 >  3:237354/1‑149 (MQ=255)                              gCCGGTGTGCTGGTGATTCCTTCCTTGACAGTTGCCCATTACCCCAACGTGGCGCCACCTCAGATCTCCATCACCGCCTCCTAACCCGGCG‑CTTCGGCCAAGGTCATGGTTGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACg                                                                                                                <  8:152055/148‑1 (MQ=255)                                     tccTGGTGATTCCATCCTTGCCCGTGTTCAATTACACCTAACTGGCGACAACGGAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCaa                                                                                                         <  2:28974/146‑1 (MQ=255)                                     tGCTGGTGATTCCATCCTTGCCCGTGGCCCAGTACCCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCaa                                                                                                         <  5:71236/148‑1 (MQ=255)                                        tGGTGATTCCATCCTTGCCCGTGGCCCAGTACCCCAACGTGGCGCCACCGCAGAACTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACa                                                                                                                           >  7:168782/1‑127 (MQ=255)                                        tGGTGATTCCATCCTTGCCCGTGGCCCAGTACCCCAACGTGGCGCCACCGCAGAACTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACa                                                                                                                           <  8:168782/127‑1 (MQ=255)                                          gTGATTCCATCCTTGCCCGTGGCCCAGTACCCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCct                                                                                                   >  8:265785/1‑149 (MQ=255)                                           tgtttCCAGCCTTGCCCGTGTCCCAGTACCCCCACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCctg                                                                                                  <  6:252527/146‑1 (MQ=255)                                             aTTCCATCCTTGCCCGTGGCCCAGTACCCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCctgct                                                                                                <  3:289415/149‑1 (MQ=255)                                              ttCCATCCTTGCCCGTGGCCCAGTACCCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCctgctg                                                                                               <  5:154714/149‑1 (MQ=255)                                                     cTTGCCCGTGGCCCAGTACCCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGtactac                                                                                         <  8:145055/148‑1 (MQ=255)                                                      ttGCCCGTGGCCCAGTACCCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGtactac                                                                                         >  4:25770/1‑147 (MQ=255)                                                        gCCCGTGGCCCAGTACCCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAg                                                                                      <  6:62664/148‑1 (MQ=255)                                                                cccAGTACCCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCCACcaa                                                                              >  2:13347/1‑148 (MQ=255)                                                                 ccAGTACCCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGtactac                                                                                         <  1:209496/136‑1 (MQ=255)                                                                 ccAGTACCCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGtactac                                                                                         >  2:209496/1‑136 (MQ=255)                                                                   aGTACCCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCCACCaacaac                                                                          <  5:104704/149‑1 (MQ=255)                                                                   aGTACCCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCCACCaacaac                                                                          <  5:215166/149‑1 (MQ=255)                                                                        cccAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCGTCTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCCACCAACAACTcc                                                                       >  1:266362/1‑148 (MQ=255)                                                                               tGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCCACCAACAACTCCAACGGCGTg                                                              <  5:130063/149‑1 (MQ=255)                                                                                ggCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTcc                                                                                   >  4:216824/1‑127 (MQ=255)                                                                                       ccGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCCACCAACAACTCCAACGGCGTGGCCGAAGt                                                      <  5:143828/149‑1 (MQ=255)                                                                                       ccGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCCACCAACAACTCCAACGGCGTGGCCGAAGt                                                      <  4:27195/149‑1 (MQ=255)                                                                                         gCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCCACCAACAACTCCAACGGCGTGGCCGAAGTGa                                                    <  7:265785/149‑1 (MQ=255)                                                                                           aGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCCACCAACAACTCCAACGGCGTGGCCGAAGTGATg                                                  <  3:25770/149‑1 (MQ=255)                                                                                              tctcCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCCACCAACAACTCCAACGGCGt                                                               <  5:7573/133‑1 (MQ=255)                                                                                              tctcCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCCACCAACAACTCCAACGGCGt                                                               >  6:7573/1‑133 (MQ=255)                                                                                               ctcCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCCACCAACAACTCCAACGGCGTGGCCGAAGTGATGGTGa                                              >  3:7160/1‑149 (MQ=255)                                                                                                tcCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCCACCAACAACTCCAACGGCGTGGCCGAAGTGAt                                                   <  5:132757/143‑1 (MQ=255)                                                                                                tcCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCCACCAACAACTCCAACGGCGTGGCCGAAGTGAt                                                   >  6:132757/1‑143 (MQ=255)                                                                                                  cATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTcggtgatggagatctgcggtggcgccacgttggggtactgggccacgggcaaggatggaatcaccagcaaaccggccagtgaaatgaacaacgccacgacc                                            <  6:232644‑M2/148‑102 (MQ=255)                                                                                                  cATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCCACCAACAACTCCAACGGCGTGGCCGAAGTGATGGTGACCt                                           >  4:316901/1‑149 (MQ=255)                                                                                                   aTCACCGCCTCCTACCCCGGAG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCAACCAACAACTCCAACGGCGTGGCCGAAGTGATGGTGACCtt                                          >  1:313074/1‑149 (MQ=255)                                                                                                    tCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTcggtgatggagatctgcgttggcgccactttggtttaatctgccacgggcaaggatggaatcaccagcaaaccggccagtgaaatgaacaacgccacgacccag                                         <  6:95771‑M2/149‑105 (MQ=255)                                                                                                      aCCGCCTCCTACCCCGGCG‑CTTCGGACAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCCACCAACAACTCGAACGGCGTGGCCTAAGTGATGGTGACCTTCGa                                       <  4:237354/149‑1 (MQ=255)                                                                                                         gCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTcggtgatggagatctgcggtggcgccacgttggggtactgggccacgggcaaggatggaatcaccagcaaaccggccagtgaaatgaacaacgccacgacccaggcgaa                                    >  5:232644‑M2/1‑40 (MQ=255)                                                                                                                aCCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCCACCAACAACTCCAACGGCGTGGCCGAAGTGATGGTGACCTTCGAGCCAGGCAcc                             >  3:297406/1‑149 (MQ=255)                                                                                                                aCCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCCACCAACAACTCCAACGGCGTGGCCGAAGTGATGGTGACCTTCGAGCCAGGCAcc                             >  4:3458/1‑149 (MQ=255)                                                                                                                  cccGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCCACCAACAACTCCAACGGCGTGGCCGAAGTGATGGTGACCTTCGAGCCAGGCACCGa                           >  5:99684/1‑149 (MQ=255)                                                                                                                   ccGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCCACCAACAACTCCAACGGCGTGGCCGAAGTGATGGTGACCTTCGAGCCAGGCACCGAc                          <  1:13347/149‑1 (MQ=255)                                                                                                                           ttCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCCACCAACAACTCCAACGGCGTGGCCGAAGTGATGGTGACCTTCGAGCCAGGCAcc                             >  2:25676/1‑139 (MQ=255)                                                                                                                           ttCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCCACCAACAACTCCAACGGCGTGGCCGAAGTGATGGTGACCTTCGAGCCAGGCAcc                             <  1:25676/139‑1 (MQ=255)                                                                                                                              ggCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCCACCAACAACTCCAACGGCGTGGCCGAAGTGATGGTGACCTTCGAGCCAGGCACCGACCCGGACATg                 <  3:316901/148‑1 (MQ=255)                                                                                                                                            tggAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCCACCAACAACTCCAACGGCGTGGCCGAAGTGATGGTGACCTTCGAGCCAGGCACCGACCCGGACATGGCGCAGGTCGACGTg  <  4:297406/149‑1 (MQ=255)                                                                                                                                              gAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCCACCAACAACTCCAACGGCGTGGCCGAAGTGATGGTGACCTTCGAGCCAGGCACCGACCCGGACATGGCGCAGGTCGACGTg  >  6:102862/1‑147 (MQ=255)                                                                                                                                                 |                                                                                                                                                CCTGGGTCGTGGCGTTGTTCATTTCACTGGCCGGTTTGCTGGTGATTCCATCCTTGCCCGTGGCCCAGTACCCCAACGTGGCGCCACCGCAGATCTCCATCACCGCCTCCTACCCCGGCG‑CTTCGGCCAAGGTCATGGTGGAGTCGGTGACCAGCATCATCGAACAGTCGCTCAACGGCGCCAAGGGCCTGCTGTACTACGAGTCCACCAACAACTCCAACGGCGTGGCCGAAGTGATGGTGACCTTCGAGCCAGGCACCGACCCGGACATGGCGCAGGTCGACGTG  >  NC_002947/3214120‑3214406

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.