New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 4116891	45 (0.840)	4 (0.080)	4/252	NT	7.8%	coding (36/456 nt)	iorA‑II	isoquinoline 1‑oxidoreductase subunit alpha
	?	NC_002947	= 4116933	51 (0.990)					coding (78/456 nt)	iorA‑II	isoquinoline 1‑oxidoreductase subunit alpha

CACCGGGGGACAACGTATTCCCCATGCAGATAAAACACAGCGACAACAACCGTGACGGGCAGGTGAAACCATGGAACTACGCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCTGGTGGACGGCAATGTGGTGCGCGCCTGCGTTACCCCGGTGGCCGGTGTGGTGGGGCGTGAGGTCACCACCATCGAGGC  >  NC_002947/4116786‑4117076                                                                                                                                                     |                                                                                                                                                cACCGGGGGACAACGTATTCCCCATGCAGATAAAACACAGCGACAACAACCGTGACGGGCAGGTGAAACCATGGAACTACGCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGAt                                                                                                                                                 >  7:178275/1‑148 (MQ=255)   ccGGGGGACAACGTATTCCCCATGCAGATAAAACACAGCGACAACAACCGTGACGGGCAGGTGAAACCATGGAACTACGCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATgac                                                                                                                                              >  8:178275‑M2/1‑146 (MQ=255)        ggACAACGTATTCCCCATGCAGATAAAACACAGCGACAACAACCGTGACGGGCAGGTGAAACCATGGAACTACGCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTggg                                                                                                                                         <  2:217289/149‑1 (MQ=255)                 aTTCCCCATGCAGATAAAACACAGCGACAACAACCGTGACGGGCAGGTGAAACCATGGAACTACGCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCgg                                                                                                                                >  7:103827/1‑149 (MQ=255)                            aGATAAAACACAGCGACAACAACCGTGACGGGCAGGTGAAACCATGGAACTACGCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATg                                                                                                                     <  1:60343/149‑1 (MQ=255)                             gATAAAACACATCTACTACAACCGTGACGGGCAGTTGAAACCATGGAACTACGCATCAACCAGAAGTCCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGACTGACCGGCACCAAGTATgg                                                                                                                    <  3:198971/149‑1 (MQ=255)                                 aaaCACAGCGACAACAACCGTGACGGGCAGGTGAAACCATGGAACTACGCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGc                                                                                                                <  4:127576/149‑1 (MQ=255)                                  aaCACAGCGACAACAACCGTGACGGGCAGGTGAAACCATGGAACTACGCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCg                                                                                                               <  8:103827/149‑1 (MQ=255)                                  aaCACAGCGACAACAACCGTGACGGGCAGGTGAAACCATGGAACTACGCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCg                                                                                                               >  7:60217/1‑149 (MQ=255)                                   acacAGCGACAACAACCGTGACGGGCAGGTGAAACCATGGAACTACGCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGTGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCgg                                                                                                              >  2:161399/1‑149 (MQ=255)                                     acaGCGACAACAACCGTGACGGGCAGGTGAAACCATGGAACTACGCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCt                                                                                                            >  6:54383/1‑149 (MQ=255)                                           acaacaACCGTGACGGGCAGGTGAAACCATGGAACTACGCATCAACCAGCAGACCTAGCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGAGGCCCGGGGGCTGACCGGCCCCAAGGAAGGCTGCGGCTTGGccc                                                                                                      >  3:240432/1‑149 (MQ=255)                                             aacaacCGTGACGGGCAGGTGAAACCATGGAACTACGCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTCCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAg                                                                                                    >  1:15593/1‑149 (MQ=255)                                               caacCGTGACGGGCAGGTGAAACCATGGAACTACGCATCAACCAGAAGACCTATCAGGTAGGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGt                                                                                                   >  1:97814/1‑149 (MQ=255)                                               caacCGTGACGGGCAGGTGAAACCATGGAACTACGCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTg                                                                                                  <  1:161399/149‑1 (MQ=255)                                                aacCGTGACGGGCAGGTGAAACCATGGAACTACGCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTgc                                                                                                 >  5:183649/1‑149 (MQ=255)                                                     tGACGGGCAGGTGAAACCATGGAACTACGCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGgcgc                                                                                            <  5:54383/149‑1 (MQ=255)                                                           gCAGGTGAAACCATGGAACTACGCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTc                                                                                      >  5:239079/1‑149 (MQ=255)                                                            cAGGTGAAACCATGGAACTACGCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCg                                                                                     <  2:178687/149‑1 (MQ=255)                                                            cAGGTGAAACCATGGAACTACGCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCg                                                                                     <  8:60217/149‑1 (MQ=255)                                                            cAGGTGAAACCATGGAACTACGCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCg                                                                                     >  4:24824/1‑149 (MQ=255)                                                               gTGAAACCATGGAACTACGCATCAACCAGACGACCTATCAGGT‑AGAGGCGGCCGCCGACAAGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTg                                                                                  <  4:240432/149‑1 (MQ=255)                                                               gTGAAACCATGGAACTACGCATCAACCAGAAGACCTATCAGGT‑CGGGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTg                                                                                  >  7:294320/1‑149 (MQ=255)                                                               gTGAAACCATGGAACTACGCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCtt                                                                                                           <  2:142103/124‑1 (MQ=255)                                                               gTGAAACCATGGAACTACGCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTg                                                                                  >  5:296819/1‑149 (MQ=255)                                                                tGAAACCATGGAACTACGCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGc                                                                                 <  3:24824/149‑1 (MQ=255)                                                                    aCCATGGAACTACGCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCtggt                                                                             <  4:201358/149‑1 (MQ=255)                                                                     ccATGCAACTACGCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCtggtg                                                                            >  6:104861/1‑149 (MQ=255)                                                                      cATGGAACTACGCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCtggtg                                                                            >  1:332627/1‑148 (MQ=255)                                                                       aTGGAACTACGCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGAGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCTGGTGGa                                                                          >  5:388/1‑149 (MQ=255)                                                                                 gCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGAGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCTGGTGGACGGCAAtgtg                                                                <  8:185856/149‑1 (MQ=255)                                                                                       aCCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCTGGTGGACGGCAATGTGGTgcgc                                                          >  2:27008/1‑149 (MQ=255)                                                                                           gaagaCCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCTGGTGGACGGCAAtgt                                                                 <  1:288926/138‑1 (MQ=255)                                                                                           gaagaCCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCTGGTGGACGGCAAtgt                                                                 >  2:288926/1‑138 (MQ=255)                                                                                           gaagaCCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCTGGTGGACGGCAATGTGGTGCGCGCCt                                                      >  4:247889/1‑149 (MQ=255)                                                                                               aCCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCTGGTGGACGGCAATGTGGTGCGCGCCTGCGt                                                  >  2:314190/1‑149 (MQ=255)                                                                                                 cTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATgacctgataggtcttctggttgatgcgtagttccatggtttcacctgcccgtcacggttgttgtcgctgtgttttatctgcatggggaatacgttgt                                                <  1:245464‑M2/149‑98 (MQ=255)                                                                                                 cTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCTGGTGGACGGCAATGTGGTGCGCGCCTGCGTTa                                                >  5:300473/1‑149 (MQ=255)                                                                                                   aTCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATgacctgataggtcttctggttgatgcgtagttccatggtttc                                                                                                       <  1:112673‑M2/92‑43 (MQ=255)                                                                                                   aTCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATgacctgataggtcttctggttgatgcgtagttccatggtttc                                                                                                       >  2:112673‑M2/1‑50 (MQ=255)                                                                                                      aGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCTGGTGGACGGCAATGTGGTGCGCGCCTGCGTTACCCCg                                           >  3:324810/1‑149 (MQ=255)                                                                                                      aGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCTGGTGGACGGCAATGTGGTGCGCGCCTGCGTTACCCCg                                           <  6:239079/149‑1 (MQ=255)                                                                                                        gT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCTGGTGGACGGCAATGTGGTGCGCGCCTGCGTTACCCCGGt                                         >  4:308201/1‑149 (MQ=255)                                                                                                         t‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCTGGTGGACGGCAATGTGGTGCGCGCCTGCGTTACCCCGGTg                                        <  1:314190/149‑1 (MQ=255)                                                                                                            gAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCTGGTGGACGGCAATGTGGTGCGCGCCTGCGTTACCCCGGTGGc                                      <  4:324810/149‑1 (MQ=255)                                                                                                             aGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCTGGTGGACGGCGATGTGGTGCGCGCCTGCGTTACCCCGGTGGcc                                     >  3:111651/1‑149 (MQ=255)                                                                                                              ggCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCTGGTGGACGGCAATGTGGTGCGCGCCTGCGTTACCCCGGTGGCCg                                    <  2:97814/149‑1 (MQ=255)                                                                                                                   aCGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCTGGTGGACGGCAATGTGGTGCGCGCCTGCGTTACCCCGGTGGCCGGtgtg                               <  2:332627/149‑1 (MQ=255)                                                                                                                    cGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCTGGTGGACGGCAATGTGGTGCGCGCCTGCGTTACCCCGGTGGCCGGTgtgg                              >  7:254475/1‑149 (MQ=255)                                                                                                                    cGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCTGGTGGACGGCAATGTGGTGCGCGCCTGCGTTACCCCGGTGGCCGGTgtgg                              >  1:200131/1‑149 (MQ=255)                                                                                                                     gCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCTGGTGGACGGCAATGTGGTGCCCGCCTGCGTTACCCCGGTGGCCGGTgtggt                             <  1:27008/149‑1 (MQ=255)                                                                                                                       cGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCTGGTGGACGGCAATGTGGTGCGCGCCTGCGTTACCCCGGTGGCCGGTGtggtgg                           <  5:104861/149‑1 (MQ=255)                                                                                                                         acacGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCTGGTGGACGGCAATGTGGTGCGCGCCTGCGTTACCCCGGTGGCCGGTGTGGTgggg                         <  8:294320/149‑1 (MQ=255)                                                                                                                          cacGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCTGGTGGACGGCAATGTGGTGCGCGCCTGCGTTACCCCGGTGGCCGGTGTGGTGGGGc                        <  6:296819/149‑1 (MQ=255)                                                                                                                                 ctgctgTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCTGGTGGACGGCAATGTGGTGCGCGCCTGCGTTACCCCGGTGGCCGGTGTGGTGGGGCGTGAGGt                 <  2:200131/149‑1 (MQ=255)                                                                                                                                       tgGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCTGGTGGACGGCAATGTGGTGCGCGCCTGCGTTACCCCGGTGGCCGGTGTGGTGGGGCGTGAGGTcacc             <  4:111651/147‑1 (MQ=255)                                                                                                                                         ggTAATCCGCGATgacctgataggtcttctggttgatgcgtagttccatggtttcacctgcccgtcacggttgttgtcgctgtgttttatctgcatggggaatacgttgtcccccggtgcagaaacgctagcacaggaggatgaccgc          >  2:245464‑M2/1‑13 (MQ=255)                                                                                                                                                cgcgATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCTGGTGGACGGCAATGTGGTGCGCGCCTGCGTTACCCCGGTGGCCGGTGTGGTGGGGCGTGAGGTCACCACCATCGAGGc  >  4:276292/1‑149 (MQ=255)                                                                                                                                                     |                                                                                                                                                CACCGGGGGACAACGTATTCCCCATGCAGATAAAACACAGCGACAACAACCGTGACGGGCAGGTGAAACCATGGAACTACGCATCAACCAGAAGACCTATCAGGT‑CGAGGCGGACGCCGACACGCCCCTGCTGTGGGTAATCCGCGATGACCTGGGGCTGACCGGCACCAAGTATGGCTGCGGCTTGGCCCAGTGCGGCGCCTGTTCGGTGCTGGTGGACGGCAATGTGGTGCGCGCCTGCGTTACCCCGGTGGCCGGTGTGGTGGGGCGTGAGGTCACCACCATCGAGGC  >  NC_002947/4116786‑4117076

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.