New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	3960501 =	49 (0.830)	4 (0.070)	4/246	NT	8.2%	intergenic (‑117/‑212)	mnxG/PP_3491	manganese‑oxidizing multicopper oxidase/enoly‑coenzyme A hydratase/isomerase family protein
	?	NC_002947	3960546 =	43 (0.770)					intergenic (‑162/‑167)	mnxG/PP_3491	manganese‑oxidizing multicopper oxidase/enoly‑coenzyme A hydratase/isomerase family protein

CAGGATGGGGCCTTTGAGCGGCGTCGACATGCTGCACCTCCGGGACACAGGATCTCTGCGGGGAGCTGGAGCAAGGTGTGTGCCAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTCACACAAGGTAAAAACGCACGGTACCCTTGCACAATTGTCGATTGTGCAAGGCAAATTCGCATGCCAGGATC  >  NC_002947/3960355‑3960648                                                                                                                                                   |                                                                                                                                                    ttgattttccaagtgaagtctggagttcgctggaggatcgcaggatcctggcatgcgaatttgccttgcacaatcgacaattgtgcaagggtaccgtgcgtttttaccttgtgtgaggccagcgcgcgcttgtggagcagcctttgccc                                                                                                                                                   <  3:12555‑M1/3‑1 (MQ=255)   gattttccaagtgaagtctggagttcgctggaggatcgcaggatcctggcatgcgaatttgccttgcacaatcgacaattgtgcaagggtaccgtgcgtttttaccttgtgtgaggccagcgcgcgcttgtggagcagcctttgcccc                                                                                                                                                  <  1:200380‑M1/4‑1 (MQ=255)         ggCCTTTGAGCGGCGTCGACATGCTGCACCTCCGGGACACAGGATCTCTGCGGGGAGCTGGAGCAAGGTGTGTGCCAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAgg                                                                                                                                           >  4:299828/1‑149 (MQ=255)            cTTTGAGCGGCGTCGACATGCTGCACCTCCGGGACACAGGATCTCTGCGGGGAGCTGGAGCAAGGTGTGTGCCAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTc                                                                                                                                        >  2:110036/1‑149 (MQ=255)             tttGAGCGGCGTCGACATGCTGCACCTCCGGGACACTGGATCTCTGCGGGGAGCTGGAGCAAGGTGTGTGCCAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTcc                                                                                                                                       >  5:371556/1‑149 (MQ=255)             tttGAGCGGCGTCGACATGCTGCACCTCCGGGACACAGGATCTCTGCGGGGAGCTGGAGCAAGGTGTGTGCCAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTcc                                                                                                                                       >  6:329109/1‑149 (MQ=255)             tttGAGCGGCGTCGACATGCTGCACCTCCGGGACACAGGATCTCTGCGGGGAGCTGGAGCAAGGTGTGTGCCAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTcc                                                                                                                                       >  4:364664/1‑149 (MQ=255)             tttGAGCGGCGTCGACATGCTGCACCTCCGGGACACAGGATCTCTGCGGGGAGCTGGAGCAAGGTGTGTGCCAGAAGAAAAGTTCAATATTAATCAATAACTTGAACGATCAACCGCAACGGATTGGGGAGGATCCCCAAGCAGGTTcc                                                                                                                                       >  4:343126/1‑149 (MQ=255)               tGAGCGGCGTCGACATGCTGCACCTCCGGGACACAGGATCTCTGCGGGGAGCTGGAGCAAGGTGTGTGCCAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTccc                                                                                                                                      <  8:51946/148‑1 (MQ=255)                gAGCGGCGTCGACATGCTGCACCTCCGGGACACAGGATCTCTGCGGGGAGCTGGAGCAAGGTGTGTGCCAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTcccc                                                                                                                                     <  4:159015/148‑1 (MQ=255)                 aGCGGCGTCGACATGCTGCACCTCCGGGACACAGGATCTCTGCGGGGAGCTGGAGCAAGGTGTGTGCCAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTccccc                                                                                                                                    <  8:45133/148‑1 (MQ=255)                   cggcgTCGACATGCTGCACCTCCGGGACACAGGATCTCTGCGGGGAGCTGGAGCAAGGTGTGTGCCAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGaa                                                                                                                                 <  5:329109/149‑1 (MQ=255)                       gTCGACATGCTGCACCTCCGGGACACAGGATCTCTGCGGGGAGCTGGAGCAAGGTGTGTGCCAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCgg                                                                                                                             >  2:340617/1‑149 (MQ=255)                        tCGACATGCTGCACCTCCGGGACACAGGATCTCTGCGGGGAGCTGGAGCAAGGTGTGTGCCAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCggg                                                                                                                            <  8:14146/149‑1 (MQ=255)                           aCATGCTGCACCTCCGGGACACAGGATCTCTGCGGGGAGCTGGAGCAAGGTGTGTGCCAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGa                                                                                                                         >  6:280305/1‑149 (MQ=255)                                ctgcACCTCCGGGACACAGGATCTCTGCGGGGAGCTGGAGCAAGGTGTGTGCCAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGaa                                                                                                                    >  4:12555/1‑149 (MQ=255)                                    aCCTCCGGGACACAGGATCTCTGCGGGGAGCTGGAGCAAGGTGTGTGCCAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATccc                                                                                                                <  3:297177/149‑1 (MQ=255)                                    aCCTCCGGGACACAGGATCTCTGCGGGGAGCTGGAGCAAGGTGTGTGCCAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATccc                                                                                                                <  1:340617/149‑1 (MQ=255)                                         caggatcctggcatgcgaatttgccttgcacaatcgacaattgtgcaagggtaccgtgcgtttttaccttgtgtgaggccagcgcgcgcttgtggagcagcctttgCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTggg                                                                                                           <  7:12547‑M1/43‑1 (MQ=255)                                         cGGGACACAGGATCTCTGCGGGGAGCTGGAGCAAGGTGTGTGCCAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTggg                                                                                                           <  3:364664/149‑1 (MQ=255)                                               acaGGATCTCTGCGGGGAGCTGGAGCAAGGTGTGTGCCAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCa                                                                                                       >  3:203428/1‑147 (MQ=255)                                                ctggcatgcgaatttgccttgcacaatcgacaattgtgcaagggtaccgtgcgtttttaccttgtgtgaggccagcgcgcgcttgtggagcagcctttgCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCaaa                                                                                                     >  8:12547‑M1/100‑148 (MQ=255)                                                   gATCTCTGCGGGGAGCTGGAGCAAGGTGTGTGCCAGAAGAAAAGTTCAATATTAATCAATAACTTTTACGATCATCCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCAACCGAATCGGGGGACGGAATCCCGTGGGGGCaaggcct                                                                                                 >  7:355265/1‑144 (MQ=255)                                                   gATCTCTGCGGGGAGCTGGAGCAAGGTGTGTGCCAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGgct                                                                                                 >  2:166554/1‑149 (MQ=255)                                                     atgcgaatttgccttgcacaatcgacaattgtgcaagggtaccgtgcgtttttaccttgtgtgaggccagcgcgcgcttgtggagcagcctttgCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTggggg                                                                                                         <  6:248113‑M1/45‑1 (MQ=255)                                                     atgcgaatttgccttgcacaatcgacaattgtgcaagggtaccgtgcgtttttaccttgtgtgaggccagcgcgcgcttgtggagcagcctttgCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTggggg                                                                                                         >  5:248113‑M1/95‑139 (MQ=255)                                                      ctctGCGGGGAGCTGGAGCAAGGTGTGTGCCAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATc                                                                                                                                                     >  8:293262/1‑94 (MQ=255)                                                      ctctGCGGGGAGCTGGAGCAAGGTGTGTGCCAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATc                                                                                                                                                     <  7:293262/94‑1 (MQ=255)                                                                    ggAGCAAGGTGTGTGCCAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAgcgcgcgc                                                                                >  4:178700/1‑149 (MQ=255)                                                                       gCAAGGTGTGTGCCAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTgg                                                                             <  1:110036/149‑1 (MQ=255)                                                                             tgtgtgCCAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTcac                                                                       <  5:280305/149‑1 (MQ=255)                                                                                 tgCCAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTCACACaa                                                                   <  3:299828/149‑1 (MQ=255)                                                                                  gCCAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTCACACAAg                                                                  >  8:307781/1‑149 (MQ=255)                                                                                   ccAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTCACACAAg                                                                  <  3:178700/148‑1 (MQ=255)                                                                                    cAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTCACACAAgg                                                                 >  5:166660/1‑148 (MQ=255)                                                                                     agaagaAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGAGCTGGCCGCACAAAAGGt                                                                >  8:156805/1‑148 (MQ=255)                                                                                       aagaaAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTCACACAAGGTaa                                                              >  3:2638/1‑148 (MQ=255)                                                                                         gaaAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTCACACAAGGTaaaaa                                                           >  6:189573/1‑149 (MQ=255)                                                                                              gTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTCACACAAGGTAAAAACGCAc                                                      >  8:242462/1‑149 (MQ=255)                                                                                               ttCTATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTCACACAAGGTAAAAACGCACg                                                     >  4:280099/1‑149 (MQ=255)                                                                                                 cAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTCACACAAGGTAAAAACGCACgg                                                    >  3:186666/1‑148 (MQ=255)                                                                                                    tatTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTCACACAAGGTAAAAACGCACGGTAc                                                 >  6:221547/1‑148 (MQ=255)                                                                                                    tatTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTCACACAAGGTAAAAACGCACGGTAc                                                 >  6:274232/1‑148 (MQ=255)                                                                                                         aTCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCgg                                                                                                                             <  6:91829/67‑1 (MQ=255)                                                                                                         aTCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTCACACAAGGTAAAAACGCACGGTACCCTTg                                            >  3:333438/1‑148 (MQ=255)                                                                                                              tAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTCACACAAGGTAAAAACGCACGGTACCCTTGCACAAt                                      >  7:261299/1‑149 (MQ=255)                                                                                                                     tACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTCACACAAGGTAAAAACGCACGGTACCCTTGCACAATTGTCGa                                <  4:203428/148‑1 (MQ=255)                                                                                                                       cGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTCACACAAGGTAAAAACGCACGGTACCCTTGCACAATTGTCGAtt                              <  1:166554/148‑1 (MQ=255)                                                                                                                          tCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTCACACAAGGTAAAAACGCACGGTACCCtt                                             >  3:123009/1‑130 (MQ=255)                                                                                                                          tCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTCACACAAGGTAAAAACGCACGGTACCCtt                                             <  4:123009/130‑1 (MQ=255)                                                                                                                            aaCCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTCACACAAGGTAAAAACGCACGGTACCCTTGCACAATTGTCGATTGTGCa                         <  3:343126/148‑1 (MQ=255)                                                                                                                             aCCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTCACACAAGGTAAAAACGCACGGTACCCTTGCACAATCGACAATTGTGCAAg                       <  8:261299/149‑1 (MQ=255)                                                                                                                             aCCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAACCGCGCGCTGGCCTCACACAAGGTAAAAACGCACGGTACCCTTGCACAATTGTCGATTGTGCAAg                       >  1:147812/1‑149 (MQ=255)                                                                                                                                       aTTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTCACACAAGGTAAAAACGCACGGTACCCTTGCACAATTGTCGATTGTGCAAGGCAAATTCGc             <  4:186666/149‑1 (MQ=255)                                                                                                                                          ggggAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTCACACAAGGTAAAAACGCACGGTACCCTTGCACAATTGTCGATTGTGCAAGGCAAATTCGCAt           <  3:280099/148‑1 (MQ=255)                                                                                                                                            ggaggaTCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTCACACAAGGTAAAAACGCACGGTACCCTTGCACAATTGTCGATTGTGCAAGGCAAATTCGCATGcc        >  3:240356/1‑149 (MQ=255)                                                                                                                                             gaggaTCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTCACACAAGGTAAAAACGCACGGTACCCTTGCACAATTGTCGATTGTGCAAGGCAAATTCGCATGCCa       <  5:189573/149‑1 (MQ=255)                                                                                                                                                gaTCCCCCAGCAGGTTCCCCCGAATCGGGGTACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTCACACAAGGTAAAAACGCACGGTACCCTTGCACAATTGTCGATTGTGCAAGGCAAATTCGCATGCCAGGa    <  6:371556/149‑1 (MQ=255)                                                                                                                                                   CCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTCACACAAGGTAAAAACGCACGGTACCCTTGCACAATTGTCGATTGTGCAAGGCAAATTCGCATGCCAGGATc  <  4:11297‑M1/148‑1 (MQ=255)                                                                                                                                                   |                                                                                                                                                    CAGGATGGGGCCTTTGAGCGGCGTCGACATGCTGCACCTCCGGGACACAGGATCTCTGCGGGGAGCTGGAGCAAGGTGTGTGCCAGAAGAAAAGTTCAATATTAATCAATAACTTGTACGATCAACCGCAACGGATTGGGGAGGATCCCCCAGCAGGTTCCCCCGAATCGGGGGACGGAATCCCGTGGGGGCAAAGGCTGCTCCACAAGCGCGCGCTGGCCTCACACAAGGTAAAAACGCACGGTACCCTTGCACAATTGTCGATTGTGCAAGGCAAATTCGCATGCCAGGATC  >  NC_002947/3960355‑3960648

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.