New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	2992621 =	48 (0.850)	4 (0.070)	4/248	NT	8.3%	coding (452/870 nt)	PP_2616	hypothetical protein
	?	NC_002947	2992664 =	43 (0.800)					coding (409/870 nt)	PP_2616	hypothetical protein

ATGAACTCCAGTACGTCCTGATAACGCTTGGGCTCCTGCATCAGGCGGGTAATCACGGTGAAGATTTTTTCCCCACCCCAGGTCTCGTCGTGGAAGATGCTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAATGTTGTCGATCTGGCTGCGTACTTGCTGGTGCACGTCCTGGATGTTCGGCAGCTC  >  NC_002947/2992516‑2992811                                                                                                                                                      |                                                                                                                                                    aTGAAGACCAGTACGTCCTGATAAGCCCAGGCCACCTCCATCACGCCCCACACCACGGCCAAGAACTTCTCCCCCCCCCAGGTCTCGTCGTGGAAGATGCTGAGCAGC‑GCCCCCTGCCCCCAGCAGCTGCTCTTGCCCCAGGGCCGCTc                                                                                                                                                     <  4:130185/149‑1 (MQ=2)  gatcttcatcattgatgaagaaatgcgccagcacggttacgagccggctgagttgctggcgtactcctacggtgtgtgcctgttcatagacgaggccgttatggAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTcc                                                                                                                                                    >  6:286410‑M1/105‑149 (MQ=255)        ccAGTACGTCCTGATAACGCTTGGGCTCCTGCATCAGGCGGGTAATCACGGTGAAGATTTTTTCCCCACCCCAGGTCTCGTCGTGGAAGATGCTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACg                                                                                                                                              >  5:355720/1‑149 (MQ=40)                     aTAACGCTTGGGCTCCTGCATCAGGCGGGTAATCACGGTGAAGATTTTTTCCCCACCCCAGGTCTCGTCGTGGAAGATGCTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTAt                                                                                                                                   <  6:355720/147‑1 (MQ=255)                         cGCTTGGGCTCCTGCATCAGGCGGGTAATCACGGTGAAGATTTTTTCCCCACCCCAGGTCTCGTCGTGGAAGATGCTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAg                                                                                                                             <  6:145891/149‑1 (MQ=255)                             catcatCCTGCATCAGGCGGGTAATCACGGTGAAGATTTTTTCCCCACCCCAGGTCTCGTCGTGGAAGATGCTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGcac                                                                                                                         <  7:108171/144‑1 (MQ=255)                                    cTGCATCAGGCGGGTAATCACGGTGAAGATTTTTTCCCCACCCCAGGTCTCGTCGTGGAAGATGCTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCg                                                                                                                   >  5:177772/1‑148 (MQ=255)                                        aTCAGGCGGGTAATCACGGTGAAGATTTTTTCCCCACCCCAGGTCTCGTCGTGGAAGATGCTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGa                                                                                                              <  2:333450/149‑1 (MQ=255)                                        aTCAGGCGGGTAATCACGGTGAAGATTTTTTCCCCACCCCAGGTCTCGTCGTGGAAGATGCTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGa                                                                                                              <  6:199308/149‑1 (MQ=255)                                         tCAGGCGGGTAATCACGGTGAAGATTTTTTCCACACACCAGGTCTAGTCGTGTAAGATGCTGAGCAGC‑GCCTCCAGTCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAAAGGCATCGTATATGAACACGCACAGAACGTAGGAg                                                                                                             >  5:53424/1‑149 (MQ=17)                                             gCGGGTAATCACGGTGAAGATTTTTTCCCCACCCCAGGTATCGTCGTGGAAGATGCTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACg                                                                                                         >  8:158920/1‑149 (MQ=255)                                               gggTAATAACGGTGAAGATTTTTTCCCCACCCCAGGTCTCGTCGTGGAAGATGCTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTAGATGAACAGGCACAGACCGTAGGACTACGc                                                                                                        >  8:170305/1‑148 (MQ=255)                                                          gTGAAGATTTTTTCCCCACCCCAGGTCTCGTCGTGGAAGATGCTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGc                                                                                            <  7:158920/149‑1 (MQ=255)                                                           tGAAGATTTTTTCCCCACCCCAGGTCTCGTCGTGGAAGATGCTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGACAGCAACTGAGcc                                                                                           >  6:215428/1‑149 (MQ=255)                                                             aaGATTTTTTCCCCACCCCAGGTCTCGTCGTGGAAGATGCTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCgg                                                                                         >  2:202670/1‑149 (MQ=255)                                                              aGATTTTTTCCCCACCCCAGGTCTCGTCGTGGAAGATGCTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGc                                                                                        <  4:146105/149‑1 (MQ=255)                                                               gATTTTTTCCCCACCCCAGGTCTCGTCGTGGAAGATGCTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTc                                                                                                                                      <  5:208305/102‑1 (MQ=255)                                                               gATTTTTTCCCCACCCCAGGTCTCGTCGTGGAAGATGCTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTc                                                                                                                                      >  6:208305/1‑102 (MQ=255)                                                               gATTTTTTCCCCACCCCAGGTCTCGTCGTGGAAGATGCTGAGCAGC‑GGCTCCTGGCTACAGCAGCTGATCTTGCCCCAAGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGAACGTAGGAGTACGCCAGCAAATGAGCCgg                                                                                         >  7:54075/1‑147 (MQ=17)                                                                aTTTTTTCCCCACCCCAGGTCTCGTCGTGGAAGATGCTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTc                                                                                      >  3:239214/1‑149 (MQ=255)                                                                 ttttttCCCCACCCCAGGTCTCGTCGTGGAAGATGCTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCg                                                                                     <  4:140045/149‑1 (MQ=255)                                                                  tttttCCCCACCCCAGGTCTCGTCGTGGAAGATGCTGAGCAGCAGGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCCGGGCCGCTCCATAACGGCCTCGTATCTTAACAGGCACAGACCGTAGGAGTACGCCCGCAACTGAGCCGGCTCg                                                                                     >  1:252565/1‑149 (MQ=17)                                                                  tttttCCCCACCCCAGGTCTCGTCGTGGAAGATGCTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGt                                                                                                            >  5:166931/1‑125 (MQ=255)                                                                  tttttCCCCACCCCAGGTCTCGTCGTGGAAGATGCTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGt                                                                                                            <  6:166931/125‑1 (MQ=255)                                                                               caGGTCTCGTCGTGGAAGATGCTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCACAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCCTATGACTAAGCCACCAACTGAGCCGGCTCGTAACCGTGCTGgcg                                                                       >  1:100535/1‑149 (MQ=18)                                                                                aGGTCTCGTCGTGGAAGATGCTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGgcg                                                                       >  2:158558/1‑148 (MQ=255)                                                                                             gAAGATGCTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACATGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGaa                                                         >  7:237738/1‑149 (MQ=255)                                                                                             gAAGATGCTGAGCAGC‑GGCTCCAGGCTCCAGCAGCTGCTCTTGCCCCAGGGCAGCTCCAAAACGGCCTCCTCTATGAACACGCACAGACCGTAGGAGTACGCCAGCAACTCAGCACGCACCTAACCGTCCTGGCGCATTTCTTCCTTaa                                                         >  8:245828/1‑149 (MQ=17)                                                                                               aGATGCTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAAtg                                                       <  1:202670/149‑1 (MQ=255)                                                                                                   gCTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAAtgttgt                                                   >  2:358199/1‑149 (MQ=255)                                                                                                    cTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAAtgttgt                                                   <  8:237738/148‑1 (MQ=255)                                                                                                    cTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAATGTTGTc                                                  <  4:239214/149‑1 (MQ=255)                                                                                                    cTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAATGTTGTc                                                  <  7:245828/149‑1 (MQ=255)                                                                                                         ggagcggccctggggcaagagcagctgctggagccaggagccgctCCATAACGGCCTCGTCTATGAACAGGCACACACCGTAGGAGTACGCCAGCAACTCAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCATCAATGATGAAGATc                                              >  6:286410‑M2/46‑149 (MQ=255)                                                                                                              ggccctggggcaagagcagctgctggagccaggagccgctCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAATGTTGTCGATCTGGCt                                         >  5:261142‑M2/41‑149 (MQ=255)                                                                                                               GCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAATGTTGTCGATCTGGCTg                                        <  6:187370‑M1/149‑1 (MQ=255)                                                                                                                CTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAATGTTGTCGATCTGGCTGc                                       >  6:177772‑M1/1‑149 (MQ=255)                                                                                                                   cTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAATGTTGTCGATCTGGCTGCGTa                                    >  5:356721/1‑149 (MQ=255)                                                                                                                      gCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAATGTTGTCGATCTGGCTGCGTACtt                                 <  5:215428/149‑1 (MQ=255)                                                                                                                          cagcagCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGc                                                                                                                           >  2:282213/1‑55 (MQ=255)                                                                                                                          cagcagCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGc                                                                                                                           <  1:282213/55‑1 (MQ=255)                                                                                                                              cagctgctggagccaggagccgctCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAATGTTGTCGATCTGGCTGCGTACTTGCTGGTGc                         <  6:261142‑M2/125‑1 (MQ=255)                                                                                                                                ctgctCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAATGTTGTCGATCTGGCTGCGTACTTGCTGGt                           <  8:20361/145‑1 (MQ=255)                                                                                                                                ctgctCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAATGTTGTCGATCTGGCTGCGTACTTGCTGGt                           >  7:20361/1‑145 (MQ=255)                                                                                                                                      ttGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAATGTTGTCGATCGGGCTGCGTACTTGCTGGTGCACGTCCTg                 >  5:216596/1‑149 (MQ=255)                                                                                                                                        gCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAATGTTGTCGATCTGGCTGCGTACTTGCTGGTGCACGTCCTgg                <  1:358199/148‑1 (MQ=255)                                                                                                                                        agccaggagccgctCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAATGTTGTCGATCTGGCTGCGTACTTGCTGGTGCACGTCCTGGa               <  5:286410‑M2/135‑1 (MQ=255)                                                                                                                                         ccccAGGGCCTCTCCATAAAGGCCTCGTCTATGAACAGGCACAGACCGTACGAGTACGCCAGCAACTGAGCCTGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAATGTTGTCGATCTGGCTGCGTACTTGCTGGTGCACGTCCTGGAt              <  7:170305/149‑1 (MQ=255)                                                                                                                                         ccccAGGGCCGCTCCATAACGGCCTAGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAATGTTGTCGATCTGGCTGCGTACTTGCTGGTGCACGTCCTGGAt              <  2:100535/149‑1 (MQ=255)                                                                                                                                          cccAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAATGTTGTCGATCTGGCTGCGTACTTGCTGGTGCACGTCCTGGATg             <  6:356721/149‑1 (MQ=255)                                                                                                                                          cccAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAATGTTGTCGATCTGGCTGCGTACTTGCTGGTGCACGTCCTGGATg             >  1:295517/1‑149 (MQ=255)                                                                                                                                           ccAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAATGTTGTCGATCTGGCTGCGTACTTGCTGGTg                          <  6:289921/135‑1 (MQ=255)                                                                                                                                           ccAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAATGTTGTCGATCTGGCTGCGTACTTGCTGGTg                          >  3:233551/1‑135 (MQ=255)                                                                                                                                           ccAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAATGTTGTCGATCTGGCTGCGTACTTGCTGGTg                          <  4:233551/135‑1 (MQ=255)                                                                                                                                           ccAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAATGTTGTCGATCTGGCTGCGTACTTGCTGGTg                          >  5:289921/1‑135 (MQ=255)                                                                                                                                             aGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTTTGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAATGTTGTCGATCTGGCTGCGTACTTGCTGGTGCACGTCCTGGATGTTc          <  6:53424/149‑1 (MQ=255)                                                                                                                                               ggCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAATGTTGTCGATCTGGCTGCGTACTTGCTGGTGCACGTCCTGGATGTTCgg        <  5:143535/149‑1 (MQ=255)                                                                                                                                                     tCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAATGTTGTCGATCTGGCTGCGTACTTGCTGGTGCACGTCCTGGATGTTCGGCAGCTc  >  3:144766‑M2/2‑149 (MQ=255)                                                                                                                                                      |                                                                                                                                                    ATGAACTCCAGTACGTCCTGATAACGCTTGGGCTCCTGCATCAGGCGGGTAATCACGGTGAAGATTTTTTCCCCACCCCAGGTCTCGTCGTGGAAGATGCTGAGCAGC‑GGCTCCTGGCTCCAGCAGCTGCTCTTGCCCCAGGGCCGCTCCATAACGGCCTCGTCTATGAACAGGCACAGACCGTAGGAGTACGCCAGCAACTGAGCCGGCTCGTAACCGTGCTGGCGCATTTCTTCCTGAATGTTGTCGATCTGGCTGCGTACTTGCTGGTGCACGTCCTGGATGTTCGGCAGCTC  >  NC_002947/2992516‑2992811

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ 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.