New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	2856680 =	51 (0.800)	3 (0.050)	3/238	NT	6.0%	coding (52/165 nt)	PP_2509	hypothetical protein
	?	NC_002947	2856723 =	46 (0.770)					coding (9/165 nt)	PP_2509	hypothetical protein

AGAATCGCAGTGCCAGGCAATCACCGACTACCAGCTTAGAGCTCTAGGTCGCCTTGGCGGCTCTCCTCACTGACCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCGGCTAACGGCTGTGCGCTACTTATTCCAAAGCCAGATTCGGCTCATACAGTTGACTCGTAGGCATCGAACGA  >  NC_002947/2856532‑2856824                                                                                                                                                     |                                                                                                                                                 aGAATCGCAGTGCCAGGCAATCACCGACTACCAGCTTAGAGCTCTAGGTCGCCTTGGCGGCTCTCCTCACTGACCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCag                                                                                                                                                  <  5:238130/149‑1 (MQ=255)   ttttatttattgcgagtgattatcatgacgcatccggactttagtcgttcgatgcctacgagtcaactgtatgagccgaatctggctttggaataagtagcgcacagccgttagccggttatgagttaccacacaccatggcgcctGAg                                                                                                                                                <  8:191925‑M1/3‑1 (MQ=255)   ttttatttattgcgagtgattatcatgacgcatccggactttagtcgttcgatgcctacgagtcaactgtatgagccgaatctggctttggaataagtagcgcacagccgttagccggttatgagttaccacacaccatggcgcctGAg                                                                                                                                                <  3:201553‑M1/3‑1 (MQ=255)       gCAGTGCCAGGCAATCACCGACTACCAGCTTAGAGCTCTAGGTCGCCTTGGCGGCTCTCCTCACTGACCGGTTTTATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCggg                                                                                                                                            <  4:51222/149‑1 (MQ=255)       gCAGTGCCAGGCAATCACCGACTACAAGCTTAGAGCTCTAGGTCGCCTTGGCGGCTCTCCTCACTGACCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCgg                                                                                                                                             <  5:52917/148‑1 (MQ=255)          gTGCCAGGCAATCACCGACTACCAGCTTAGAGCTCTAGGTCGCCTTGGCGGCTCTCCTCACTGACCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCg                                                                                                                                         <  5:43505/149‑1 (MQ=255)              cAGGCAATCACCGACTACCAGCTTAGAGCTCTAGGTCGCCTTGGCGGCTCTCCTCACTGACCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCAt                                                                                                                                     >  5:345459/1‑149 (MQ=255)                ggCAATCACCGACTACCAGCTTAGAGCTCTAGGTCGCCTTGGCGGCTCTCCTCACTGACCGGTTTAATCAGTTCTGGCCCATGGTTACGCACGTTGCCGACTCCTTTACCTACGCAGAACCAGCCAAAACCCAGACCCGGCCGGCATc                                                                                                                                    >  8:229608/1‑148 (MQ=255)                       aCCGACTACCAGCTTAGAGCTCTAGGTCGCCTTGGCGGCTCTCCTCACTGACCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCtt                                                                                                                             >  6:90471/1‑148 (MQ=255)                       aCCGACTACCAGCTTAGAGCTCTAGGTCGCCTTGGCGGCTCTCCTCACTGACCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCtt                                                                                                                             >  3:303398/1‑148 (MQ=255)                        ccGACTACCAGCTTAGAGCTCTAGGTCGCCTTGGCGGCTCTCCTCACTGACCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGa                                                                                                                           >  4:235596/1‑149 (MQ=255)                         cGACTACCAGCTTAGAGCTCTAGGTCGCCTTGGCGGCTCTCCTCACTGACCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGAc                                                                                                                          <  1:403540/149‑1 (MQ=255)                               ccAGCTTAGAGCTCTAGGTCGCCTTGGCGGCTCTCCTCACTGACCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGAc                                                                                                                          <  5:227161/143‑1 (MQ=255)                               ccAGCTTAGAGCTCTAGGTCGCCTTGGCGGCTCTCCTCACTGACCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGAc                                                                                                                          >  6:227161/1‑143 (MQ=255)                                cAGCTTAGAGCTCTAGGTCGCCTTGGCGGCTCTCCTCACTGACCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTcc                                                                                                                   <  6:345459/149‑1 (MQ=255)                                        agCTCTAGGTCGCCTTGGCGGCTCTCCTCACTGACCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGccgcccg                                                                                                           >  7:297405/1‑149 (MQ=255)                                         gCTCTAGGTCGCCTTGGCGGCTCTCCTCACTGACCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGccgcccgc                                                                                                          >  7:251112/1‑149 (MQ=255)                                          tttagtcgttcgatgcctacgagtcaactgtatgagccgaatctggctttggaataagtagcgcacagccgttagccggttatgagttaccacacaccatggcgcctGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGccgcccgc                                                                                                          <  6:76166‑M1/41‑1 (MQ=255)                                            tagtcgttcgatgcctacgagtcaactgtatgagccgaatctggctttggaataagtagcgcacagccgttagccggttatgagttaccacacaccatggcgcctGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTc                                                                                                        >  7:191925‑M1/106‑148 (MQ=255)                                            ctAGGTCGCCTTGGCGGCTCTCCTCACTGACCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCa                                                                                                       <  5:90471/149‑1 (MQ=255)                                              gtcgttcgatgcctacgagtcaactgtatgagccgaatctggctttggaataagtagcgcacagccggtagccggttatgagttaccacacaccatggcgcctGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAgg                                                                                                     >  5:76166‑M1/104‑149 (MQ=255)                                                    ccTTGGCGGCTCTCCTCACTGACCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTCGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCAt                                                                                               >  4:303849/1‑149 (MQ=255)                                                        ggcggcTCTCCTCACTGACCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGgt                                                                                            <  8:297405/148‑1 (MQ=255)                                                         gcggcTCTCCTCACTGACCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGgtgt                                                                                          >  7:105008/1‑149 (MQ=255)                                                         gcggcTCTCCTCACTGACCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGgtgt                                                                                          <  3:235596/149‑1 (MQ=255)                                                           ggcaatcctcACTGACCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGgtgtgt                                                                                        <  1:144632/144‑1 (MQ=255)                                                                tcctcACTGACCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCa                                                                                                <  2:9153/136‑1 (MQ=255)                                                                tcctcACTGACCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCa                                                                                                >  1:9153/1‑136 (MQ=255)                                                                 cctcACTGACCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATg                                                                                              <  3:141770/137‑1 (MQ=255)                                                                 cctcACTGACCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATg                                                                                              >  4:141770/1‑137 (MQ=255)                                                                   tcACTGACCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCAt                                                                                               <  7:223229/134‑1 (MQ=255)                                                                   tcACTGACCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGACGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCAt                                                                                               >  8:223229/1‑134 (MQ=255)                                                                   taaCTGATCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCTGCATCCAGCCTTGACGATCTCCTCCTCCCGCTCAGGAGCCATGGTGTGTGGTAACt                                                                                 >  4:309248/3‑148 (MQ=255)                                                                           cGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCgg                                                                        >  6:332448/1‑149 (MQ=255)                                                                            ggTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCGGc                                                                       <  5:332448/149‑1 (MQ=255)                                                                                tAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCAGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCGGCTAAc                                                                   >  5:399488/1‑149 (MQ=255)                                                                                  aTCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCGGCTAACgg                                                                 >  4:103680/1‑149 (MQ=255)                                                                                  aTCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCGGCTAACgg                                                                 <  8:251112/149‑1 (MQ=255)                                                                                   tCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCGGCTAACGGc                                                                >  6:183032/1‑149 (MQ=255)                                                                                     aGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCGGCTAACGGCtg                                                              >  4:190038/1‑149 (MQ=255)                                                                                                   gTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCGGCTAACGGCTGTGCGCTACTTATTc                                                <  5:183032/149‑1 (MQ=255)                                                                                                       cGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCGGCTAACGGCTGTGCGCTACTTATTCCaaa                                            <  4:303398/149‑1 (MQ=255)                                                                                                        gCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCGGCTAACGGCTGTGCGCTACTTATTCCAAAg                                           >  3:404002/1‑149 (MQ=255)                                                                                                          aCGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCGGCTAACGGCTGTGCGCTACTTATTCCAAAGc                                          >  6:16702/1‑148 (MQ=255)                                                                                                                     tGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCGGCTAACGGCTGTGCGCTACTTATTCCAAAGCCAGATTCg                                  <  4:127851/145‑1 (MQ=255)                                                                                                                     tGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCGGCTAACGGCTGTGCGCTACTTATTCCAAAGCCAGATTCg                                  >  3:127851/1‑145 (MQ=255)                                                                                                                            ccTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCGGCTAACGGCTGTGCGCTACTTATTCCAAAGCCAGATTCGGCTCATACAGt                       <  3:303849/149‑1 (MQ=255)                                                                                                                               aCGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCGGCTAACGGCTGTGCGCTACTTATTCCAAAGCCAGATTCGGc                                >  2:247545/1‑137 (MQ=255)                                                                                                                               aCGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCGGCTAACGGCTGTGCGCTACTTATTCCAAAGCCAGATTCGGc                                <  1:247545/137‑1 (MQ=255)                                                                                                                                     aaCCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCGGCTAACGGCTGTGCGCTACTTATTCCAAAGCCAGATTCGGCTCATACAGTTGACTCg                >  4:201553/1‑147 (MQ=255)                                                                                                                                      aCCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCGGCTAACGGCTGTGCGCTACTTATTCCAAAGCCAGATTCGGCTCATACAGTTGACTCGTa              <  5:16702/148‑1 (MQ=255)                                                                                                                                      aCCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCGGCTAACGGCTGTGCGCTACTTATTCCAAAGCCAGATTCGGCTCATACAGTTGACTCGTAg             <  4:404002/149‑1 (MQ=255)                                                                                                                                       ccAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCGGCTAACGGCTGTGCGCTACTTATTc                                                >  6:422313/1‑113 (MQ=255)                                                                                                                                       ccAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCGGCTAACGGCTGTGCGCTACTTATTc                                                <  5:422313/113‑1 (MQ=255)                                                                                                                                        cAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCGGCTAACGGCTGTGCGCTACTTATTCCAAAGCCAGATTCGGCTCATACAGTTGACTCGTAgg            >  3:357188/1‑148 (MQ=255)                                                                                                                                          gCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCGGCTAACGGCTGTGCGCTACTTATTCCAAAGCCAGATTCGGCTCATACAGTTGACTCGTAGGCAt         >  7:100838/1‑149 (MQ=255)                                                                                                                                            gAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCGGCTAACGGCTGTGCGCTACTTATTCCAAAGCCAGATTCGGCTCATACAGTTGACTCGTAGGCATc        >  3:319333/1‑148 (MQ=255)                                                                                                                                                aCCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCGGCTAACGGCTGTGCGCTACTTATTCCAAAGCCAGATTCGGCTCATACAGTTGACTCGTAGGCATCGAAc    >  6:19082/1‑148 (MQ=255)                                                                                                                                                 cccAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCGGCTAACGGCTGTGCGCTACTTATTCCAAAGCCAGATTCGGCTCATACAGTTGACTCGTAGGCATCGAACGa  <  6:399488/149‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                                 AGAATCGCAGTGCCAGGCAATCACCGACTACCAGCTTAGAGCTCTAGGTCGCCTTGGCGGCTCTCCTCACTGACCGGTTTAATCAGTTCTGGCCCTTGGTTACGCACGTTGCCGACTGCTTTACCTACGGAGAACCAGCGAAAACCCAGAGCGGGCCGGCATCCAGCCTTGACGATCTCCGCCGCCCGCTCAGGCGCCATGGTGTGTGGTAACTCATAACCGGCTAACGGCTGTGCGCTACTTATTCCAAAGCCAGATTCGGCTCATACAGTTGACTCGTAGGCATCGAACGA  >  NC_002947/2856532‑2856824

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.