New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 112279	38 (0.990)	5 (0.130)	4/308	NT	12.8%	coding (1308/1386 nt)	hofB	T2SE secretion family protein; P‑loop ATPase superfamily protein
	?	CP009273	= 112436	31 (0.820)					coding (1151/1386 nt)	hofB	T2SE secretion family protein; P‑loop ATPase superfamily protein

GCCAGAGTTGCTTACTCGCCATGCGGCATCCCCAGTACGCGGATTAACTCTTCAAAGGTGGTTAAGCCTTGCTCTACGGCCAGGCAGCCGTTTTCAAAAAGCGTACGCATACCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGGTATTAGCGGAAATAAGCTGACGAATGACCGGCGTTATGGGCAGAACTTCAAATAAGGCCGTACGACCATAAAAACCGTGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGGGCAGCGGCGATGGCCATACATTGTCTGGAATGTGGATGGGCTCCCCTTGCTGCCGGCGACAATGTGGGCAAAGTTTGCGTACCAGACGCTGGGCTATTACCAGCGTAAGCGCCGATGATAGCATCCAGCGGGCGACCCCCATTTGCTGTAAACGTACCAGCGTTTCGCAGGTGGAATTAGTGTGTAGGGTAGACAACACCAGGTGACCAGTTTGCGCCGCTTTAATAGCGATCTCTGC  >  CP009273/112190‑112692                                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                                                 gcCAGAGTTGCTTACTCGCCATGCGGCATCCCCAGTACGCGGATTAACTCTTCAAAGGTGGTTAAGCCTTGCTCTACGGCCAGGCAGCCGTTTTCAAAAAGCGTACGCATACCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCACCGTCGGTATTAGCGGAACTAAGCTGACGAATGCCCGGCGTTATGGGCAGACCTTCAAATAAGGCCGTACGACCATAAAACACGGGGTAGCACGGACCACCACCGGGTGCCTGCCAGTGGGGCAgcggcg                                                                                                                                                                                                                                       >  2:292832/1‑274 (MQ=255)                                                   ttCAAAGGTGGTTAAGCCTTGCTCTACGGCCAGGCAGCCGTTTTCAAAAAGCGTACGCATACCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGGTATTAGCGGAAATAAGCTGACGAATGACCGGCGTTATGGGCAGAACTTCAAATAAGGCCGTACGACCATAAAAACCTTGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGGGCAGCGGCGATGGCCATACATTGTATGGAATGTGGATGGGCTCCCCTtgctgc                                                                                                                                                                                           >  1:386921/1‑268 (MQ=255)                                                     cAAAGGTGGTTAAGCCTTGCTCTACGGCCAGGCAGCCGTTTTCAAAAAGCGTACGCATACCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGGTATTAGCGGAAATAAGCTGACGAATGACCGGCGTTATGGGCAGAACTTCAAATAAGGCCGTACGACCATAAAAACCGTGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGGGCAGCGGCGATGGCCATACATTGTCTGGAAt                                                                                                                                                                                                                 >  1:143299/1‑244 (MQ=255)                                                       aaGGTTGTTAAGCCTTGCGTTACGGCCAGGCAGCCGTTTTTAAAAAGTGTACGCATACCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGTTAGTAGCGGAAATAAGCTGACGAATGACCGGCGTTATGGGCAGAACTTCAAATAAGGCCGTACGACCATAAAAACCGTGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGGGCAGCGGCGATGGCCATACATTGTCTGGAATGTGGATGGGCTCCCCTTGCTGCCGGCGACAAt                                                                                                                                                                                 <  1:342530/274‑1 (MQ=255)                                                        aGGTGGTTAAGCCTTGCTCTACGGCCAGGCAGCCGTTTTCAAAAAGCGTACGCATACCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGGTATTAGCGGAAATAAGCTGACGAATGACCGGCGTTATGGGCAGAACTTCATCTAAGGCCGTANGACCATAAAAACCGTGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGGGCAGCGGCGATGGCCATACATTGTCTGGAATGTGGATGGGCTCCCCTTGCTGCCGGCGACAAtgt                                                                                                                                                                               >  1:666358/1‑275 (MQ=255)                                                             gtTAAGCCTTGCTCTACGGCCAGGCAGCCGTTTTCAAAAAGCGTACGCATACCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGGTATTAGCGGAAATAAGCTGACGAATGACCGGCGTTATGGGCAGAACTTCAAATAAGGCCGTACTACCATAAAAACCGTGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGGGCAgcg                                                                                                                                                                                                                                          >  1:96268/1‑211 (MQ=255)                                                             gtTAAGCCTTGCTCTACGGCCAGGCAGCCGTTTTCAAAAAGCGTACGCATACCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGGTATTAGCGGAAATAAGCTGACGAATGACCGGCGTTATGGGCAGAACTTCAAATAAGGCCGTACGACCATAAAAACCGTGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGGGCAgc                                                                                                                                                                                                                                           >  1:48045/1‑210 (MQ=255)                                                             gtTAAGCCTTGCTCTACGGCCAGGCAGCCGTTTTCAAAAAGCGTACGCATACCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGGTATTAGCGGAAATAAGCTGACGAATGACCGGCGTTATGGGCAGAACTTCAAATAAGGCCGTACGACCATAAAAACCGTGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGGGCAgc                                                                                                                                                                                                                                           >  1:608181/1‑210 (MQ=255)                                                                 aGCCTTGCTCTACGGCCAGGCAGCCGTTTTCAAAAAGCGTACGCATACCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGGTATTAGCGGAAATAAGCTGACGAATGACCGGCGTTATGGGCAGAACTTCAAATAAGGCCGTACTACCATAAAAACCGTGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGGGCAGCGGCGa                                                                                                                                                                                                                                      <  2:96267/211‑1 (MQ=255)                                                                 aGCCTTGCTCTACGGCCAGGCAGCCGTTTTCAAAAAGCGTACGCATACCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGGTATTAGCGGAAATAAGCTGACGAATGACCGGCGTTATGGGCAGAACTTCAAATAAGGCCGTACGACCATAAAAACCGTGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGGGCAgcggcg                                                                                                                                                                                                                                       <  2:608172/210‑1 (MQ=255)                                                                                                  aaaGCGTAAGATTACCCGCATGTCTGGCGTTCTTTTCCAGCGATTCAACGTCGGTATTAGCGGAAATAAGCTGACGAATGACCGGCGTTATGGGCAGAACTTACAATAAGGCCGTACGACCATAAAAACCGTGGTAGCAATGTACACAACcggctgcctggccgtagagcaaggcttaaccacctttgaagagttaatccgcgtactggggatgccgcatggcgagtaagcaactctggcgctggcatggcataaccggcgacggcaatgcgc                                                                                                                                       >  2:134770‑M2/1‑150 (MQ=255)                                                                                                     gCGTACGCATACCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGGTATTAGCGGAAATAAGCTGACGAATGACCGGCGTTATGGGCAGAACTTCAAATAAGGCCGTACGACCATAAAAACCGTGGTAGCAATGTACACAACcggctgcctggccgtagagcaaggcttaaccacctttgaagagttaatccgcgtactggggatgccgcatggcgagtaagcaactctggcgctggcatggcataaccggcgacggcaat                                                                                                                                           <  1:134771‑M2/266‑120 (MQ=255)                                                                                                     gCGTACGCATACCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGGTATTAGCGGAAATAAGCTGACGAATGACCGGCGTTATGGGCAGAACTTCAAATAAGGCCGTACGACCATAAAAACCGTGGTAGCAATGTACACAACcggctgcctggccgtagagcaaggcttaaccacctttgaagagttaatccgcgtactggggatgccgcatggcgagtaagcaactctggcgctggcatggcataaccggcgaaggcaatgcgcaagat                                                                                                                                  <  1:718975‑M2/275‑129 (MQ=255)                                                                                                       gTACGCATACCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGGTATTAGCGGAAATAAGCTGACGAATGACCGGCGTTATGGGCAGAACTTCAAATAAGGCCGTACGACCATAAAAACCGTGGTAGCAATGTACACAACcggctgcctggccgtagagcaaggcttaaccacctttgaagagttaatccgcgtactggggatgccgcatggggagtaagcaactctggcgctggcatggcataaccggcgacggcaatgcgcacgatgg                                                                                                                                <  1:454522‑M2/275‑131 (MQ=255)                                                                                                          cgactccccgcctgtCGTGCGTGCTGTTCCAGCGAGTCAACGTCGGTATTAGCGGAAATAAGCTGACGAATGACCGGCGTTATGGGCAGAACTTCAAATAAGGCCGTACTACCATAAAAACCGTGGTAGCAATGTACACAACcggctgcctggccgtagagcaaggcttaaccacctttgaagagttaatccgcgtactggggatgccgcatggcgagtaagcaactctggcgctggcatggcataaccggcgacggcaatgcgcaagatgggat                                                                                                                             >  2:718965‑M2/7‑142 (MQ=255)                                                                                                                cccGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGGTATTAGCGGAAATAAGCTGACGAATGACCGGCGTTATGGGCAGAACTTCAAATAAGGCCGTACGACCATAAAAACCGTGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGGGCAGCGGCGATGGCCATACATTGTCTGGAATGTGGATGGGCTccc                                                                                                                                                                                                   >  1:105749/1‑199 (MQ=255)                                                                                                                cccGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGGTATTAGCGGAAATAAGCTGACGAATGACCGGCGTTATGGGCAGAACTTCAAATAAGGCCGTACGACCATAAAAACCGTGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGGGCAGCGGCGATGGCCATACATTGTCTGGAATGTGGATGGGCTCCCCTTGCTGCCGGCGACAATGTGGGCAAAGTTTGCGTACCAGACGCTGGGCTATTACCAGCGTAAGCGCCGATGATa                                                                                                                        >  1:31254/1‑274 (MQ=255)                                                                                                                    ccTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGGTATTAGCGGAAATAAGCTGACGAATGACCGGCGTTATGGGCAGAACTTCAAATAAGGCCGTACGACCATAAAAACCGTGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGGGCAGCGGCGATGGCCATACATTGTCTGGAATGTGGATGGGCTCCCCTtg                                                                                                                                                                                               <  2:105748/199‑1 (MQ=255)                                                                                                                    ccTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGGTATTAGCGGAAATAAGCTGACGAATGACCGGCGTTATGGGCAGAACTTCAAATAAGGCCGTACGACCATAAAAACCGTGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGGGCAGCGGCGAGGGCCATACATTGTCGGGAATGTGGATGGGCTCCCCTTGCTGCCGGCGACAATGTGGGCAAAGTTTGCGTACCAGACGCGGGGCTATTACCAGCGAAAGCGCCGAAGATAGCAt                                                                                                                    >  1:625081/1‑274 (MQ=255)                                                                                                                             cgtgcgtTTCCAGCGATTCAACGTCGGTATTAGCGGAAATAAGCTGACGAATGACCGGCGTTATGGGCAGAACTTCAAATAAGGCCGTACGACCATAAAAACCGTGGTAGCAATGTACACAACCGGGTGCCTGCCAGTgg                                                                                                                                                                                                                                                 >  1:669019/1‑140 (MQ=255)                                                                                                                             cgtgcgtTTCCAGCGATTCAACAGCGCTATTAGCGGAAATAATCTGACGAATGACCGGCGTAATGGGCAGAACTTCAACTAAGGCCGTACGACCATAAAAGCCGTGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGTGCAGCGGAGATGGCCATACATTGTATGGAATGTTGATGGGCTCCACTTGCTGCCGGCCACAATGTGGGCAAAGTTAGCGTCCCAAACGCTGGGCCATTACCAGCGTACACGCCCATAATCGCagcacacgggc                                                                                                           >  2:598636/1‑264 (MQ=255)                                                                                                                                 cgtTTCCAGCGATTCAACGTCGGTATTAGCGGAAATAAGCTGACGAATGACCGGCGTTATGGGCAGAACTTCAAATAAGGCCGTACGACCATAAAAACCGTGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGGGCa                                                                                                                                                                                                                                             <  2:669010/140‑1 (MQ=255)                                                                                                                                             ttCAACGTCGGTATTAGCGGAAATAAGCTGACGAATGACCGGCGTTATGGGCAGAACTTCAAATAAGGCCGTACGAACATAAAAACCGTGGTAGCAATGTACACAACCGGGt                                                                                                                                                                                                                                                             >  2:557406/1‑112 (MQ=255)                                                                                                                                                 aCGTCGGTATTAGCGGAAATAAGCTGACGAATGACCGGCGGTATGGGCAGAACTTCAAAGAAGGCCGTACGACCATAAAAACCGTGGTAGCAAGGTACACAACCGGGtgcct                                                                                                                                                                                                                                                         <  1:557415/112‑1 (MQ=255)                                                                                                                                                                  aaTAAGCTGACGAATGACCGGCGTTATGGGCAGAACTTCAAATAAGGCCGTACGACCATAAAAACCGTGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGGGCAGCGGCGATGGCCATACATTGTCTGGAATGTGGATGGGCTCCCCTTGCTGCCGGCGACAATGTGGGCAAAGTTTGCGTACCAGACGCTGGGCTATTACCAGCGGAAGCGCGGATGATAGCAACCAGCGGGCGACCCACAGTGGCGGGAAACGGACCAGGGTGTCggcgg                                                                     >  2:667980/1‑271 (MQ=255)                                                                                                                                                                      gcgtGACGAATGACCGGCGGTATGGGCAGACCTTCAAATAAGGCCGTACGACCATAAAAACCGTGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGGGCAGCGGCGATGGCCATACATTGTCTGGAATGTGGATGGGCTCCCCTTGCTGCCGGCGACAATGTGGGCAAAGTTTGCGTACCAGACGCTGGGCTATTACCAGCGTAAGCGCCGATGATAGCATCCAGCGGGCGACCCCCATTTGCTGTAAACGTACCAGCGTTTCGCAGGTgg                                                                  <  2:666349/271‑1 (MQ=255)                                                                                                                                                                       gCTGACGAATGACCGGCGTTATGGGCAGAACTTCAAATAAGGCCGTACGACCATAAAAACCGTGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGGGCAGCGGCGATGGCCATACATTGTCTGGAATGTGGATGGGCTCCCCTTGCTGCCGGCGACAATGTGGGCAAAGTTTGCGTAGCAAACGCTGGGCTATTACCAGCGTAAGCGCCGATGATAGCATCCAGCGGGCGAACCCCATTTGCTGTAAACGTACCAGCGGTTCGCAGGTGGaa                                                                >  1:150367/1‑275 (MQ=255)                                                                                                                                                                                  aCCGGCGTTATGGGCAGAACTTCAAATAAGGCCGTACGACCATAAAAACCGTGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGGACAGCGGCGATGGCCATACATTATCTGGAATGTGGATGGGCTCCCCTTGCTGCCGGCGACAATGTGGGCAAAGTTTGCGTACCAGa                                                                                                                                                          >  2:483118/1‑174 (MQ=255)                                                                                                                                                                                                 aGAACTTCAAATAAGGCCGTACGACCATAAAAACCGTGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGGGCAGCGGCGATGGCCATACATTGTCTGGAATGTGGATGGGCTCCCCTTGCTGCCGGCGACAATGTGGGCAAAGTTTGCGTACCAGACGCTGGGCTATTACCAGCGTAAGCGCCGATGATAGCATCCAGCGGGCGACCCCCATTTGCTGTAAACGTACCAGCGTTTCGCAGGTGGAATTAGTGTGTAGGGTAGacaac                                           >  2:704306/1‑270 (MQ=255)                                                                                                                                                                                                     cTTCAAATAAGGCCGTACGACCATAAAAACCGTGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGGGCAGCGGCGATGGCCATACATTGTCTGGAATGTGGATGGGCTCCCCTTGCTGCCGGCGACAATGTGGGCAAAGTTTGCGTACCAGACGCTGGGCTATTACCAGCGTAAGCGCCGATGATAGCATCCAGCGGGCGACCCCCATTTGCTGTAAACGTACCAGCGTTTCGCAGGTGGAATTAGTGTGTAGGGTAGACAACACCa                                       <  1:704316/270‑1 (MQ=255)                                                                                                                                                                                                          aaTAAGGCCGTACGACCATAAAAACCGTGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGGGCAGCGGCGATGGCCATACATTGTCTGGAATGTGGATGGGCTCCCCTTGCTGCCGGCGACAATGTGGGCAAAGTTTGCGTACCAGGCGCTGGGCTATTACCAGCGTAAGCGCCGATGATAGCATCCAGCGGGCGACCCCCATTTGCTGTAAACGTACCAGCGTTTCGCAGGTGGAATTAGTGTGTATGGTAGACAACACAAGGAGAACAGt                             >  1:587949/1‑275 (MQ=255)                                                                                                                                                                                                                        aCCATAAAAACCGTGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGGGCAGCGGCGATGGCCATACATTGTCTGGAATGTGGAGGGGCTCCCCTTGCTGCCGGCGACAATGTGGGCAAAGTTTGCGTACCAGACGCTGGGCTATTACCAGCGTAAGCGCCGATGATAGCATCCAGCGGGCGACCCCCATTTGCTGTAAACGTACCAGCGTTTCGCAGGTGGAATTAGTGTGTAgg                                                    <  1:129517/238‑1 (MQ=255)                                                                                                                                                                                                                                aaCCGTGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGGGCAGCGGCGATGGCCATACATTGTCTGGAATGTGGATGGGCTCCCCCTGCTGCCGGCGACAATGTGGGCAAAGTTTGCGTACCAGACGCTGGGCTATTACCAGCGTAAGCGCCGATGATAGCATCCAGCGGGCGACCCCCATTTGCTGTAAACGTACCAGCGTTTCGCAGGTGGAATTAGTGTGTAGGGTAGACAACACCAGGTGACCAGTTTgcgc                       <  1:440425/259‑1 (MQ=255)                                                                                                                                                                                                                                     tGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGGGCAGCGGCGATGGCCATACATTGTCTGGAATGTGGATGGGCTCCCCTTGCTGCCGGCGACAATGTGGGCAAAGTTTGCGTACCAGACGCTGGGCTATTACCAGCGTAAGCGCCGATGATAGCATCCAGCGGGCGACCCCCATTTGCTGTAAACGTACCAGCGTTTCGCAGGTGGAATTAGTGTGTAg                                                     >  2:689898/1‑224 (MQ=255)                                                                                                                                                                                                                                     tGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGGGCAGCGGCGATGGCCATACATTGTCTGGAATGTGGATGGGCTCCCCTTGCTGCCGGCGACAATGTGGGCAAAGTTTGCGTACCAGACGCTGGGCTATTACCAGCGTAAGCGCCGATGATAGCATCCAGCGGGCGACCCCCATTTGCTGTAAACGTACCAGCGTTTCGCAGGTGGAATTAGTGTGTAGGGTAGACAACACCAGGTGACCAGTTAGCGCCGCTTTAATAGCGATCTctgc  >  1:429353/1‑275 (MQ=255)                                                                                                                                                                                                                                         aGCAATGTACACAACCGGGTGCCTGCCAGTGGGGCAGCGGCGATGGCCATACATTGTCTGGAATGTGGATGGGCTCCCCTTGCTGCCGGCGACAATGTGGGCAAAGTTTGCGTACCAGACGCTGGGCTATTACCAGCGTAAGCGCCGATGATAGCATCCAGCGGGCGACCCCCATTTGCTGTAAACGTACCAGCGTTTCGCAGGTGGAATTAGTGTGTAGGGTa                                                 <  1:689907/224‑1 (MQ=255)                                                                                                                                                                                                                                                tACACAACCGGGTGCCTGCCAGTGGGGCAGCGGCGATGGCCa                                                                                                                                                                                                                                >  1:370855/1‑42 (MQ=255)                                                                                                                                                                                                                                                    caACCGGGTGCCTGCCAGTGGGGCAGCGGCGATGGCCATACa                                                                                                                                                                                                                            <  2:370849/42‑1 (MQ=255)                                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                                                 GCCAGAGTTGCTTACTCGCCATGCGGCATCCCCAGTACGCGGATTAACTCTTCAAAGGTGGTTAAGCCTTGCTCTACGGCCAGGCAGCCGTTTTCAAAAAGCGTACGCATACCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGGTATTAGCGGAAATAAGCTGACGAATGACCGGCGTTATGGGCAGAACTTCAAATAAGGCCGTACGACCATAAAAACCGTGGTAGCAATGTACACAACCGGGTGCCTGCCAGTGGGGCAGCGGCGATGGCCATACATTGTCTGGAATGTGGATGGGCTCCCCTTGCTGCCGGCGACAATGTGGGCAAAGTTTGCGTACCAGACGCTGGGCTATTACCAGCGTAAGCGCCGATGATAGCATCCAGCGGGCGACCCCCATTTGCTGTAAACGTACCAGCGTTTCGCAGGTGGAATTAGTGTGTAGGGTAGACAACACCAGGTGACCAGTTTGCGCCGCTTTAATAGCGATCTCTGC  >  CP009273/112190‑112692

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ 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.