New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 4561311	58 (1.150)	4 (0.080)	4/242	NT	7.7%	coding (238/1404 nt)	PP_4048	hypothetical protein
	?	NC_002947	= 4561361	42 (0.890)					coding (188/1404 nt)	PP_4048	hypothetical protein

CCCACCGCCCCCACCACAGCGCCGATGATCGGCGCGATCAGGGTCATCAGGCAGGCCACCAGCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGCACAATCACCACCCCCGGCACCAACGACAGCAGCATGTCGGCGATGACCACGCTCAGTGGCCGCTCCTCGGCA‑‑AACTCGCCAAGCACCAGGTCACGCAGCCAGCCAAAGCCGTCGGCCACT  >  NC_002947/4561217‑4561507                                                                                                                                                  |                                                                                                                                                     cccACCGCCCCCACCACAGCGCCGATGATCGGCGCGATCAGGGTCATCAGGCAGGCCACCAGCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACAccg                                                                                                                                                   <  2:323804‑M2/148‑4 (MQ=255) cccACCGCCCCCACCACAGCGCCGATGATCGGCGCGATCAGGGTCATCAGGCAGGCCACCAGCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACAccg                                                                                                                                                   <  5:89349‑M2/148‑4 (MQ=255)     ccGCCCCCACCACAGCGCCTATGATCGGCGCGATCAGGGTCATCAGGCAGGCCACCAGCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACAccgcagcc                                                                                                                                              >  6:278591‑M2/1‑141 (MQ=255)       gCCCCCACCACAGCGCCGATGATCGGCGCGATCAGGGTCATCAGGCAGGCCACCAGCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAg                                                                                                                                            <  3:88538/149‑1 (MQ=255)       gCCCCCACCACAGCGCCGATGATCGGCGCGATCAGGGTCATCAGGCAGGCCACCAGCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAg                                                                                                                                            <  7:124477/149‑1 (MQ=255)          cccACCACAGCGCCGATGATCGGCGCGATCAGGGTCATCAGGCAGGCCACCAGCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCTCAGGCGCAGGCACACCGCAGCCAGGt                                                                                                                                          >  1:167277/1‑148 (MQ=255)           ccaccaCAGCGCCGATGATCGGCGCGATCAGGGTCATCAGGCAGGCCACCAGCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCa                                                                                                                                        >  2:80640/1‑149 (MQ=255)            cctgatcgcgcCGATCATCGGCGCGATCAGGGTCATCAGGCAGGCCACCAGCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCAc                                                                                                                                       >  8:35056/8‑149 (MQ=255)             accacAGCGCCGATGATCGGCGCGATCAGGGTCATCAGGCAGGCCACCAGCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACg                                                                                                                                      <  6:28999/149‑1 (MQ=255)              ccacAGCGCCGATGATCGGCGCGATCAGGGTCATCAGGCAGGCCACCAGCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACgg                                                                                                                                     <  1:15133/149‑1 (MQ=255)              ccacAGCGCCGATGATCGGCGCGATCAGGGTCATCAGGCAGGCCACCAGCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACgg                                                                                                                                     <  1:192792/149‑1 (MQ=255)               cacaGCGCCGATGATCGGCGCGATCAGGGTCATCAGGCAGGCCACCAGCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACggg                                                                                                                                    <  6:134074/149‑1 (MQ=255)                acaGCGCCGATGATCGGCGCGATCAGGGTCATCAGGCAGGCCACCAGCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGc                                                                                                                                   <  6:89349/149‑1 (MQ=255)                   gcgcCGATGATCGGCGCGATCAGGGTCATCAGGCAGGCCACCAGCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACt                                                                                                                                <  7:139432/149‑1 (MQ=255)                   gcgcCGATCATCGGCGCGATCAGGGTCATCAGGCAGGCCACCAGCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACt                                                                                                                                <  7:35056/149‑1 (MQ=255)                       cGATGATCGGCGCGATCAGGGTCATCAGGCAGGCCACCAGCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAg                                                                                                                             >  7:123420/1‑148 (MQ=255)                        gatgatCGGCGCGATCAGGGTCATCAGGCAGGCCACCAGCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGca                                                                                                                           <  2:84635/149‑1 (MQ=255)                                       cAGGGTCATCAGGCAGGCCACCAGCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGCACAATCACCACCCCCg                                                                                                            >  1:290402/1‑149 (MQ=255)                                         gggTCATCAGGCAGGCCACCAGCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGca                                                                                                                           >  2:23218/1‑132 (MQ=255)                                         gggTCATCAGGCAGGCCACCAGCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGca                                                                                                                           <  1:18139/132‑1 (MQ=255)                                         gggTCATCAGGCAGGCCACCAGCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGca                                                                                                                           <  1:23218/132‑1 (MQ=255)                                         gggTCATCAGGCAGGCCACCAGCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGca                                                                                                                           >  2:18139/1‑132 (MQ=255)                                              atcaGGCAGGCCACCAGCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGCACAATCACCACCCCCGGCACCaa                                                                                                     <  1:323804/149‑1 (MQ=255)                                               ttctggagggCAACAACAACCACCACTTTTTCCATTTCGGCGGGTGGGGGGTTGGCGTGGCTGCGGCCGGCGGGGTAGGGGTTG‑CCAGGCGCAGGCACACCGCAGCCAGGTCACGTGCACTGAGCACAATCACCACCCCCGGCACCAAc                                                                                                    <  1:43961/143‑1 (MQ=255)                                                  ggcaggcCACCAGCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGCACAATCACCACCCCCGGCACCAACGa                                                                                                  >  4:227892/1‑148 (MQ=255)                                                      ggcCACCAGCAACACCCACTCTTTCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGCACAATCACCACCCCCGGCACCAACGAcagca                                                                                             <  4:169338/149‑1 (MQ=255)                                                      ggcCACCAGCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCTCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGCACAATCACCACCCCCGGCACCAACGAcagca                                                                                             <  2:167277/149‑1 (MQ=255)                                                              gCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGCACAAt                                                                                                                       <  2:129309/115‑1 (MQ=255)                                                              gCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGCACAAt                                                                                                                       >  1:129309/1‑115 (MQ=255)                                                                  cacCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGCACAATCACCACCCCCGGCACCAACGACAGCAGCATGTCGGCGa                                                                                 <  3:220917/149‑1 (MQ=255)                                                                    cccACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGCACAATCACCACCCCCGGCACCAACGACAGCAGCATGTCGGCGATg                                                                               <  3:227892/149‑1 (MQ=255)                                                                       aCTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGCACAATCACCACCCCCGGCACCAACGACAGCAGCATGTCGGCGATGAc                                                                             >  5:60917/1‑148 (MQ=255)                                                                              ccATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGCACAATCACCACCCCCGGCACCAACGACAGCAGCATGTCGGCGATGACCACGCt                                                                       >  7:299849/1‑147 (MQ=255)                                                                                aTTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGCACAATCACCACCCCCGGCACCAACGACAGCAGCATGTCGGCGATGACCACGCTCAGt                                                                   <  6:60917/149‑1 (MQ=255)                                                                                   ccGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGCACAATCACCACCCCCGGCACCAACGAcagca                                                                                             <  2:303027/120‑1 (MQ=255)                                                                                   ccGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGCACAATCACCACCCCCGGCACCAACGAcagca                                                                                             >  1:303027/1‑120 (MQ=255)                                                                                        ggcTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACAccgcagccgccggaatggcaagagtgggtgttgctggtggcctgcctgatgaccctgatcgcgccgatcatcggcgctgtggtgggggcgg                                                           <  1:26762‑M2/149‑92 (MQ=255)                                                                                          cTGCGGCGTT‑GCCTGGCTGCCGTCCGCCCCGTAGCGCTTGCCCAGGCGCAGGCACAccgcagccgccggaatggcaagagtgggtgttgctggtggcctgcctgatgaccctgatcgcgccgatcatcggcgctgtggtgggggcggtg                                                         <  1:181084‑M2/149‑94 (MQ=255)                                                                                             cggcgTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGCACAATCACCACCCCCGGCACCAACGACAGCAGCATGTCGGCGATGACCACGCTCAGTGGCCGCTCCTCg                                                       <  1:61429/148‑1 (MQ=255)                                                                                                     gCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACAccgcagccgccggaatggcaagagtgggtgttgctggtggcctgcctgatgaccctgatcgcgccgatcatcggcgctgtggtgggggcggtgggcactccc                                                >  2:181084‑M2/1‑46 (MQ=255)                                                                                                        tGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGACAGGTAACGGGCACTGAGCAAAATCACCACCCCCGGAACCAACGACAGCATAATTTAGGCGATGACAACTCTCAGTGTCAGCTCCTCGGCA‑‑ATCTCGc                                           >  6:181900/1‑148 (MQ=255)                                                                                                          gCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGCACAATCACCACCCCCGGCACCAACGACAGTAGCATGTCGGCGATGACCACGCTCAGTGGCCGCTCCTCGGCA‑‑AACTCGCCaa                                        <  1:80640/149‑1 (MQ=255)                                                                                                             gCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGCACAATCACCACCCCCGGCACCAACGACAGCAGCATGTCGGCGATGACCACGCTCAGTGGCCGCTCCTCGGCA‑‑AACTCGCCAAGCa                                     >  6:305671/1‑149 (MQ=255)                                                                                                                   cgccgcGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGCACAATCACCACCCCCGGCACCAACGACAGCAGCATGTCGGCGATGAc                                                                             >  7:68762/1‑105 (MQ=255)                                                                                                                   cgccgcGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGCACAATCACCACCCCCGGCACCAACGACAGCAGCATGTCGGCGATGAc                                                                             <  8:68762/105‑1 (MQ=255)                                                                                                                         gTAGCGCTTGCCCAGGCGCATGCACACCGAATCCATGTCACTGGAACTGAGCACAATCACCACCCCCGGCACCAACGACATCATCATGTCGTCGATGACCACGCTCATTGGCCGCTCCTCGGCA‑‑AACTCGCCAAGCACCATGTCACGca                         <  5:181900/149‑1 (MQ=255)                                                                                                                              gcTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGCACAATCACCACCCCCGGCACCAACGACAGCAGCATGTCGGCGATGACCACGCTCAGTGGCCGCTCCTCGGCA‑‑AACTCGCCAAGCACCAGGTCACGcagccag                    >  1:300721/1‑149 (MQ=255)                                                                                                                                  gCCCAGGCGCAGGCACAccgcagccgccggaatggcaagagtgggtgttgctggtggcctgcctgatgaccctgatcgcgccgatcatcggcgctgtggtgggggcggtgggcactcccgtgggctcgatggcaggcgcactggttgg                   >  2:26762‑M2/1‑17 (MQ=255)                                                                                                                                    ccAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGCACAATCACCAccccc                                                                                                             <  2:254031/56‑1 (MQ=255)                                                                                                                                    ccAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGCACAATCACCACCCCCg                                                                                                            >  1:254031/1‑57 (MQ=255)                                                                                                                                     cAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGCACAATCACCACCCCCGGCACCAACGACAGCAGCATGTCGGCGATGACCACGCTCAGTGGCCGCTCCTCGGCA‑‑AACTCGCCAAGCACCAGGTCACGCAGCCAGCCAAAGc             <  8:123420/149‑1 (MQ=255)                                                                                                                                        gcgcAGGCACACCGCAGCCAGGTCACGGGCACTGAGCACAATCACCACCCCCGGCACCAACGACAGCAGCATGTCGGCGATGACCACGCTCAGTGGCCGCTCCTCGGCA‑‑AACTCGCCAAGCACCAGGTCACGCAGCCAGCCAAAGCCGt          <  8:299849/149‑1 (MQ=255)                                                                                                                                                acacCGCAGCCAGGTCACGGGCACTGAGCACAATCACCACCCCCGGCACCAACGACAGCAGCATGTCGGCGATGACCACGCTCAGTGGCCGCTCCTCGGCA‑‑AACTCGCCAAGCACCAGGTCACGCAGCCAGCCAAAGCCGTCGGCCACt  >  6:238775/1‑149 (MQ=255)                                                                                                                                                  acCGCAGCCAGGTCACGGGCACTGAGCACAATCACCACCCCCGGCACCAACGACAGCAGCATGTCGGCGATGACCACGCTCAGTGGCCGCTCCTCGGCATGGAGTAGCAAAGCACCAGGTCACGCACCCAGCCAAAGCCGACGGCCACt  >  1:268932/1‑149 (MQ=255)                                                                                                                                                  acCGCAGCCAGGTCACGGGCACTGAGCACAATCACCACCCCCGGCACCAACGACAGCAGCATGTCGGCGATGACCACGCTCAGTGGCCGCTCCTCGGCA‑‑AACTCGCCAAGCACCAGGTCACGCagccagcc                  >  6:274634/1‑131 (MQ=255)                                                                                                                                                  acCGCAGCCAGGTCACGGGCACTGAGCACAATCACCACCCCCGGCACCAACGACAGCAGCATGTCGGCGATGACCACGCTCAGTGGCCGCTCCTCGGCA‑‑AACTCGCCAAGCACCAGGTCACGCagccagcc                  <  5:274634/131‑1 (MQ=255)                                                                                                                                                  |                                                                                                                                                     CCCACCGCCCCCACCACAGCGCCGATGATCGGCGCGATCAGGGTCATCAGGCAGGCCACCAGCAACACCCACTCTTGCCATTCCGGCGGCTGCGGCGTT‑GCCTGGCTGCCGTCCGCCGCGTAGCGCTTGCCCAGGCGCAGGCACACCGCAGCCAGGTCACGGGCACTGAGCACAATCACCACCCCCGGCACCAACGACAGCAGCATGTCGGCGATGACCACGCTCAGTGGCCGCTCCTCGGCA‑‑AACTCGCCAAGCACCAGGTCACGCAGCCAGCCAAAGCCGTCGGCCACT  >  NC_002947/4561217‑4561507

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.