New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	5047123 =	46 (1.020)	4 (0.090)	4/246	NT	7.3%	intergenic (+56/+392)	PP_5683/PP_5684	hypothetical protein/hypothetical protein
	?	NC_002947	5047158 =	56 (1.250)					intergenic (+91/+357)	PP_5683/PP_5684	hypothetical protein/hypothetical protein

ATTCAGGTGATCGGACAGATCCGATTGCTCTCTTATCTACATGGGAGCATCAGCGACTCGAGCGCATGTTGAAAGCCTTGTAGAGCGTTGATGGCGTGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCGAGTCATCTCAGATACACTTGGCGTCAGGAAGCGTCGGCACGACAACCGTTCCATCAAGGGCCCA  >  NC_002947/5046985‑5047268                                                                                                                                           |                                                                                                                                                  aTTCAGGTGATCGGACAGATCCGATTGCTCTCTTATCTACATGGGAGCATCAGCGACTCGAGCGCATGTTGAAAGCCTTGTAGAGCGTTGATGGCGTGCACTGCCAGGCCCGGCTGTCGTGAGCCGAGCCATCGCTTTGCGACGTCTCgg                                                                                                                                        <  2:1070225/150‑1 (MQ=255) aTTCAGGTGATCGGACAGATCCGATTGCTCTCTTATCTACATGGGAGCATCAGCGACTCGAGCGCATGTTGAAAGCCTTGTAGAGCGTTGATGGCGTGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCgg                                                                                                                                        <  2:251797/150‑1 (MQ=255)      ggTGATCGGACAGATCCGATTGCTCTCTTATCTACATGGGAGCATCAGCGACTCGAGCGCATGTTGAAAGCCTTGTAGAGCGTTGATGGCGTGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTc                                                                                                                                   >  1:62292/1‑150 (MQ=255)       gTGATCGGACAGATCCGATTGCTCTCTTATCTACATGGGAGCATCAGCGACTCGAGCGCATGTTGAAAGCCTTGTAGAGCGTTGATGGCGTGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTcc                                                                                                                                  >  1:1078500/1‑150 (MQ=255)         gATCGGACAGATCCGATTGCTCTCTTATCTACATGGGAGCATCAGCGACTCGAGCGCATGTTGAAAGCCTTGTAGAGCGTTGATGGCGTGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCgg                                                                                                                                >  2:1051957/1‑150 (MQ=255)             ggACAGATCCGATTGCTCTCTTATCTACATGGGAGCATCAGCGACTCGAGCGCATGTTGAAAGCCTTGTAGAGCGTTGATGGCGTGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGCCGTCTCGGCCCTCCGGGCtt                                                                                                                            >  2:121249/1‑150 (MQ=255)              gACAGATCCGATTGCTCTCTTATCTACATGGGAGCATCAGCGACTCGAGCGCATGTTGAAAGCCTTGTAGAGCGTTGATGGCGTGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTc                                                                                                                           >  1:1198239/1‑150 (MQ=255)                   aTCCGATTGCTCTCTTATCTACATGGGAGCATCAGCGACTCGAGCGCATGTTGAAAGCCTTGTAGAGCGTTGATGGCGTGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATcc                                                                                                                      <  1:775135/150‑1 (MQ=255)                   aTCCGATTGCTCTCTTATATATATGCGAGCATCAGCGACTCGAGCGCATGTTGAAAGCCTTGTAGAGCGTTGATGGGGTGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATcc                                                                                                                      <  1:61224/150‑1 (MQ=255)                     tcataggtgggcccttgatggaacggttgtcgtgccgacgcttcctgacgccaagtgtatctgagatgactcggtggaagttgatggatactccgaaaggcaagcggagcgcgccggcGCGACGTCTCGGCCCTCCGGGCTTCCATCCGt                                                                                                                    <  1:362006‑M1/32‑1 (MQ=255)                        aTTGCTCTCTTATCTACATGGGAGCATCAGCGACTCGAGCGCATGTTGAAAGCCTTGTAGAGCGTTGATGGCGTGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCAc                                                                                                                 <  2:62292/150‑1 (MQ=255)                                 ttATCTACATGGGAGCATCAGCGACTCGAGCGCATGTTGAAAGCCTTGTAGAGCGTTGATGGCGTGCACGGCCAGGCGCGGCTGTTGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCTGGGCTTCCATACGTCAGGCCGgcgcg                                                                                                        >  2:1194152/1‑150 (MQ=255)                                       tggaacggttgtcgtgccgacgcttcctgacgccaagtgtatctgagatgactcggtggaagttgatggatactccgaaaggcaagcggagcgcgccggcGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGc                                                                                                  >  2:362006‑M1/101‑150 (MQ=255)                                         aTGGGAGCATCAGCGACTCGAGCGCATGTTGAAAGCCTTGTAGAGCGTTGATGGCGTGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCtt                                                                                                >  1:237865/1‑150 (MQ=255)                                                     gCGACTCGAGCGCATGTTGAAAGCCTTGTAGAGCGTTGATGGCGTGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCAGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGt                                                                                    >  1:1030206/1‑150 (MQ=255)                                                         cTCGAGCGCATGTTGAAAGCCTTGTAGAGCGTTGATGGCGTGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATcc                                                                                <  2:237865/150‑1 (MQ=255)                                                                  aTGTTGAAAGCCTTGTAGAGCGTTGATGGCGTGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCCTCGCTTCGCGCCGTCTCGGCCCTCCTTGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTc                                                                       <  1:1051957/150‑1 (MQ=255)                                                                  aTGTTGAAAGCCTTGTAGAGCGTTGATGGCGTGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTc                                                                       >  2:1032761/1‑150 (MQ=255)                                                                       gAAAGCCTTGTAGAGCGTTGATGGCGTGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCg                                                                  >  2:1199149/1‑150 (MQ=255)                                                                       gAAAGCCTTGTAGAGCGTTGATGGCGTGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTACGTCGTCGCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCg                                                                  >  1:1052696/1‑150 (MQ=255)                                                                            ccTTGTAGAGCGTTGATGGCGTGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCGAGTCa                                                             >  1:340908/1‑150 (MQ=255)                                                                                   tagCGTTGATGGCGTGCACTCCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCCAGTCATCTCAGa                                                      <  1:1194152/149‑1 (MQ=255)                                                                                   gagCGTTGATGGCGTGCACTGCCAGGCCCGGCTGGCGTGAACCGAGCCATCGCCTTGCGCCGTCTCGGCCCTCCGGGCTTCCAGCCGTCACGCCGGCGCGCTCCGCTTCCCTTTCGGAGTAACCATCAACTTCCACCGCGTCATCTCAGa                                                      >  2:221770/1‑150 (MQ=38)                                                                                    agCGTTGATGGCGTGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCGAGTCATCTCAGAt                                                     <  1:1032761/150‑1 (MQ=255)                                                                                          gATGGCGTGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCGAGTCATCTCAGATACACtt                                               <  2:1198239/150‑1 (MQ=255)                                                                                              gtggaagttgatggatactccgaaaggcaagcggagcgcgccggcGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGc                                                                                                               >  2:780655‑M1/46‑82 (MQ=255)                                                                                              gtggaagttgatggatactccgaaaggcaagcggagcgcgccggcGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGc                                                                                                               <  1:780655‑M1/37‑1 (MQ=255)                                                                                               cGTGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCGAGTCATCTCAGATACACTTGGCGt                                          >  2:162233/1‑150 (MQ=255)                                                                                                gTGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGc                                                                                                                                                  >  2:1170237/1‑45 (MQ=255)                                                                                                gTGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGc                                                                                                                                                  <  1:1170237/45‑1 (MQ=255)                                                                                                 tGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTAt                                                                                  <  1:1008670/108‑1 (MQ=255)                                                                                                 tGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTAt                                                                                  >  2:1008670/1‑108 (MQ=255)                                                                                                 tGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCGAGTCATCTCAGATACACTTGGCGTCa                                        <  2:1078500/150‑1 (MQ=255)                                                                                                 tGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCGAGTCATCTCAGATACACTTGGCGTCa                                        <  2:1202461/150‑1 (MQ=255)                                                                                                 tGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCGAGTCATCTCAGATACACTTGGCGTCa                                        <  1:162233/150‑1 (MQ=255)                                                                                                  gCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCGAGTCATCTCAGATACACTTGGCGTCAg                                       <  1:1199149/150‑1 (MQ=255)                                                                                                    aCTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCGAGTCATCTCAGATACACTTGGCGTCAGGa                                     >  2:302964/1‑150 (MQ=255)                                                                                                     cTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCGAGTCATCTCAGa                                                      >  2:207705/1‑132 (MQ=255)                                                                                                     cTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCGAGTCATCTCAGa                                                      <  1:207705/132‑1 (MQ=255)                                                                                                        tcAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCGAGTCATCTCAGATACACTTGGCGTCAGGAAGCg                                 >  2:1002209/2‑150 (MQ=255)                                                                                                        ccAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGCCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCGAGTCATCTCAGATACACTTGGCGTCAGGAAGCg                                 >  1:1119549/1‑150 (MQ=255)                                                                                                         cAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCGAGTCATCTCAGATACACTTGGCGTCAGGAAGCGt                                <  1:302964/150‑1 (MQ=255)                                                                                                              ccGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCGAGTCATCTCAGATACACTTGGCGTCAGGAAGCGTCGGCa                           >  1:192107/1‑150 (MQ=255)                                                                                                              ccGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCGAGTCATCTCAGATACACTTGGCGTCAGGAAGCGTCGGCa                           >  2:256894/1‑150 (MQ=255)                                                                                                                      cGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCGAGTCATCTCAGATACACTTGGCGTCAGGAAGCGTCGGCACGACAAcc                   <  2:340908/150‑1 (MQ=255)                                                                                                                      cGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCGAGTCATCTCAGATACACTTGGCGTCAGGAAGCGTCGGCACGACAAcc                   <  1:1002209/150‑1 (MQ=255)                                                                                                                       gTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCGAGTCATCTCAGATACACTTGGCGTCAGGAAGCGTCGGCACGACAACCg                  >  2:731615/1‑150 (MQ=255)                                                                                                                            ccGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCGAGTCATCTCAGATACACTTGGCGTCAGGAAGCGTCGGCACGACAACCGTTCCa             >  1:334246/1‑150 (MQ=255)                                                                                                                                   aTCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCGAGTCATCTCAGATACACTTGGCGTCAGGAAGCGTCGGCACGa                        <  2:336319/132‑1 (MQ=255)                                                                                                                                   aTCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCGAGTCATCTCAGATACACTTGGCGTCAGGAAGCGTCGGCACGa                        >  1:336319/1‑132 (MQ=255)                                                                                                                                   aTCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCGAGTCATCTCAGATACACTTGGCGTCAGGAAGCGTCGGCACGACAACCGTTCCATCAAggg      <  2:1052696/150‑1 (MQ=255)                                                                                                                                     cGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCGAGTCATCTCAGATACACTTGGCGTCAGGAAGCGTCGGCACGACAACCGTTCCATCAAGGGcc    <  2:334246/150‑1 (MQ=255)                                                                                                                                       cTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCGAGTCATCTCAGATACACTTGGCGTCAGGAAGCGTCGGCACGACAACCGTTCCATCAAGGGCCCa  <  1:731615/150‑1 (MQ=255)                                                                                                                                           |                                                                                                                                                  ATTCAGGTGATCGGACAGATCCGATTGCTCTCTTATCTACATGGGAGCATCAGCGACTCGAGCGCATGTTGAAAGCCTTGTAGAGCGTTGATGGCGTGCACTGCCAGGCCCGGCTGTCGTGAACCGAGCCATCGCTTTGCGACGTCTCGGCCCTCCGGGCTTCCATCCGTCACGCCGGCGCGCTCCGCTTGCCTTTCGGAGTATCCATCAACTTCCACCGAGTCATCTCAGATACACTTGGCGTCAGGAAGCGTCGGCACGACAACCGTTCCATCAAGGGCCCA  >  NC_002947/5046985‑5047268

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ 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.