New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 5112628	29 (1.030)	5 (0.220)	4/202	NT	14.1%	intergenic (‑169/+97)	rluB/PP_4497	23S rRNA pseudouridylate synthase B/hypothetical protein
	?	NC_002947	= 5112689	37 (1.600)					intergenic (‑230/+36)	rluB/PP_4497	23S rRNA pseudouridylate synthase B/hypothetical protein

AGGGGAACGCACTGGAGGGTAGAGGGTTTTGTGGGGCTGGGCATGATTTTCTGCCCAGTGGGCTTTGTGCTGGCCTCTTCGCGGGCACGCCCGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCACCGGAGGCTCAGGCTCCTCTCCCCGCAGATCATCAAAATCGGTTTTCAAACCGTCTTCCATGGCATCCAGCTCCACCAACAG  >  NC_002947/5112542‑5112835                                                                                                                                                    |                                                                                                                                                   aGGGGAACGCACTGGAGGGTAGAGGGTTTTGTGGGGCTGGGCATGATTTTCTGCCCAGTGGGCTTTGTGCTGGCCTCTTCGCGGGCACGCCCGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTtg                                                                                                                                                  >  1:159585‑M2/1‑148 (MQ=255)     gAACGCACTGGAGGGTAGAGGGTTTTGTGGGGCTGGGCATGATTTTCTGCCCAGTGGGCTTTGTGCTGGCCTCTTCGCGGGCACGCCCGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTtgcccg                                                                                                                                              >  1:498259‑M2/1‑144 (MQ=255)       aCGCACTGGAGGGTAGAGGGTTTTGTGGGGCTGGGCATGATTTTCTGCCCAGTGGGCTTTGTGCTGGCCTCTTCGTGGGCACGCCCGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTtgcccgcg                                                                                                                                            <  2:731395‑M2/150‑9 (MQ=255)             tGGAGGGTAGAGGGTTTTGTGGGGCTGGGCATGATTTTCTGCCCAGTGGGCTTTGTGCTGGCCTCTTCGCGGGCACGCCCGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTtgcccgcgaagagg                                                                                                                                      <  2:328036‑M2/150‑15 (MQ=255)                  ggTAGAGGGTTTTGTGGGGCTGAGAATGATTTTATGCCCAATGGGATCTGTGCTAGTCCTTTACCGGGCGCGGGTGTTTCTACAGGTTTCCGCAACCTTCGGTGCCTGTGATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGc                                                                                                                                 >  2:649447/1‑150 (MQ=19)                   gTAGAGGGTTTTGTGGGGCTGGGCATGATTTTCTGCCCAGTGGGCTTTGTGCTGGCCTCTTCGCGGGCACGCCCGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTtgcccgcgaagaggccagca                                                                                                                                <  1:597451‑M2/150‑21 (MQ=255)                       agGGTTTTGTGGGGCTGGGCATGATTTTCTGCCCAGTGGGCTTTGTGCTGGCCTCTTCGCGGGCACGCCCGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAgg                                                                                                                            <  1:427003/150‑1 (MQ=255)                                         gCATGATTTTCTGCCCAGTGGGCTTTGTGCTGGCCTCTTCGCGGGCACGCCCGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGgcagca                                                                                                                       <  1:143708/137‑1 (MQ=255)                                         gCATGATTTTCTGCCCAGTGGGCTTTGTGCTGGCCTCTTCGCGGGCACGCCCGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGgcagca                                                                                                                       >  2:143708/1‑137 (MQ=255)                                         gCATGATTTTCTGCCCAGTGGGCTTTGTGCTGGCCTCTTCGCGGGCACGCCCGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGc                                                                                                          >  1:574833/1‑150 (MQ=255)                                          cATGATTTTCTGCCCAGTGGGCTTTGTGCTGGCCTCTTCGCGGGCACCCCCGCCCCCACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTAGCAGCGGGCTTGCCCTCGAACGGGCCAGCCCAGGCAGCAGAACAATCAggacg                                                                                                         >  1:421324/1‑147 (MQ=255)                                               ttttCTGCCCAGTGGGCTTTGTGCTGGCCTCTTCGCGGGCACGCCCGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTt                                                                                                                                                   >  1:411825‑M2/1‑102 (MQ=255)                                               ttttCTGCCCAGTGGGCTTTGTGCTGGCCTCTTCGCGGGCACGCCCGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTt                                                                                                                                                   <  2:411825‑M2/103‑2 (MQ=255)                                                 ttCCGCCCAGTGGTCTTTGTGCTGGCCTCTTCGCGGGCACGCCCGCTTCTACTTGTTCACGAAACCGTCGCGGCCGGTGTTTCCCCTGTGGTATCCGGCTTGTCCGCGAAGGGGCCAGCACAGGCAGCAGGTTAACCAGGGCTGAGCCtt                                                                                                  <  2:597451/150‑1 (MQ=255)                                                    tGCCCAGTGGGCTTTGTGCTGGCCTCTTCGCGGGCACGCCCGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGAt                                                                                               <  1:385057/150‑1 (MQ=255)                                                         aGTGGGCTTTGTGCTGGCCTCTTCGCGGGCACGCCCGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATctcct                                                                                          >  1:195550/1‑150 (MQ=255)                                                         aGTGGGCTTTGTGCTGGCCTCTTCGCGGGCACGCCCGCTCCTACATGTTCGCGCAACCTTCCGGGCCTGTGATACCCCTGTGGGACCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATctcct                                                                                          >  2:561184/1‑150 (MQ=255)                                                                tttGTGCTGGCCTCTTCGCGGGCACGCCCGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCAc                                                                                   >  2:664274/1‑150 (MQ=255)                                                                         gCCTCTTCGCGGGCACGCCCGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCACCGGaggctc                                                                          >  2:49522/1‑150 (MQ=255)                                                                            tctTCGCGGGCACGCCCGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTtgcccgcgaagaggccagcacaaagcccactgggcagaaaatcatgcccagccccacaaaaccctctaccctc                                                                           >  1:436572‑M2/1‑73 (MQ=255)                                                                            tctTCGCGGGCACGCCCGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTtgcccgcgaagaggccagcacaaagcccactgggcagaaaatcatgcccagccccacaaaaccctctaccctc                                                                           <  2:436572‑M2/146‑74 (MQ=255)                                                                              ttCGCGGGCACGCCCGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTtgcccgcgaagaggccagcacaaagcccactgggcagaaaatcatgcccagccccacaaaaccctctaccctccagtgc                                                                     <  1:561239‑M2/150‑80 (MQ=255)                                                                               tCGCGGGCACGCCCGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTtgcccgcgaagaggccagcacaaagcccactgggcagaaaatcatgcccagccccacaaaaccctctaccctccagtgcg                                                                    >  2:561239‑M2/1‑70 (MQ=255)                                                                                 gcgGGCACGCCCGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCACCGGa                                                                               <  2:190085/137‑1 (MQ=255)                                                                                 gcgGGCACGCCCGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCACCGGa                                                                               >  1:190085/1‑137 (MQ=255)                                                                                    ggCACGCCCGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCACCGGAGGCTCAGGCTCCcctc                                                               >  1:234481/1‑150 (MQ=255)                                                                                       aCGCCCGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAgg                                                                                                            <  2:523139/102‑1 (MQ=255)                                                                                       aCGCCCGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAgg                                                                                                            >  1:523139/1‑102 (MQ=255)                                                                                       aCGCCCGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCACCGGAGGCTCAGGCTCCTCTcccc                                                            <  1:328036/150‑1 (MQ=255)                                                                                          cccGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCACCGGAGGCTCAGGCTCCTCTCCCCGCa                                                         >  1:275485/1‑150 (MQ=255)                                                                                                 cTACATGTTCGCGCAACCTTCTGGGCCTGTGATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCACCGGAGGCTCAGGCTCCTCTCCCCGCAGatcatc                                                  >  2:175404/1‑150 (MQ=255)                                                                                                         tCGCGCAACCTTCGGGGCCTGTGAGACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCACCGGAGGCTCAGGCTCCTCTCCCCGCAGATCATCAAAATCgg                                          <  2:574833/150‑1 (MQ=255)                                                                                                           gcgcAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCACCGGAGGCTCAGGCTCCTCTCCCCGCAGATCATCAAAATCGGtt                                        >  1:126427/1‑150 (MQ=255)                                                                                                            cgcAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCACCGGAGGCTCAGGCTCCTCTCCCCGCAGATCATCAAAATCGGttt                                       >  2:602769/1‑150 (MQ=255)                                                                                                            cgcAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCACCGGAGGCTCAGGCTCCTCTCCCCGCAGATCATCAAAATCGCttt                                       >  2:719803/1‑150 (MQ=255)                                                                                                            cgcAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCCCCTACACCGGAGGCTCCGGCTCCTCTCCCCGCAGATTATCAAAAGCGGttt                                       <  2:421324/150‑1 (MQ=39)                                                                                                             gcAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCACCGGAGGCTCAGGCTCCTCTCCCCGCAGATCATCAAAATCGGtttt                                      >  1:447713/1‑150 (MQ=255)                                                                                                               aaCCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCACCGGAGGCTCAGGCTCCTCTCCCCGCAGATCATCAAAATc                                            <  1:701697/142‑1 (MQ=255)                                                                                                               aaCCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCACCGGAGGCTCAGGCTCCTCTCCCCGCAGATCATCAAAATc                                            >  2:701697/1‑142 (MQ=255)                                                                                                                        ggCCTGTGATACCCCTGTGGGAGCGGGCTCGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCACCGGAGGCTCAGGCTCCTCTCCCCGCAGATCATCAAAATCGGTTTTCAAACCGTCtt                           <  1:49522/150‑1 (MQ=255)                                                                                                                            tgtgATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCACCGGAGGCTCAGGCTCCTCTCCCCGCAGATCATCAAAATCGGTTTTCAAACCGTCTTCCAt                       >  2:544243/1‑150 (MQ=255)                                                                                                                            tgtgATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCACCGGAGGCTCAGGCTCCTCTCCCCGCAGATCATCAAAATCGGTTTTCAAACCGTCTTCCAt                       <  1:175404/150‑1 (MQ=255)                                                                                                                            tgtgATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCACCGGAGGCTCAGGCTCCCCTCCCCGCAGATCATCAAAATCGGTTTTCAAACCGTCTTCCAt                       <  2:234481/150‑1 (MQ=255)                                                                                                                               gATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCCGTAGATCAATCAGGGCTGAGCCTTGCTCTCCTCCTCCACCGGAGGCTCAGGCTCCTCTCCCCGCAGATCATCAAAATCGGTTTTCAAACCGTCTTCCATGGc                    <  1:731395/150‑1 (MQ=255)                                                                                                                                    cccTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCACCGGAGGCTCAGGCTCCTCTCCCCGCAGATCATCAAAATCGGTTTTCAAACCGTCTTCCATGGCATCCa               >  1:355830/1‑150 (MQ=255)                                                                                                                                     ccTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCACCGGAGGCTCAGGCTCCTCTCCCCGCAGATCATCAAAATCGGTTTTCAAACCGTCTTCCATGGCATCCAg              <  1:649447/150‑1 (MQ=255)                                                                                                                                      cTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCACCGGAGGCTCAGGCTCCTCTCCCCGCAGatcatc                                                  <  1:197756/113‑1 (MQ=255)                                                                                                                                      cTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCACCGGAGGCTCAGGCTCCTCTCCCCGCAGatcatc                                                  >  2:197756/1‑113 (MQ=255)                                                                                                                                         tcttcgcgggcAcgcccgcgaagaggccagcacaaagcccactgggcagaaaataatgactagccccacaaaaccctctaccctccagtgcgttcccctgatgaaccgcgtatgatgcgcggccttttggcgcgttcgtcgccagaaacc          <  1:656049‑M2/145‑139 (MQ=255)                                                                                                                                         tcttcgCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCACCGGAGGCTCAGGCTCCTCTCCCCGCAGATCATCAAAATCGGTTTTCAAACCGTCTTCCATGGCATCCAGCTcc          >  1:250142/6‑150 (MQ=255)                                                                                                                                         ggggAGCGGGCCTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCACCGGAGGCTCAGGCTCCTCTCCCCGCAGATCATCAAAATCGGTTTTCAAACCGTCTTCCATGGCATCCAGCTcc          <  2:607184/149‑1 (MQ=255)                                                                                                                                                 ggCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCACCGGAGGCTCAGGCTCCTCTCCCCGCAGATCATCAAAATCGGTTTTCAAACCGTCTTCCATGGCATCCAGCTCCACCAACAg  <  1:664274/150‑1 (MQ=255)                                                                                                                                                    |                                                                                                                                                   AGGGGAACGCACTGGAGGGTAGAGGGTTTTGTGGGGCTGGGCATGATTTTCTGCCCAGTGGGCTTTGTGCTGGCCTCTTCGCGGGCACGCCCGCTCCTACATGTTCGCGCAACCTTCGGGGCCTGTGATACCCCTGTGGGAGCGGGCTTGCCCGCGAAGAGGCCAGCACAGGCAGCAGATCAATCAGGGCTGAGCCTTGATCTCCTCCTCCACCGGAGGCTCAGGCTCCTCTCCCCGCAGATCATCAAAATCGGTTTTCAAACCGTCTTCCATGGCATCCAGCTCCACCAACAG  >  NC_002947/5112542‑5112835

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ 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.