New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 5439266	53 (1.050)	3 (0.060)	3/238	NT	6.3%	coding (90/633 nt)	rluE	23S rRNA pseudouridine(2457) synthase
	?	NC_002947	= 5439309	41 (0.880)					coding (47/633 nt)	rluE	23S rRNA pseudouridine(2457) synthase

TATACGCCCGGAATGTCGATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACGGCGGCTCATCGAAGCTGCGCAGTTTACGCGAGTGCAGCGAGTTGAGCTCGGTGCGCAGCAGATCGAGGGCAGCAAT  >  NC_002947/5439162‑5439448                                                                                                                                                     |                                                                                                                                            gatacGCCCGGAATGTCGATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGg                                                                                                                                            >  2:77994‑M2/2‑148 (MQ=255)       cccGGAATGTCGATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGgccgcgc                                                                                                                                      <  1:133754‑M2/149‑8 (MQ=255)       cccGGAATGTCGATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGgccgcgc                                                                                                                                      >  2:109251‑M2/1‑142 (MQ=255)                 cGATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGggcgg                                                                                                                            >  3:25251/1‑149 (MQ=255)                  gATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGgccgcgc                                                                                                                                      <  1:200971‑M2/138‑8 (MQ=255)                  gATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGgccgcgc                                                                                                                                      >  2:200971‑M2/1‑131 (MQ=255)                  gATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGcgcggc                                                                                                                           >  1:18109/1‑149 (MQ=255)                        ggccTTCAGCGTCGCGCGCCCTCCCCCGTCGCTCAACTGGGGCAGCACGGCGACCGGTTTGTTGACCAGGATCAGGCGCGGCGCGGCGGGGGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCt                                                                                                                     <  5:18889/147‑1 (MQ=255)                            ttGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCAA‑CGCGGGCCGGCGGCAGGCCGCGCCTgg                                                                                                                                  <  6:223537/132‑1 (MQ=255)                            ttGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCAA‑CGCGGGCCGGCGGCAGGCCGCGCCTgg                                                                                                                                  >  5:223537/1‑132 (MQ=255)                                gCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACgg                                                                                                             <  6:124944/149‑1 (MQ=255)                                      cgcgcCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTgg                                                                                                        >  6:310105/1‑148 (MQ=255)                                      cgcgcCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGc                                                                                                       >  3:32848/1‑149 (MQ=255)                                           ccTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGa                                                                                                  >  8:211342/1‑149 (MQ=255)                                             ttCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACa                                                                                                >  7:190425/1‑149 (MQ=255)                                              tCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACAt                                                                                               >  1:89984/1‑149 (MQ=255)                                                 ccGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGa                                                                                            >  5:122417/1‑149 (MQ=255)                                                  cGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCGTGTTa                                                                                                                >  3:103171/1‑128 (MQ=255)                                                   gTCGCTTAATTGGGTCAGCAGGTGGATCGGTTTGTTTAACAGTATCTGGGGCGGCTGGGGGGGTGGGGCGTTGGCGTGGCTA‑GGCGGGCGGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATc                                                                                          <  2:18109/149‑1 (MQ=255)                                                      gCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCt                                                                                        <  7:211342/148‑1 (MQ=255)                                                           aCTGGGTCCCCACGTCGAACGGTTTGTGGAACTGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGCCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCgg                                                                                  <  3:302454/149‑1 (MQ=255)                                                           aCTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCgg                                                                                  <  3:242791/149‑1 (MQ=255)                                                            cTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCgg                                                                                  >  6:156694/1‑148 (MQ=255)                                                                 tCAGCACGTCGAACGGTTTGTTGAACTGGATCTGGCGCGGCTGGGCGGGGGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGgcggcgcgg                                                                                                                       <  4:212131/106‑1 (MQ=255)                                                                 tCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGgcggcgcgg                                                                                                                       >  3:212131/1‑106 (MQ=255)                                                                 tCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGc                                                                                                       <  8:206530/122‑1 (MQ=255)                                                                 tCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGc                                                                                                       >  7:206530/1‑122 (MQ=255)                                                                    gCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGAGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACggcggc                                                                         >  8:287792/1‑149 (MQ=255)                                                                     cACGTCGAACGGTTTGTGGAACTGGATCCGGCGGGGCTCGGCGGGGGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACGGCGGCt                                                                        <  3:55197/149‑1 (MQ=255)                                                                      aCGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACGGCGGCTc                                                                       <  5:310105/149‑1 (MQ=255)                                                                         tcaaaCGGTTTGTTCAACAGGATCCGGCGCGGCTCGGGGGGGGGCGCCTTGGCGGGGCGA‑CGGGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACGGCGGCTCATc                                                                    <  3:157947/146‑1 (MQ=255)                                                                         tCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACGGCGGCTCATc                                                                    <  8:190425/149‑1 (MQ=255)                                                                          ctaagggTTTGTTGAACCGGAGCCGGCGGGGCGCGGCGGGGGGCGCCTTGGCCGGGCGA‑CGGGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACGGCGGCTCATCg                                                                   <  4:32848/144‑1 (MQ=255)                                                                             aCGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCCCGCCAGGGGGCGGCGCGGCTTGTTAAGGGGTGGCAGTGACAAGGATACACAGCGGAACGGCGGCTCATc                                                                    >  4:157947/1‑145 (MQ=255)                                                                                gTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACGGCGGCTCATCGAAGCTg                                                             >  1:283647/1‑149 (MQ=255)                                                                                gTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGAGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACGGCGGCTCATCGAAGCTg                                                             >  2:254740/1‑149 (MQ=255)                                                                                        aaCAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACGGCGGCTCATCGAAGCTGCGCAGttt                                                     <  2:31917/149‑1 (MQ=255)                                                                                         aCAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGAGCGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGCCATGGATCCTCAGCGGAACGGCGGCTCATCGAAGCTGCGCAGtt                                                      >  1:67752/1‑148 (MQ=255)                                                                                             gATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCGTGTTAAGGGGTGGCAGTGACATGGATCCACAGCGGAACGGCGGCTCAAAGAAGCTGCGCAGTTTAcgc                                                 >  4:132143/1‑148 (MQ=255)                                                                                              aTCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACGGCGGCTCATCGAAGCTGCGCAGTTTACGCGa                                               <  2:67752/149‑1 (MQ=255)                                                                                                  ggCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGgccgcgcctgatcctgttcaacaaaccgttcgacgtgctgacccagttcagcgacggtgaagggcgcgcgacgctcaaggacttcatcgacattccgg                                           <  6:14593‑M2/149‑99 (MQ=255)                                                                                                   gcgcGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGgccgcgcctgatcctgttcaacaaaccgttcgacgtgctgacccagttcagcgacggtgaagggcgcgcgacgctcaa                                                               <  1:14823‑M2/128‑79 (MQ=255)                                                                                                   gcgcGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGgccgcgcctgatcctgttcaacaaaccgttcgacgtgctgacccagttcagcgacggtgaagggcgcgcgacgctcaa                                                               >  2:14823‑M2/1‑50 (MQ=255)                                                                                                   gcgcGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCGTGTTACGGGGGGGCCGTGACATGGAGCCTCAGCGGAACGGCGGCTCATCGAAGCTGCGCAGTTAACGCGAGTg                                            >  3:187794/1‑147 (MQ=255)                                                                                                                   ggCGCCTTGGCCTGGCGA‑CGCGGGCCGGTGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACGGCGGCTCATCGAAGCTGCGCAGTTTACGCGAGTGCAGCGAGTTGAGCTCGGt                          <  1:254740/149‑1 (MQ=255)                                                                                                                     cgcCTTGGCCTTGCTA‑CGAGGGCCGGCGGCAGTCCGCGCCTGGGGGCTGCGCGGCTTGTTACGGTGTGGCAGTGACATGGATCCTCAGCGGAACGGCGGCTCCTCGAAGCTGCGCATTTTAAGCGAGTGCAGAGAGTTTATCTCGGTgc                        <  6:306239/149‑1 (MQ=255)                                                                                                                           ggCCGGGGGC‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACGGCGGCTCATCGAAGCTGCGCAGTTTACGCGAGTGCAGCGAGTTGAGCTCGGTGCgcagca                  <  4:25251/149‑1 (MQ=255)                                                                                                                           ggCCGGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACGGCGGCTCATCGAAGCTGCGCAGTTTACGCGAGTGCAGCGAGTTGAGCTCGGTGCgcag                    <  3:132143/147‑1 (MQ=255)                                                                                                                                 gCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACGGCGGCTCATCGAAGCTGCGCAGTTTACGCGAGTGCAGCGAGTTGAGCTCGGTGCGCAGCAGATc              >  3:55062/1‑147 (MQ=255)                                                                                                                                           gCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACGGCGGCTCATAGAAGCTGCGCAGTTTTCGCGAGTGCAGCGAGTTGAGCTCGGTGCGCAGCAGATCGAGGgcagca    >  4:120549/1‑148 (MQ=255)                                                                                                                                            ccGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACGGCGGCTCATCGAAGCTGCGCAGTTTACGCGAGTGCAGCGAGTTGAGCTCGGTGCGCAGCAGATCGAGGGCAGCAAt  >  7:31853/1‑149 (MQ=255)                                                                                                                                                  gcAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACGGCGGCTCATCGAAGCTGCGCAGTTTACGCGAGTGCAGCGAGTTGAGCTCGGTg                         <  2:74674/120‑1 (MQ=255)                                                                                                                                                  gcAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACGGCGGCTCATCGAAGCTGCGCAGTTTACGCGAGTGCAGCGAGTTGAGCTCGGTg                         >  1:74674/1‑120 (MQ=255)                                                                                                                                                     |                                                                                                                                            TATACGCCCGGAATGTCGATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGA‑CGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACGGCGGCTCATCGAAGCTGCGCAGTTTACGCGAGTGCAGCGAGTTGAGCTCGGTGCGCAGCAGATCGAGGGCAGCAAT  >  NC_002947/5439162‑5439448

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ 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.