New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AE015451	= 5439097	48 (0.780)	3 (0.050)	3/326	NT	7.8%	coding (259/633 nt)	rluE	23S rRNA pseudouridine 2457 synthase
	?	AE015451	= 5439256	25 (0.430)					coding (100/633 nt)	rluE	23S rRNA pseudouridine 2457 synthase

CACTCGGTTCACCCTCCACCTGCACCCAGTAGGTCTTGGCCAGCTTGTGCTTCGGATCGGCAATCCGCGCCTGCAACCCGCCATCGTTGGTCAGCAACAGCAAGCCTTCGCTGTCGCGGTCCAGCCGCCCGGCCGGGTATACGCCCGGAATGTCGATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGACGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACGGCGGCTCATCGAAGCTGCGCAGTTTACGCGAGTGCAGCGAGTTGAGCTCGGTGCGCAGCAGATCGAGGGCAGCAATGCCGATCTTCAGGTGCTGGCTGA  >  AE015451/5439025‑5439471                                                                                                                                                                                                                                        |                                                                                                                                                                                                                        cACTCGGTTCACCCTCCACCTGCACCCAGTAGGTCTTGGCCAGCTTGTGCTTCGGATCGGCAATCCGCGCCTGCAACCCGCCATCGTTGGTCAGCAACAGCAAGCCTTCGCTGTCGCGGTCCAGCCGCCCGGCCGGGTATACGCCCGGAATGTCGATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATcag                                                                                                                                                                                                                      >  1:745421‑M2/1‑232 (MQ=255)    tCGGTTCACCCTCCACCTGCACCCAGTAGGTCTTGGCCAGCTTGTGCTTCGGATCGGCAATCCGCGCCTGCAACCCGCCATCGTTGGTCAGCAACAGCAAGCCTTCGCTGTCGCGGTCCAGCCGCCCGGCCGGGTATACGCCCGGAATGTCGATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATcaggcgc                                                                                                                                                                                                                  >  1:54225‑M2/1‑229 (MQ=255)              cTCCACCTGCACCCAGTAGGTCTTGGCCAGCTTGTGCTTCGGATCGGCAATCCGCGCCTGCAACCCGCCATCGTTGGTCAGCAACAGCAAGCCTTCGCTGTCGCGGTCCAGCCGCCCGGCCGGGTATACGCCCGGAATGTCGATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATcaggcgcg                                                                                                                                                                                                                 <  2:562785‑M2/227‑9 (MQ=255)                              tAGGTCTTGGCCAGCTTGTGCTTCGGATCGGCAATCCGCGCCTGCAACCCGCCATCGTTGGTCAGCAACAGCAAGCCTTCGCTGTCGCGGTCCAGCCGCCCGGCCGGGTATACGCCCGGAATGTCGATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGACCTGGGTCAGCACGTCGAACGGTTCGTTGAACAGGAt                                                                                                                                                                                                                         >  2:943336/1‑203 (MQ=255)                                               gtgCTTCGGATCGGCAATCCGCGCCTGCAACCCGCCATCGTTGGTCAGCAACAGCAAGCCTTCGCTGTCGCGGTCCAGCCGCCCGGCCGGGTATACGCCCGGAATGTCGATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTc                                                                                                                                                                                                             >  2:957093/1‑198 (MQ=255)                                               gtgCTTCGGATCGGCAATCCGCGCCTGCAACCCGCCATCGTTGGTCAGCAACAGCAAGCCTTCGCTGTCGCGGTCCAGCCGCCCGGCCGGGTATACGCCCGGAATGTCGATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGACGCGGGCcggcg                                                                                                                                                                        >  1:20189/1‑235 (MQ=255)                                                         taggCAATCCGCGCCTGCAACCCGCCATCGTTGGTCAGCAACAGCAAGCCTTCGCTGTCGCGGTCCAGCCGCCCGGCCGGGTATACGCCCGGAATGTCGATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGACGCGGGCcgg                                                                                                                                                                          <  2:420618/221‑1 (MQ=255)                                                                                  cATCGTTGGTCAGCAACAGCAAGCCTTCGCTGTCGCGGTCCAGCCGCCCGGCCGGGTATACGCCCGGAATGTCGATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGACGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACgg                                                                                                                                    <  1:75823/236‑1 (MQ=255)                                                                                                   agcaaGCCTTCGCTGTCGCGGTCCAGCCGCCCGGCCGGGTATACGCCCGGAATGTCGATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGACGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATgg                                                                                                                    <  1:1132673/235‑1 (MQ=255)                                                                                                              gctgtcgctgtcCAGCCGCCCGGCCGGGTATACGCCCGGAATGTCGATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATcaggcgcggattgccgatccgaagcacaagctggccaagaccta                                                                                                                                                                             >  2:982943‑M2/1‑123 (MQ=255)                                                                                                                      ggTCCAGCCGCCCGGCCGGGTATACGCCCGGAATGTCGATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGACGCGGGCCGGCGGCa                                                                                                                                                                     <  2:623504/167‑1 (MQ=255)                                                                                                                       gTCCAGCCGCCCGGCCGGGTATACGCCCGGAATGTCGATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGACGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATgg                                                                                                                    <  1:72839/215‑1 (MQ=255)                                                                                                                                   ggccggGTATACGCCCGGAATGTCGATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTg                                                                                                                                                                                                     >  1:215364/1‑122 (MQ=255)                                                                                                                                     ccggGTATACGCCCGGAATGTCGATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATcaggcgc                                                                                                                                                                                                                  <  2:1036547‑M2/107‑8 (MQ=255)                                                                                                                                     ccggGTATACGCCCGGAATGTCGATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGACGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGt                                                                                                                                         >  2:625193/1‑180 (MQ=255)                                                                                                                                                      aTGTCGATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGGGGCGCCTTGGCCTGGCGACGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATcc                                                                                                                >  2:1108770/1‑188 (MQ=255)                                                                                                                                                       tGTCGATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGACGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTg                                                                                                                                          >  2:971633/1‑161 (MQ=255)                                                                                                                                                            aTGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGACGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCa                                                                                                                             >  1:496888/1‑169 (MQ=255)                                                                                                                                                                        aGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGACGCGGGCcgg                                                                                                                                                                          <  1:134426/112‑1 (MQ=255)                                                                                                                                                                         gCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGACGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCt                                                                                                               >  2:484443/1‑170 (MQ=255)                                                                                                                                                                          cGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGACGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACGGCGGCTCATCGAAGCTGCGCAGTTTACGCGAGTGCAGCg                                                              <  2:393610/218‑1 (MQ=255)                                                                                                                                                                          cGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGACGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACGGCGGCTCATCGAAGCTGCGCAGTTTACGCGAGTGCAGCGAGTTGAGCTCGGTgcgc                                             <  1:508011/235‑1 (MQ=255)                                                                                                                                                                               cgcgcCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGGGgc                                                                                                                                                                                                   >  2:228494/1‑80 (MQ=255)                                                                                                                                                                                  gcCCTGCACCGTCGCTGAACTGGGTCAGCGCGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTc                                                                                                                                                                                                             <  2:140049/67‑1 (MQ=255)                                                                                                                                                                                   cccTTCACCGTCGCTGAACTGGGTCAGAACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGgcg                                                                                                                                                                                                  <  2:599365/77‑1 (MQ=255)                                                                                                                                                                                         aCCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGAGCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGACGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAAcgg                                                                                                    <  2:135906/165‑1 (MQ=255)                                                                                                                                                                                          ccGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGACGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACGGCGGCTCATCGa                                                                                         >  1:89556/1‑175 (MQ=255)                                                                                                                                                                                               gCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGACGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACGGCGGCTCATCGAAGCTGCGCAGTTTACGCGAGTGCAGCGAGTTGAGCTCGGTGCGCAGCAGATCGAGGgca                              >  1:399382/1‑229 (MQ=255)                                                                                                                                                                                                   aaCTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATcaggcgcggattgccgatccgaagcacaagctggccaagacctactgggtgcgggtggagggtga                                                                                                                                                        <  2:1057946‑M2/103‑66 (MQ=255)                                                                                                                                                                                                             gCACATCGAACGGTTTGTTGAACAGGATcaggcgcggatggccgatccgaggcacaagctggccaagacctactgg                                                                                                                                                                         >  1:189518‑M2/1‑28 (MQ=255)                                                                                                                                                                                                                cGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCgggg                                                                                                                                                                                                      >  2:360551/1‑43 (MQ=255)                                                                                                                                                                                                                    gAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGACGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACAGCGGCTCATCGAAGCTGCGCAGTTTACGCGAGTGCAGCGAGTTGAGCTCGGTGCGCAGCAGATCGAGGGCAGCAATGCCGATCTTCAGGTGCTGGCTGa  <  1:670299/236‑1 (MQ=255)                                                                                                                                                                                                                     aaCGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGACGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACCTGGATCCTCAGCGGAACGGCGGCTCATCCAAGCTGCGCAGGTTAcgcgc                                                                      >  2:40198/1‑166 (MQ=255)                                                                                                                                                                                                                      aCGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGACGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGAt                                                                                                                  >  2:834688/1‑122 (MQ=255)                                                                                                                                                                                                                              ttgAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGACGCGGGCCGGCGGCCggg                                                                                                                                                                  >  1:204205/1‑65 (MQ=255)                                                                                                                                                                                                                                   cgggATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGACGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACGGCGGCTCATCGAAGCTGCGCAGTTTACGCGAGTGCAGCGAGTTGAGCTCGGTGCGCAGCAGATCGAGGGCAGCAATGCCGATCTTCAGGTGCTGGCTGa  <  1:291340/219‑1 (MQ=255)                                                                                                                                                                                                                                      gATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGACGCGGGCCGGCGGCAGGCCGCGCCTGGGggcg                                                                                                                                                    >  1:384214/1‑72 (MQ=255)                                                                                                                                                                                                                                        |                                                                                                                                                                                                                        CACTCGGTTCACCCTCCACCTGCACCCAGTAGGTCTTGGCCAGCTTGTGCTTCGGATCGGCAATCCGCGCCTGCAACCCGCCATCGTTGGTCAGCAACAGCAAGCCTTCGCTGTCGCGGTCCAGCCGCCCGGCCGGGTATACGCCCGGAATGTCGATGAAGTCCTTGAGCGTCGCGCGCCCTTCACCGTCGCTGAACTGGGTCAGCACGTCGAACGGTTTGTTGAACAGGATCAGGCGCGGCTCGGCGGGTGGCGCCTTGGCCTGGCGACGCGGGCCGGCGGCAGGCCGCGCCTGGGGGCGGCGCGGCTTGTTACGGGGTGGCAGTGACATGGATCCTCAGCGGAACGGCGGCTCATCGAAGCTGCGCAGTTTACGCGAGTGCAGCGAGTTGAGCTCGGTGCGCAGCAGATCGAGGGCAGCAATGCCGATCTTCAGGTGCTGGCTGA  >  AE015451/5439025‑5439471

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ 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.