New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AE015451	= 429421	35 (0.800)	3 (0.070)	3/332	NT	8.1%	coding (101/519 nt)	PP_0352	RNA polymerase sigma‑70 factor, ECF subfamily
	?	AE015451	= 429442	34 (0.800)					coding (80/519 nt)	PP_0352	RNA polymerase sigma‑70 factor, ECF subfamily

GCGAGGGCTGTTCGGCTTCAGGGATCAGTGCCAGCTCGGCCAGGTAGGCCTGTTCCAGCGCGGCGCGGCGGAAGTGGTCGAACATCAGCCCCTTGGCCACGGCGGCCAGAAACGCGCGGGGTTCGCGGGGGGTGTCCAGTTGCTCACGACCAAGCAGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCGACCAGATCGGCGTGTGGGCTTTGTGCAGAAGACAAGCAGCGTCCCCCCGGAACGAATGCATTAACTAACGATAATTATTCGCGATTGTTGCAGAGGGGAGGGGGTGGGTGCAATGGACGCTTATCGGATCGCCATCATGGAAAAGGCTGAAGGGTATGCCTTGG  >  AE015451/429224‑429650                                                                                                                                                                                                                           |                                                                                                                                                                                                                 gCGAGGGCTGTTCGGCTTCAGGGATCAGTGCCAGCTCGGCCAGGTAGGCCTGTTCCAGCGCGGCGCGGCGGAAGTGGTCGAACATCAGCCCCTTGGCCACGGCGGCCAGAAACGCGCGGGGTTCGCGGGGGGTGTCCAGTTGCTCACGACCAAGCAGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGcagcca                                                                                                                                                                                                  <  1:7357/235‑1 (MQ=255)      ggCTGTTCGGCTTCAGGGATCAGTGCCAGCTCGGCCAGGTAGGCCTGTTCCAGCGCGGCGCGGCGGAAGTGGTCGAACATCAGCCCCTTGGCCACGGCGGCCAGAAACGCGCGGGGTTCGCGGGGGGTGTCCAGTTGCTCACGACCAAGCAGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCcgc                                                                                                                                                                                             <  1:505901/235‑1 (MQ=255)         tGTTCGGCTTCAGGGATCAGTGCCAGCTCGGCCAGGTAGGCCTGTTCCAGCGCGGCGCGGCGGAAGTGGTCGAACATCAGCCCCTTGGCCACGGCGGCCAGAAACGCGCGGGGTTCGCGGGGGGTGTCCAGTTGCTCACGACCAAGCAGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCcgc                                                                                                                                                                                             >  2:685690/1‑232 (MQ=255)         tGTTCGGCTTCAGGGATCAGTGCCAGCTCGGCCAGGTAGGCCTGTTCCAGCGCGGCGCGGCGGAAGTGGTCGAACATCAGCCCCTTGGCCACGGCGGCCAGAAACGCGCGGGGTTCGCGGGGGGTGTCCAGTTGCTCACGACCAAGCAGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCcgc                                                                                                                                                                                             <  1:685692/232‑1 (MQ=255)                   cAGGGATCAGTGCCAGCTCGGCCAGGTAGGCCTGTTCCAGCGCGGCGCGGCGGAAGTGGTCGAACATCAGCCCCTTGGCCACGGCGGCCAGAAACGCGCGGGGTTCGCGGGGGGTGTCCAGTTGCTCACGACCAAGCAGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGt                                                                                                                                                                                 <  1:668897/234‑1 (MQ=255)                         tCAGGGCCAGCTCGGCCAGGTAGGCCTGTTCCAGCGCGGCGCGGCGGAAGTGGTCGAACATCAGCCCCTTGGCCACGGCGGCCAGAAACGCGCGGGGTTCGCGGGGGGTGTCCAGTTGCTCACGACCAAGCAGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCcgc                                                                                                                                                                                             <  1:222345/216‑1 (MQ=255)                             tGCCAGCTCGGCCAGGTAGGCCTGTTCCAGCGCGGCGCGGCGGAAGTGGTCGAACATCAGCCCCTTGGCCACGGCGGCCAGAAACGCGCGGGGTTCGCGGGGGGTGTCCAGTTGCTCACGACCAAGCAGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCg                                                                                                                                                                      <  1:51902/235‑1 (MQ=255)                                    tCGGCCAGGTAGGCCTGTTCCAGCGCGGCGCGGCGGAAGTGGTCGAACATCAGCCCCTTGGCCACGGCGGCCAGAAACGCGCGGGGTTCGCGGGGGGTGTCCAGTTGCTCACGACCAAGCAGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGa                                                                                                                                                                                                         <  2:658648/193‑1 (MQ=255)                                      ggCCAGGTAGGCCTGTGCCAGCGCGGCGCGGCGGAAGTGGCCGAACATCAGCCCCTTGGCCACGGCGGCCAGAAACGCGCGGGGTTCGCGGGGGGTGTCCAGTTGCTCACGACCAAGCAGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAgccagcgtgctgaagacctgagccaggacaccttcgtgcgcctgcttggtcgt                                                                                                                                                             >  1:41578‑M2/1‑182 (MQ=255)                                        ccAGGTAGGCCTGTTCCAGCGCGGCGCGGCGGAAGTGGTCGAACATCAGCCCCTTGGCCACGGCGGCCAGAAACGCGCGGGGTTCGCGGGGGGTGTCCAGTTGCTCACGACCAAGCAGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCGACCAGATCGGCg                                                                                                                                                          <  1:357340/236‑1 (MQ=255)                                             tAGGCCTGTTCCAGCGCGGCGCGGCGGAAGTGGTCGAACATCAGCCCCTTGGCCACGGCGGCCAGAAACGCGCGGGGTTCGCGGGGGGTGTCCAGTTGCTCACGACCAAGCAGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCGACCAGATCGGCGTGTgg                                                                                                                                                     <  1:330643/236‑1 (MQ=255)                                                                                gAACATCAGCCCCTTGGCCACGGCGGCCAGAAACGCGCGGGGTTCGCGGGGGGTGTCCAGTTGCTCACGACCAAGCAGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCGACCAGATCGGCGTGTGGGCTTTGTGCAGAAGACAAGCAGCGTCCCCCCGGaa                                                                                                                  <  1:278401/236‑1 (MQ=255)                                                                                         ccccTTGGCCACGGCGGCCAGAAACGCGCGGGGTTCGCGGGGGGTCTCCAGTTGCTCACGACCAAGCAGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAgccagcgtgctgaagacctgagccaggacaccttcgtgcgcctgcttggtcgtgagcaactggacaccccccgcgaacccc                                                                                                                                 >  1:549323‑M2/1‑131 (MQ=255)                                                                                            cTTGGCCACGGCGGCCAGAAACGCGCGGGGTTCGCGGGGGGTGTCCAGTTGCTCACGACCAAGCAGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCAcc                                                                                                                                                                       <  2:382231/171‑1 (MQ=255)                                                                                                 ccACGGCGGCCAGAAACGCGCGGGGTTCGCGGGGGGTGTCCAGTTGCTCACGACCAAGCAGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCGACCAGCTCGGCGTGTgg                                                                                                                                                     >  2:445876/1‑184 (MQ=255)                                                                                                        ggcCAGAAACGCGCGGGGTTCGCGGGGGGTGTCCAGTTGCTCACGACCAAGCAGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCGACCAGATCGGCGTGTGGGCTTTGTGCAGAAGACAAGCAGCGTCCCCCCgg                                                                                                                    >  2:719584/1‑210 (MQ=255)                                                                                                           cAGAAACGCGCGGGGTTCGCGGGGGGTGTCCAGTTGCTCACGACCAAGCAGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCGACCAGATCGGCGTGTGGGCTTtgtg                                                                                                                                             <  2:612195/182‑1 (MQ=255)                                                                                                              aaaCGCGCGGGGTTCGCGGGGGGTGTCCAGTTGCTCACGACCAAGCAGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCGACCAGATCGGCGTGTGGGCTTTGTGCAGAAGACAAGCAGCGTCCCCCCGGAACGAATGCATTAACTAACGATAATTATTcg                                                                                     <  1:712065/235‑1 (MQ=255)                                                                                                                 cgcgcgGGGTTCGCGGGGGGTGTCCAGTTGCTCACGCCCAAGCAGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCGACCAg                                                                                                                                                                 <  1:261860/156‑1 (MQ=255)                                                                                                                                  gggTGGCCAGTTGCTCACGACCAGGCAGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCGACCAGATCGGCGTGTGGGCTTTGTGCAGAAGACAAGCAGCGTCCCCCCGGAACGAATGCATTAACTAACGATAATTATTCGCGa                                                                                  <  1:600915/218‑1 (MQ=255)                                                                                                                                       tCCAGTTGCTCACGACCAAGCAGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCGACCAGATC‑GCGTGTGGGCTTTGTGCAGAAGACAAGCAGCGTCCCCCCGGAACGAATGCATTAACTAACGATAATTATTCGCGATTGTTGCAGAGGGGAGGgggtggg                                                          >  1:19254/1‑236 (MQ=255)                                                                                                                                               cTCACGACCAAGCAGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCGACCAGATCGGCGTGTGGGCTTTGTGCAGAAGACAAGCAGCGTCCCCCCGGAACGAATGCATTAACTAACGATAATTATTCGCGATTGTTGCAGAGGGGAGGGGGTGGGTGCAAt                                                    <  1:719586/235‑1 (MQ=255)                                                                                                                                                  aCGACCAAGCAGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCGACCAGATCGGCGTGTGGGCTTTGTGCAGAAGACAAGCAGCGTCCCCCCGGAACGAATGCATtaac                                                                                                     <  1:111740/183‑1 (MQ=255)                                                                                                                                                    gACCGAGCAGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCGGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCGACCAGATCGGCGTGTGGGCTTTGTGCAGAAGACAAGCAGCGTCCCCCCGGAACGAAt                                                                                                             <  2:105919/173‑1 (MQ=255)                                                                                                                                                    gACCAAGCAGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCGACCAGATCGGCGTGTGGGCTTTGTGCAGAAGACAAGCAGCGTCCCCCCGGAACGAATGCATTAACTCACGATAATTATTCTCGATTGTTGCAGAGGGGAGGGggtgggtg                                                        >  1:551279/1‑226 (MQ=255)                                                                                                                                                            aGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGc                                                                                                                                                                                                           >  2:660935/1‑71 (MQ=255)                                                                                                                                                            aGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCGACCAGATCGGCGTGTGGGCTTTGTGCAGAAGACAAGCAGCGTCCCCCCGGAACGAATGCATTAACTAACGATAATTATTCGCGATTGTTGCAGAGGGGAGGGGGTGGGTGCAATGGACGc                                              >  1:775485/1‑228 (MQ=255)                                                                                                                                                                 cACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCGACCAGATCGGCGTGTGGGCTTTGTGCAGAAGACAAGCAGCGTCCCCCCGGAACGAATGCATTAACTAACGATAattatt                                                                                       <  2:379617/182‑1 (MQ=255)                                                                                                                                                                      aGGTGTCCTGGCTCAGGTCTTCGGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCGACCAGATCGGCg                                                                                                                                                          <  2:463976/110‑1 (MQ=255)                                                                                                                                                                               ggCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCGACCAGATCGGCGTGTGGGCTTTGTGCAGAAGACAAGCAGCGTCCCCCCGGAACGAATGCATTAACTAACGATAATTATTCGCGATTGTTGCAGAGGGGAGGGGGTGGGTGCAATGGACGCTTATCGGATCGCCATCATGGAAAAgg                    <  1:680697/235‑1 (MQ=255)                                                                                                                                                                                     gggcTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGGGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCGACCAGATCGGCGTGTGGGCTTTGTGCAGAAGACAAGCAGCGTCCCCCCGGAACGAATGCATTAACTAACGATAATTATTCGCGAttgttg                                                                            <  2:587295/170‑1 (MQ=255)                                                                                                                                                                                       tCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCGACCAGATCGGCGTGTGGGCTTTGTGCAGAAGACAAGCAGCGTCCCCCCGGAACGAATGCATTAACTAACg                                                                                                >  2:552504/1‑151 (MQ=255)                                                                                                                                                                                       ccTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGGCGCGGTGGTCGCGGTACAGCGCACCGGCCAGATCGGCGTGTGGGCTTTGTGCAGAAGACAAGCAGCGTCCCCCCGGAACGAATGCATTAACTAACGATAATTATTCGCGAttgttg                                                                            <  1:554261/170‑1 (MQ=255)                                                                                                                                                                                        cTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCGACCAGATCGGCGTGTGGGCTTTGTGCAGAAGACAAGCAGCGTCCCCCCGGAACGAATGCATTAACTAACGATAATTATTCGCGATTGTTGCAGAGGGGAGGGGGGGGGTGCAATGGACGCTTATCGGATCGCCATCATGGAAAAGGCTGAAgg             >  1:122930/1‑233 (MQ=255)                                                                                                                                                                                          gcaGCACGCTGGCGGCAGGCCATGCTGCGTTGCAgccagcgtgctgaagacctgagccaggccaccttcgtgcgcctgcttggtcgtgagcaactggac                                                                                                                                                 >  2:261855‑M2/2‑34 (MQ=255)                                                                                                                                                                                                   tGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCGACCAGATCGGCGTGTGGGCTTTGTGCAGAAGACAAGCAGCGTCCCCCCGGAACGAATGCATTAACTAACGATAATTATTCGCGATTGTTGCAGAGGGGAGGGGGTGGGTGCAATGGACGCTTATCGGATCGCCATCATGGAAAAGGCTGAAGGGTATGCCTTgg  >  2:608933/1‑233 (MQ=255)                                                                                                                                                                                                      cggcAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCGACCAGATCGGCGTGTGGGCTTTGTGCAGAAGACAAGCAGCGTCCCCCCGGAACGAATGCATTAACTAACGATAATTATTCGCGGTTGTTGCAGAGGGGAGGGGGTGGGTGCAATGGACGCTTATCGGGTCGCCATCATGGAAAAGGc                   >  1:120463/1‑213 (MQ=255)                                                                                                                                                                                                           ggCCATGCTGCGTTGCAGCCAGGCGAGCAGTCCGCCGCGGTGGTCGCGGTACAGCGCACCGACCAGATCGGCGTGTGGGCTTTGTGCAGAAGACAAGCAGCGTCCCCACGGAACGAATGCATTAACTAACGATAATTATTCGCGATTGTTGCAGAGGGGAGGGGGTGGGTGCAAt                                                    <  1:227700/175‑1 (MQ=255)                                                                                                                                                                                                                    gcGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCGCCGACCAGATCGGCGTGTGGGCTTTGTGCAGAAGACAagcagc                                                                                                                              <  2:11881/92‑1 (MQ=255)                                                                                                                                                                                                                         gCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCGACCAGATCGGCGCGTGGGCTTTGTGCAGAAGACAAGCAGCGCCCCCCCGGAACGAATGCATTAACTAACGCTAATTATTCGCGATGGTTGCTGAAGGGAGGGGGGGGGGGCa                                                      >  2:208784/1‑159 (MQ=255)                                                                                                                                                                                                                          cAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCGACCAGATCGGCGTGTGGGCTTTGTGCAGAAGACAAGCAGCGTCCCCCCGGAACGAATGCATTAACTAACGATAATTATTCGCGATTGTTGCAGAGGGGAGGGGGTGGGTGCAATGGACGCTTATCGGATCGCCATCAGGGAAAAg                     >  2:396275/1‑191 (MQ=255)                                                                                                                                                                                                                           |                                                                                                                                                                                                                 GCGAGGGCTGTTCGGCTTCAGGGATCAGTGCCAGCTCGGCCAGGTAGGCCTGTTCCAGCGCGGCGCGGCGGAAGTGGTCGAACATCAGCCCCTTGGCCACGGCGGCCAGAAACGCGCGGGGTTCGCGGGGGGTGTCCAGTTGCTCACGACCAAGCAGGCGCACGAAGGTGTCCTGGCTCAGGTCTTCAGCACGCTGGCGGCAGGCCATGCTGCGTTGCAGCCAGGCGAGCAGCCAGCCGCGGTGGTCGCGGTACAGCGCACCGACCAGATCGGCGTGTGGGCTTTGTGCAGAAGACAAGCAGCGTCCCCCCGGAACGAATGCATTAACTAACGATAATTATTCGCGATTGTTGCAGAGGGGAGGGGGTGGGTGCAATGGACGCTTATCGGATCGCCATCATGGAAAAGGCTGAAGGGTATGCCTTGG  >  AE015451/429224‑429650

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 26 ≤ 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.