New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AE015451	= 5609848	43 (0.750)	4 (0.070)	4/328	NT	9.8%	coding (667/906 nt)	PP_4929	Transcriptional regulator, LysR family
	?	AE015451	= 5609893	32 (0.580)					coding (622/906 nt)	PP_4929	Transcriptional regulator, LysR family

CCCAGAGGTTCATCGCGGCGCCAGGCCAGCTCTGCCACCAAGGCCGGCGGCCGCCAGTCGCTGTCCAGTTCGACCATGTGCGCCTGGTAGGTCGGGTACTGCACCACATGCCGGGGTAACCAGGCCCAGCCAAGGCCGCGCATCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGCTGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCTTGCGCGCCACATCGCCCTGGGCTCCGCT  >  AE015451/5609667‑5610109                                                                                                                                                                                                                                   |                                                                                                                                                                                                                         cccAGAGGTTCATCGCGGCGCCAGGCCAGCTCTGCCACCAAGGCCGGCGGCCGCCAGTCGCTGTCCAGTTCGACCATGTGCGCCTGGTAGGTCGGGTACTGCACCACATGCCGGGGTAACCAGGCCCAGCCAAGGCCGCGCATCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGAt                                                                                                                                                                                                                 <  1:944255/236‑1 (MQ=255)  ccAGAGGTTCATCGCGGCGCCAGGCCAGCTCTGCCACCAAGGCCGGCGGCCGCCAGTCGCTGTCCAGTTCGACCATGTGCGCCTGGTAGGTCGGGTACTGCACCACATGCCGGGGTAACCAGGCCCAGCCAAGGCCGCGCATCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTCACCGCTTTGTTGtggcgtg                                                                                                                                                                                                                   <  2:555225‑M2/233‑8 (MQ=255)             tCGCGGCGCCAGGCCAGCTCTGCCACCAAGGCCGGCGGCCGCCAGTCGCTGTCCAGTTCGACCATGTGCGCCTGGTAGGTCGGGTACTGCACCACATGCCGGGGTAACCAGGCCCAGCCAAGGCCGCGCATCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGAt                                                                                                                                                                                                                 >  1:549620/1‑224 (MQ=255)                                                cggcCGCCAGTCGCTGTCCAGTTCGACCATGTGCGCCTGGTAGGTCGGGTACTGCACCACATGCCGGGGTAACCAGGCCCAGCCAAGGCCGCGCATCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCg                                                                                                                                                                                >  2:1005735/1‑222 (MQ=255)                                                      ccAGTCGCTGTCCAGTTCGACCATGTGCGCCTGGTAGGTCGGGTACTGCACCACATGCCGGGGTAACCAGGCCCAGCCAAGGCCGCGCATCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCtt                                                                                                                                                                  <  1:946241/230‑1 (MQ=255)                                                                     ttCGACCATGTGCGCCTGGTAGGTCGGGTACTGCACCACATGCCGGGGTAACCAGGCCCAGCCAAGGCCGCGCATCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGtggcgt                                                                                                                                                                                                                    >  2:76475‑M2/1‑159 (MQ=255)                                                                        gACCATGTGCGCCTGGTAGGTCGGGTACTGCACCACATGCCGGGGTAACCAGGCCCAGCCAAGGCCGCGCATCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGAcc                                                                                                                                           <  1:437599/235‑1 (MQ=255)                                                                           cATGTGCGCCTGGTAGGTCGGGTACTGCACCACATGCCGGGGTAACCAGGCCCAGCCAAGGCCGCGCATCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCa                                                                                                                                                                                                               >  1:257976/1‑164 (MQ=255)                                                                               tgCGCCTGGTAGGTCGGGTACTGCACCACAGGCCGGGGTAACCAGGCCCAGCCAAGGCCGCGCATCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGcc                                                                                                                                               <  2:1030884/224‑1 (MQ=255)                                                                                 cgcCTGGTAGGTCGGGTACTGCACCACATGCCGGGGTAACCAGGCCCAGCCAAGGCCGCGCATCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCaac                                                                                                                                                       <  1:65717/214‑3 (MQ=255)                                                                                  gcCTGGTAGGTCGGGTACTGCACCACATGCCGGGGTAACCAGGCCCAGCCAAGGCCGCGCATCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGt                                                                                                                                <  1:1005738/236‑1 (MQ=255)                                                                                            tCGGGTACTGCACCACATGCCGGGGTAACCAGGCCCAGCCAAGGCCGCGCATCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTcc                                                                                                                      <  1:752577/236‑1 (MQ=255)                                                                                                      ccccacATGCCGGGGTAACCAGGCCCAGCCAAGGCCGCGCATCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCg                                                                                                                                                                                               <  1:206081/151‑1 (MQ=255)                                                                                                         cacaTGCCGGGGTAACCAGGCCCAGCCAAGGCCGCGCATCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATc                                                                                                                                                                                                                >  1:235699/1‑133 (MQ=255)                                                                                                         cacaTGCCGGGGTAACCAGGCCCAGCCAAGGCCGCGCATCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCAtctc                                                                                                                       >  1:1075264/1‑222 (MQ=255)                                                                                                             tGCCGGGGTAACCAGGCCCAGCCAAGGCCGCGCATCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGGTCAg                                                                                                                                                                                                              >  2:253714/1‑131 (MQ=255)                                                                                                                   ggTAACCAGGCCCAGCCAAGGCCGCGCATCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCg                                                                                                                                                                                >  1:115115/1‑155 (MQ=255)                                                                                                                          aGGCCCAGCCAAGGCCGCGCATCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATCGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACg                                                                                                                   >  1:4699/1‑209 (MQ=255)                                                                                                                               cAGCCAAGGCCGCGCATCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCAtctc                                                                                                                       >  2:376041/1‑200 (MQ=255)                                                                                                                                aGCCAAGGCCGCGCATCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCa                                                                                                                     >  1:974607/1‑201 (MQ=255)                                                                                                                                      ggCCGCGCATCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGCTGCCCAACGCACGGCGCTCCAAGGa                                                                                         <  1:875653/223‑1 (MQ=255)                                                                                                                                         cgcgCATCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACcg                                                                                                                                          >  1:479079/1‑171 (MQ=255)                                                                                                                                         cgcgCATCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACcg                                                                                                                                          <  2:479076/171‑1 (MQ=255)                                                                                                                                         cgcgCATCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTAGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACcgcg                                                                                                                                        >  2:475102/1‑173 (MQ=255)                                                                                                                                              aTCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTcg                                                                                                                                                                <  2:1061711/144‑1 (MQ=255)                                                                                                                                              aTCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTcg                                                                                                                                                                >  1:1061714/1‑144 (MQ=255)                                                                                                                                                       tCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGCTGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTgg                                                                      <  2:608051/225‑1 (MQ=255)                                                                                                                                                            cATGGCGTAGAACCTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGCTGCCCAACGCACGGCGCTCCAAGGa                                                                                         <  1:277373/201‑1 (MQ=255)                                                                                                                                                                gCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAACAACTGCCCGt                                                                                                                                                                                                   >  2:574202/1‑91 (MQ=255)                                                                                                                                                                        aCTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGcc                                                                                                                                               <  2:881458/135‑1 (MQ=255)                                                                                                                                                                               ccACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGCTGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTgg                                                                      <  1:643570/200‑1 (MQ=255)                                                                                                                                                                                        aCCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGCTGCCCAACGCACGGCGCTCCa                                                                                             <  1:884940/169‑1 (MQ=255)                                                                                                                                                                                         ccTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTTcc                                                                                                                                                                                                      >  2:233409/1‑63 (MQ=255)                                                                                                                                                                                              gggCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGGGGCGTGACCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGCTGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCTTGCGCGcc                      <  1:46981/234‑1 (MQ=255)                                                                                                                                                                                                gCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGtggcgtgccgacagtttctacgccatggccgaactgctgatgcgcggccttggctgggcctggttaccccggc                                                                                                                                                 <  1:142104‑M2/109‑74 (MQ=255)                                                                                                                                                                                                gCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGtggcgtgccgacagtttctacgccatggccgaactgctgatgcgcggccttggctgggcctggttaccccggc                                                                                                                                                 >  2:142102‑M2/1‑36 (MQ=255)                                                                                                                                                                                                  tGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGtggcgtgccgacagtttctacgccatggccgaactgctgatgcgcggccttggctgggcctggttaccccggcatgtggtgcagtacccgacctaccaggcgcacatggtcgaactggacagcgactggcggccgccggccttggtggcagagctggcctggcgccgcga                                                >  1:504425‑M2/1‑34 (MQ=255)                                                                                                                                                                                                  tGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGtggcgtgccgacagtttctacgccatggccgaactgctgatgcgcggccttggctgggcctggttaccccggcatgtggtgcagtacccgacctaccaggcgcacatggtcgaactggacagcgactggcggccgccggccttggtggcagagctggcctggcgccgcga                                                <  2:504422‑M2/204‑171 (MQ=255)                                                                                                                                                                                                       gcctcgccGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACttc                                                                                                                                                                                                       >  2:231030/1‑46 (MQ=255)                                                                                                                                                                                                          tcgccGCCGGGGTAACCGCGTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTcc                                                                                                                      <  2:57261/126‑1 (MQ=255)                                                                                                                                                                                                              cgccgGGGTAACCGCTTTGTTGGGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCtt                                                                                                                                                                  <  2:1053274/78‑1 (MQ=255)                                                                                                                                                                                                                ccgGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGCTGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCTTGCGCGCCACATCGCCCTGGGCTCCGCt  <  1:555228/236‑1 (MQ=255)                                                                                                                                                                                                                 cgGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGCTGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCTTGCGCGCCACATCGCCCTGGGCTCCGc   <  2:397623/234‑1 (MQ=255)                                                                                                                                                                                                                                 ttgtGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGCTGCCCAACGCACGGCGCTCCAAGGAAGCCg                                                                                    <  2:974604/137‑1 (MQ=255)                                                                                                                                                                                                                                   |                                                                                                                                                                                                                         CCCAGAGGTTCATCGCGGCGCCAGGCCAGCTCTGCCACCAAGGCCGGCGGCCGCCAGTCGCTGTCCAGTTCGACCATGTGCGCCTGGTAGGTCGGGTACTGCACCACATGCCGGGGTAACCAGGCCCAGCCAAGGCCGCGCATCAGCAGTTCGGCCATGGCGTAGAAACTGTCGGCACGCCATACCTGCGGGCTGATCGCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGCTGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCTTGCGCGCCACATCGCCCTGGGCTCCGCT  >  AE015451/5609667‑5610109

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 37 ≤ 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.