New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AE015451	2749686 =	38 (0.950)	4 (0.100)	4/322	NT	10.9%	coding (804/849 nt)	PP_2406	putative quinate/shikimate dehydrogenase
	?	AE015451	2749762 =	29 (0.760)					coding (728/849 nt)	PP_2406	putative quinate/shikimate dehydrogenase

GGCCTCTTCGCGGGCATGCCCCACAGGGACAGTGCAATCAGTAACGTTTGCGCAGTACCTGTGGGAGCGGGCGTGCCCGCGAAGAAGCCAACACTTTTCTATCAGGTGAAACTGGCAAAGTGCGCCTGCATCCGCGCCGCATCCGCCTGCCGCCCGCTGAACAGCTCGAATGCCTTCACCGCCTGGAACACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCGGGAAGTAGATGATCTCTGCCACCCACAGGCGGGGATGCAACAACTCCACCGGCAGTGGCGTGCCCGGTAGCTTGGCCATGCCCACCGGCGTGGTGTTGACCAGCCCGTCCGCTTCGGCCAAGGCTGTGGCCAGGTCGGTGCCAAGCACGGCGCGCTCCGCGCCGAAATGGGTGTTCAG  >  AE015451/2749540‑2749979                                                                                                                                                                                                                               |                                                                                                                                                                                                                          ggCCTCTTCGCGGGCATGCCCCACAGGGACAGTGCAATCAGTAACGTTTGCGCAGTACCTGTGGGAGCGGGCGTGCCCGCGAAGAAGCCAACACTTTTCTATCAGGTGAAACTGGCAAAGTGCGCCTGCATCCGCGCCGCATCCGCCTGCCGCCCGCTGAACAGCTCGAATGCCTTCACCGCCTGGAACACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGc                                                                                                                                                                                                                           <  2:729375/223‑1 (MQ=255)                          gggACAGTGCAATCAGTAACGTTTGCGCAGTACCTGTGGGAGCGGGCGTGCCCGCGAAGAAGCCAACACTTTTCTATCAGGTGAAACTGGCAAAGTGCGCCTGCATCCGCGCCGCATCCGCCTGCCGCCCGCTGAACAGCTCGAATGCCTTCACCGCCTGGAACACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTcc                                                                                                                                                                                        <  2:410871/233‑1 (MQ=255)                                 tGCAATCAGTAACGTTTGCGCAGTACCTGTGGGAGCGGGCGTGCCCGCGAAGAAGCCAACACTTTTCTATCAGGTGAAACTGGCAAAGTGCGCCTGCATCCGCGCCGCATCCGCCTGCCGCCCGCTGAACAGCTCGAATGCCTTCACCGCCTGGAACACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGcc                                                                                                                                                                                                                          >  2:174937/1‑192 (MQ=255)                                 tGCAATCAGTAACGTTTGCGCAGTACCTGTGGGAGCGGGCGTGCCCGCGAAGAAGCCAACACTTTTCTATCAGGTGAAACTGGCAAAGTGCGCCTGCATCCGCGCCGCATCCGCCTGCCGCCCGCTGAACAGCTCGAATGCCTTCACCGCCTGGAACACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGcagcag                                                                                                                                                                                                  >  2:174941/1‑216 (MQ=255)                                   cAATCAGTAACGTTTGCGCAGTACCTGTGGGAGCGGGCGTGCCCGCGAAGAAGCCAACACTTTTCTATCAGGTGAAACTGGCAAAGTGCGCCTGCATCCGCGCCGCATCCGCCTGCCGCCCGCTGAACAGCTCGAATGCCTTCACCGCCTGGAACACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCg                                                                                                                                                                                    >  2:192163/1‑228 (MQ=255)                                        aGTAACGTTTGCGCAGTACCTGTGGGAGCGGGCGTGCCCGCGAAGAAGCCAACACTTTTCTATCAGGTGAAACTGGCAAAGTGCGCCTGCATCCGCGCCGCATCCGCCTGCCGCCCGCTGAACAGCTCGAATGCCTTCACCGCCTGGAACACCGCCATGTTGCTGCCATCCGGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGtt                                                                                                                                                                                                >  2:18291/1‑211 (MQ=255)                                         gTAACGTTTGCGCAGTACCTGTGGGAGCGGGCGTGCCCGCGAAGAAGCCAACACTTTTCTATCAGGTGAAACTGGCAAAGTGCGCCTGCATCCGCGCCGCATCCGCCTGCCGCCCGCTGAACAGCTCGAATGCCTTCACCGCCTGGAACACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCGGGAAgga                                                                                                                                                                             >  1:101961/1‑227 (MQ=255)                                              gTTTGCGCAGTACCTGTGGGAGCGGGCGTGCCCGCGAAGAAGCCAACACTTTTCTATCAGGTGAAACTGGCAAAGTGCGCCTGCATCCGCGCCGCATCCGCCTGCCGCCCGCTGAACAGCTCGAATGCCTTCACCGCCTGGAACACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCGGGAAGTAGATGATCTCTGc                                                                                                                                                                 >  1:328899/1‑236 (MQ=255)                                              gTTTGCGCAGTACCTGTGGGAGCGGGCGTGCCCGCGAAGAAGCCAACACTTTTCTATCAGGTGAAACTGGCAAAGTGCGCCTGCATCCGCGCCGCATCCGCCTGCCGCCCGCTGAACAGCTCGAATGCCTTCACCGCCTGGAACACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCGGGAAGTAGATGATCTCTGc                                                                                                                                                                 >  1:526574/1‑236 (MQ=255)                                                   cgcAGTACCTGTGGGAGCGGGCGTGCCCGCGAAGAAGCCAACACTTTTCTATCAGGTGAAACTGGCAAAGTGCGCCTGCATCCGCGCCGCATCCGCCTGCCGCCCGCTGAACAGCTCGAATGCCTTCACCGCCTGGAACACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCGGGAAGTAGATGATCTCTGccacc                                                                                                                                                             >  1:668619/1‑235 (MQ=255)                                                           cTGTGGGAGCGGGCGTGCCCGCGAAGAAGCCAACACTTTTCTATCAGGTGAAACTGGCAAAGTGCGCCTGCATCCGCGCCGCATCCGCCTGCCGCCCGCTGAACAGCTCGAATGCCTTCACCGCCTGGAACACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCGGGAAGTAGATGAtct                                                                                                                                                                     >  1:537069/1‑219 (MQ=255)                                                                       gCGTGCCCGCGAAGAAGCCAACACTTTTCTATCAGGTGAAACTGGCAAAGTGCGCCTGCATCCGCGCCGCATCCGCCTGCCGCCCGCTGAACAGCTCGAATGCCTTCACCGCCTGGAACACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCgg                                                                                                                                                                                   >  2:315423/1‑193 (MQ=255)                                                                         gTGCCCGCGAAGAAGCCAACACTTTTCTATCAGGTGAAACTGGCAAAGTGCGCCTGCATCCGCGCCGCATCCGCCTGCCGCCCGCTGAACAGCTCGAATGCCTTCACCGCCTGGAACACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCGGGAAGTAGATGATCTCTGCCACCCACAGGCGGGGATGCAACAACTc                                                                                                                                      >  1:707422/1‑236 (MQ=255)                                                                         gTGCCCGCGAAGAAGCCAACACTTTTCTATCAGGTGAAACTGGCAAAGTGCGCCTGCATCCGCGCCGCATCCGCCTGCCGCCCGCTGAACAGCTCGAATGCCTTCACCGCCTGGAACACCCCCATGTTGCTGCCATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCGGGAAGTAGATGATCTCTGCCACCCACAGGCGGGGATGCAACACCt                                                                                                                                       >  2:518733/1‑235 (MQ=255)                                                                           gCCCGCGAAGAAGCCAACACTTTTCTATCAGGTGAAACTGGCAAAGTGCGCCTGCATCCGCGCCGCATCCGCCTGCCGCCCGCTGAACAGCTCGAATGCCTTCACCGCCTGGAACACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGACCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGc                                                                                                                                                                                     >  1:589641/1‑187 (MQ=255)                                                                                              atcatctacttcccgctggagaccgaactgctgcgcgcggcccgggcgctgggctgccgcacgctggatggcagcaacatggcggtgtcccaggcggtgaaggcattcgagctgttcagcgggcggcagCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGtctc                                                                                                                                                                                         <  1:557040‑M2/35‑1 (MQ=255)                                                                                                  tCTATCAGGTGAAACTGGCAAAGTGCGCCTGCATCCGCGCCGCATCCGCCTGCCGCCCGCTGAACAGCTCGAATGCCTTCACCGCCTGGAACACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCGGGAAGTAGATGATCTCTGCCACCCACCGGCGGGGATGCAACAACTc                                                                                                                                      >  2:512243/1‑211 (MQ=255)                                                                                                            gAAACTGGCAAAGTGCGCCTGCATCCGCGCCGCATCCGCCTGCCGCCCGCTGAACAGCTCGAATGCCTTCACCGCCTGGAACACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCGGGAAGTAGATGATCTCTGCCACCCACAGGCGGGGATGCAACAACTCCACCGGCAGTGGCGTGCCCGGTAGCTTGGCCATGc                                                                                                   >  1:631547/1‑236 (MQ=255)                                                                                                                gagaccgaactgctgcgcgcggcccgggcactgggCTGCCGCCCGCTGAACAGCTCGAATGCCTTCACCGCCTGGGACACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGCCCAGCGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCGGGAAGTAgatgat                                                                                                                                                                       <  1:557040‑M1/129‑1 (MQ=255)                                                                                                                   accgaactgctgcgcgcggcccgggcactgggCTGCCGCCCGCTGAACAGCTCGAATGCCTTCACCGCCTGGAACACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCgcag                                                                                                                                                                                                     <  2:351143‑M1/99‑1 (MQ=255)                                                                                                                            ctgcgcgcggcccgggcactgggctgccgcacgctggatggcagcaacatggcggtgttccaggcggtgaaggcattcgagctgttcagcgggcggcagCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGt                                                                                                                                                                                            <  2:351143‑M2/32‑1 (MQ=255)                                                                                                                             ccTGCATCCGCGCCGCATCCGCCTGCCGCCCGCTGAACAGCTCGAATGCCTTCACCGCCTGGAACACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCGGGAAGTAGATGATCTCTGCCACCCACAGGCGGGGATGCAACAACTCCACCGGCAGTGGCGTGCCCGGTAGCTTGGCCATGCCCACCg                                                                                             <  1:586325/225‑1 (MQ=255)                                                                                                                                          cgcATCCGCCTGCCGCCCGCTGAACAGCTCGAATGCCTTCACCGCCTGGAACACCGCCATGTTGCTGCCATCCGGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCGGGAAGTAGATGATCTCTGCCACCCACAGGCGGGGATGCAACAACTCCACCGGCAGTGGCGTGCCCGGTAGCTTGGCCATGCCCACCGGCGTGGTGTTGACCAGCCCGTcc                                                                      <  1:18291/235‑1 (MQ=255)                                                                                                                                                cGCCTGCCGCCCGCTGAACAGCTCGAATGCCTTCACCGCCTGGAACACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCGGGAAGTAGATGATCTCTGCCACCCACAGGCGGGGATGCAACAACTCCAc                                                                                                                                   <  1:174941/168‑1 (MQ=255)                                                                                                                                                                aaCAGCTCGAATGCCTTCACCGCCTGGAACACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCGGGAAGTAGATGATCTCTGCCACCCACAGGCGGGGATGCAACAACTCCACCGGCAGTGGCGTGCCCGGTAGCTTGGCCATGCCCACCGGCGTGGTGTTGACCAGCCCGTCCGCTTCGGCCAAg                                                          <  1:192163/225‑1 (MQ=255)                                                                                                                                                                  cAGCTCGAATGCCTTCACCGCCTGGAACACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCGGGAAGTAGATGATCTCTGCCACCCACAGGCGGGGATGCAACAACTCCACCGGCAGTGGCGTGCCCGGTAGCTTGGCCATGCCCACCGGCGTGGTGTTGACCAGCCCGTCCGCTTCGGCCAAGGCTGTGGCCa                                                <  2:261185/233‑1 (MQ=255)                                                                                                                                                                          ttGCCTTCACCGCCTGGAACACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCGGGAAGTAgatga                                                                                                                                                                        <  1:184825/104‑1 (MQ=255)                                                                                                                                                                              cTTCACCGCCTGGAACACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCGGGAAGTAGATGATCTCTGCCACCCACAGGCGGGGATGCAACAACTCCAc                                                                                                                                   <  1:174937/138‑1 (MQ=255)                                                                                                                                                                                  cccGCCTGGACCACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCGGGAAGTAGATGATCTCTGCCACCCACAGGCGGGGATGCAACAACTCCACCGGCAGTGGc                                                                                                                         <  2:77412/143‑1 (MQ=255)                                                                                                                                                                                  cccGCCTGGAACACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCCGCGGGAAg                                                                                                                                                                               <  2:106366/89‑1 (MQ=255)                                                                                                                                                                                  cccGCCTGGAACACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCg                                                                                                                                                                                    <  2:178617/84‑1 (MQ=255)                                                                                                                                                                                                cGCCATGTTGCTGCCATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCGGGAAGTAGATGATCTCTGCCACCCACAGGCGGGGATGCAACAACTCCACCGGCAGTGGCGTGCCCGGTAGCTTGGCCATGCCCACCGGCGTGGTGTTGACCAGCCCGTCCGCTTCGGCCAAGGCTGTGGCCAGGTCGGTGCCAAGCACGGCGCGCTCCGCGCCGa               <  1:28829/236‑1 (MQ=255)                                                                                                                                                                                                    gcattcgagctgttcagcgggcggcagGCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCGGGAAGTAGATGATCTCTGCCACCCACAGGCGGGGATGCAACAACTCCACCGGCAGTGGCGTGCCCGGTAGCTTGGCCATGCCCACCGGCGTGGTGTTGACCAGCCCGTCCGCTTCGGCCAAGGCTGTGGCCAGGTCGGTGCCa                                     >  2:459310‑M2/28‑210 (MQ=255)                                                                                                                                                                                                    gcattcgagctgttcagcgggcggcagGCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCGGGAAGTAGATGATCTCTGCCACCCACAGGCGGGGATGCAACAACTCCACCGGCAGTGGCGTGCCCGGTAGCTTGGCCATGCCCACCGGCGTGGTGTTGACCAGCCCGTCCGCTTCGGCCAAGGCTGTGGCCAGGTCGGTGCCa                                     <  1:459311‑M2/183‑1 (MQ=255)                                                                                                                                                                                                        tgctgcCATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCGGGAAGTAGATGATCTCTGCCACCCACAGGCGGGGATGCAACAACTCCACCGGCAGTGGCGTGCCCGGTAGCTTGGCCATGCCCACCGGCGTGGTGTTGACCAGCCCGTCCGCTTCGGCCAAGGCTGTGGCCAGGTCGGTGCCAAGCACGGCGCGCTCCGCGcc                 >  1:733468/1‑226 (MQ=255)                                                                                                                                                                                                             ccATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCGGGAAGTAGATGATCTCTGCCACCCACAGGCGGGGATGCAACAACTCCACCGGCAGTGGCGTGCCCGGTAGCTTGGCCATGCCCACCGGCgt                                                                                         <  2:557039/149‑1 (MQ=255)                                                                                                                                                                                                             ccATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCGGGAAGTAGATGATCTCTGCCACCCACAGGCGGGGATGCAACAACTCCACCGGCAGTGGCGTGCCCGGTAGCTTGGCCATGCCCACCGGCGTGGTGTTGACCAGCCCGTCCGCTTCGGCCAAGGCTGTGGCCAGGTCGGTGCCAAGCACGGCGCGCTCCGCGCCGAAATGGGTGTTCAg  >  1:677005/1‑236 (MQ=255)                                                                                                                                                                                                                   aGCGTGCGGCCGCCCAGTGCCCGGGCCGCGCGCAGCAGTCCGGTCTCCAGCGGGAAGTAGATGATCTCTGCCACCCACAGGCGGGGATGCAACAACTCCACCGGCAGTGGCGTGCCCGGTAGCTTGGCCATGcc                                                                                                  <  2:436693/134‑1 (MQ=255)                                                                                                                                                                                                                               cccAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCGGGAAGTAGATGATCTCTGCCACCCACAGGCGGGGATGCAACAACTCCACCGGCAGTGGCGTGCCCGGTAGCTTGGCCATGCCCACCGGCGTGGTGTTGACCAGCCCGTCCGCTTCGGCCAAGGCTGTGGCCAGGTCGGTGCCAAGCACGGCGCGCTCCGCGCCGAAATGGgtg       <  2:668618/213‑1 (MQ=255)                                                                                                                                                                                                                               cccAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCGCCAGCGGGAAGTAGATGATCTCTGCCGCCCACAGGCGGGGATGCAACAACTCCACCGGCAGTGGCGTGCCCGGTAGCTTGGCCATGcc                                                                                                  <  2:78227/122‑1 (MQ=255)                                                                                                                                                                                                                               |                                                                                                                                                                                                                          GGCCTCTTCGCGGGCATGCCCCACAGGGACAGTGCAATCAGTAACGTTTGCGCAGTACCTGTGGGAGCGGGCGTGCCCGCGAAGAAGCCAACACTTTTCTATCAGGTGAAACTGGCAAAGTGCGCCTGCATCCGCGCCGCATCCGCCTGCCGCCCGCTGAACAGCTCGAATGCCTTCACCGCCTGGAACACCGCCATGTTGCTGCCATCCAGCGTGCGGCAGCCCAGTGCCCGGGCCGCGCGCAGCAGTTCGGTCTCCAGCGGGAAGTAGATGATCTCTGCCACCCACAGGCGGGGATGCAACAACTCCACCGGCAGTGGCGTGCCCGGTAGCTTGGCCATGCCCACCGGCGTGGTGTTGACCAGCCCGTCCGCTTCGGCCAAGGCTGTGGCCAGGTCGGTGCCAAGCACGGCGCGCTCCGCGCCGAAATGGGTGTTCAG  >  AE015451/2749540‑2749979

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.