New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 2491587	30 (0.750)	5 (0.130)	4/288	NT	14.1%	coding (188/1239 nt)	alaC	valine‑pyruvate aminotransferase 3
	?	CP009273	= 2491794	33 (0.890)					intergenic (‑20/‑356)	alaC/ypdA	valine‑pyruvate aminotransferase 3/sensor kinase regulating yhjX; pyruvate‑responsive YpdAB two‑component system

TTCCACCAGCGGCACTGAGCGTACCTGCGCCCCGGCAATCACCGCGCCATAAATATGGATCGGGTAACTTGGATTCGGCACCAGCACCGTGTCACCATGATCCAGCGTCGCCAGCATCAGATGCGCCAGGCCCTCTTTCGAACCAATAGTGACGATGGCTTCTGATTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGATTAACGTTAGCGCCCGGACCGTCCGAGCGACGCTGCCACGATGGTGGCTGTTT  >  CP009273/2491316‑2491839                                                                                                                                                                                                                                                                                |                                                                                                                                                                                                                                                             gcccaccaGCGGAACCGAGCGTACCGGCGCCCCGGCAATCCCCGCGCCATAAATATGGATCGGGTAACTTGGATTCGGCACCAGCACCGTGTCACCATGAGCCATCGTCGCCAGCATCAGATGCGCCAGGCCCTCTTTCGAACCAATAGTGACGATGGCTTCTGATTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTggg                                                                                                                                                                                                                                                           <  2:643787/273‑1 (MQ=255)                      caCCTGCGCCTAGCCAATCCCCGCGCCATAAATATCGATCGGGTTTCTTGGATTCTGGACCAGTCCCGTTTCACCATGATCCAGCGTGGCGAGCATCCGATGAGCCAGGCCCTCTTTCGACGCAATAGTGACGCTGGCTTCTGGTTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATACCGGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTcga                                                                                                                                                                                                                                      <  2:139912/274‑1 (MQ=255)                                                                  gaCTTGGATTCGGCACCAGCACCGTGTCACCATGAGCCAGCGTCGCCAGCATCAGATGAGCCAGGCCCTCTTTCGAACCAATAGTGACGATGGCTTCTGATTACGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGaa                                                                                                                                                                                           <  1:360275/273‑1 (MQ=255)                                                                                       ccGTGTCACCATGATCCAGCGTCGCCAGCATCAGATGCGCCAGGCCCTCTTTCGAACCAATAGTGACGATGGCTTCTGATTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTcgccgcg                                                                                                                                                                      <  1:349609/274‑1 (MQ=255)                                                                                          tgtCACCATGATCCAGCGTCGCCAGCATCAGATGCGCCAGGCCCTCTTTCGAACCAATAGTGACGATGGCTTCTGATTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGatat                                                                                                                                                                                                                                >  1:87367/1‑213 (MQ=255)                                                                                              aCCATGATCCAGCGTCGCCAGCATCAGATGCGCCAGGCCCTCTTTCGAACCAATAGTGACGATGGCTTCTGATTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATgcgg                                                                                                                                                                                                                            <  2:87366/213‑1 (MQ=255)                                                                                                    aTCCAGCGTCGCCAGCATCAGATGCGCCAGGCCCTCTTTCGAACCAATAGTGACGATGGCTTCTGATTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCAACGATATgc                                                                                                                                                                                                                              >  1:687978/1‑205 (MQ=255)                                                                                                        aGCGTCTCCAGCATCAGATGCGCCAGGCCCTCTTTCGAACCAATAGTGACGATGGCTTCTGATTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATgcggcg                                                                                                                                                                                                                          <  2:687964/205‑1 (MQ=255)                                                                                                            tCGCCAGCATCAGATGCGCCAGGCCCTCTTTCGAACCAATAGTGACGATGGCTTCTGATTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTaacgttaatctgaggaaattatggctgacactcgccctgaacgtcgctttacgcgcagtgatattctcccgccatacgtttttaacacccccgctgaacgtaaaatggc                                                                                                                                                 >  2:681604‑M1/1‑165 (MQ=255)                                                                                                              gCCAGCATCAGATGCGCCAGGCCCTCTTTCGAACCAATAGTGACGATAGCTTCTGATTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATAACAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAAACATGCGTATTCGGGCGCTGGGCCACAGTACATAATTTTTCGAGGCTATgcagc                                                                                                                                                                                                                           >  1:713834/1‑198 (MQ=255)                                                                                                                                                  aTAGTGACGATGGCTTCTGATTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGAGCCGACGCGCCGCCAGTTTCAGTTCATCGGTGATGTTAAAAACGTAGTGCGGgagaggg                                                                                                            >  2:642654/1‑270 (MQ=255)                                                                                                                                                            tGGCTTCTGATTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAAtttt                                                                                                                                                                                                                                          >  1:54696/1‑137 (MQ=255)                                                                                                                                                             ggCTTCTGATTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGc                                                                                                                                           >  1:248913/1‑231 (MQ=255)                                                                                                                                                                ttCTGATTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTcga                                                                                                                                                                                                                                      <  2:54695/137‑1 (MQ=255)                                                                                                                                                                 tCTGATTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTg                                                                                                                                       <  2:248910/231‑1 (MQ=255)                                                                                                                                                                        ccGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTaacgttaatctgaggaaattatggctgacactcgccctgaacgtcgctttacgcgcattgatcgtctcccgccctacgtttttaacatcaccgctg                                                                                                                                                              >  1:332670‑M1/1‑105 (MQ=255)                                                                                                                                                                            gTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTaacgttaatctgaggaaattatggctgacactcgccctgaacgtcgctttacgcgcattgatcgtctcccgccctacgtttttaacatcaccgctgaact                                                                                                                                                          <  2:332664‑M1/201‑101 (MQ=255)                                                                                                                                                                                     aaCGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGANATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAgtgt                                                                          <  1:628547/272‑1 (MQ=255)                                                                                                                                                                                       cgtcgtAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGc                                                                                                                                                                                                                   >  2:311997/1‑133 (MQ=255)                                                                                                                                                                                           gtAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCg                                                                                                                                                                                                               <  1:312002/133‑1 (MQ=255)                                                                                                                                                                                                  tCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTaacgttaatctgaggaaattatggctgacactcgcccngaacgtcgctcgacgcgcattgatcgtctcccgccctacgtttttaacatcaccgctgaactgaaaatggctgcgcgtcggcgcggcgaagatattatcgatttcagcatgggtaacccggacggtgcgactccgccgcatatcgtcgaaaaattatg                                                          <  1:681618‑M1/275‑197 (MQ=255)                                                                                                                                                                                                  tCCTGATACCAGCGGGAAATGCCGCTTCGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCTGGCGCTaacgttaatctgnggaaattatggcttacactcgccctgaacgtcgctttacgcgcattgatcgtctcccgccctacgtttttaacatcaccgctgaactgaaaatggctgcgcgtcggcgcggcgaagatattatcgatttcagcatgggtaacccggacggtgcgactcttccgcatatcgtcgaaaaattatg                                                          <  1:505431‑M1/275‑197 (MQ=255)                                                                                                                                                                                                    cggccaacAGCGGGGAAGGGCGAGACGTAACCGCGGGATGCCGCGTGAAGTGGATTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAg                                                        <  2:166189/268‑1 (MQ=255)                                                                                                                                                                                                      gATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGt                                                                                                                                                                                                                      >  1:55249/1‑115 (MQ=255)                                                                                                                                                                                                      gATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGAt                                                      >  1:61325/1‑275 (MQ=255)                                                                                                                                                                                                       aTACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGAt                                                      >  1:166191/1‑274 (MQ=255)                                                                                                                                                                                                        tACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTCACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGAtt                                                     <  1:642668/274‑1 (MQ=255)                                                                                                                                                                                                          ccAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCa                                                                                                                                                                                                                  <  2:55248/115‑1 (MQ=255)                                                                                                                                                                                                                   aaTGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGCACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGCCAGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCAATTTTCAGTTCAGCGGTGATGTTAAAACCGACGGGCGGGAGACGATCAACGCGCGTAAAGCGACGTTAAGGGGGCGTGTCCGCCATAAGTTCCTCAGATTacagttcggg                                           >  2:331216/1‑264 (MQ=255)                                                                                                                                                                                                                                       gAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTaaa                                                                                              >  2:2878/1‑202 (MQ=255)                                                                                                                                                                                                                                           gCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGa                                                                                          <  1:2878/202‑1 (MQ=255)                                                                                                                                                                                                                                                           tAACCATGCGTGTGCGGGCGCTGGGTCTCAGTACATAACTTTTCGACGAGATGCGGCGGCGTCGCACCGTCCGGGTTACCCAGGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGGCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAATCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGATTAACGTTAGCGCCCGGACCGTCCGAGCGACGCTGCCACGATGGTGGCTGttt  <  1:74405/274‑1 (MQ=255)                                                                                                                                                                                                                                                             aCCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAAt                                                                                                                                                                                         >  1:153458/1‑89 (MQ=255)                                                                                                                                                                                                                                                             aCCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGGAGGGCGGGAGACGATCAATGCGCGTAAAGCGa                                                                                          >  2:387376/1‑184 (MQ=255)                                                                                                                                                                                                                                                                 tGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGat                                                                                                                                                                                     <  2:153457/89‑1 (MQ=255)                                                                                                                                                                                                                                                                 tGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGtt                                                                                      <  1:387383/184‑1 (MQ=255)                                                                                                                                                                                                                                                                       tCCGGGCGCTaacgttaatctgaggaaattatggctgacactcgccctgaacgtcgctttacgcgcattgatcgtctcccgccctacgtttttaacatcaccgctgaa                                                                                                                                                            <  1:566937‑M1/108‑99 (MQ=255)                                                                                                                                                                                                                                                                            gcgcTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGAt                                                                                                                                     >  1:378818/1‑126 (MQ=255)                                                                                                                                                                                                                                                                                tGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTa                                                                                                                                 <  2:378811/126‑1 (MQ=255)                                                                                                                                                                                                                                                                                |                                                                                                                                                                                                                                                             TTCCACCAGCGGCACTGAGCGTACCTGCGCCCCGGCAATCACCGCGCCATAAATATGGATCGGGTAACTTGGATTCGGCACCAGCACCGTGTCACCATGATCCAGCGTCGCCAGCATCAGATGCGCCAGGCCCTCTTTCGAACCAATAGTGACGATGGCTTCTGATTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGATTAACGTTAGCGCCCGGACCGTCCGAGCGACGCTGCCACGATGGTGGCTGTTT  >  CP009273/2491316‑2491839

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 9 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ 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.