New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 2491587	23 (1.330)	3 (0.190)	3/282	NT	14.5%	coding (188/1239 nt)	alaC	valine‑pyruvate aminotransferase 3
	?	CP009273	= 2491794	14 (0.870)					intergenic (‑20/‑356)	alaC/ypdA	valine‑pyruvate aminotransferase 3/sensor kinase regulating yhjX; pyruvate‑responsive YpdAB two‑component system

CCACCAGCGGCACTGAGCGTACCTGCGCCCCGGCAATCACCGCGCCATAAATATGGATCGGGTAACTTGGATTCGGCACCAGCACCGTGTCACCATGATCCAGCGTCGCCAGCATCAGATGCGCCAGGCCCTCTTTCGAACCAATAGTGACGATGGCTTCTGATTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGATTAACGTTAGCGCCCGGACCGTCCGAGCGACGCTGCCACG  >  CP009273/2491318‑2491826                                                                                                                                                                                                                                                                              |                                                                                                                                                                                                                                                ccccccgccgctcTGAGCCTACCTTCCCCCCGGCAATCACCGCGCCATAAATAGGGATCGGGTAACTTGGATTCGGCACCAGCACCGTGNCACCATGATCCAGCGTCGCCAGCATCAGATGCGCCAGGCCCTCTTTCGAACCAATAGTGACGATGGCTTCTGATTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTggg                                                                                                                                                                                                                                              <  1:265018/261‑1 (MQ=255)                aGCGTACCTGCGCCCCGGCAATCACCGCGCCATAAATATGGATCGGGTAACTTGGATTCGGCACCAGCACCGTGTCACCATGATCCAGCGTCGCCAGCATCAGATGCGCCAGGCCCTCTTTCGAACCAATAGTGACGATGGCTTCTGATTCCGGGTCGATCTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGAGTGAAGTGGAGTAACCATGCGTGTCCGGGCCCTGGGCCACAGTCCATAAttgt                                                                                                                                                                                                                             >  1:25060/1‑273 (MQ=255)                     aCCTGCGCCCCGGCAATCACCGCGCCATAAATATGGATCGGGTAACTTGGATTCGGCACCAGCACCGTGTCACCATGATCCAGCGTCGCCAGCATCAGATGCGCCAGGCCCTCTTTCGAACCAATAGTGACGATGGCTTCTGATTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTcgac                                                                                                                                                                                                                        >  1:43997/1‑275 (MQ=255)                          cgcCCCGGCAATCACCGCGCCATAAATATGGATCGGGTAACTTGGATTCGGCACCAGCACCGTGTCACCATGATCCAGCGTCGCCAGCATCAGATGCGCCAGGCCCTCTTTCGAACCAATAGTGACGATGGCTTCTGATTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACCGTACATAATTTTTCGACGata                                                                                                                                                                                                                    >  1:53539/1‑274 (MQ=255)                                        ccGCGCCATAAATATGGATCGGGTAACTTTGATTCGGCACCAGCACCGTGTCACCATGATCCAGCGTCGCCAGCATCAGATGCGCCAGGCCNTCTTTCGAACCAATAGTGACGATGGCTTCTGATTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAGTTTTCCCACGATATGCGGCGGAGTCGCa                                                                                                                                                                                                     <  1:235880/275‑1 (MQ=255)                                            cccgaaactcgggATCGGGTGACTTGGAGTCGGCCCCCGCACCGTGTCACCATGAGCCAGCGGCGGCAGCATCAGATGCTCCCGGCCCTCTTTCGAACCAATAGTGACGATGGCTTCTGATTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGGCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGt                                                                                                                                                                                                 <  2:43996/264‑1 (MQ=255)                                                        gATCGGGTAACTTGGATTCGGCACCAGCACCGTGTCACCATGATCCAGCGTCGCCAGCATCAGATGCGCCAGGCCCTCTTTCGAACCAATAGTGACGATGGCTTCTGATTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGACCGGGTTACCCa                                                                                                                                                                                     >  1:209158/1‑275 (MQ=255)                                                                                             ccATGATCCAGCGTCGCCAGCATCAGATGCGCCAGGCCCTCTTTCGAACCAATAGTGACGATGGCTTCTGATTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCTACGTAACCGCGGACTGGCGCGTGAAGTGGAGTCACCATGCGTGTACGGGCACTGGGCCAAAGTACATATTTTTTCGACGATCTGCGGAGGAGCCGCACCGTCCGGGTTACCCATCGTGAAATCGCGACTATCTTCGCCAcgccgccgc                                                                                                                                                  >  2:112826/1‑273 (MQ=255)                                                                                                  aTCCAGCGTCGCCAGCATCAGATGCGCCAGGCCCTCTTTCGAACCAATAGTGACGATGGCTTCTGATTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGTTTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATAGAAAATATCTTCGCCGCGCCGACGAGGAGcaa                                                                                                                                           >  1:271948/1‑273 (MQ=255)                                                                                                                            ccAGGCCCTCTTTCGAACCAATAGTGACGATGGCTTCTGATTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTgg                                                                                                                                                                                                                                               >  1:49815/1‑149 (MQ=255)                                                                                                                                gCCCTCTTTTGAACCAATAGTTACGATGGCTTCTTATTCCGGGTCGATTTCAACGGCGTAGCGATCCTGATACCAGCGGGANATGGCGCGNCGTAACCGCGGATTGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGGAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACg                                                                                                              <  1:221903/274‑1 (MQ=255)                                                                                                                                gCCCTCTTTCGAACCAATAGTGACGATGGCTTCTGATTCCGTGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCca                                                                                                                                                                                                                                           <  2:49814/149‑1 (MQ=255)                                                                                                                                           aaCCAATAGTGACGATGGCTTCTGATTCCGGGTCGATTTCAACGTAGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCAGNGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGGGATGTTAAAAACGTAGGGCGGgagc                                                                                                  >  1:239319/1‑274 (MQ=255)                                                                                                                                                   gttaCGTTGGCTTTTGATTACGGGTCGATTTCAACGTCGTAGAGATCCTGATACCAGCGGGAAATGGCGCGACGGAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCTGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTGACCCATGTTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAAt                                                                                          <  1:112828/272‑1 (MQ=255)                                                                                                                                                        gATGGCTTCTGATTCCGGGTCGATTTGAACGTCGTAGCGATCCTGATTCCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAAtttt                                                                                                                                                                                                                             >  1:219867/1‑139 (MQ=255)                                                                                                                                                            gCTTCTGATTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATTCCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTcga                                                                                                                                                                                                                         <  2:219861/139‑1 (MQ=255)                                                                                                                                                                       cGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCAAAAGTAAATAATTTTTCGACGATATGCGGCGGAGTCGCACGGTCCGGGTTACACATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGAAGCCAGATTCAGTCTAGCGGAGATGGTAAAAACGGAGGACGGGAGACGATCAATGGGAGCACAGCGATGtatag                                                                      >  2:51221/1‑271 (MQ=255)                                                                                                                                                                        gggTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCT                                                                                                                                                                                                                                                 >  1:124826‑M1/1‑103 (MQ=255)                                                                                                                                                                            cGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGc                                                                                                                                                                                                                                             <  2:124824/103‑1 (MQ=255)                                                                                                                                                                                                tCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTaacgttaatctgaggaaattatggctgacactcgccctgaacgtcgctttacgcgcattgatcgtctcccgccctacgtttttaacatcaccgctgaactgaaaatggctgcgcgtcggcgcggcgaagatattatcgatttcagcatgggtaacccggacggtgcgactccgccgcatatcgtcgaaaaattatg                                             <  1:193478‑M1/275‑197 (MQ=255)                                                                                                                                                                                                 ccTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGt                                                                                                                                                                                           >  2:301790/1‑132 (MQ=255)                                                                                                                                                                                                     aTACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTAcc                                                                                                                                                                                       <  1:301801/132‑1 (MQ=255)                                                                                                                                                                                                            cccgctctGGCGCGACGTACCCGCGGAAGGCCTAGTGAAGTGCACTAACCTTTCTTGTCCGGGCGCTGGGCCACAGTCCCTAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGATTAACGtt                                  <  2:53537/267‑1 (MQ=255)                                                                                                                                                                                                            cGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAAt                                                                                                                                                                            >  2:46416/1‑136 (MQ=255)                                                                                                                                                                                                                aaaTGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGat                                                                                                                                                                        <  1:46417/136‑1 (MQ=255)                                                                                                                                                                                                                                       aTGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTaacgttaatctgaggaaattatggctgacactcgccctgaacgtcgctttacgcgcattgatcgtctcccgccctacgt                                                                                                                                                                  >  2:41844‑M1/1‑40 (MQ=255)                                                                                                                                                                                                                                           cgcgTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTaacgttaatctgaggaaattatggctgacactcgccctgaacgtcgctttacgcgcattgatcgtctcccgccctacgttttt                                                                                                                                                              <  1:41845‑M1/119‑84 (MQ=255)                                                                                                                                                                                                                                           agagagAAGGGGAGTCAACCGGCGTGTCCGGGCGCTGGCCCACGTCTCAATGATTTTCGACGATGCGCGGCGGAGTCGCACCGTCCGGGTCACCCATGCTGAGATCGATAATGCCTTCGCCGCGCCGACGCGCGTCCATTTTCCGCTCACCGGTGATGTTAAAAACGCAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGATTAACGTTAGCGCCCGGACCGTCCGAGCGACGCTGCCACg  <  2:271937/270‑1 (MQ=255)                                                                                                                                                                                                                                                                 cGTGTCCGGGCGCTGGGCCACAGTCCATAATTTTTCGACGATATGCGGCGGAGTCGCa                                                                                                                                                                                                     >  1:98743/1‑58 (MQ=255)                                                                                                                                                                                                                                                                     tCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGt                                                                                                                                                                                                 <  2:98741/58‑1 (MQ=255)                                                                                                                                                                                                                                                                              |                                                                                                                                                                                                                                                CCACCAGCGGCACTGAGCGTACCTGCGCCCCGGCAATCACCGCGCCATAAATATGGATCGGGTAACTTGGATTCGGCACCAGCACCGTGTCACCATGATCCAGCGTCGCCAGCATCAGATGCGCCAGGCCCTCTTTCGAACCAATAGTGACGATGGCTTCTGATTCCGGGTCGATTTCAACGTCGTAGCGATCCTGATACCAGCGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGATTAACGTTAGCGCCCGGACCGTCCGAGCGACGCTGCCACG  >  CP009273/2491318‑2491826

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 9 ≤ ATCG/ATCG < 11 ≤ ATCG/ATCG < 27 ≤ 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.