New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 2491587	23 (0.600)	8 (0.220)	5/292	NT	27.4%	coding (188/1239 nt)	alaC	valine‑pyruvate aminotransferase 3
	?	CP009273	= 2491794	21 (0.590)					intergenic (‑20/‑356)	alaC/ypdA	valine‑pyruvate aminotransferase 3/sensor kinase regulating yhjX; pyruvate‑responsive YpdAB two‑component system

CGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGATTAACGTTAGCGCCCGGACCGTCCGAGCGACGCTGCCACGATGGTGGCTGTTTTGAAAATAGCCTGATTAATTTCTGTCTGTCCAGCGTTTTAGAACATTTTATTAATGACGTTAAATGAGGAACTCTGCTTTAAAAACAGGAAATTTATCTGCGCTAACAAGAAAATTACCACTCATTTTATTAACATAATAATTTCAATAAATTTACTAACCAGAAGTGCATTATCAAGAGATGCAT  >  CP009273/2491521‑2492025                                                                                                                                                                                                                                                                                  |                                                                                                                                                                                                                                        ggggAGATGGCCCGACGGAGCCGCGTGATGCCGCGTGAAGTGGAGTAGCCTTGCGTGTTCGTGCTCTGGGGCACATGACGTAATTGTTCGACGGTATGCGGCGGGGTGTCACCGTCCGGGTTACCCATGCTGAAACCGATAATATCTGCGCCGCGCCGATGCGCAGCCATTTTCAGTGCAGCGGTGATGTTAAAAGCGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGATTAACGtt                                                                                                                                                                                                                                         <  2:662808/273‑1 (MQ=255)                        cgGATTGCCGCGTGAAGTGTGTTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTGCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTAAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGATTAACGTTAGCGCCCGGACCGTCCGAGCGAc                                                                                                                                                                                                                  <  1:319157/274‑1 (MQ=255)                                                              ggagctgggaagcaGTACTAAATTTTTCGACGATTTGCGGCCGCGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATAGCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGATTAACGTTAGCGCCCGGACCGTCCGAGCGACGCTGCCACGATGGTGGCTGTTTTGAAAATAGCCTGAt                                                                                                                                                                             <  2:145733/261‑1 (MQ=255)                                                                   cgggCCGCACTACATAATTTTGCGACGATCTGCTGCGGAGTCGCACCGTCCCGGTTACACATGCTGCAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATATTCAGTTAAGCGGGGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTACAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGATTAACGTTAGCGCCCGGACCGTCCGAGCGACGCTGCCACGATGGTGGCTGTTTTGAAAATAGCCTGATTAAtt                                                                                                                                                                        <  2:217360/272‑1 (MQ=255)                                                                             tACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGATTAACGTTagcgcccggacacgcatggttactccacttcacgcggcattccgcggttacgtcgcgccatttcccgctgtaatcag                                                                                                                                                            <  1:432201‑M2/275‑78 (MQ=255)                                                                               cATAATTTTTCGACGATATGCGGCGGAGTCGCCCCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGGGTCAGCCATAATTTCGTCAGATTAACGTTagcgcccggacacgcatggttactccacttcacgcggcattccgcggttacgtcgcgccatttccagctggtatcagga                                                                                                                                                          <  1:169154‑M2/275‑80 (MQ=255)                                                                               cATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGATTAACGTTagcgcccggacacgcatggttactccacttcacgcggcattacgcggttacgtcgcgccatttcccgctggtatcagga                                                                                                                                                          <  1:449496‑M2/275‑80 (MQ=255)                                                                               cATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGATTAACGTTagcgcccggacacgcatggttactccacttcacgcggcat                                                                                                                                                                                                 <  2:492398‑M2/236‑41 (MQ=255)                                                                               cATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGATTAACGTTAGCGCCCGGACCGTCCGAGc                                                                                                                                                                                                                     >  2:703415/1‑216 (MQ=255)                                                                               cATAATTTTTCGACGATATGCGGCGGAGGCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGGTCAGGGCTAGTGTCAGCCATAATTTCCNCAGATTAACGTTagcgcccggacacgcatggttactccacttcacgcggcattccgcggttacttcgcgccatttcccgctggtatcagga                                                                                                                                                          <  1:552835‑M2/275‑80 (MQ=255)                                                                                   aTTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGATTAACGTTagcgcccggacacgcatggtgactccacttcacgcggcattccg                                                                                                                                                                                             >  1:492405‑M2/1‑192 (MQ=255)                                                                                   aTTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGATTAACGTTAGCGCCCGGACCGTCCGAGCGACg                                                                                                                                                                                                                 <  1:703424/216‑1 (MQ=255)                                                                                     ttttCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCACAGATTAACGTTAGCGCCCGGACCGTCCGAGCGACGCTGCCACGATGGTGGCTGTTTTGAAAATAGcc                                                                                                                                                                                 >  1:401217/1‑246 (MQ=255)                                                                                                        gAGTCGAACCGTCCTGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGACATTTTAAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGGTTAACGTTAGCGCCCGGACCGTCCGAGCGACGCTGCCACGATGGTGGCTGTTTTGAAAATAGCCTGATTAATTTCTGTCTGTCCAGCGTTTTAGAACATTTTATTAATGACg                                                                                                                                 <  1:299382/275‑1 (MQ=255)                                                                                                         aGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGATTACCGTTAGCGCCCGGACAGTCCGAGCGACGCTGCCACGATGGTGGCTGTTTTGAAAATAGCCTGATTAATTTCTGTCTGTCCAGCGTTTTAGAACATTTTATTAATGAc                                                                                                                                  >  1:588013/1‑273 (MQ=255)                                                                                                            cGCATCGTCCGGGTTACCCAAGCTGAAGCCGCGAATGACTTCGCCGCGCCGACTCGCAGCCATTTTCTGTTCAGCGGGGCTGTTAAAAACGTAGGGCGGGGGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGATTAACGTTAGCGCCCGGACCGTCCGAGCGACGCTGCCACGATGGTGGCTGTTTTGAAAATAGCCTGATTAATTTCTGTCTGTCCAGCGTTTTAGAACATTGTATTAATGACGTTaa                                                                                                                             <  2:5505/275‑1 (MQ=255)                                                                                                                  gTCCGGGTTAACCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGTCGATCAATGCTCGTAAAGCGACGTTCAGTGCGAGTGTCAGCCATAATTTCCTCAGATTAACGTTAGCGCCCGGACCGTCCGAGCGACGCTGCCACGATGGTGGCTGTTTTGAAAATAGCCTGATTAATTTCTGTCTGTCCAGCGTTTTAGAACATTTTATTAATGACGTTAAATGAg                                                                                                                        <  1:398511/274‑1 (MQ=255)                                                                                                                                    gAAATAGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTGCAGTTCAGCGGTGATGTTAAAACCGTAGGGCGGGAGACGATCAATGCGCNTAAAGCGACGTTCAGGGCGTGTGTCAGCCATAATTTCCTCAGATTAACGTTAGCGCCCGGACCGTCCGAGCGACGCTGCCACGATGGTGGCTGTTTTGAAAATAGCCTGATTAATTTCTGTCTGTCCAGCGTTTTAGAACATTTTATTAATGACGTTAAATGAGGAACTCTGCTTTAAAAACa                                                                                                     <  1:541272/275‑1 (MQ=255)                                                                                                                                       aTCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGATTAACGTTAGCGCCCGGACCGTCCGAGCGACGCTGCCACGATGATGGCTGTTTTGAAAATAGCCTGATTAATTTCTGTCTGTCCAGCGTTTTAGAACATTTTATTAATGACGTTAAATGAGGAACTCTGCTTTAAAAACAgaa                                                                                                  >  1:275902/1‑273 (MQ=255)                                                                                                                                                                                 ttcagCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGATTAACGTTagcgcccggacacgcatggttactccacttcacgcggcattccgcggttacgtcgcgccatttcccgctggtatcaggatcg                                                                                                                                                       <  2:301577‑M2/180‑83 (MQ=255)                                                                                                                                                                                 ttcagCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGATTAACGTTAGCGCCCGGACCGTCCGAGCGACGCTGCCACGATGGTGGCTGTTTTGAAAATAGCCTGATTAATTTCTGTCTGTCCAGCGTTTTAGAACATTTTATTAATGACGTTAAATGAGGAACTCTGCTTTAAAAACAGAAAATTTATATGCGCTAACAAGAAAATTACCACTCaagatagga                                                        >  2:110999/1‑267 (MQ=255)                                                                                                                                                                                 tggaggggggctGTTAAAAACGTCAGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAAGTTCCTCAGATTAACGTTAGCGCCCGGACCGTCCGAGCGACGCTGCCACGATGGTGGCTGTTTTGAAAATAGCCTGATTAATTTCTGTCTGTCCAGCGTTTTAGAACATTTTATTAATGACGTTAAATGAGGAACTCTGCTTTAAAAACAGGAAATGTATCTGCGCTAACAAGAAAATTACCACTCATTttatt                                                         <  2:588004/263‑1 (MQ=255)                                                                                                                                                                                     gCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGATTAACGTTagcgcccggacacgcatggttactccacttcacgcggcattccgcggttacgtcgcgccatttcccgctggtatcaggatcgctac                                                                                                                                                   >  1:301583‑M2/1‑94 (MQ=255)                                                                                                                                                                                                aaaaaCGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGATTAACGTTAGCGCCCGGACCGTCCGACCGACGCTGCCACGATGGTGGCTGTTTTGAAAATAGCCTGATTAATTTCTGTCTGTCCAGCGTTTTCGAACATTTTATTAATTACGTTAAATGAGTAACTCTGCTATAAAACAAGGACATTTATCTGCGCTAACAAGAACATTACCCCTCA‑TTTATTAACAGAATAACTTTAAt                                        >  2:488481/1‑275 (MQ=255)                                                                                                                                                                                                         gggCGGGAGACGATCAATGCGCGTAAAGCGACGTTCATGGCGAGTGTCAGCCATAATTTCCTCAGATTAACGTTAGCGCCCGGACCGTCCGAGCGACGCTGCCACGATGGTGGCTGTTTTGAAAATAGCCTGATTAATTTCTGTCTGTCCAGCGTTTTAGAACATTTTATTAATGACGTTAAATGAGGAACTCTGCTTTAAAAACAGGAAATTTATCTGCGCTAACAAGAAAATTACCACTCATTTTATTAACATAATAATTTCAATAAATTTa                                 <  1:377954/274‑1 (MQ=255)                                                                                                                                                                                                                            cgagTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGATTAACGTTAGCGCCCGGACCGTCAGAGCGACGCTGCCACGATGGTGGCTGTTTTGAAAATAGGCTGATTAGTTTCTGTCTGTCCAGCGTTTTAGAACATTttat                                                                                                                                         >  1:24571/4‑151 (MQ=255)                                                                                                                                                                                                                                       atgTTCAGGNCGAGTGTCAGCCCTCATTTCCTCAGATTAACGTTTGCGCCCGGACCGTCCGAGCGACGCTGCCATGATGGTTGCTGTTTTGAAAATAGACTTATTAATTTCTGTCTGTCCAGCGTTTTAGAACATTTTATTAATGACGTTAAATGAGGAACTCTGCTTTAAATACAGGAAATTTATCTGCGCTAACAAGAAAATTACCACTCATTTTATTAACATAATAATTTCAATAAATTTACTAACCAGAAGTGCATTATCAAGAGATGCAt  <  2:275897/273‑1 (MQ=255)                                                                                                                                                                                                                                       aCGTTCAGGGCGAGTGTCAGCCATTATTTCCTCCGATTAACGTTAGCGCCCGGACCGTCCGAGCGACGCTGCCACGATGGTGGCTGTTTTGAAAATAGCCTGATTAATTTCTGTCTGTCCAGCGTTTTAGAACATTTTATTAATGACGTTAAATGAGGAACTCTGCTTTAAAAACAGGAAATTTATCTGCGCTAACAAGAAAATTACCACTCATTTTATTAACATAATAATTTCAATAAATTTTCTAACCAGAAGTGCATTATCAAGAGATGCAt  <  1:111000/275‑1 (MQ=255)                                                                                                                                                                                                                                                                      tCAGATTAACGTTAGCGCCCGGACCGTCCGAGCGACGCTGCCACGATGGTGGCTGTTTTGAAAATAGCCTGATTAATTTCTGTCTGTCCAGCGTTTTAGAACATTTTATTAATGACGTTAAATGAGGAACTCTGCTTTAAAAACAGGAAATTTATCTGCGCTAACAAGAAAAtt                                                                        >  1:539464/1‑174 (MQ=255)                                                                                                                                                                                                                                                                          aTTAACGTTAGCGCCCGGACCGTCCGAGCGACGCTGCCACGATGGTGGCTGTTTTGAAAATAGCCTGATTAATTTCTGTCTGTCCAGCGTTTTAGAACATTTTATTAATGACGTTAAATGAGGAACTCTGCTTTAAAAACAGGAAATTTATCTGCGCTAACAAGAAAATTACCa                                                                    <  2:539456/174‑1 (MQ=255)                                                                                                                                                                                                                                                                                  |                                                                                                                                                                                                                                        CGGGAAATGGCGCGACGTAACCGCGGAATGCCGCGTGAAGTGGAGTAACCATGCGTGTCCGGGCGCTGGGCCACAGTACATAATTTTTCGACGATATGCGGCGGAGTCGCACCGTCCGGGTTACCCATGCTGAAATCGATAATATCTTCGCCGCGCCGACGCGCAGCCATTTTCAGTTCAGCGGTGATGTTAAAAACGTAGGGCGGGAGACGATCAATGCGCGTAAAGCGACGTTCAGGGCGAGTGTCAGCCATAATTTCCTCAGATTAACGTTAGCGCCCGGACCGTCCGAGCGACGCTGCCACGATGGTGGCTGTTTTGAAAATAGCCTGATTAATTTCTGTCTGTCCAGCGTTTTAGAACATTTTATTAATGACGTTAAATGAGGAACTCTGCTTTAAAAACAGGAAATTTATCTGCGCTAACAAGAAAATTACCACTCATTTTATTAACATAATAATTTCAATAAATTTACTAACCAGAAGTGCATTATCAAGAGATGCAT  >  CP009273/2491521‑2492025

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 9 ≤ ATCG/ATCG < 18 ≤ 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.