New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 2310782	22 (0.570)	4 (0.110)	4/308	NT	18.8%	coding (2574/2850 nt)	rcsC	hybrid sensory kinase in two‑component regulatory system with RcsB and YojN
	?	CP009273	= 2311055	13 (0.340)					coding (2301/2850 nt)	rcsC	hybrid sensory kinase in two‑component regulatory system with RcsB and YojN

CGATTTCCTGACCCTCTCGGCATATAACGTCAGCGTCTGTTTTATCACATCCAGCGTTACCGGCTTCGACAGGCAGCTGTCCATACCGGACTCCAGACACCGCTGCTTCTCTTCAGCCAACGCATTAGCAGTTACTCCGATTACCGGCAACGTCAGTCCCAACTGACGAATGCGTTGCGTCAAGCGGTAACCATCCATATTTGGCATGTTGACGTCGCTAAGCACGATATCAATATGATTCTTGCTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGTTTTACATTGATAGCCCAACGATCCCAACTGATCTGCCAGCAAACGCCGGTTAATCGGATGATCATCCACGACCAGAATCATCATATCGTCATTATCGCTGACCGCTTTGTCCGTTGACGGCAGAGCGTTAGCAGGATCGTCGCTCTCCATCTCGATCAAATAAATACGCGCCAACAATGCCGGTAGCTCATGCGGAGCAGCCACAC  >  CP009273/2310518‑2311005                                                                                                                                                                                                                                                                         |                                                                                                                                                                                                                                cgATTTCCTGACCCTCTCGGCATATAACGTCAGCGTCTGTTTTATCACATCCAGCGTTACCGGCTTCGACAGGCAGCTGTCCATACCGGACTCCAGACACCGCTGCTTCTCTTCAGCCAACGCATTAGCAGTTACTCCGATTACCGGCAACGTCAGTCCCAACTGACGAATGCGTTGCGTCAAGCGGTAACCATCCATATTTGGCATGTTGACGTCGCTAAGCACGATATCAATATGATTCTTGCTAAGTACATTAAGCGCATCGACGCcatcat                                                                                                                                                                                                                       >  1:101906/1‑275 (MQ=255)                                                                          cAGCTGTCCATACCGGACTCCAGACACCGCTGCTTCTCTTCAGCCAACGCATTAGCAGTTACTCCGATTACCGGCAACGTCAGTCCCAACTGACGAATGCGTTGCGTCAAGCGGTAACCATCCATATTTGGCATGTTGACGTCGCTAAGCACGATATCAATATGATTCTTGCTAAGTACATTAAGCGCATCGtcgccatatttgtattccgctggagaaagcgccaggggagtgggtaccccgggtggctgctccgcatgagctcccggcagggt                                                                                                                                              >  2:193255‑M1/1‑192 (MQ=255)                                                                                                                ttCAGCCAACGCATTAGCAGTTACTCCGATTACCGGCAACGTCAGTCCCAACTGACGAATGCGTTGCGTCAAGCGGTAACCATCCATATTTGGCATGTTGACGTCGCTAAGCACGATATCAATATGATTCTTGCTAAGTACATTAAGCGCATCGtcgccatattggtattccgctggagaaagcgccaggggagtgggtacacagtgtggctgctccgcatgagctaccggcattgttggcgcgtatttatttgatcgagatggagagcgacgat                                                                                                        <  1:193258‑M1/275‑122 (MQ=255)                                                                                                                            aTTAGCAGTTACTCCGATTACCGGCAACGTCAGTCCCAACTGACGAATGCGTTGCGTCAAGCGGTAACCATCCATATTTGGCNTGTTGACGNCGCTAAGCACGAGATCAATATGATTCTTGCTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGTTTTACATTGATAGCCCAACGATCCCAACTGATCTGCCAGCAAACGCCGGTTAATCGGATGATCATCCACGACCAGAATCATCATATCGTCATTATCGCTGACCGCTTTGTCCGTTg                                                                                            <  1:472622/275‑1 (MQ=255)                                                                                                                                 acatatcTCCCAATACCGGCAAAGTCAGTCCCAACTGACGAATGCGTTGCATCTAGCGGTAACCATCCATCTTTGGCATGTTGACGTCGCTAAGCACGATATCAATATGATTCTTGCTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGTTTTACATTGATAGCCCAACGATCCCAACTGATCTGCCAGCAAACGCCGGTTAATCGGATGATCATCCACGACCAGAATCATCATATCGTCATTATCGCTGACCGCTTTGTCCGTTGACGGc                                                                                       <  2:101905/269‑1 (MQ=255)                                                                                                                                              tACCGGCAACGTCAGTCCCAACTGACGAATGCGTTGCGTCAAGCGGTAACCATCCATATTTGGCATGTTGACGTCGCTAAGCACGATATCAATATGATTCTTGCTAAGTAAATTAAGCGCATCAACGCCATCATTCGCGGTTTTACATTGATAGCCCAACGATCCAAACTGATCTGCCAGCAAACGCCGGTTAATCGGTGGATCATCCACGACCAGAAAAAACAACACGTAATTATCGCTGAACGATTTGTCCGTTAACGCAAGAGCGtaacaag                                                                          >  1:214582/1‑269 (MQ=255)                                                                                                                                                                                                      tatTTGGCATGTTGACGTCGCTAAGCACGATATCAATATGATTCTTGCTAAGTACATTAAGCGCATCGtcgccatattggtattccgctggagaaagcgccaggggagtgggtacacagtgtggctggtccgcatgagctaccggcattgttggcgcgtatttatttgatcgagatggagag                                                                                                               >  2:409600‑M1/1‑68 (MQ=255)                                                                                                                                                                                                          tgcttttttGACTGCGCTAACCAGGTTATCAGTATGTTTCTTGTTAAGAAATTGCAGCGCATCCA‑GCCAACAATCCCCGGTTTACATTGATAGCCCAACGATCCCAACTGATCTGCCAGCAAACGCCGGTTAATCGGATGATCATCCACGACCAGAATCATCATATCGTCATTATCGCTGACCGCTTTGTCCGTTGACGGCAGAGCGTTAGCAGGATCGTCGCTCTCCATCTCGATCAAATAAATACGCGCCAACAATGCCGGTAGCTCATGCgg             <  1:182403/268‑1 (MQ=255)                                                                                                                                                                                                          tGGCATGTTGACGTCGCTAAGCACGATATCAATATGATTCTTGCTAAGTACATTAAGCGCATCGtcgccatattggtattccgctggagaaagcgccaggggagtgggtacacagtgtggctggtccgcatgagctaccggcattgttggcgcgtatttatttgatcgagatggagagcgac                                                                                                           <  1:409607‑M1/182‑119 (MQ=255)                                                                                                                                                                                                                  ggaagtgctgaaGCACGATATCAATATGGTTCTTTCTAAATACATTTAGCTCATCTACGCCCTCATTCGCGGTTTTACATTGATAGACCAACCATCCCAACTGCTCTGCCAGCAAACGCCGGTTAATCGGATGATCATCCACGACCAGAATCATCATATCGTCATTATCGCTGCCCGCTTTGTCCGTTGACGGCAGAGCGTTAGCAGGATCGTCGCTCTCCATCTCGATCAAATAAATACGCGCCAACAATGCCGGTAGCTCATGCGGAGCAGcc      <  2:490903/265‑1 (MQ=255)                                                                                                                                                                                                                     cgaatcTAAGCACGATATCAATATGATTCTTGCTAAGTACATTAAGCGCATCGACGCCATCATTCGCTGTTTTACATTGATAGCCCCACGTTTCCTACGGATCTGCCAGCAAACGCCGGTTACTCGGATGATCATCCACGACCAGAATCATCATATCGTCATTATCGCTGACCGCTTTGTCCGTTGACGGCAGAGCGTTAGCAGGATCGTCGCTCTCCATCTCGATCAAATAAATACGCGCCAACAATGCCGGTAGCTCATGCGGAGCAGCcaca   <  2:214578/270‑1 (MQ=255)                                                                                                                                                                                                                                         atatGATTCTTGCTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGTTTTACATTGATAGCCCAACGATCCCAACTGATCTGCCAGCAAACGc                                                                                                                                                                  >  1:74148/1‑96 (MQ=255)                                                                                                                                                                                                                                             gATTCTTGCTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGTTTTACATTGATAGCCGAACGATCCCAACTGATCTGCCAGCAAACGCCGGt                                                                                                                                                              <  2:74147/96‑1 (MQ=255)                                                                                                                                                                                                                                               ttCTTGCTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGTTTTACAt                                                                                                                                                                                                         >  2:44355/1‑51 (MQ=255)                                                                                                                                                                                                                                                   tGCTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGTTTTACATTGAt                                                                                                                                                                                                     <  1:44355/51‑1 (MQ=255)                                                                                                                                                                                                                                                    gCTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGTTTTACATTGATAGCCCAACGATCCCAACTGATCTGCCAGCAAACGCCGGTTAATCGGATGATCATCCACGACCAGAATCATCATATCGTCATTATCGCTGACCGCTTTGTCCGTTGACg                                                                                         >  2:247338/1‑158 (MQ=255)                                                                                                                                                                                                                                                    gCTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGTTTTACATTGATAGCCCAACGATCCCAACTGATCTGCCAGCAAACGCCGGTTAATCGGATGATCATCCACGACCAGAATCATCATATCGTCATTATCGCTGACCGCTTTGTCCGTTGACg                                                                                         >  2:53273/1‑158 (MQ=255)                                                                                                                                                                                                                                                        aGTACATTAAGCGCATCGACGCCATCATTCGCGGTTTTACATTGATAGCCCAACGATCCCAACTGATCTGCCAGCAAACGCCGGTTAATCGGATGATCATCCACGACCAGAATCATCATATCGTCATTATCGCTGACCGCTTTGTCCGTTGACGGCag                                                                                     <  1:53273/158‑1 (MQ=255)                                                                                                                                                                                                                                                        aGTACATTAAGCGCATCGACGCCATCATTCGCGGTTTTACATTGATAGCCCAACGATCCCAACTGATCTGCCAGCAAACGCCGGTTAATCGGATGATCATCCACGACCAGAATCATCATATCGTCATTATCGCTGACCGCTTTGTCCGTTGACGGCag                                                                                     <  1:247343/158‑1 (MQ=255)                                                                                                                                                                                                                                                             aTTAAGCGCATCGACGCCATCATTCGCGGTTTTAGATTGATAGCCCaa                                                                                                                                                                                              >  1:460474/1‑48 (MQ=255)                                                                                                                                                                                                                                                               tAAGCGCATCGACGCCATCATTCGCGGTTTTACATTGATAGCCCAACGATCCCAACTGATCTGCCAGCAAACGCCGGtt                                                                                                                                                             >  1:576748/1‑79 (MQ=255)                                                                                                                                                                                                                                                                 aGCGCATCGACGCCATCATTCGCGGTTTTAAATTGATAGCCCAACGAt                                                                                                                                                                                          <  2:460467/48‑1 (MQ=255)                                                                                                                                                                                                                                                                   cgcATCGACGCCATCATTCGCGGTTTTACATTGATAGCCCAACGATCCCAACTGATCTGCCAGCAAACGCCGGTTAATc                                                                                                                                                         <  2:576739/79‑1 (MQ=255)                                                                                                                                                                                                                                                                   cgcATCGACGCCATCATTCGCGGTTTTACATTGATAGCCCAACGATCCCAACTGATCTGCCAGCAAACGCCGGTTAATCGGATGATCATCCACGACCAGAATCATCATATCGTCATTATCGCTGACCGCTTTGTCCGTTGACGGCAGAGCGTTAGCAGGATCGTCGCTCTCCATCTCGATCAAATAAATACGCGCCAACAATGCCGGTAGCTCATGCGGagcagc       >  1:59296/1‑225 (MQ=255)                                                                                                                                                                                                                                                                    gcATCGACGCCATCATTCGCGGTTTTACATTGATAGCCCAACGATCCCAACTGATCTGCCAGCAAACGCCGGTTAATCGGATGATCATCCACGACCAGAatcatc                                                                                                                              >  2:697130/1‑105 (MQ=255)                                                                                                                                                                                                                                                                    gcATCGACGCCATCATTCGCGGTTTTACATTGATAGCCCAACGATCCCAACTGATCTGCCAGCAAACGCCGGTTAATCGGATGATCATCCACGACCAGAATCATCATATCGTCATTATCGCTGACCGCTTTGTCCGTTGACGGCAGAGCGTTAGCAGGATCGTCGCTCTCCATCTCGATCAAATAAATACGCGCCAACAATGCCGGTAGCTCATGCGGAGCAGcc      >  1:53664/1‑225 (MQ=255)                                                                                                                                                                                                                                                                       tCGACGCCATCATTCGCGGTTTTACATTGATAGCCCAACGATCCCAACTGATCTGCCAGCAAACGCCGGTTAATCGGATGATCATCCACGACCAGAATCATCATATCGTCATTATCGCTGACCGCTTTGTCCGTTGACGGCAGAGCGTTAGCAGGATCGTCGCTCTCCATCTCGATCAAATAAATACGCGCCAACAATGCCGGTAGCTCATGCGGAGCAGCcaca   <  2:59295/225‑1 (MQ=255)                                                                                                                                                                                                                                                                        cGACGCCATCATTCGCGGTTTTACATTGATAGCCCAACGATCCCAACTGATCTGCCAGCAAACGCCGGTTAATCGGATGATCATCCACGACCAGAATCATCatat                                                                                                                          <  1:697139/105‑1 (MQ=255)                                                                                                                                                                                                                                                                        cGACGCCATCATTCGCGGTTTTACATTGATAGCCCAACGATCCCAACTGATCTGCCAGCAAACGCCGGTTAATCGGATGATCATCCACGACCAGAATCATCATATCGTCATTATCGCTGACCGCTTTGTCCGTTGACGGCAGAGCGTTAGCAGGATCGTCGCTCTCCATCTCGATCAAATAAATACGCGCCAACAATGCCGGTAGCTCATGCGGAGCAGCCacac  <  2:53664/225‑1 (MQ=255)                                                                                                                                                                                                                                                                         |                                                                                                                                                                                                                                CGATTTCCTGACCCTCTCGGCATATAACGTCAGCGTCTGTTTTATCACATCCAGCGTTACCGGCTTCGACAGGCAGCTGTCCATACCGGACTCCAGACACCGCTGCTTCTCTTCAGCCAACGCATTAGCAGTTACTCCGATTACCGGCAACGTCAGTCCCAACTGACGAATGCGTTGCGTCAAGCGGTAACCATCCATATTTGGCATGTTGACGTCGCTAAGCACGATATCAATATGATTCTTGCTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGTTTTACATTGATAGCCCAACGATCCCAACTGATCTGCCAGCAAACGCCGGTTAATCGGATGATCATCCACGACCAGAATCATCATATCGTCATTATCGCTGACCGCTTTGTCCGTTGACGGCAGAGCGTTAGCAGGATCGTCGCTCTCCATCTCGATCAAATAAATACGCGCCAACAATGCCGGTAGCTCATGCGGAGCAGCCACAC  >  CP009273/2310518‑2311005

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 9 ≤ ATCG/ATCG < 19 ≤ 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.