New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	2676188 =	43 (1.120)	5 (0.140)	4/296	NT	13.8%	intergenic (‑84/‑34)	yphG/yphH	DUF4380 domain‑containing TPR repeat protein/putative DNA‑binding transcriptional regulator
	?	CP009273	2676276 =	22 (0.610)					coding (55/1194 nt)	yphH	putative DNA‑binding transcriptional regulator

CGCGATTTTCCAGGAACATGGGATGTATATCCTGCGGCCCGGTTTCATAGGTCGGGATCTCAACGCGCTCTTGCCACACTTTTACTGGAGTCATGGTGCCCTCAATATTAACAAGACATACTGAATTAAAAGATTTGTGGCAGTGTATTGAACAATCTGGCAATGTTTTCGCGGAATAATCACGCAATTAACTAAACAAGGTTTAGTGAAGATGAGAGCCTGCATTAATAATCAACAGATTCGCCACCATAACAAATGCGTGATTCTGGAACTGCTGTACCGGCAAAAGCGCGCCAATAAATCAACGCTGGCCCGGCTGGCGCAAATTTCGATTCCGGCAGTCAGTAATATTTTGCAGGAACTGGAAAGCGAAAAACGGGTGGTGAATATTGACGATGAAAGCCAGACGCGCGGGCATAGTAGCGGTACATGGCTGATTGCGCCGGAAGGTGACTGGACGCTGTGCCTGAACGTGACGCCCACCAGTATTGAGT  >  CP009273/2676011‑2676504                                                                                                                                                                                                                                                                          |                                                                                                                                                                                                                                     cgcgATTTTCCAGGAACATGGGATGTATATCCTGCGGCCCGGTTTCATAGGTCGGGATCTCAACGCGCTCTTGCCACACTTTTACTGGAGTCATGGTGCCCTCAATATTAACAAGACATACTGAATTAAAAGATTTGTGGCAGTGTATTGAACAATCTGGCAATGTTTTCGCGGAATAATCAAGCAATTAACTAAACAAGGTTTAGTGAAGATGAGAGCCTGAATTAATAATCAAAAGATTCGCCACCATAAAAACTGAGTAATTATgaattgg                                                                                                                                                                                                                              >  2:621557/1‑268 (MQ=255)                        tGTATATCCTGCGGCCCGGTTTCATAGGTCGGGATCTCAACGCGCTCTTGCCACACTTTTACTGGAGTCATGGTGCCCTCAATATTAACAAGACATACTGAATTAAAAGATTTGTGGCAGTGTATTGAACAATCTGGCAATGTTTTAGCGGAATAATCACGCAATTAACTAAACAAGGTTTAGTGAAGATGAGAGCCTGAATTAAAAATAAAAAGATTCGCCACCATAAAAAAAGCGGGATACAGGAACTTCTGTCCCGGNnaaactattaactc                                                                                                                                                                                                      >  2:538191/1‑265 (MQ=255)                                 tGCGGCCCGGTTTCATAGGTCGGGATCTCAACGCGCTCTTGCCACACTTTTACTGGAGTCATGGTGCCCTCAATATTAACAAGACATACTGAATTAAAAGATTTGTGGCAGTGTATTGAACAATCTGGCAATGTTTTCGCGGAATAATCACGNAATTAACTAAACAAGGTTTAGTGAAGATGAGAGCCTGCATTAATAATCAACAGATTCGCAACCATAACAAATGCGTGATTCTGGAACTGCTGTACCGGCAAAAGCGCGCCAATAAATCAACg                                                                                                                                                                                             >  1:605731/1‑275 (MQ=255)                                                                  ctcttttGCCACAATTTTACTGGAGTCATGGTGCCCTCAATATTAACAAGACATACTGAATTAAAAGATTTGTGGCAGTGTATTGAACAATCTGGCAATGTTTTCGCGGAATAATCACGCAGTTAACTAAACAAGGTTTAGTGAAGATGAGAGCCTGCATTAATAATCAACAGATTCGCCACCATAACAAATGCGTGATTCT‑GAACTGCTGTACCGGCAAAAGCGCGCCAATAAATCAACGCTGGCCCGGCTGGCGCAAATTTCGATTCCGGca                                                                                                                                                            <  1:621566/269‑1 (MQ=255)                                                                     agagaaagcanTTTTAATGGAGTAATGGTGCCCTCAATATTAACATGACATAATGAATTAAAAGATTTTTGGCAGTGTATTGAACAATCTGGCAATGTTTTCGCGGAATAATCACGCAATTAACTAAACAAGGTTTAGTGAAGATGAGAGCCTGCATTAATAATCAACAGATTCGCCACCATAACAAATGCGTGATTCTGGAACTGCTGTACCGGCAAAAGCGCGCCAATAAATCAACGCTGGCCCGGCTGGCGCAAATTTCGATTCCGGcagt                                                                                                                                                          <  2:66584/266‑1 (MQ=255)                                                                                   tACTGGAGTCATGGTGCCCTCAATATTAACAAGACATACTGAATTAAAAGATTTGTGGCAGTGTATTGAACAATCTGGCAATGTTTTCGCGGAATAATCACGCAATTAACTAAACAAGGTTTAGTGAAGATGAGAGCCTGCATTAATAATCAACAGATTCGCCACCATAACAAATGCGTGATTCTGGAACTGCTGTACCGGCAAAAGAGCGCAAATAAACAAACACTGTCACGGCAGGCGCAAATATCGTATCCGCCATGCATTATTAtttttta                                                                                                                                           >  2:550910/1‑272 (MQ=255)                                                                                   tACTGGAGTCATGGTGCCCTCAATATTAACAAGACATACTGAATTAAAAGATTTGTGGCAGTGTATTGAACAATCTGGCAATGTTTTCGCGGAATAATCACGCAATTAACTAAACAAGGTTTAGTGAAGATGAGAGCCTGCATTAATAATCAACAGATTCGCCACCATAAAAAATGCGTGATTCTGGAACTGCTGTACCGGCAAAAGCGCGCCAATAAATCAACGCTGGCCCGGCTGGCGCAAAGTTCGATTCAGGCAGTCAGTANAAtttgcca                                                                                                                                           >  2:276376/1‑271 (MQ=255)                                                                                     cTGGAGTCATGGTGCCCTCAATATTAACAAGACATACTGAATTAAAAGATTTGTGGCAGTGTATTGAACAATCTGGCAATGTTTTCGCGGAATAATCACGCAATTAACTAAACAAGGTTTAGTGAAGATGAGAGCCTGCATTAATAATCAACAGATTCGCCACCATAACAAATGCGTGATTCTGGAACTGCTGTACCGGCAAAAGCGCGCCAATAAATCAACGCTGGCCCGGCTGGCGCCAATTTCGATTCCGGCAGTCAGTAatat                                                                                                                                                 <  1:410788/267‑1 (MQ=255)                                                                                        gAGTCATGGTGCCCTCAATATTAACAAGACATACTGAATTAAAAGATTTGTGGCAGTGTATTGAACAATCTGGCAATGTTTTCGCGGAATAATCACGCAATTAACTAAACAAGGTTTAGTGAAGATGAGAGCCTGCATTAATAATCAACAGATTCGCCACCATAACAAATGCGTGATTCTGGAACTGCTGTACCGGCAAAAGCGCGCCAATAAATCAACGCTGGCCCGGCTGGCGCAAATTTCGATTCCgg                                                                                                                                                              >  1:66585/1‑251 (MQ=255)                                                                                                   cccTCAATATTAACAAGACATACTGAATTAAAAGATTTGTGGCAGTGTATTGAACAATCTGGCAATGTTTTCGCGGAATAATCACGCAATTAACTAAACAAGGTTTAGTGAAGATGAGAGCCTGCATTAATAATCAACAGATTCGCCACCATAACAAATGCGTGATTCTGGAACTGCTGTACCGGCAAAAGCGCGCCAATAAATCAACGCTGGCCCGGCTGGCGCAAATTTCGATTCCGGCAGTCAAGAATATTTTGCAGGAACTGGAAAGCTaa                                                                                                                           >  2:224706/1‑275 (MQ=255)                                                                                                                           gAATTAAAAGATTTGTGGCAGTGTATTGAACAATCTGGCAATGTTTTCGCGGAATAATCACGCAATTAACTAAACAAGGTTTAGTGAAGATGAGAGCCTGCATTAATAATCAACAGATTCGCCACCATAACAAATGCGTGATTCTGGAACTGCTGTACCGGCAAAAGCGCGCCAATAAATCAACGCTGGCCCGGCTGGCGCAAATTTCGATTcc                                                                                                                                                                >  2:206770/1‑214 (MQ=255)                                                                                                                               tAAAAGATTTGTGGCAGTGTATTGAACAATCTGGCAATGTTTTCGCGGAATAATCACGCAATTAACTAAACAAGGTTTAGTGAAGATGAGAGCCTGCATTAATAATCAACAGATTCGCCACCATAACAAATGCGTGATTCTGGAACTGCTGTACCGGCAAAAGCGCGCCAATAAATCAACGCTGGCCCGGCTGGCGCAAATTTCGATTCCGGca                                                                                                                                                            <  1:206774/214‑1 (MQ=255)                                                                                                                                                       aaaaaTCTGGCAATGTTTTCGCGGAATAATCACGCAATTAACTAAACAAGGTTTAGTGAAGATGAGAGCCTGCATTAATAATCAACAGATTCGCCACCATAACAAATGCGTGATTCTGGAACTGCTGTACCGGCAAAAGCGCGCCAATAAATCAACGCTGGCCCGGCTGGCGCAAATTTCGATTCCGGCAGTCAGTAATATTTTGCAGGAACTGGAAAGCGAAAAACGggtggt                                                                                                                <  1:71259/231‑1 (MQ=255)                                                                                                                                                       aaCAATCTGGCAATGTTTTCGCGGAATAATCACGCAATTAACTAAACAAGGTTTAGTGAAGATGAGAGCCTGCATTAATAATCAACAGATTCGCCACCATAACAAATGCGTGATTCTGGAACTGCTGTACCGGCAAAAGCGCGCCAATAAATCAACGCTGGCCCGGCTGGCGCAAATTTCGATTCCGGCAGTCAGTAATATTTTGCAGGAACTGGAAAGCGAAAAAAGggtggt                                                                                                                >  2:71258/1‑234 (MQ=255)                                                                                                                                                            tCTGGCAATGTTTTCGCGGAATAATCACGCAATTAACTAAACAAGGTTTAGTGAAGATGAGAGCCTGCATTAATAATCAACAGATTCGCCACCATAACAAATGCGTGATTCTGGAACTGCTGTACCGGCAAAAGCGCGCCAATAAATCAACGCTGGCCCGGCTGGCGCAAATTTCGATTCCGGCAGTCAGTAATATTTTGCAGGAACTGGAAAGCGaaaa                                                                                                                         >  1:87047/1‑220 (MQ=255)                                                                                                                                                            tCTGGCAATGGTTTCGCGGAATAATCACGCAATTAACTAAACAAGGTTTAGTGAATATTAGAGCCTGCATTAATACTCAACAGATTCGCCACCATAACAAATGCGTGATTCTGGAACTGCTGTACCGGCAAAAGCGCGCCAATAAATCAACACTGGCCCGGCTGGCGCAAATTTCGATTCCGGCAGTCAGTAACATTTTGCCGGAACTGGAAAGCGAAAAACGGGGGGAGAATATGGACGAGGAAAGCCAAAAGCGCAGGCAtattttttttt                                                                    >  2:591975/1‑264 (MQ=255)                                                                                                                                                                gCAATGTTTTCGCGGAATAATCACGCAATTAACTAAACAAGGTTTAGTGAAGATGAGAGCCTGCATTAATAATCAACAGATTCGCCACCATAACAAATGCGTGATTCTGGAACTGCTGTACCGGCAAAAGCGCGCCAATAAATCAACGCTGGCCCGGCTGGCGCAAATTTCGATTCCGGCAGTCAGTAATATTTTGCAGGAACTGGAAAGCGAAAAACgg                                                                                                                     <  2:87046/220‑1 (MQ=255)                                                                                                                                                                               aataatCACGCAATTAACTAAACAAGGTTTAGTGAAGATGAGAGCCTGCATTAATAATCAACAGATTCGCCACCATAACAAATGCGTGATTCTGGAACTGCTGTACCGGCAAAAGCGCGCCAATAAATCAACGCTGGCCCGGCTGGCGCAAATTTCGATTCCGGCAGTCAGTAATATTTTGCAGGAACTGGAAAGCGAAAAACGGGTGGTGAATATTGACGATGAAAGCCAGACGCGCGGGCATAGTAGCGGTACATGGCTGATTGCGCCGGaa                                                <  1:224711/274‑1 (MQ=255)                                                                                                                                                                                                      ggcgaatctgttgattattaatgcaggctctcatcttcactaaaccttgtttagttaattgcgtgattCTGGAACTGCTGTACCGGCAAAAGCGCGCCAATAAAt                                                                                                                                                                                                  >  2:351923‑M2/69‑105 (MQ=255)                                                                                                                                                                                                      ggcgaatctgttgattattaatgcaggctctcatcttcactaaaccttgtttagttaattgcgtgattCTGGAACTGCTGTACCGGCAAAAGCGCGCCAATAAATCAACGCTGGCCCGGCTGGCGCAAATTTCGATTCCGGCAGTCAGTAATATTTTGCAGGAACTGGAAAGCGAAAAACGggt                                                                                                                   >  2:700626‑M2/69‑184 (MQ=255)                                                                                                                                                                                                          aatctgttgattattaatgcaggctctcatcttcactaaaccttgtttagttaattgcgtgattCTGGAACTGCTGTACCGGCAAAAGCGCGCCAATAAATCAAc                                                                                                                                                                                              <  1:351929‑M2/41‑1 (MQ=255)                                                                                                                                                                                                          aatctgttgattattaatgcaggctctcatcttcactaaaccttgtttagttaattgcgtgattCTGGAACTGCTGTACCGGCAAAAGCGCGCCAATAAATCAACGCTGGCCCGGCTGGCGCAAATTTCGATTCCGGCAGTCAGTAATATTTTGCAGGAACTGGAAAGCGAAAAACGGgtggtg                                                                                                               <  1:700635‑M2/120‑1 (MQ=255)                                                                                                                                                                                                          aatctgttgattattaatgcaggctctcatcttcactaaaccttgtttagttaattgcgtgattCTGGAACTGCTGTACCGGCAAAAGCGCGCCAATAAATCAACGCTGGCCCGGCTGGCGCAAATTTCGATTCCGGCAGTCAGTAATATTTTGCAGGAACTGGAAAGCGAAAAACGGGTGGTGAATATTGa                                                                                                       <  1:205155‑M2/128‑1 (MQ=255)                                                                                                                                                                                                              gTGAAGATGAGAGCCTTCATTAATAATCAACAGATTCGCCACCATAACAAATGCGTGATTCTGGAACTGCTGTACCGGCAAAAGCGCGCCANTAAATCAACGCTGGCCCGGCTGGCGCAAATTTCGATTCCGGCAGTCAGTAATATTTTGCAGGAACTGGAAAGCGAAAAACGGGTGGTGAATATTGACGATGAAAGCCAGACGCGCGGGCATAGTAGCGGTACATGGCTGATTGCGCCGGAAGGTGACTGGACGCTGTGCCTGAACGTGACGcc                <  1:550919/275‑1 (MQ=255)                                                                                                                                                                                                                    aTGAGAGCCTGCATTAATAATCAACAGATTCGCCACCATAACAAATGCGTGATTCTGGAACTGCTGTACCGGCAAAAGCGCGCCAATAAATCAACGCTGGCCCGGCTGGCGCAAATTTCGATTCCGGCAGTCAGTAATATTTTg                                                                                                                                             >  1:722529/1‑144 (MQ=255)                                                                                                                                                                                                                        gagCCTGCATTAATAATCAACAGATTCGCCACCATAACAAATGCGTGATTCTGGAACTGCTGTACCGGCAAAAGCGCGCCAATAAATCAACGCTGGCCCGGCTGGCGCAAATTTCGATTCCGGCAGTCAGTAATATTTTGCAgg                                                                                                                                         <  2:722519/144‑1 (MQ=255)                                                                                                                                                                                                                         agCCTGCATTAATAATCAACAGATTCGCCACCATAACAAATGCGTGATTCTGGAACTGCTGTACCGGCAAAAGCGCGCCAATAAATCAACGCTGGCCCGGCTGGCGCAAATTTCGATTCCGGCAGTCAGTAATATTTTGCAGGAACTGGAAAGCGAAAAACGGGTGGTGAATATTGACGATGAAAGCCAGACGCGCGGGCATAGTAGCGGTACATGGCTGATTGCGCCGGAAGGTGACTGGACGCTGTGCCTGAACGTGACGCCCACCAGTAtt      <  1:276381/274‑1 (MQ=255)                                                                                                                                                                                                                              gCATTAATAATCAACAGATTCGCCACCATAACAAATGCGTGATTCTGGAACTGCTGTACCGGCAAAAGCGCGCCAATAAATCAACGCTGGCCCGGCTGGCGCAAATTTCGATTCCGGCAGTCAGTAATATTTTGCAGGAACTGGAAAGCGAAAAACGGGTGGTGAATATTGACGATGAAAGCCAGACGCGCGGGCATAGTAGCGGTACATGGCTGATTGCGCCGGAAGGTGACTGGACGCTGTGCCTGAACGTGACGCCCACCAGAATTGAgt  >  1:393652/1‑273 (MQ=255)                                                                                                                                                                                                                                                                         tCTGGAACTGCTGTACCGGCAAAAGCGCGCCAATAAATCAACGCTGGCCCGGCTGGCGCAAATTTCGATTCCGGCAGTCAGTAATATTTTGCAGGAACTGGAAAGCGAAAAACGGGTGGTGAATATTGACGATGAAAGCCAGACGCGCGGGCATAGTAGCGGTACATGGCTGATTGCGCCGGAAGGTGACTGGACGCTGTGCCTGAACGTGACGCccacc            <  1:576411‑M2/219‑1 (MQ=255)                                                                                                                                                                                                                                                                          |                                                                                                                                                                                                                                     CGCGATTTTCCAGGAACATGGGATGTATATCCTGCGGCCCGGTTTCATAGGTCGGGATCTCAACGCGCTCTTGCCACACTTTTACTGGAGTCATGGTGCCCTCAATATTAACAAGACATACTGAATTAAAAGATTTGTGGCAGTGTATTGAACAATCTGGCAATGTTTTCGCGGAATAATCACGCAATTAACTAAACAAGGTTTAGTGAAGATGAGAGCCTGCATTAATAATCAACAGATTCGCCACCATAACAAATGCGTGATTCTGGAACTGCTGTACCGGCAAAAGCGCGCCAATAAATCAACGCTGGCCCGGCTGGCGCAAATTTCGATTCCGGCAGTCAGTAATATTTTGCAGGAACTGGAAAGCGAAAAACGGGTGGTGAATATTGACGATGAAAGCCAGACGCGCGGGCATAGTAGCGGTACATGGCTGATTGCGCCGGAAGGTGACTGGACGCTGTGCCTGAACGTGACGCCCACCAGTATTGAGT  >  CP009273/2676011‑2676504

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 22 ≤ 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.