New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	481163 =	0 (0.000)	32 (0.800)	30/310	NT	100%	intergenic (‑88/‑54)	acrA/acrR	multidrug efflux system/transcriptional repressor
	?	CP009273	= 1463497	NA (NA)					noncoding (1/1331 nt)	IS2	repeat region

TTCCTTCCTGGTATTGCTTACGCCAGAGAAATAACTGGCTGGCTGCTACACCATGTTGCCGGGCAACGAGGGAGACCGTCATCCCCG‑GTTCAAAGCTCTGCTGAACAATTGCGATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAACGCAACAGTTATGTGAAAACATGGGGTTGCGGAGGTTTTTTGAATGAGACGAACATTTACAGCAGAGGAAAAAGCCTCTGTTTTTGAACTATGGAAGAACGGAACAGGCTTCAGTGAAATAGCGAATATCCTGGGTTCAAAACCCGGAACGATCTTCACTATGTTAAGGGATACTGGCG  >  CP009273/1463238‑1463750                                                                                                                                                                                                                                                                     |                                                                                                                                                                                                                                                              ttaattacttgTATTGATAAGGACAGAAAAATAACTGGATTCAGGCTACACCATGTTGCCGGGCAAAGAGGGAGACCGTCATCCCCG‑GTTCAAAGCTCTGCTGAACAATTGCGATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGaa                                                                                                                                                                                                                                                     <  2:391201/260‑1 (MQ=11)                                                    cATGTCGCCGGGCAACGAGGGAGACCGTCATCCCCG‑GTTCAAAGCTCTGCTGAACAATTGCGATCTCTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTCTTAAGACTATCACTTATTTAAGGGATACTGGTTGTCTAGAGATTCAGGGGGCCAGTCGAAACCCCAGAATTAACTTATGCAGATTCCGGTGCGAACATTGGTAATAAAGGTATNTGTAGAATCa                                                                                                                                                                                              >  2:65183/1‑274 (MQ=14)                                                              gccAACGAGGGAGAACGT‑ATGCCCGCGTTCCAAGCTCTGCTGAACAATTGCGTTCTTTTCCTGTGTGGTACGACGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAACg                                                                                                                                                                                   <  2:337383/273‑1 (MQ=18)                                                                                       g‑gTTCAAAGCTCTGCTGAACAATTGCGATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAACGCAACAGTTATGTGAAAACATgggg                                                                                                                                                           <  1:65184/274‑1 (MQ=255)                                                                                                                 cGATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATTACTTATTTAAGTGATATTGGTGGTCTGCAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAACGCAACAGTTATGTGAAAACATGGGGTTGCGGAGGTTTTTTGAATGAGACGa                                                                                                                                 <  1:639876/275‑1 (MQ=255)                                                                                                                    tCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAANACTAGTATNAAGACTATCACTGATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAACGCAACAGTTATGTGAACACATGGGCTTGCGGAGGTTTTTTGAATGAGACGa                                                                                                                                 <  1:476629/272‑1 (MQ=255)                                                                                                                                            tGCGTTGCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGACAATTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAACGCACCAGTTATGTGAAAACATGGGGTTGCTGAGGTTTTTTGCATGAGCGGAATNTTAACATCATTTTAAAAATCctct                                                                                                      >  2:436839/1‑275 (MQ=25)                                                                                                                                                                                        aCTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTtaa                                                                                                                                                                                                                  >  2:675981/1‑123 (MQ=255)                                                                                                                                                                                                       aGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAACGCAACAGTTATGTGAAAACATGGGGTTGCGGAGGTTTTTTGCATTAGACGAAAATTTACAGCAAAGGACACAGCCTCTGTTTTTGAACTATTGAAGAACGGAACAGGCCTCCGTGAAATACCGCATANCCTgggcgt                                           >  2:268181/1‑272 (MQ=25)                                                                                                                                                                                                                 cTATTACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAACGCAACAGTTATGTGAAAACATGGGGTTGCGGAGGTTTTTTGAATGAGACGAACATTTACAGCAGTGGAAAAAGCCTCTGTTTTTGAACTATGGAAGAACGGAACAGGCTTCAGTGAAATAGCGAATATCCTGGGTTCAAAACCCGGa                                 <  1:436846/275‑1 (MQ=255)                                                                                                                                                                                                                          aTTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAAt                                                                                                                                                                                            >  1:92799/1‑111 (MQ=255)                                                                                                                                                                                                                              aaGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAATTGGt                                                                                                                                                                                        <  2:92798/111‑1 (MQ=255)                                                                                                                                                                                                                                     atTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAAt                                                                                                                                                                                                                        >  2:104643/1‑72 (MQ=255)                                                                                                                                                                                                                                         gTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGtt                                                                                                                                                                                                                    <  1:104644/72‑1 (MQ=255)                                                                                                                                                                                                                                                taggttacAGGGGANAAGGCTAAAAAACAGAAATTGATTATTGTGATTCCGGGGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAACGCAACAGTTATGTGAAAACATGGGGTTGCGGAGGTTTTTTGAATGAGACGAACATTTACAGCAGAGGAAAAAGCCTCTGTTTTTGAACTATGGAAGAACGGAACAGGCTTCAGTGAAATAGCGAATATCCTGGGTTCAAAACCCGGAACGATCTTCACTATGTTAAGGGATACTggcg  <  2:529556/268‑1 (MQ=14)                                                                                                                                                                                                                                                              ccAGTCTAAACCCCAGAACTTACTTATGGTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAACGCAACAGTTATGTGAAAACATGGGGTTGCGGAGGTTTTTTGAATGAGACGAACATTTACAGCAGAGGAAAAAGCCTCTGTTTTTGAACTATGGAAGAACGNAACAGGCTTCAGTGAAATAGCGAATATCCTGGGTTCAAAACCCGGAACGATCTTCACTATGTTAAGGGATACt      >  1:529565/1‑257 (MQ=255)                                                                                                                                                                                                                                                                     |                                                                                                                                                                                                                                                              TTCCTTCCTGGTATTGCTTACGCCAGAGAAATAACTGGCTGGCTGCTACACCATGTTGCCGGGCAACGAGGGAGACCGTCATCCCCG‑GTTCAAAGCTCTGCTGAACAATTGCGATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAACGCAACAGTTATGTGAAAACATGGGGTTGCGGAGGTTTTTTGAATGAGACGAACATTTACAGCAGAGGAAAAAGCCTCTGTTTTTGAACTATGGAAGAACGGAACAGGCTTCAGTGAAATAGCGAATATCCTGGGTTCAAAACCCGGAACGATCTTCACTATGTTAAGGGATACTGGCG  >  CP009273/1463238‑1463750

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 32 ≤ 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.