New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP009273	3463508 =	3 (0.230)	15 (1.180)	13/162	0.1	83.7%	coding (1181/1185 nt)	tuf	elongation factor Tu
	?	NZ_CP009273	= 3577553	NA (NA)					intergenic (+13/‑211)	BW25113_RS17830/BW25113_RS25760	IS1‑like element IS1A family transposase/hypothetical protein

TCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATT  >  NZ_CP009273/3577473‑3577628                                                                                 |                                                                            tctcAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTa                                                                    >  1:47317/1‑90 (MQ=33)           ggTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACtt                                                          >  1:219089/1‑90 (MQ=255)                 gCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGa                                                    <  2:219089/90‑1 (MQ=255)                                      gCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGcac                               <  2:13448/90‑1 (MQ=255)                                      gCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGcac                               <  2:136476/90‑1 (MQ=255)                                         ttATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGa                            <  2:53625/90‑1 (MQ=255)                                                    tAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCa                 <  2:263567/90‑1 (MQ=255)                                                            tATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGttt         >  2:78926/1‑90 (MQ=255)                                                                aaTAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTg     <  1:261052/90‑1 (MQ=255)                                                                aaTAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTg     <  2:329917/90‑1 (MQ=255)                                                                   aaGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGAtt  >  2:334749/1‑90 (MQ=255)                                                                       tGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGata                                         >  1:71408/1‑47 (MQ=255)                                                                       tGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGata                                         <  2:71408/47‑1 (MQ=255)                                                                                 |                                                                            TCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATT  >  NZ_CP009273/3577473‑3577628

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ 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.