New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP009273	= 1391495	NA (NA)	6 (0.400)	6/166	0.8	100%	intergenic (+146/‑127)	BW25113_RS06980/ynaJ	IS5‑like element IS5 family transposase/DUF2534 family protein
	?	NZ_CP009273	1903069 =	0 (0.000)					intergenic (‑46/‑113)	mgrB/yobH	PhoP/PhoQ regulator MgrB/YobH family protein

ACGACAACCAGAACGACCCATCGAAACTTTTTCACTCCAATCTCCGTTTCACCTACCTTATGTCATTAAACTAGCATGCGTTAGTTAAACAGCGCCTAACTATGTCGATATTCGTGCTTTTTCGGAATGAGTCGCTTGCTTCAGCGCATATTGCCGCTACGA  >  NZ_CP009273/1902989‑1903150                                                                                 |                                                                                  gagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccTTAGTTAAAc                                                                          >  2:58379‑M2/81‑90 (MQ=255) acGACAACCAGAACGACCCATCGAAACTTTTTCACTCCAATCTCCGTTTCACCTACCTTATGTCATTAAACTAGCATGCGTTAGggaagg                                                                          >  1:437298‑M1/1‑84 (MQ=255) acGACAACCAGAACGACCCATCGAAACTTTTTCACTCCAATCTCCGTTTCACCTACCTTATGTCATTAAACTAGCATGCGTTAGggaagg                                                                          <  2:380062‑M1/90‑7 (MQ=255)   gaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccTTAGTTAAACAg                                                                        <  1:216312‑M2/12‑1 (MQ=255)         cAGAACGACCCATCGAAACTTTTTCACTCCAATCTCCGTTTCACCTACCTTATGTCATTAAACTAGCATGCGTTAGggaaggtgcgaaca                                                                  <  1:43776‑M1/90‑15 (MQ=255)                 cccATCGAAACTTTTTCACTCCAATCTCCGTTTCACCTACCTTATGTCATTAAACTAGCATGCGTTAGggaaggtgcgaacaagtccctg                                                          <  2:302142‑M1/90‑23 (MQ=255)                                 aatgactgagtcagccgagaagaatttccccgcttattcgcaccttccTTAGTTAAACAGCGCCTAACTATGTCGATATTCGTGCttttt                                          >  1:341198‑M2/49‑90 (MQ=255)                                     ccAATCTCCGTTTCACCTACCTTATGTCATTAAACTAGCATGCGTTAGggaaggtgcgaacaagtccctgatatgagatcatgtttgtca                                      >  1:19320‑M1/1‑48 (MQ=255)                                                 tCACCTACCTTATGTCATTAAACTAGCATGCGTTAGggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccata                          >  2:209430‑M1/1‑36 (MQ=255)                                                     agaatttccccgcttattcgcaccttccTTAGTTAAACAGCGCCTAACTATGTCGATATTCGTGCTTTTTCGGAATGAGTCGCTTGCTTc                      <  1:165253‑M2/62‑1 (MQ=255)                                                        atttccccgcttattcgcaccttccTTAGTTAAACAGCGCCTAACTATGTCGATATTCGTGCTTTTTCGGAATGAGTCGCTTGCTTCAgc                   >  2:67419‑M2/26‑90 (MQ=255)                                                            aTGTCATTAAACTAGCATGCGTTAGggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttc               >  2:402738‑M1/1‑25 (MQ=255)                                                                 cttattcgcaccttccTTAGTTAAACAGCGCCTAACTATGTCGATATTCGTGCTTTTTCGGAATGAGTCGCTTGCTTCAGCGCATATTGc          <  2:62746‑M2/74‑1 (MQ=255)                                                                 aTTAAACTAGCATGCGTTAGggaaggtgcgaacaagt                                                               <  2:125463‑M1/37‑18 (MQ=255)                                                                 aTTAAACTAGCATGCGTTAGggaaggtgcgaacaagt                                                               >  1:125463‑M1/1‑20 (MQ=255)                                                                         aGCATGCGTTAGggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatc  >  2:133027‑M1/1‑12 (MQ=255)                                                                         aGCATGCGTTAGggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatc  <  2:437298‑M1/90‑79 (MQ=255)                                                                                 |                                                                                  ACGACAACCAGAACGACCCATCGAAACTTTTTCACTCCAATCTCCGTTTCACCTACCTTATGTCATTAAACTAGCATGCGTTAGTTAAACAGCGCCTAACTATGTCGATATTCGTGCTTTTTCGGAATGAGTCGCTTGCTTCAGCGCATATTGCCGCTACGA  >  NZ_CP009273/1902989‑1903150

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ 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.