New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP009273	= 20563	NA (NA)	19 (0.950)	14/170	0.3	100%	intergenic (‑55/+252)	BW25113_RS00100/rpsT	IS1‑like element IS1A family transposase/30S ribosomal protein S20
	?	NZ_CP009273	481365 =	0 (0.000)					coding (149/648 nt)	acrR	multidrug efflux transporter transcriptional repressor AcrR

GGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCTACCTCAATGTGTATCACAATATCCATATTCTTTGTGGGGGAGTCTGGAGATTGAGTAGATATTCTTGTTCAGAATGTATCAGCCGAT  >  NZ_CP009273/20479‑20651                                                                                     |                                                                                         ggaggGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCacctacct                                                                                     >  1:470714/1‑90 (MQ=35)    gggACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCTACCTCaa                                                                                  <  2:164019/90‑1 (MQ=39)    gggACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCTACCTCaa                                                                                  <  1:125402/90‑1 (MQ=39)           cTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCTACCTCAATGTGTAt                                                                           <  1:127226/90‑1 (MQ=255)           cTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCTACCTCAATGTGTAt                                                                           >  1:334652/1‑90 (MQ=255)           cTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCTACCTCAATGTGTAt                                                                           <  1:340860/90‑1 (MQ=255)           cTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCTACCTCAATGTGTAt                                                                           >  1:460936/1‑90 (MQ=255)              aTAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCTACCTCAATGTGTATcac                                                                        <  1:245216/90‑1 (MQ=255)                 gAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCTACCTCAATGTGTATCACAat                                                                     <  2:360590/90‑1 (MQ=255)                 gAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCTACCTCAATGTGTATCACAat                                                                     <  2:334652/90‑1 (MQ=255)                 gAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCTACCTCAATGTGTATCACAat                                                                     <  1:536540/90‑1 (MQ=255)                 gAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCTACCTCAATGTGTATCACAat                                                                     <  1:52601/90‑1 (MQ=255)                    aCAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCTACCTCAATGTGTATCACAATATc                                                                  >  1:540376/1‑90 (MQ=255)                       gAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCTACCTCAATGTGTATCACAATATCCat                                                               >  2:559652/1‑90 (MQ=255)                                     aCCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCTTCCTCAATGTGTATCACAATATCCATATTCTTTGTggggg                                                 >  2:80152/1‑90 (MQ=255)                                     aCCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCTACCTCAATGTGTATCACAATATCCATATTCTTTGTggggg                                                 <  1:460388/90‑1 (MQ=255)                                       cTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCTTCCTCAATGTGTATCACAATATCCATATTCTTTGTGGGGGAg                                               <  1:80152/90‑1 (MQ=255)                                                 ccATCATACACTAAATCAGTAAGTTGGCAGCATCACCTACCTCAATGTGTATCACAATATCCATATTCTTTGTGGGGGAGTCTGGAGAtt                                     >  2:36265/1‑90 (MQ=255)                                                   atcatACACTAAATCAGTAAGTTGGCAGCATCACCTACCTCAATGTGTATCACAATATCCATATTCTTTGTGGGGGAGTCTGGAGATTGa                                   >  1:277463/1‑90 (MQ=255)                                                         cacTAAATCAGTAAGTTGGCAGCATCACCTACCTCCATGTGTATCACAATATCCATATTCTTTGTGGGGGAGTATGGAGATTGAGTCGat                             <  2:311356/90‑1 (MQ=38)                                                         cacTAAATCAGTAAGTTGGCAGCATCACCTACCTCAATGTGTATCACAATATCCATATTCTTTGTGGGGGAGTCTGGAGATTGAGTAGat                             >  2:238439/1‑90 (MQ=255)                                                             aaaTCAGTAAGTTGGCAGCATCACCTACCTCAATGTGTATCACAATATCCATATTCTTTGTGGGGGAGTCTGGAGATTGAGTAGATATTc                         >  1:154470/1‑90 (MQ=255)                                                              aaTCAGTAAGTTGGCAGCATCACCTACCTCAATGTGTATCACAATATCCATATTCTTTGTGGGGGAGTCTGGAGATTGAGTAGATATTCt                        >  2:323957/1‑90 (MQ=255)                                                              aaTCAGTAAGTTGGCAGCATCACCTACCTCAATGTGTATCACAATATCCATATTCTTTGTGGGGGAGTCTGGAGATTGAGTAGATATTCt                        <  2:330353/90‑1 (MQ=255)                                                                   gTAAGTTGGCAGCATCACCTACCTCAATGTGTATCACAATATCCATATTCTTTGTGGGGGAGTCTGGAGATTGAGTAGATATTCTTGTTc                   >  1:315440/1‑90 (MQ=255)                                                                   gTAAGTTGGCAGCATCACCTACCTCAATGTGTATCACAATATCCATATTCTTTGTGGGGGAGTCTGGAGATTGAGTAGATATTCTTGTTc                   >  2:453111/1‑90 (MQ=255)                                                                     aaGTTGGCAGCATCACCTACCTCAATGTGTATCACAATATCCATATTCTTTGTGGGGGAGTCTGGAGATTGAGTAGATATTCTTGTTCAg                 >  1:3797/1‑90 (MQ=255)                                                                       gTTGGCAGCATCACCTACCTCAATGTGTATCACAATATCCATATTCTTTGTGGGGGAGTCTGGAGATTGAGTAGATATTCTTGTTCAGaa               <  2:155686/90‑1 (MQ=255)                                                                         tGGCAGCATCACCTACCTCAATGTGTATCACAATATCCATATTCTTTGTGGGGGAGTCTGGAGATTGAGTAGATATTCTTGTTCAGAATg             >  1:377434/1‑90 (MQ=255)                                                                               caTCACCTACCTCAATGTGTATCACAATATCCATATTCTTTGTGGGGGAGTCTGGAGATTGAGTAGATATTCTTGTTCAGAATGTATCAg       <  2:470714/90‑1 (MQ=255)                                                                                    cctacctCAATGTGTATCCCAATAGCCATAGTCTTTGTGGGGGAGTCTGGAGATTGAGTAGATATTCTTGTTCAGAATGTATCAGCCGAt  <  2:321313/90‑1 (MQ=255)                                                                                     |                                                                                         GGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCTACCTCAATGTGTATCACAATATCCATATTCTTTGTGGGGGAGTCTGGAGATTGAGTAGATATTCTTGTTCAGAATGTATCAGCCGAT  >  NZ_CP009273/20479‑20651

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ 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.