New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP009273	376748 =	NA (NA)	3 (0.080)	3/152	2.8	NA	intergenic (‑5/‑59)	BW25113_RS01855/BW25113_RS01870	transferase/IS3‑like element IS2 family transposase
	?	NZ_CP009273	376768 =	NA (NA)					intergenic (‑25/‑39)	BW25113_RS01855/BW25113_RS01870	transferase/IS3‑like element IS2 family transposase

CCAATTTTTACGCCATTGCTGATTATTGTGCCAGGACGAATAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGA  >  NZ_CP009273/376661‑376802                                                                                        |                                                       ccAATTTCTACGCCATTGCTGATTATTGTGCCAGGACCAATAAACGAATAATTACTAGGCTGGCCCCCTGAATCTCCAGACAACCAatat                                                      <  1:615321/90‑1 (MQ=37)  cAATTTTTACGCCATTGCTGATTATTGTGCCAGGACGAATAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATc                                                     <  1:519707/90‑1 (MQ=255)    aTTTTTACGCCATTGCTGATTATTGTGCCAGGACGAATAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCAc                                                   >  2:220095/1‑90 (MQ=255)    aTTTTTACGCCATTGCTGATTATTGTGCCAGGACGAATAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCAc                                                   >  1:689953/1‑90 (MQ=255)     tttttACGCCATTGCTGATTATTGTGCCAGGACGAATAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACt                                                  <  1:525410/90‑1 (MQ=255)           cGCCATTGCTGATTATTGTGCCAGGACGAATAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATa                                            <  2:459603/90‑1 (MQ=255)           cGCCATTGCTGATTATTGTGCCAGGACGAATAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATa                                            <  2:917484/90‑1 (MQ=255)                 tGCTGATTATTGTGCCAGGACGAATAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGAt                                      <  2:704439/90‑1 (MQ=255)                  gCTGATTATTGTGCCAGGACGAATAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATa                                     <  1:848511/90‑1 (MQ=255)                  gCTGATTATTATGCCACGACGAATAAAATCATAATTGCTTGACTGACGCCCTGAATCTCCAGACAACCAATCTCACTTAAAGAAGTAATa                                     <  2:375752/90‑1 (MQ=18)                   cTGATTATTGTGCCAGGACGAATAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAg                                    <  2:643946/90‑1 (MQ=255)                     gATTATTGTGCCAGGACGAATAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc                                  <  2:860436/90‑1 (MQ=255)                          ttGTGCCAGGACGAATAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAAt                             >  2:95723/1‑90 (MQ=255)                            gtgCCAGGACGAATAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATAc                           >  1:655545/1‑90 (MQ=255)                            gtgCCAGGACGAATAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATAc                           >  1:98326/1‑90 (MQ=255)                            gtgCCAGGACGAATAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATAc                           >  2:493777/1‑90 (MQ=255)                            gtgCCAGGACGAATAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATAc                           >  2:995995/1‑90 (MQ=255)                              gCCAGGACGAATAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTa                         <  1:220095/90‑1 (MQ=255)                              gCCAGGACGAATAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTa                         <  1:903270/90‑1 (MQ=255)                              gCCAGGACGAATAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTa                         <  1:550049/90‑1 (MQ=255)                              gCCAGGACGAATAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGCCTTAATACTa                         <  2:602110/90‑1 (MQ=255)                                 aGGACGAATAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGtt                      >  1:214354/1‑90 (MQ=255)                                   gACGAATAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTACTACTAGtttt                    <  2:602825/90‑1 (MQ=255)                                   gACGAATAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGtttt                    <  2:43860/90‑1 (MQ=255)                                      gAATAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATAc                           >  2:486032/1‑80 (MQ=255)                                      gAATAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATAc                           <  1:486032/80‑1 (MQ=255)                                        aTAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGAc               <  2:275958/90‑1 (MQ=255)                                        aTAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGAc               <  2:844879/90‑1 (MQ=255)                                        aTAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGAc               <  2:897136/90‑1 (MQ=255)                                                aTAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCAtt       <  1:397662/90‑1 (MQ=38)                                                     tACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGgaga  <  2:1489/90‑1 (MQ=31)                                                     tACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGgaga  <  1:671928/90‑1 (MQ=31)                                                                                        |                                                       CCAATTTTTACGCCATTGCTGATTATTGTGCCAGGACGAATAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGA  >  NZ_CP009273/376661‑376802

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ 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.