New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP009273	= 1972751	0 (0.000)	45 (1.270)	28/168	0.1	100%	intergenic (‑297/‑483)	flhD/uspC	flagellar transcriptional regulator FlhD/universal stress protein UspC
	?	NZ_CP009273	= 2283592	NA (NA)					intergenic (‑68/‑387)	BW25113_RS11435/narP	IS5‑like element IS5 family transposase/nitrate/nitrite response regulator protein NarP

TCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NZ_CP009273/1972666‑1972751 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTC  <  NZ_CP009273/2283592‑2283504                                                                                                                                                                                 TCGTCACTACACGCACATACAACGGGGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAA                                                                                       <  1:497178/90‑1  CGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGAGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAG                                                                                      >  2:547172/1‑90       CTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCG                                                                                 >  1:476663/1‑90           ACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACA                                                                             <  1:1082401/90‑1            CGCACATACAACGGGGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAA                                                                            <  2:585501/90‑1              CACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGT                                                                          >  2:409537/1‑90                 ATACAACGGGGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCC                                                                       <  1:233820/90‑1                 ATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCC                                                                       <  2:333859/90‑1                      ACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATA                                                                  <  2:806190/90‑1                          gGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCC                                                                       <  1:846488/80‑1                          gGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCC                                                                       >  2:846488/2‑81                          AGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAG                                                              >  2:1117940/1‑90                            GGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGAT                                                            >  1:835359/1‑90                              GGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCA                                                          >  2:579372/1‑90                              GGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGT                                                                          >  2:738665/1‑74                              GGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGT                                                                          <  1:738665/74‑1                                GCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATG                                                        >  2:882325/1‑90                                   GCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTT                                                     >  1:1139163/1‑90                                     GATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGT                                                   <  1:488496/90‑1                                          TCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCT                                              <  1:348298/90‑1                                               AATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGC                                         <  1:752/90‑1                                                 TGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACA                                                                             >  2:47694/1‑52                                                 TGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACA                                                                             <  1:47694/52‑1                                                    GTGATGCAGATCACACGAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAG                                    >  2:354621/1‑90                                                     TGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAG                                    <  1:238195/89‑1                                                     TGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAG                                    >  2:238195/1‑89                                                       ATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAAC                                 <  1:97801/90‑1                                                            GATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGT                            >  2:596598/1‑90                                                            GATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGT                            >  2:215942/1‑90                                                              TCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCAT                                      <  2:1075012/78‑1                                                              TCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCAT                                      >  1:1075012/1‑78                                                              TCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCAT                                      >  1:793191/1‑78                                                              TCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCAT                                      <  2:793191/78‑1                                                                 CACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATC                       >  2:1028305/1‑90                                                                 CACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATC                       >  1:401673/1‑90                                                                 CACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATC                       >  1:599514/1‑90                                                                         ACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCA               <  2:401673/90‑1                                                                           TCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATC             >  1:549731/1‑90                                                                                   TTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACC     >  2:1142345/1‑90                                                                                   TTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACC     >  1:684064/1‑90                                                                                   TTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACC     >  1:63507/1‑90                                                                                   TTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATG                    <  1:743787/75‑1                                                                                   TTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATG                    >  2:743787/1‑75                                                                                    TAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCT    <  1:401696/90‑1                                                                                      AGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTC  >  1:507691/1‑90                                                                                                                                                                                 TCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NZ_CP009273/1972666‑1972751 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTC  <  NZ_CP009273/2283592‑2283504

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ 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.