New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP009273	= 1972751	0 (0.000)	50 (2.770)	32/164	0.0	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                                                                                                                                                                                 TCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAA                                                                                       <  2:83581/90‑1  CGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAG                                                                                      >  2:83769/1‑90    TCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGT                                                                                    >  2:76787/1‑90       CTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCG                                                                                 >  2:348295/1‑90             GCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAG                                                                           <  2:171074/90‑1              CACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGT                                                                          >  1:340947/1‑90                 ATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCC                                                                       <  2:447390/90‑1                 ATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCC                                                                       >  1:29409/1‑90                 ATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGG                                                                                     >  2:458328/1‑76                 ATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGG                                                                                     <  1:458328/76‑1                        GGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACA                                                                             <  1:481087/77‑1                        GGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACA                                                                             >  2:481087/1‑77                              GGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCA                                                          >  1:309484/1‑90                              GGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATAT                                                                 >  1:521520/1‑83                              GGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATAT                                                                 <  2:521520/83‑1                                GCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAAC                                                                              >  2:337473/1‑68                                GCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAAC                                                                              <  1:337473/68‑1                                     GATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGT                                                   >  1:381342/1‑90                                             ATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGA                                           <  1:432893/90‑1                                             ATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGA                                           <  2:28563/90‑1                                               AATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGC                                         <  2:84726/90‑1                                                ATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCC                                        >  2:288680/1‑90                                                ATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATA                                                                  <  1:250214/64‑1                                                ATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATA                                                                  >  2:250214/1‑64                                                  GCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCAT                                      <  1:76787/90‑1                                                  GCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCAT                                      <  2:224983/90‑1                                                  GCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCAT                                      <  1:348295/90‑1                                                  GCGTGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCAT                                      <  2:381342/90‑1                                                     TGATGCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGA                                   >  1:221027/1‑90                                                         GCAGATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAG                               <  1:126372/90‑1                                                            GATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGT                            <  2:163384/90‑1                                                            GATCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGT                            <  2:215998/90‑1                                                              TCACACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTC                          >  1:36772/1‑90                                                                 CACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATC                       >  2:20977/1‑90                                                                 CACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATC                       >  2:55422/1‑90                                                                 CACAAAACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATC                       >  2:221693/1‑90                                                                      AACACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAG                  <  2:505618/90‑1                                                                        CACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACA                                <  2:401980/74‑1                                                                        CACTCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACA                                >  1:401980/1‑74                                                                           TCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATC             >  2:388383/1‑90                                                                           TCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATA                                                                  <  2:187377/37‑1                                                                           TCAATTACTTAAGGAAGGTGCGAACAAGTCCCTGATA                                                                  >  1:187377/1‑37                                                                                 ACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATG                    <  2:427480/77‑1                                                                                 ACTTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATG                    >  1:427480/1‑77                                                                                   TTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACC     >  1:81129/1‑90                                                                                   TTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACC     >  1:226709/1‑90                                                                                    TAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCT    <  2:460921/90‑1                                                                                      AGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTC  >  2:162760/1‑90                                                                                      AGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAAC          >  2:323359/1‑82                                                                                      AGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAAC          <  1:323359/82‑1                                                                                                                                                                                 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 < 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.