New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP009273	= 1972751	1 (0.080)	17 (1.350)	13/170	0.1	94.4%	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

CGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACA  >  NZ_CP009273/1972688‑1972838                                                                |                                                                                        cGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAggaaggtgcgaacaagtccctgatat                                                               <  1:238842‑M1/90‑27 (MQ=255)  ggAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAggaaggtgcgaacaagtccctgatatg                                                              >  2:123442‑M1/1‑63 (MQ=255)  ggAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAggaaggtgcgaacaagtccctgatatg                                                              >  1:164664‑M1/1‑63 (MQ=255)        gggCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAggaaggtgcgaacaagtccctgatatgagatca                                                        >  1:72611‑M1/1‑57 (MQ=255)             gCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAggaaggtgcgaacaagtccctgatatgagatcatgttt                                                   >  2:122378‑M1/1‑52 (MQ=255)                  tttCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAggaaggtgcgaacaagtccctgatatgagatcatgtttgtcat                                              >  1:228731‑M1/1‑47 (MQ=255)                          atGCGTGATGCAGATCACACAAAACACTCAATTACTTAAggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagcc                                      >  1:338292‑M1/1‑39 (MQ=255)                                 aTGCAGATCACACAAAACACTCAATTACTTAAggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaac                               <  2:350098‑M1/90‑59 (MQ=255)                                   gCAGATCACACAAAACACTCAATTACTTAAggaaggtgcgaacaagtccctgatatgagattatgtttgtcatctggagccatagaacag                             <  1:156996‑M1/90‑61 (MQ=255)                                           cacaAAACACTCAATTACTTAAggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatc                     >  1:141905‑M1/1‑22 (MQ=255)                                           cacaAAACACTCAATTACTTAAggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatc                     >  1:56874‑M1/1‑22 (MQ=255)                                              aaaaCACTCAATTACTTAAggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatg                  <  2:228731‑M1/90‑72 (MQ=255)                                              aaaaCACTCAATTACTTAAggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatg                  <  1:122378‑M1/90‑72 (MQ=255)                                                    cTCAATTACTTAAggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcat            >  2:66461‑M1/1‑13 (MQ=255)                                                          tccTTAACATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGa      >  2:268848/3‑90 (MQ=255)                                                           aCTTAAggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatct                                            >  1:153119‑M1/1‑6 (MQ=255)                                                           aCTTAAggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatct                                            <  2:153119‑M1/51‑46 (MQ=255)                                                              tAAggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatcaacttacct  <  1:342160‑M1/90‑88 (MQ=255)                                                                |                                                                                        CGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACA  >  NZ_CP009273/1972688‑1972838

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