New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP009273	1972818 =	2 (0.130)	7 (0.460)	6/258	0.8	77.8%	intergenic (‑364/‑416)	flhD/uspC	flagellar transcriptional regulator FlhD/universal stress protein UspC
	?	NZ_CP009273	2095230 =	NA (NA)					pseudogene (1/354 nt)	wbbL	N‑acetylglucosaminyl‑diphospho‑decaprenol L‑rhamnosyltransferase WbbL

ACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAAT  >  NZ_CP009273/1972680‑1972906                                                                                                                                           |                                                                                         acaTACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTcgctacgc                                                                                          >  1:251172/1‑139 (MQ=255)    aacgccttaaatggcgaagaaacggtctaaataggctgattcaaggcatttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccCTa                                                                                        <  1:163775‑M1/3‑1 (MQ=255)      cgccttaaatggcgaagaaacggtctaaataggctgattcaaggcatttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccCTagca                                                                                     >  1:248419‑M1/134‑139 (MQ=255)              atggcgaagaaacggtctaaataggctgattcaatgcatttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccCTAGCAAGCaaaaa                                                                             >  1:13291‑M1/126‑139 (MQ=255)                   cTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGggaaggtgcgaac                                                                          >  2:180018‑M1/1‑124 (MQ=255)                        aTTTTCAATAATGCGTGATGCAGATCTCACAAAACACTCAATTACTTAACATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGggaaggtgcgaacaagtccc                                                                   <  2:131153‑M1/139‑21 (MQ=255)                              aataatGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGggaaggtgcgaacaagtccctgatat                                                             <  2:268621‑M1/139‑27 (MQ=255)                                                ggcatttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGca                                           >  2:271363‑M1/92‑139 (MQ=255)                                                   cacaAAACACTCAATTACTTAACATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctgg                                        <  1:198143‑M1/139‑48 (MQ=255)                                                        aaCACTCAATTACTTAACATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagcca                                   <  1:180018‑M1/139‑53 (MQ=255)                                                               aaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTc                            >  1:247451‑M1/77‑139 (MQ=255)                                                                     ttAACATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggtt                       >  1:4661‑M1/1‑74 (MQ=255)                                                                              aTGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAatcat             <  1:213496/139‑1 (MQ=255)                                                                                 tataAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcat          <  2:251172‑M1/139‑78 (MQ=255)                                                                                         aTACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatcaacttac  >  1:22304‑M1/1‑54 (MQ=255)                                                                                         aTACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatcaacttac  >  2:70298‑M1/1‑54 (MQ=255)                                                                                                                           cttattcgcaccttccCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATggg                                                     >  1:46809‑M1/17‑54 (MQ=255)                                                                                                                           cttattcgcaccttccCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATggg                                                     <  2:46809‑M1/38‑1 (MQ=255)                                                                                                                                           |                                                                                         ACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAAT  >  NZ_CP009273/1972680‑1972906

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ 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.