New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP009273	= 1391494	NA (NA)	9 (0.760)	8/166	0.3	100%	intergenic (+145/‑128)	BW25113_RS06980/ynaJ	IS5‑like element IS5 family transposase/DUF2534 family protein
	?	NZ_CP009273	1972747 =	0 (0.000)					intergenic (‑293/‑487)	flhD/uspC	flagellar transcriptional regulator FlhD/universal stress protein UspC

ACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAA  >  NZ_CP009273/1972659‑1972829                                                                                         |                                                                                   catttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttcct                                                                                   <  1:214925‑M2/2‑1 (MQ=255)        gggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttcCTTAACATa                                                                            <  1:296934‑M2/9‑1 (MQ=255)         ggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttcCTTAACATaa                                                                           <  2:231377‑M2/10‑1 (MQ=255)         cGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAggaag                                                                           >  2:332220‑M1/1‑85 (MQ=255)                        aTACAACGGAGGGGGCCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAggaaggtgcgaacaagtccc                                                            >  1:242909‑M1/1‑70 (MQ=255)                               ggAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAggaaggtgcgaacaagtccct                                                           <  1:266436‑M1/84‑22 (MQ=255)                               ggAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAggaaggtgcgaacaagtccct                                                           >  2:266436‑M1/1‑63 (MQ=255)                                 aagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttcCTTAACATAAATGTATAAGTCATACttttgtttt                                                   <  1:262660‑M2/34‑1 (MQ=255)                                  agaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttcCTTAACATAAATGTATAAGTCATACttttgttttg                                                  <  1:111992‑M2/35‑1 (MQ=255)                                    ggggCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAggaaggtgcgaacaagtccctgatatgagatc                                                <  1:56684‑M1/90‑33 (MQ=255)                                     gggCTGCGATTTTCAATAATCCGTGATGCAGATCACACAAAACACTCAATTACGTAAggaacgtgcgaacaagtccctgggatgagatca                                               >  1:234603‑M1/1‑57 (MQ=255)                                              actgagtcagccgagaagaatttccccgcttattcgcaccttcCTTAACATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCaa                                      <  2:7390‑M2/47‑1 (MQ=255)                                                            gaagaatttccccgcttattcgcaccttcCTTAACATaaa                                                                          >  1:162138‑M2/30‑40 (MQ=255)                                                            gaagaatttccccgcttattcgcaccttcCTTAACATaaa                                                                          <  2:162138‑M2/11‑1 (MQ=255)                                                                                  caccttcCTTAACATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCaaa  <  1:94088‑M2/83‑1 (MQ=255)                                                                                         |                                                                                   ACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAA  >  NZ_CP009273/1972659‑1972829

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