New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_pgi	2866514 =	NA (NA)	3 (0.200)	3/234	1.8	37.5%	intergenic (+49/+45)	ygbN/rpoS	putative transporter/RNA polymerase, sigma S (sigma 38) factor
	?	NC_000913_3_pae_pgi	2866544 =	5 (0.330)					intergenic (+79/+15)	ygbN/rpoS	putative transporter/RNA polymerase, sigma S (sigma 38) factor

CGACCATTCTCGGTTTTACCGGATTCTTAATTACCTGGTGCGTATGGGCGGTAATTTGACCTTAATAAAAAGGTCCGATGGGCATCGGACCTTTTATTGTGCACAGAAAAGGCCAGCCTCGCTTGAGACTGGCCTTTCTGACAGATGCTTACTTACTCGCGGAACAGCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACGGCGCAGGCCTTCAACCTGAATCTGGCGAACACGTTCACGGGTGAGGCCAATTTCACGACCTACATCT  >  NC_000913_3_pae_pgi/2866407‑2866685                                                                                                                                          |                                                                                                                                              gtgttcgccagattcaggttgaaggcctgcgccgtttgcgcgaaatcctgcaaacgcaggggctgaatatcgaagcgctgttccgcgagtaagtaagcatctgtcagAAAGGCCAGCCTCGCTTGAGACTGGCCTTTCTGACAGATGctt                                                                                                                                   >  1:94754‑M1/108‑150 (MQ=255)           cGGTTATACCGGATTCTTAATTACCTGGTGCGTATGGGCGGTAATTTGACCTTAATAAAAAGGTCCGATGGGCATCGGACCTTTTATTGTGCACAGAAAAGGCCAGCCTCGCTTGAGACTGGCCTTTCTGACAGATGCTTACTTACTcgt                                                                                                                         <  4:101106/150‑2 (MQ=255)                                               ggCGGTAATTTGACCTTAATAAAAAGGTCCGATGGGCATCGGACCTTTTATTGTGCACAGAAAAGGCCAGCCTCGCTTGAGACTGGCCTTTCTGACAGATGCTTACTTACTCGCGGAACAGCGCTTCGATATTCAGCCCCTGCGTTTGcg                                                                                     >  2:85012/1‑149 (MQ=255)                                                                                               aagcatctgtcagaaaggccagtctcaagcgaggctggcctttCTGACAGATGCTTACTTACTCGCGGAACAGCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACGGCGCAGGCCTTCAACCTGAATCTGGCGAacac                                     >  1:94754‑M2/44‑150 (MQ=255)                                                                                                            aaaggccagtctcaagcgaggctggcctttCTGACAGATGCTTACTTACTCGCGGAACAGCGCTTCGATATTCAGCCCCt                                                                                              <  1:9574‑M2/50‑1 (MQ=255)                                                                                                            aaaggccagtctcaagcgaggctggcctttCTGACAGATGCTTACTTACTCGCGGAACAGCGCTTCGATATTCAGCCCCt                                                                                              >  2:9574‑M2/31‑80 (MQ=255)                                                                                                                      cTCGCTTGAGACTGGCCTTTCTGACAGATGCTTACTTACTCGCGGAACAGCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACGGCGCAGGCCTTCAACCTGAATCTGGCGAACACGTTCACggg                            >  1:92831/1‑136 (MQ=255)                                                                                                                      cTCGCTTGAGACTGGCCTTTCTGACAGATGCTTACTTACTCGCGGAACAGCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACGGCGCAGGCCTTCAACCTGAATCTGGCGAACACGTTCACggg                            <  2:92831/136‑1 (MQ=255)                                                                                                                       tCGCTTGAGACTGGCCTTTCTGACAGATGCTTACTTACTCGCGGAACAGCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACGGCGCAGGCCTTCAACCTGAATCTGGCGAACACGTTCACGGGTGAGGCCAATTTCAc             >  2:95420/1‑150 (MQ=255)                                                                                                                                  tggcctttCTGACAGATGCTTACTTACTCGCGGAACAGCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACGGCGCAGGCCTTCAACCTGAATCTGGCGAACACGTTCACGGGTGAGGCCAATTTCACGACCTACATCt  >  1:64878‑M2/9‑150 (MQ=255)                                                                                                                                       tttCTGACAGATGCTTACTTACTCGCGGAACAGCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTcgc                                                                            >  1:56922‑M2/4‑71 (MQ=255)                                                                                                                                       tttCTGACAGATGCTTACTTACTCGCGGAACAGCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTcgc                                                                            <  2:56922‑M2/68‑1 (MQ=255)                                                                                                                                          |                                                                                                                                              CGACCATTCTCGGTTTTACCGGATTCTTAATTACCTGGTGCGTATGGGCGGTAATTTGACCTTAATAAAAAGGTCCGATGGGCATCGGACCTTTTATTGTGCACAGAAAAGGCCAGCCTCGCTTGAGACTGGCCTTTCTGACAGATGCTTACTTACTCGCGGAACAGCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACGGCGCAGGCCTTCAACCTGAATCTGGCGAACACGTTCACGGGTGAGGCCAATTTCACGACCTACATCT  >  NC_000913_3_pae_pgi/2866407‑2866685

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ 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.