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

TTGTCGGTAGCAGACGGTCTGAAAACCTGGACAGTGTTAACGACCATTCTCGGTTTTACCGGATTCTTAATTACCTGGTGCGTATGGGCGGTAATTTGACCTTAATAAAAAGGTCCGATGGGCATCGGACCTTTTATTGTGCACAGAAAAGGCCAGCCTCGCTTGAGACTGGCCTTTCTGACAGATGCTTACTTACTCGCGGAACAGCGCTTCGATATTCAGCCCCTGCGTTTGCA  >  NC_000913_3_pae_pgi/2866367‑2866602                                                                                                                                                    |                                                                                         ttGTCGGTAGCAGACGGTCTGAAAACCTGGACAGTGTTAACGACCATTCTCGGTTTTACCGGATTCTTAATTACCTGGTGCGTATGGGCGGTAATTTGACCTTAATAAAAAGGTCCGATGGGCATCGGACCTTTTATTGTGCACAGgaaa                                                                                        <  1:22801/150‑1 (MQ=255) ttGTCGGTAGCAGACGGTCTGAAAACCTGGACAGTGTTAACGACCATTCTCGGTTTTACCGGATTCTTAATTACCTGGTGCGTATGGGCGGTAATTTGACCTTAATAAAAAGGTCCGATGGGCATCGGACCTTTTATTGTGCACAGgaaa                                                                                        <  1:22815/150‑1 (MQ=255)      agatgtaggtcgtgaaattggcctcacccgtgaacgtgttcgccagattcaggttgaaggcctgcgccgtttgcgcgaaatcctgcaaacgcaggggctgaatatcgaagcgctgttccgcgagtaagtaagcatctgtcagAAAGGCCa                                                                                   >  1:64878‑M1/143‑150 (MQ=255)                                         gtgttcgccagattcaggttgaaggcctgcgccgtttgcgcgaaatcctgcaaacgcaggggctgaatatcgaagcgctgttccgcgagtaagtaagcatctgtcagAAAGGCCAGCCTCGCTTGAGACTGGCCTTTCTGACAGATGctt                                                >  1:94754‑M1/108‑150 (MQ=255)                                                   cGGTTATACCGGATTCTTAATTACCTGGTGCGTATGGGCGGTAATTTGACCTTAATAAAAAGGTCCGATGGGCATCGGACCTTTTATTGTGCACAGAAAAGGCCAGCCTCGCTTGAGACTGGCCTTTCTGACAGATGCTTACTTACTcgt                                      <  4:101106/150‑2 (MQ=255)                                                           ccGGATTCTTAATTACCTGGTGCGTATGGGCGGTAATTTGACCTTAATAAAAAGGTCCGATGGGCATCGGACCTTTTATTGTGCACAGAAAAGGCCAGCCTCGCTTGAGACTGGCCttt                                                             <  3:12157/119‑1 (MQ=255)                                                           ccGGATTCTTAATTACCTGGTGCGTATGGGCGGTAATTTGACCTTAATAAAAAGGTCCGATGGGCATCGGACCTTTTATTGTGCACAGAAAAGGCCAGCCTCGCTTGAGACTGGCCttt                                                             >  4:12157/1‑119 (MQ=255)                                                                                gcgaaatcctgcaaacgcaggggctgaatatcgaagcgctgttccgcgagtaagtaagcatctgtcagaaa                                                                                        >  1:56922‑M1/69‑71 (MQ=255)                                                                                gcgaaatcctgcaaacgcaggggctgaatatcgaagcgctgttccgcgagtaagtaagcatctgtcagaaa                                                                                        <  2:56922‑M1/3‑1 (MQ=255)                                                                                       ggCGGTAATTTGACCTTAATAAAAAGGTCCGATGGGCATCGGACCTTTTATTGTGCACAGAAAAGGCCAGCCTCGCTTGAGACTGGCCTTTCTGACAGATGCTTACTTACTCGCGGAACAGCGCTTCGATATTCAGCCCCTGCGTTTGcg  >  2:85012/1‑149 (MQ=255)                                                                                                  aggggctgaatatcgaagcgctgttccgcgagtaagtaagcatctgtcagAAAGGCCAGCCTCGCTTGAGACTGGCCttt                                                             <  1:9574‑M1/30‑1 (MQ=255)                                                                                                  aggggctgaatatcgaagcgctgttccgcgagtaagtaagcatctgtcagAAAGGCCAGCCTCGCTTGAGACTGGCCttt                                                             >  2:9574‑M1/51‑80 (MQ=255)                                                                                                                                                    |                                                                                         TTGTCGGTAGCAGACGGTCTGAAAACCTGGACAGTGTTAACGACCATTCTCGGTTTTACCGGATTCTTAATTACCTGGTGCGTATGGGCGGTAATTTGACCTTAATAAAAAGGTCCGATGGGCATCGGACCTTTTATTGTGCACAGAAAAGGCCAGCCTCGCTTGAGACTGGCCTTTCTGACAGATGCTTACTTACTCGCGGAACAGCGCTTCGATATTCAGCCCCTGCGTTTGCA  >  NC_000913_3_pae_pgi/2866367‑2866602

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ 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.