New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	2771956 =	51 (0.490)	7 (0.070)	6/428	NT	12.1%	intergenic (+341/+46)	yfjT/yfjU	CP4‑57 prophage; putative periplasmic protein/CP4‑57 prophage; conserved protein;Phage or Prophage Related
	?	NC_000913	= 2997691	NA (NA)					noncoding (1/1331 nt)	IS2	repeat region

TCTCTGTCACTTTGTAATTAGATACTGATATGAGCAACATTACCATCTATCACAACCCGGCCTGTGGCACCTCACGCAACACGCTGGAGATGCTTCATAACAACGGCAACGAACCGACAATAATTAATTATCTCGATATGCCACCGACCCGTGATGAACTGATTAAACTTATTTCAGATATCTTCAGTGACAAAATCATCGAGTGCATCAGGGAGCAATGTCACCTGAt‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/2772183‑2771956 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTTATTTCTCTGGC  <  NC_000913/2997691‑2997453                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     TCTCTGTCACTTTGTAATTAGATACTGATATGAGCAACATTACCATCTATCACAACCCGGCCTGTGGCACCTCACGCAACACGCTGGAGATGCTTCATAACAACGGCAACGAACCGACAATAATTAATTATCTCGATATGCCACCGACCCGTGATGAACTGATTAAACTTATTTCAGATATCTTCAGTGACAAAATCATCGAGTGCATCAGGGAGCAATGTCACCTGATAGACTGGCC                                                                                                                                                                                                                                       <  1:432867/238‑1                                                        CCCGGCCTGTGGCACCTCACGCAACACGCTGGAGATGCTTCATAACAACGGCAACGAACCGACAATAATTAATTATCTCGATATGCCACCGACCCGTGATGAACTGATTAAACTTATTTCAGATATCTTCAGTGACAAAATCATCGAGTGCATCAGGGAGCAATGTCACCTGATAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAA                                                                                                                                                                                                       <  1:1136129/215‑1                                                        CCCGGCCTGTGGCACCTCACGCAACACGCTGGAGATGCTTCATAACAACGGCAACGAACCGACAATAATTAATTATCTCGATATGCCACCGACCCGTGATGAACTGATTAAACTTATTTCAGATATCTTCAGTGACAAAATCATCGAGTGCATCAGGGAGCAATGTCACCTGATAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAA                                                                                                                                                                                                       >  2:1136129/1‑215                                                            GCCTGTGGCACCTCACGCAACACGCTGGAGATGCTTCATAACAACGGCAACGAACCGACAATAATTAATTATCTCGATATGCCACCGACCCGTGATGAACTGATTAAACTTATTTCAGATATCTTCAGTGACAAAATCATCGAGTGCATCAGGGAGCAATGTCACCTGATAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTT                                                                                                                                                                           >  1:676212/1‑239                                                            GCCTGTGGCACCTCACGCAACACGCTGGAGATGCTTCATAACAACGGCAACGAACCGACAATAATTAATTATCTCGATATGCCACCGACCCGTGATGAACTGATTAAACTTATTTCAGATATCTTCAGTGACAAAATCATCGAGTGCATCAGGGAGCAATGTCACCTGATAGACTGGCCCCCTGAATCTCCAGACAACCAATATC                                                                                                                                                                                                             >  1:418492/1‑205                                                            GCCTGTGGCACCTCACGCAACACGCTGGAGATGCTTCATAACAACGGCAACGAACCGACAATAATTAATTATCTCGATATGCCACCGACCCGTGATGAACTGATTAAACTTATTTCAGATATCTTCAGTGACAAAATCATCGAGTGCATCAGGGAGCAATGTCACCTGATAGACTGGCCCCCTGAATCTCCAGACAACCAATATC                                                                                                                                                                                                             <  2:418492/205‑1                                                                                                    ACAACGGCAACGAACCGACAATAATTAATTATCTCGATATGCCACCGACCCGTGATGAACTGATTAAACTTATTTCAGATATCTTCAGTGACAAAATCATCGAGTGCATCAGGGAGCAATGTCACCTGATAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGC                                                                                                                                   <  2:519974/239‑1                                                                                                                                                                                                                                     TAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTTATTTCTCTGcc  >  2:546921/1‑237                                                                                                                                                                                                                                     TAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTTATTTCTCTGGC  <  1:298651/239‑1                                                                                                                                                                                                                                     TAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTTATTTCTCTGGC  <  1:955911/239‑1                                                                                                                                                                                                                                     TAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTTATTTCTCTGGC  <  2:798850/239‑1                                                                                                                                                                                                                                     TAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTGTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTTATTTCTCTGGC  <  2:1049448/239‑1                                                                                                                                                                                                                                     TAGACTGGCCCCCTGAATCTACAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTTATTTCTCTGGC  <  2:581398/239‑1                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     TCTCTGTCACTTTGTAATTAGATACTGATATGAGCAACATTACCATCTATCACAACCCGGCCTGTGGCACCTCACGCAACACGCTGGAGATGCTTCATAACAACGGCAACGAACCGACAATAATTAATTATCTCGATATGCCACCGACCCGTGATGAACTGATTAAACTTATTTCAGATATCTTCAGTGACAAAATCATCGAGTGCATCAGGGAGCAATGTCACCTGAt‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/2772183‑2771956 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTTATTTCTCTGGC  <  NC_000913/2997691‑2997453

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ 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.