New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	2771953 =	51 (0.480)	7 (0.070)	6/428	NT	12.1%	intergenic (+340/+47)	yfjT/yfjU	CP4‑57 prophage, putative periplasmic protein/CP4‑57 prophage, conserved protein,Phage or Prophage Related
	?	NC_000913	= 2997688	NA (NA)					intergenic (‑90/+2)	insC1/ygeQ	IS2 repressor TnpA/pseudogene, glycosyl hydrolase family 15, part of T3SS PAI ETT2 remnant

TCTCTGTCACTTTGTAATTAGATACTGATATGAGCAACATTACCATCTATCACAACCCGGCCTGTGGCACCTCACGCAACACGCTGGAGATGCTTCATAACAACGGCAACGAACCGACAATAATTAATTATCTCGATATGCCACCGACCCGTGATGAACTGATTAAACTTATTTCAGATATCTTCAGTGACAAAATCATCGAGTGCATCAGGGAGCAATGTCACCTGAT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/2772181‑2771953 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTTATTTCTCTGGC  <  NC_000913/2997688‑2997451                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     TCTCTGTCACTTTGTAATTAGATACTGATATGAGCAACATTACCATCTATCACAACCCGGCCTGTGGCACCTCACGCAACACGCTGGAGATGCTTCATAACAACGGCAACGAACCGACAATAATTAATTATCTCGATATGCCACCGACCCGTGATGAACTGATTAAACTTATTTCAGATATCTTCAGTGACAAAATCATCGAGTGCATCAGGGAGCAATGTCACCTGATAGACTGGCC                                                                                                                                                                                                                                       <  2:432867/238‑1                                                        CCCGGCCTGTGGCACCTCACGCAACACGCTGGAGATGCTTCATAACAACGGCAACGAACCGACAATAATTAATTATCTCGATATGCCACCGACCCGTGATGAACTGATTAAACTTATTTCAGATATCTTCAGTGACAAAATCATCGAGTGCATCAGGGAGCAATGTCACCTGATAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAA                                                                                                                                                                                                       >  1:1136129/1‑215                                                        CCCGGCCTGTGGCACCTCACGCAACACGCTGGAGATGCTTCATAACAACGGCAACGAACCGACAATAATTAATTATCTCGATATGCCACCGACCCGTGATGAACTGATTAAACTTATTTCAGATATCTTCAGTGACAAAATCATCGAGTGCATCAGGGAGCAATGTCACCTGATAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAA                                                                                                                                                                                                       <  2:1136129/215‑1                                                            GCCTGTGGCACCTCACGCAACACGCTGGAGATGCTTCATAACAACGGCAACGAACCGACAATAATTAATTATCTCGATATGCCACCGACCCGTGATGAACTGATTAAACTTATTTCAGATATCTTCAGTGACAAAATCATCGAGTGCATCAGGGAGCAATGTCACCTGATAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTT                                                                                                                                                                           >  2:676212/1‑239                                                            GCCTGTGGCACCTCACGCAACACGCTGGAGATGCTTCATAACAACGGCAACGAACCGACAATAATTAATTATCTCGATATGCCACCGACCCGTGATGAACTGATTAAACTTATTTCAGATATCTTCAGTGACAAAATCATCGAGTGCATCAGGGAGCAATGTCACCTGATAGACTGGCCCCCTGAATCTCCAGACAACCAATATC                                                                                                                                                                                                             <  1:418492/205‑1                                                            GCCTGTGGCACCTCACGCAACACGCTGGAGATGCTTCATAACAACGGCAACGAACCGACAATAATTAATTATCTCGATATGCCACCGACCCGTGATGAACTGATTAAACTTATTTCAGATATCTTCAGTGACAAAATCATCGAGTGCATCAGGGAGCAATGTCACCTGATAGACTGGCCCCCTGAATCTCCAGACAACCAATATC                                                                                                                                                                                                             >  2:418492/1‑205                                                                                                    ACAACGGCAACGAACCGACAATAATTAATTATCTCGATATGCCACCGACCCGTGATGAACTGATTAAACTTATTTCAGATATCTTCAGTGACAAAATCATCGAGTGCATCAGGGAGCAATGTCACCTGATAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGC                                                                                                                                   <  1:519974/239‑1                                                                                                                                                                                                                                     TAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTTATTTCTCTGcc  >  1:546921/1‑237                                                                                                                                                                                                                                     TAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTTATTTCTCTGGC  <  1:798850/239‑1                                                                                                                                                                                                                                     TAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTTATTTCTCTGGC  <  2:298651/239‑1                                                                                                                                                                                                                                     TAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTTATTTCTCTGGC  <  2:955911/239‑1                                                                                                                                                                                                                                     TAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTGTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTTATTTCTCTGGC  <  1:1049448/239‑1                                                                                                                                                                                                                                     TAGACTGGCCCCCTGAATCTACAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTTATTTCTCTGGC  <  1:581398/239‑1                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     TCTCTGTCACTTTGTAATTAGATACTGATATGAGCAACATTACCATCTATCACAACCCGGCCTGTGGCACCTCACGCAACACGCTGGAGATGCTTCATAACAACGGCAACGAACCGACAATAATTAATTATCTCGATATGCCACCGACCCGTGATGAACTGATTAAACTTATTTCAGATATCTTCAGTGACAAAATCATCGAGTGCATCAGGGAGCAATGTCACCTGAT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/2772181‑2771953 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTTATTTCTCTGGC  <  NC_000913/2997688‑2997451

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.