New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	4148421 =	NA (NA)	4 (0.050)	4/168	NT	NA	intergenic (‑104/+111)	yijO/eptC	AraC family putative transcriptional activator/LPS heptose I phosphoethanolamine transferase
	?	NC_000913	4148465 =	NA (NA)					noncoding (36/82 nt)	REP308 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP308 (repetitive extragenic palindromic) element; contains 2 REP sequences

CGCTATTTGCCGGATGCGACGCTTGACGCGTCTTATCCGGCCTACAGATCGCGGCGGTAGGCTGGATAAGGCGTTTACGCCACATCCGGCAATACAACTgccgc‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/4148519‑4148421 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCCGCGATCTGTAGGCCGGATAAGACGCGTCAAGCGTCGCATCCGGCAAATAGCGCCTGGCTGATAATTACTGATTACCCACCTGATCGCCATAGGGCAGTGT  >  NC_000913/4148465‑4148567                                                                                                                                                                                                            CGCTATTTGCCGGATGCGACGCTTGACGCGTCTTATCCGGCCTACAGATCGCGGCGGTAGGCTGGATAAGGCGTTTACGCCACATCCGGCAATACAACTG                                                                                                        >  1:2018639/1‑100  GCTATTTGCCGGATGCGACGCTTGACGCGTCTTATCCGGCCTACAGATCGCGGCGGTAGGCTGGATAAGGCGTTTACGCCACATCCGGCAATACAACTGC                                                                                                       <  1:272016/100‑1   CTATTTGCCGGATGCGACGCTTGACGCGTCTTATCCGGCCTACAGATCGCGGCGGTAGGCTGGATAAGGCGTTTACGCCACATCCGGCAATACAACTGCC                                                                                                      <  2:360212/100‑1   CTATTTGCCGGATGCGACGCTTGACGCGTCTTATCCGGCCTACAGATCGCGGCGGTAGGCTGGATAAGGCGTTTACGCCACATCCGGCAATACAACTG                                                                                                        >  1:1675953/1‑98    TATTTGCCGGATGCGACGCTTGACGCGTCTTATCCGGCCTACAGATCGCGGCGGTAGGCTGGATAAGGCGTTTACGCCACATCCGGCAATACAACTGCCG                                                                                                     <  2:2401192/100‑1    TATTTGCCGGATGCGACGCTTGACGCGTCTTATCCGGCCTACAGATCGCGGCGGTAGGCTGGATAAGGCGTTTACGCCACATCCGGCAATACAACTGCCG                                                                                                     <  2:2167870/100‑1                                        GCCTACAGATCGCGGCGGTAGGCTGGATAAGGCGTTTACGCCACATCCGGCAATACAACTGCCGCGATCTGTAGGCCGGATAAGACGCGTCAAGCGTCGC                                                                 >  1:740537/1‑100                                               GATCGCGGCGGTAGGCTGGATAAGGCGTTTACGCCACATCCGGCAATACAACTGCCGCGATCTGTAGGCCGGATAAGACGCGTCAAGCGTCGCATCCGGC                                                          >  1:377676/1‑100                                                ATCGCGGCGGTAGGCTGGATAAGGCGTTTACGCCACATCCGGCAATACAACTGCCGCGATCTGTAGGCCGGATAAGACGCGTCAAGCGTCGCATCCGGCA                                                         >  2:762387/1‑100                                                   GCGGCGGTAGGCTGGATAAGGCGTTTACGCCACATCCGGCAATACAACTGCCGCGATCTGTAGGCCGGATAAGACGCGTCAAGCGTCGCATCCGGCAAAT                                                      >  1:1445727/1‑100                                                                                                    GCCGCGATCTGTAGGCCGGATAAGACGCGTCAAGCGTCGCATCCGGCAAATAGCGCCTGGCTGATAATTACTGATTACCCACCTGATCGCCATAGGGCAG     <  1:2018938/100‑1                                                                                                     CCGCGATCTGTAGGCCGGATAAGACGCGTCAAGCGTCGCATCCGGCAAATAGCGCCTGGCTGATAATTACTGATTACCCACCTGATCGCCATAGGGCAGT    >  2:1670253/1‑100                                                                                                      CGCGATCTGTAGGCCGGATAAGACGCGTCAAGCGTCGCATCCGGCAAATAGCGCCTGGCTGATAATTACTGATTACCCACCTGATCGCCATAGGGCAGTG   <  1:699589/100‑1                                                                                                      CGCGATCTGTAGGCCGGATAAGACGCGTCAAGCGTCGCATCCGGCAAATAGCGCCTGGCTGATAATTACTGATTACCCACCTGATCGCCATAGGGCAGTG   <  2:2028380/100‑1                                                                                                      CGCGATCTGTAGGCCGGATAAGACGCGTCAAGCGTCGCATCCGGCAAATAGCGCCTGGCTGATAATTACTGATTACCCACCTGATCGCCATAGGGCAGTG   <  2:2276512/100‑1                                                                                                      CGCGATCTGTAGGCCGGATAAGACGCGTCAAGCGTCGCATCCGGCAAATAGCGCCTGGCTGATAATTACTGATTACCCACCTGATCGCCATAGGGCAGTG   >  1:1957125/1‑100                                                                                                       GCGATCTGTAGGCCGGATAAGACGCGTCAAGCGTCGCATCCGGCAAATAGCGCCTGGCTGATAATTACTGATTACCCACCTGATCGCCATAGGGCAGTGT  >  2:1775563/1‑100                                                                                                       GCGATCTGTAGGCCGGATAAGACGCGTCAAGCGTCGCATCCGGCAAATAGCGCCTGGCTGATAATTACTGATTACCCACCTGATCGCCATAGGGCAGTGT  >  1:1128354/1‑100                                                                                                       GCGATCTGTAGGCCGGATAAGACGCGTCAAGCGTCGCATCCGGCAAATAGCGCCTGGCTGATAATTACTGATTACCCACCTGATCGCCATAGGGCAGT    <  1:2081798/98‑1                                                                                                                                                                                                            CGCTATTTGCCGGATGCGACGCTTGACGCGTCTTATCCGGCCTACAGATCGCGGCGGTAGGCTGGATAAGGCGTTTACGCCACATCCGGCAATACAACTgccgc‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/4148519‑4148421 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCCGCGATCTGTAGGCCGGATAAGACGCGTCAAGCGTCGCATCCGGCAAATAGCGCCTGGCTGATAATTACTGATTACCCACCTGATCGCCATAGGGCAGTGT  >  NC_000913/4148465‑4148567

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ 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.