New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 1357753	NA (NA)	6 (0.060)	5/160	NT	NA	intergenic (‑85/+49)	ymjA/puuP	DUF2543 family protein/putrescine importer
	?	NC_000913	= 1357792	NA (NA)					noncoding (23/30 nt)	REP111 (repetitive extragenic palindromic) element; contains 1 REP sequences	REP111 (repetitive extragenic palindromic) element; contains 1 REP sequences

CGTGGTTCATTATTTGCCCCTGGGGTTAATGCGCTAAGCATAAGGGCGGATGATAGCACTCGTGATCCGGGTCATACATCTTTTTATAGTTAATGgcgcggcgc‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/1357659‑1357753 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCGCGGCGCATTATCCTGCCTGAGGGTAACGCGCCGCGCCATTAACTATAAAAAGATGTATGACCCGGATCACGAGTGCTATCATCCGCCCTTATGCTTAGCGCATTA  <  NC_000913/1357792‑1357685                                                                                                                                                                                                             CGTGGTTCATTATTTGCCGCTGGGGTTAATTCGCTAAGCATAAGTGCGGATGATAGCACTCGTGATCCGGGTCATACATCTTTTTATAGTTAATGGCGCG                                                                                                         <  2:2855309/100‑1  GTGGTTCATTATTTGCCCCTGGGGTTAATGCGCTAAGCATAAGGGCGGATGATAGCACTCGTGATCCGGGTCATACATCTTTTTATAGTTAATGGCGCGG                                                                                                        <  2:3226220/100‑1       TCATTATTTGCCCCTGGGGTTAATGCGCTAAGCATAAGGGCTGATGATAGCACTCGTGATCCAGGTCATACATCTTTTTATAGTTAATGGCaaggc                                                                                                       >  1:641920/1‑91                             ATGCGCTAAGCATAAGGGCGGATGATAGCACTCGTGATCCGGGTCATACATCTTTTTATAGTTAATGGCGCGGCGCATTATCCTGCCTGAGGGTAACGC                                                                              <  2:2201196/99‑1                                 GCTAAGCATAAGGGCGGATGATAGCACTCGTGATCCGGGTCATACATCTTTTTATAGTTAATGGCGCGGCGCATTATCCTGCCTGAGGGTAACGCGCCGC                                                                         <  1:2851710/100‑1                                  CTAAGCATAAGGGCGGATGATAGCACTCGTGATCCGGGTCATACATCTTTTTATAGTTAATGGCGCGGCGCATTATCCTGCCTGAGGGTAACGCGCCGCG                                                                        <  1:153065/100‑1                                  CTAAGCATAAGGGCGGATGATAGCACTCGTGATCCGGGTCATACATCTTTTTATAGTTAATGGCGCGGCGCATTATCCTGCCTGAGGGTAACGCGCCGCG                                                                        <  1:17435/100‑1                                   TAAGCATAAGGGCGGATGATAGCACTCGTGATCCGGGTCATACATCTTTTTATAGTTAATGGCGCGGCGCATTATCCTGCCTGAGGGTAACGCGCCGCGC                                                                       <  1:2537272/100‑1                                                 GATGATAGCACTCGTGATCCGGGTCATACATCTTTTTATAGTTAATGGCGCGGCGCATTATCCTGCCTGAGGGTAACGCGCCGCGCCATTAACTATAAA                                                          <  2:1117237/99‑1                                                                                                GCGCGGCGCATTATCCTGCCTGAGGGTAACGCGCCGCGCCATTAACTATAAAAAGATGTATGACCCGGATCACGAGTGCTATCATCCGCCCTTATGCTTA          <  2:3212771/100‑1                                                                                                 CGCGGCGCATTATCCTGCCTGAGGGTAACGCGCCGCGCCATTAACTATAAAAAGATGTATGACCCGGATCACGAGTGCTATCATCCGCCCTTATGCTTAG         <  2:395169/100‑1                                                                                                 CGCGGCGCATTATCCTGCCTGAGGGTAACGCGCCGCGCCATTAACTATAAAAAGATGTATGACCCGGATCACGAGTGCTATCATCCGCCCTTATGCTTAG         >  2:348886/1‑100                                                                                                 CGCGGCGCATTATCCTGCCTGAGGGTAACGCGCCGCGCCATTAACTATAAAAAGATGTATGACCCGGATCACGAGTGCTATCATCCGCCCTTATGCTT           >  2:125776/1‑98                                                                                                  GCGGCGCATTATCCTGCCTGAGGGTAACGCGCCGCGCCATTAACTATAAAAAGATGTATGACCCGGATCACGAGTGCTATCATCCGCCCTTATGCTTAGC        >  1:717484/1‑100                                                                                                   CGGCGCATTATCCTGCCTGAGGGTAACGCGCCGCGCCATTAACTATAAAAAGATGTATGACCCGGATCACGAGTGCTATCATCCGCCCTTATGCTTAGCG       <  1:2388112/100‑1                                                                                                      CGCATTATCCTGCCTGAGGGTAACGCGCCGCGCCATTAACTATAAAAAGATGTATGACCCGGATCACGAGTGCTATCATCCGCCCTTATGCTTAGCGCAT    >  2:2470869/1‑100                                                                                                      CGCATTATCCTGCCTGAGGGTAACGCGCCGCGCCATTAACTATAAAAAGATGTATGACCCGGATCACGAGTGCTATCATCCGCCCTTATGCTTAGCGCAT    <  1:2170825/100‑1                                                                                                       GCATTATCCTGCCTGAGGGTAACGCGCCGCGCCATTAACTATAAAAAGATGTATGACCCGGATCACGAGTGCTATCATCCGCCCTTATGCTTAGCGCATT   >  1:1498043/1‑100                                                                                                       GCATTATCCTGCCTGAGGGTAACGCGCCGCGCCATTAACTATAAAAAGATGTATGACCCGGATCACGAGTGCTATCATCCGCCCTTATGCTTAGCGCATT   >  2:36560/1‑100                                                                                                        CATTATCCTGCCTGAGGGTAACGCGCCGCGCCATTAACTATAAAAAGATGTATGACCCGGATCACGAGTGCTATCATCCGCCCTTATGCTTAGCGCATTA  <  2:612384/100‑1                                                                                                                                                                                                             CGTGGTTCATTATTTGCCCCTGGGGTTAATGCGCTAAGCATAAGGGCGGATGATAGCACTCGTGATCCGGGTCATACATCTTTTTATAGTTAATGgcgcggcgc‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/1357659‑1357753 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCGCGGCGCATTATCCTGCCTGAGGGTAACGCGCCGCGCCATTAACTATAAAAAGATGTATGACCCGGATCACGAGTGCTATCATCCGCCCTTATGCTTAGCGCATTA  <  NC_000913/1357792‑1357685

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.