New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 2798052	NA (NA)	6 (0.050)	4/166	NT	NA	intergenic (+8/+39)	ygaP/stpA	DUF2892 family inner membrane rhodanese/DNA binding protein, nucleoid‑associated
	?	NC_000913	= 2798082	NA (NA)					noncoding (30/30 nt)	REP192 (repetitive extragenic palindromic) element; contains 1 REP sequences	REP192 (repetitive extragenic palindromic) element; contains 1 REP sequences

TGTTGGTGCCGGGTTACTGTTTGCAGGAATCAGCGGTTTTTGTGGAATGGCAAGGTTGTTAGATAAGATGCCGTGGAACCAACGAGCTTGAGAAGCGACgccgga‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/2797954‑2798052 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCCGGATGTCGCTGCTAGGGCGCGTCCGGCGTCGCTTCTCAAGCTCGTTGGTTCCACGGCATCTTATCTAACAACCTTGCCATTCCACAAAAACCGCTGATTCCT  <  NC_000913/2798082‑2797978                                                                                                                                                                                                              TGTTGGTGCCGGGTTACTGTTTGCAGGAATCAGCGGTTTTTGTGGAATGGCAAGGTTGTTAGATAAGATGCCGTGGAACCAACGAGCTTGAGAAGCGACG                                                                                                          >  1:3705415/1‑100   TTGGTGCCGGGTTACTGTTTGCAGGAATCAGCGGTTTTTGTGGAATGGCAAGGTTGTTAGATAAGATGCCGTGGAACCAACGAGCTTGAGAAGCGACGCC                                                                                                        <  2:2493952/100‑1   TTGGTGCCGGGTTACTGTTTGCAGGAATCAGCGGTTTTTGTGGAATGGCAAGGTTGTTAGATAAGATGCCGTGGAACCAACGAGCTTGAGAAGCGACGCC                                                                                                        <  2:1340944/100‑1    TGGTGCCGGGTTACTGTTTGCAGGAATCAGCGGTTTTTGTGGAATGGCAAGGTTGTTAGATAAGATGCCGTGGAACCAACGAGCTTGAGAAGCGACGCCG                                                                                                       <  2:2770682/100‑1      GTGCCGGGTTACTGTTTGCAGGAATCAGCGGTTTTTGTGGAATGGCAAGGTTGTTAGATAAGATGCCGTGGAACCAACGAGCTTGAGAAGCGACGCCGGA                                                                                                     >  1:3003872/1‑100                               CAGCGGTTTTTGTTGAATGGCAAGGTTGTTAGATAAGATGCCGTGGAACCAACGAGCTTGAGAAGCGACGCCGGATGTCGCTGCTAGGGCGCGTCCGGCG                                                                            <  1:3050809/100‑1                                  CGGTTTTTGTGGAATGGCAAGGTTGTTAGATAAGATGCCGTGGAACCAACGAGCTTGAGAAGCGACGCCGGATGTCGCTGCTAGGGCGCGTCCGGCGTCG                                                                         <  2:2071661/100‑1                                  CGGTTTTTGTGGAATGGCAAGGTTGTTAGATAAGATGCCGTGGAACCAACGAGCTTGAGAAGCGACGCCGGATGTCGCTGCTAGGGCGCGTCCGGCGTCG                                                                         <  1:3052811/100‑1                                  CGGTTTTTGTGGAATGGCAAGGTTGTTAGATAAGATGCCGTGGAACCAACGAGCTTGAGAAGCGACGCCGGATGTCGCTGCTAGGGCGCGTCCGGCGTCG                                                                         <  2:1303329/100‑1                                    GTTTTTGTGGAATGGCAAGGTTGTTAGATAAGATGCCGTGGAACCAACGAGCTTGAGAAGCGACGCCGGATGTCGCTGCTAGGGCGCGTCCGGCGTCGCT                                                                       <  1:3100061/100‑1                                             GAATGGCAAGGTTGTTAGATAAGATGCCGTGGAACCAACGAGCTTGAGAAGCGACGCCGGATGTCGCTGCTAGGGCGCGTCCGGCGTCGCTTCTCAAGCT                                                              <  2:1250436/100‑1                                                                                                    GCCGGATGTCGCTGCTAGGGCGCGTCCGGCGTCGCTTCTCAAGCTCGTTGGTTCCACGGCATCTTATCTAACAACCTTGCCATTCCACAAAAACCGCTGA       >  1:1174279/1‑100                                                                                                    GCCGGATGTCGCTGCTAGGGCGCGTCCGGCGTCGCTTCTCAAGCTCGTTGGTTCCACGGCATCTTATCTAACAACCTTGCCATTCCACAAAAACCGCTGA       >  1:1158092/1‑100                                                                                                     CCGGATGTCGCTGCTCGGGCGCATCCGGCGTCGCTTCTCAATCTCGTTGTTTCCACGGCATCTTATCTAACAACCTTGCCATTCCACAAAAACCGCn         <  1:3415715/97‑2                                                                                                     CCGGATGTCGCTGCTAGCGCGCGTCCGGCGTCGCTTCTCAAGCTCGTTGGTTCCACGGCATCTTATCTAACAACATTGCCATTCCACAAAACCCGCTG        >  1:1373785/1‑98                                                                                                       GGATGTCGCTGCTAGGGCGCGTCCGGCGTCGCTTCTCAAGCTCGTTGGTTCCACGGCATCTTATCTAACAACCTTGCCATTCCACAAAAACCGCTGATTC    >  1:2157818/1‑100                                                                                                        GATGTCGCTGCTAGGGCGCGTCCGGCGTCGCTTCTCAAGCTCGTTGGTTCCACGGCATCTTATCTAACAACCTTGCCATTCCACAAAAACCGCTGATTCC   <  2:68818/100‑1                                                                                                         ATGTCGCTGCTAGGGCGCGTCCGGCGTCGCTTCTCAAGCTCGTTGGTTCCACGGCATCTTATCTAACAACCTTGCCATTCCACAAAAACCGCTGATTCCT  <  2:1989326/100‑1                                                                                                                                                                                                              TGTTGGTGCCGGGTTACTGTTTGCAGGAATCAGCGGTTTTTGTGGAATGGCAAGGTTGTTAGATAAGATGCCGTGGAACCAACGAGCTTGAGAAGCGACgccgga‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/2797954‑2798052 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCCGGATGTCGCTGCTAGGGCGCGTCCGGCGTCGCTTCTCAAGCTCGTTGGTTCCACGGCATCTTATCTAACAACCTTGCCATTCCACAAAAACCGCTGATTCCT  <  NC_000913/2798082‑2797978

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.