New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_vch_pgi	3042303 =	NA (NA)	3 (0.170)	3/268	2.4	NA	intergenic (+10/+186)	ygfZ/yqfA	iron‑sulfur cluster repair protein, plumbagin resistance/hemolysin III family HylIII inner membrane protein
	?	NC_000913_3_vch_pgi	3042332 =	NA (NA)					noncoding (12/155 nt)	REP210 (repetitive extragenic palindromic) element; contains 3 REP sequences	REP210 (repetitive extragenic palindromic) element; contains 3 REP sequences

AGCGTCGCATCAGGCATCGGAGCACAACTGCCGGATTCGGCGTGAACGCCTTATCCGATCTACGGGCCTCGTCCCTGTTGTGATAAAGGCATCAAATCCCAGACATGATAAGACGCGCCAGCGTCGCATCAGGCGATAAATGCCTGATGCGA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_vch_pgi/3042454‑3042303 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcctgatgcgaCGCTGGCGCGTCTTATCATGTCTGGGATTTGATGCCTTTATCACAACAGGGACGAGGCCCGTAGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACAAA  >  NC_000913_3_vch_pgi/3042332‑3042478                                                                                                                                                                                                                                                                                                             AGCGTCGCATCAGGCATCGGAGCACAACTGCCGGATTCGGCGTGAACGCCTTATCCGATCTACGGGCCTCGTCCCTGTTGTGATAAAGGCATCAAATCCCAGACATGATAAGACGCGCCAGCGTCGCATCAGGCGATAAATGCCTGATG                                                                                                                                                        <  1:18600/149‑1    GTCGCATCAGGCATCGGAGCACAACTGGCGGATTCGGCGTGAACGCCTTATCCGATCTACGGGCCTCGTCCCTGTTGTGATAAAGGCATCAAATCCCAGACATGATAAGACGCGCCAGCGTCGCATCAGGCGATAAATGCCTGATGCGA                                                                                                                                                     <  1:41977/149‑1                                                                                                                                ATCAGGCGATAAATGCCTGATGCGACGCTGGCGCGTCTTATCATGTCTGGGCTTTGATGCCTTGATAACAACAAGGACGAGGCCCGTAGAACGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGCAGCTG                         >  1:99889/1‑149                                                                                                                                   AGGCGATAAATGCCTGATGCGACGCTGGCGCGTCTTATCATGTCTG                                                                                                                             >  1:114687/1‑46                                                                                                                                   AGGCGATAAATGCCTGATGCGACGCTGGCGCGTCTTATCATGTCTG                                                                                                                             <  2:114687/46‑1                                                                                                                                                       GACGCTGGCGCGTCTTATCATGTCTGGGATTTGATGCCTTTATCACAACAGGGACGAGGCCCGTAGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACAAA  >  1:171897/1‑149                                                                                                                                                       GACGCTGGCGCGTCTTATCATGTCTGGGATTTGATGCCTTTATCACAACAGGGACGAGGCCCGTAGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGCTGGCCCGGCTTATCAGGCCTACAAA  >  2:315675/1‑149                                                                                                                                                       GACGCTGGCGCGTCTTATCATGTCTGGGATTTGATGCCTTTATCACAACAGGGACGAGGCCCGTAGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGCAGGCGCGTCTTATCAGGCCTACAAA  >  1:114170/1‑149                                                                                                                                                       GACGCTGGCGCGTCTTATCATGTCTGGGATTTGATGCCTTTATCACAACAGGGACGAGGCCCGTAGATCGGATAAGGCGTTCACGCCGAATCCGGCA                                                      <  1:267399/97‑1                                                                                                                                                       GACGCTGGCGCGTCTTATCATGTCTGGGATTTGATGCCTTTATCACAACAGGGACGAGGCCCGTAGATCGGATAAGGCGTTCACGCCGAATCCGGCA                                                      >  2:267399/1‑97                                                                                                                                                                                                                                                                                                             AGCGTCGCATCAGGCATCGGAGCACAACTGCCGGATTCGGCGTGAACGCCTTATCCGATCTACGGGCCTCGTCCCTGTTGTGATAAAGGCATCAAATCCCAGACATGATAAGACGCGCCAGCGTCGCATCAGGCGATAAATGCCTGATGCGA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_vch_pgi/3042454‑3042303 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcctgatgcgaCGCTGGCGCGTCTTATCATGTCTGGGATTTGATGCCTTTATCACAACAGGGACGAGGCCCGTAGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACAAA  >  NC_000913_3_vch_pgi/3042332‑3042478

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ 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.