New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	3558891 =	135 (0.940)	7 (0.050)	5/262	NT	5.2%	coding (624/1599 nt)	rtcR	DNA‑binding transcriptional activator RtcR
	?	NC_000913	3558925 =	126 (0.930)					coding (658/1599 nt)	rtcR	DNA‑binding transcriptional activator RtcR

CAGCGTCGACATGGCGGTATCGCCGCGCAGGGTGGCGCAGTTCACTTCCACAAACGCGCCGCTAAACTGATGCCGCGCCTGTTTTAACTCTAAGATGCGTCGCGCCAGAAATGACTTGCCCGCGCCGGTTGGACCGTTAAGCAGAATCG‑‑GCGCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3559044‑3558891 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cg‑‑gcgcgGGCAAGTCATTTCTGGCGCGACGCATCTTAGAGTTAAAACAGGCGCGGCATCAGTTTAGCGGCGCGTTTGTGGAAGTGAACTGCGCCACCCTGCGCGGCGATACCGCCATGTCGACGCTGTTTGGTCATGTAAAAGGCGCGTTTACCG  >  NC_000913/3558925‑3559072                                                                                                                                                                                                                                                                                                                  CAGCGTCGACATGGCGGTATCGCCGCGCAGGGTGGCGCAGTTCACTTCCACAAACGCGCCGCTAAACTGATGCCGCGCCTGTTTTAACTCTAAGATGCGTCGCGCCAGAAATGACTTGCCCGCGCCGGTTGGACCGTTAAGCAGAATCG‑‑G                                                                                                                                                          >  1:2019111/1‑150  AGCGTCGACATGGCGGTATCGCCGCGCAGGGTGGCGCAGTTCACTTCCACAAACGCGCCGCTAAACTGATGCCGCGCCTGTTTTAACTCTAAGATGCGTCGCGCCAGAAATGACTTGCCCGCGCCGGTTGGACCGTTAAGCAGAATCG‑‑GC                                                                                                                                                         >  2:903685/1‑150  AGCGTCGACATGGCGGTATCGCCGCGCAGGGTGGCGCAGTTCACTTCCACAAACGCGCCGCTAAACTGATGCCGCGCCTGTTTTAACTCTAAGATGCGTCGCGCCAGAAATGACTTGCCCGCGCCGGTTGGACCGTTAAGCAGAATCG‑‑GC                                                                                                                                                         <  2:2019111/150‑1  AGCGTCGACATGGCGGTATCGCCGCGCAGGGTGGCGCAGTTCACTTCCACAAACGCGCCGCTAAACTGATGCCGCGCCTGTTTTAACTCTAAGATGCGTCGCGCCAGAAATGACTTGCCCGCGCCGGTTGGACCGTTAAGCAGAATCG‑‑GC                                                                                                                                                         <  1:782401/150‑1   GCGTCGACATGGCGGTATCGCCGCGCAGGGTGGCGCAGTTCACTTCCACAAACGCGCCGCTAAACTGATGCCGCGCCTGTTTTAACTCTAAGATGCGTCGCGCCAGAAATGACTTGCCCGCGCCGGTTGGACCGTTAAGCAGAATCG‑‑GCG                                                                                                                                                        >  2:1697693/1‑150     GTCGACATGGCGGTATCGCCGCGCAGGGTGGCGCAGTTCACTTCCACAAACGCGCCGCTAAACTGATGCCGCGCCTGTTTTAACTCTAAGATGCGTCGCGCCAGAAATGACTTGCCCGCGCCGGTTGGACCGTTAAGCAGAATCG‑‑GCGCG                                                                                                                                                      >  1:1802135/1‑150                                                                                                                  ACTTGCCCGCGCCGGTTGGACCGTTAAGCAGAATCG‑‑GCGCGGGCAAGTCATTTCTGGCGCGACGCATCTTAGAGTTAAAACAGGCGCGGCATCAGTTTAGCGGCGCGTTTGTGGAAGTGAACTGCGCCACCCTGCGCGGCGATACCGCCA                                         >  1:302553/1‑150                                                                                                                   CTTGCCCGCGCCGGTTGGACCGTTAAGCAGAATCG‑‑GCGCGGGCAAGTCATTTCTGGCGCGACGCATCTTAGAGTTAAAACAGGCGCGGCATCAGTTTAGCGGCGCGTTTGTGGAAGTGAACTGCGCCACCCTGCGCGGCGATACCGCCAT                                        >  1:2135180/1‑150                                                                                                                   CTTGCCCGCGCCGGTTGGACCGTTAAGCAGAATCG‑‑GCGCGGGCAAGTCATTTCTGGCGCGACGCATCTTAGAGTTAAAACAGGCGCGGCATCAGTTTAGCGGCGCGTTTGTGGAAGTGAACTGCGCCACCCTGCGCGGCGATACCGCCAT                                        >  1:2176863/1‑150                                                                                                                      GCCCGCGCCGGTTGGACCGTTAAGCAGAATCGGCGCGCGGGCAAGTCATTTCTGGCGCGACGCATCTTAGAGTTAAAACAGGCGCGGCATCAGTTTAGCGGCGCGTTTGTGGAAGTGAACTGCGCCACCCTGCGCGGCGATACCGCCATG                                       >  1:999349/1‑150                                                                                                                      GCCCGCGCCGGTTGGACCGTTAAGCAGAATCG‑‑GCGCGGGCAAGTCATTTCTGGCGCGACGCATCTTAGAGTTAAAACAGGCGCGGCATCAGTTTAGCGGCGCGTTTGTGGAAGTGAACTGCGCCACCCTGCGCGGCGATACCGCCATGTC                                     >  1:1044160/1‑150                                                                                                                        CCGCGCCGGTTGGACCGTTAAGCAGAATCG‑‑GCGCGGGCAAGTCATTTCTGGCGCGACGCATCTTAGAGTTAAAACAGGCGCGGCATCAGTTTAGCGGCGCGTTTGTGGAAGTGAACTGCGCCACCCTGCGCGGCGATACCTCCATGTCGA                                   >  1:168350/1‑150                                                                                                                         CGCGCCGCTTGGACCGTTAAGCAGAATCG‑‑GCGCGGGAAAGTCATTTCTGGCGCGACGCATCTTAGTTTTAAAACAGTCGCGGCATCAGTTTAGCGGCGCGTTTGTGGAAGTGAACTGCGCCACGCTCCGCGGGGAAACCGGCATGTCGAC                                  >  2:1628842/1‑150                                                                                                                                                    CG‑‑GCGCGGGCAAGTCATTTCTGGCGCGACGCATCTTAGAGTTAAAACAGGCGCGGCATCAGTTTAGCGGCGCGTTTGTGGAAGTGAACTGCGCCACCCTGCGCGGCGATACCGCCATGTCGACGCTGTTTGGTCATGTAAAAGGCGCGTT       <  2:1321859/150‑1                                                                                                                                                     G‑‑GCGCGGGCAAGTCATTTCTGGCGCGACGCATCTTAGAGTTAAAACAGGCGCGGCATCAGTTTAGCGGCGCGTTTGTGGAAGTGAACTGCGCCACCCTGCGCGGCGATACCGCCATGTCGACGCTGTTTGGTCATGTAAAAGGCGCGTTT      >  1:407149/1‑150                                                                                                                                                        GCGCGGGCAAGTCATTTCTGGCGCGACGCATCTTAGAGTTAAAACAGGCGCGGCATCAGTTTAGCGGCGCGTTTGTGGAAGTGAACTGCGCCACCCTGCGCGGCGATACCGCCATGTCGACGCTGTTTGGTCATGTAAAAGGCGCGTTTA     <  1:370786/150‑1                                                                                                                                                           CGGGCAAGTCATTTCTGGCGCGACGCATCTTAGAGTTAAAACAGGCGCGGCATCAGTTTAGCGGCGCGTTTGTGGAAGTGAACTGCGCCACCCTGCGCGGCGATACCGCCATGTCGACGCTGTTTGGTCATGTAAAAGGCGCGTTTACCG  >  2:2228071/1‑150                                                                                                                                                                                                                                                                                                                  CAGCGTCGACATGGCGGTATCGCCGCGCAGGGTGGCGCAGTTCACTTCCACAAACGCGCCGCTAAACTGATGCCGCGCCTGTTTTAACTCTAAGATGCGTCGCGCCAGAAATGACTTGCCCGCGCCGGTTGGACCGTTAAGCAGAATCG‑‑GCGCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3559044‑3558891 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cg‑‑gcgcgGGCAAGTCATTTCTGGCGCGACGCATCTTAGAGTTAAAACAGGCGCGGCATCAGTTTAGCGGCGCGTTTGTGGAAGTGAACTGCGCCACCCTGCGCGGCGATACCGCCATGTCGACGCTGTTTGGTCATGTAAAAGGCGCGTTTACCG  >  NC_000913/3558925‑3559072

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ 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.