New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	= 3528142	8 (0.510)	4 (0.280)	4/228	1.4	31.6%	coding (1674/2136 nt)	yrfF	putative RcsCDB‑response attenuator, inner membrane protein
	?	NC_000913_3_pae_tpiA	= 3528152	10 (0.700)					coding (1684/2136 nt)	yrfF	putative RcsCDB‑response attenuator, inner membrane protein

CAACAGTAAAGACTGGGACGCGCTGGTAAAACGCGCCAACGCCGGGAAGCTCGATGGCGTGAATGTGTTATTACGCCCGGTGAGTGCGGAATCGCTGGATAACCTGGTGGCAACCTCCACCGCGCCGTTTATCACGCATGAAACGGCGCGAGCGGCACAATCACTAAACAGTCCGGCCCCCGGCGGATTCCTGATTGTCAGCGACGAAGGCAGCGATTTTGTTGATCAGCCCTGGCCTTCGGCATCACTTTACGACTACCCGCCGCAAGA  >  NC_000913_3_pae_tpiA/3528013‑3528282                                                                                                                                  |                                                                                                                                             cAACAGTAAAGACTGGGACGCGCTGGTAAAACGCGCCAACGCCGGGAAGCTCGATGGCGTGAATGTGTTATTACGCCCGGTGAGTGCGGAATCGCTGGATAACCTGGTGGCAACCTCCACCGCGCCGTTTATCACGCATGaaacggcgcg                                                                                                                          >  2:99858‑M2/1‑140 (MQ=255)                                     cAACGCCGGGAAGCTCGATGGCGTGAATGTGTTATTACGCCCGGTGAGTGCGGAATCGCTGGATAACCTGGTGGCAACCTCCACCGCGCCGTTTATCACGCATGAAACGGCGCGAGCGGCACAATCACTAAACAGTCCGGCCCCcggcgg                                                                                      >  4:11405/1‑150 (MQ=255)                                         gCCGGGAAGCTCGATGGCGTGAATGTGTTATTACGCCCGGTGAGTGCGGAATCGCTGGATAACCTGGTGGCAACCTCCACCGCGCCGTTTATCACGCATGAAACGGCGCGAGCGGCACAATCACTAAACAGTCCGGCCCCCGGCGGATTc                                                                                  >  1:118879/1‑150 (MQ=255)                                           cGGGAAGCTCGATGGCGTGAATGTGTTATTACGCCCGGTGAGTGCGGAATCGCTGGATAACCTGGTGGCAACCTCCACCGCGCCGTTTcatgcgtgataaacggcgcggtggaggttgccaccaggttatccagcg                                                                                              >  1:33508‑M1/1‑88 (MQ=255)                                           cGGGAAGCTCGATGGCGTGAATGTGTTATTACGCCCGGTGAGTGCGGAATCGCTGGATAACCTGGTGGCAACCTCCACCGCGCCGTTTcatgcgtgataaacggcgcggtggaggttgccaccaggttatccagcg                                                                                              <  2:33508‑M1/136‑49 (MQ=255)                                                             gAATGTGTTATTACGCCCGGTGAGTGCGGAATCGCTGGATAACCTGGTGGCAACCTCCACCGCGCCGTTTATCACGCATGAAACGGCGCGAGCGGCACAATCACTAAACAGTCCGGCCCCCGGCGGATTCCTGATTGTCAGCGACGAAgg                                                              <  1:84521/150‑1 (MQ=255)                                                                    ttattaCGCCCGGTGAGTGCGGAATCGCTGGATAACCTGGTGGCAACCTCCACCGCGCCGTTTATCACGCATGAAACGGCGCGAGCGGCACAATCACTAAACAGTCCGGCCCCCGGCGGATTCCTGATTGTCAGCGACGAAGGCAGCGAt                                                       >  2:140108/1‑150 (MQ=255)                                                                       ttaCGCCCGGTGAGTGCGGAATCGCTGGATAACCTGGTGGCAACCTCCACCGCGCCGTTTATCACGCATGAAACGGCGCGAGCGGCACAATCACTAAAGAGTCCGGCCCCcggc                                                                                        <  4:96812/114‑1 (MQ=255)                                                                       ttaCGCCCGGTGAGTGCGGAATCGCTGGATAACCTGGTGGCAACCTCCACCGCGCCGTTTATCACGCATGAAACGGCGCGAGCGGCACAATCACTAAACAGTCCGGCCCCcggc                                                                                        >  3:96812/1‑114 (MQ=255)                                                                         aCGCCCGGTGAGTGCGGAATCGCTGGATAACCTGGTGGCAACCTCCACCGCGCCGTTTATCACGCATGAAACGGCGCGAGCGGCACAATCACTAAACAGTCCGGCCCCCGGCGGATTCCTGATTGTCAGCGACGAAGGCAGCGATTttgt                                                  >  1:125463/1‑150 (MQ=255)                                                                         aCGCCCGGTGAGTGCGGAATCGCTGGATAACCTGGTGGCAACCTCCACCGCGCCGTTTATCACGCATGAAACGGCGCGAGCGGCACAATCACTAAACAGTCCGGCCCCCGGCGGATTCCTGATTGTCAGCGACGAAGGCAGCGATTttgt                                                  <  2:34440/150‑1 (MQ=255)                                                                           gCCCGGTGAGTGCGGAATCGCTGGATAACCTGGTGGCAACCTCCACCGCGCCGTTTcatgcgtgataaacggcgcgg                                                                                                                         >  2:98378‑M1/1‑56 (MQ=255)                                                                           gCCCGGTGAGTGCGGAATCGCTGGATAACCTGGTGGCAACCTCCACCGCGCCGTTTcatgcgtgataaacggcgcgg                                                                                                                         <  1:98378‑M1/77‑22 (MQ=255)                                                                                             cGCTGGATAACCTGGTGGCAACCTCCACCGCGCCGTTTATCACGCATGaaacggcgcggtggaggttgccaccaggttatccagcgattccgcactcaccgggcgtaataacacattcacgccatcgagcttcccg                                            <  2:33508‑M2/136‑89 (MQ=255)                                                                                             cGCTGGATAACCTGGTGGCAACCTCCACCGCGCCGTTTATCACGCATGaaacggcgcggtggaggttgccaccaggttatccagcgattccgcactcaccgggcgtaataacacattcacgccatcgagcttcccg                                            >  1:33508‑M2/1‑48 (MQ=255)                                                                                                                        ccGCGCCGTTTATCACGCATGaaacggcgcggtggaggttgccaccaggttatccagcgattccgcactcaccgggc                                                                            >  2:98378‑M2/1‑21 (MQ=255)                                                                                                                        ccGCGCCGTTTATCACGCATGaaacggcgcggtggaggttgccaccaggttatccagcgattccgcactcaccgggc                                                                            <  1:98378‑M2/77‑57 (MQ=255)                                                                                                                         cgcgCCGTTTcatgcgtgataaacggcgcggtggaggttgccaccaggttatccagcgattccgcactcaccgggcgtaataacacattcacgccatcgagcttcccggcgttggcgcgttttaccagcgcgtcccagtctttactgttg  >  2:99858‑M1/1‑10 (MQ=255)                                                                                                                                  |                                                                                                                                             CAACAGTAAAGACTGGGACGCGCTGGTAAAACGCGCCAACGCCGGGAAGCTCGATGGCGTGAATGTGTTATTACGCCCGGTGAGTGCGGAATCGCTGGATAACCTGGTGGCAACCTCCACCGCGCCGTTTATCACGCATGAAACGGCGCGAGCGGCACAATCACTAAACAGTCCGGCCCCCGGCGGATTCCTGATTGTCAGCGACGAAGGCAGCGATTTTGTTGATCAGCCCTGGCCTTCGGCATCACTTTACGACTACCCGCCGCAAGA  >  NC_000913_3_pae_tpiA/3528013‑3528282

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ 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.