New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	3528193 =	104 (1.020)	3 (0.030)	3/292	10.6	2.9%	coding (1725/2136 nt)	yrfF	putative RcsCDB‑response attenuator, inner membrane protein
	?	NC_000913	3528278 =	98 (1.000)					coding (1810/2136 nt)	yrfF	putative RcsCDB‑response attenuator, inner membrane protein
Rejected: Position hash score below cutoff.

GCCAATATGCTGCGTACCATTGGCGTCAGTGAAGATTTTTGTGACGATACCCTCGGCGTTAAACGGCGTATGCATCAGCATTTGTGCCAGTTTCTGGAAAGCGTTCCACTGTTCTTGCGGCGGGTAGTCGTAAAGTGATGCCGAAGGCCAGGGCTGATCAACAAAATCGCTGCCTTCGTCGCTGACAATCAGGAATCCGCCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3528394‑3528193 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ccgccgCAAGAACAGTGGAACGCTTTCCAGAAACTGGCACAAATGCTGATGCATACGCCGTTTAACGCCGAGGGTATCGTCACAAAAATCTTCACTGACGCCAATGGTACGCAGCATATTGGCCTTCATCCGATCCCGGATCGTTCCGGCCTGTGGCGCTATCTCAGCACCACATTGCTGCTACTGACGATGCTGGGTAGCGC  >  NC_000913/3528278‑3528474                                                                                                                                                                                                                                                                                                                                                                                                                 GCCAATATGCTGCGTACCATTGGCGTCAGTGAAGATTTTTGTGACGATACCCTCGGCGTTAAACGGCGTATGCATCAGCATTTGTGCCAGTTTCTGGAAAGCGTTCCACTGTTCTTGCGGCGGGTAGTCGTAAAGTGATGCCGAAGGCCAGGGCTGATCAACAAAATCGCTGCCTTCGTCGCTGACAATCAGGAATCAGC                                                                                                                                                                                                         >  2:179819/1‑200                                                            TAAACGGCGTATGCATCAGCATTTGTGCCAGTTTCTGGAAAGCGTTCCACTGTTCTTGCGGCGGGTAGTCGTAAAGTGATGCCGAAGGCCAGGGCTGATCAACAAAATCGCTGCCTTCGTCGCTGACAATCAGGAATCCGC                                                                                                                                                                                                         <  3:119387/141‑1                                                                  GCGTATGCATCAGCATTTGTGCCAGTTTCTGGAAAGCGTTCCACTGTTCTTGCGGCGGGTAGTCGTAAAGTGATGCCGAAGGCCAGGGCTGATCAACAAAATCGCTGCCTTCGTCGCTGACAATCAGGAATC                                                                                                                                                                                                            >  4:446186/1‑132                                                                         CATCAGCATTTGTGCCAGTTTCTGGAAAGCGTTCCACTGTTCTTGCGGCGGGTAGTCGTAAAGTGATGCCGAAGGCCAGGGCTGATCAACAAAATCGCTGCCTTCGTCGCTGACAATCAGGAATCCGCCGtg                                                                                                                                                                                                     >  4:642115/1‑130                                                                                                                               GTCGTAAAGTGATGCCGAAGGCCAGGGCTGATCAACAAAATCGCTGCCTTCGTCGCTGACAATCAGGAATCCGCCGCAAGAACAGTGGAACGCTTTCCAGAAACTGGCACAAATGCTGATGCATACGCCGTTTAACGC                                                                                                                                         <  3:651618/138‑1                                                                                                                               GTCGTAAAGTGATGCCGAAGGCCAGGGCTGATCAACAAAATCGCTGCCTTCGTCGCTGACAATCAGGAATCCGCCGCAAGAACAGTGGAACGCTTTCCAGAAACTGGCACAAATGCTGATGCATACGCCGTT                                                                                                                                               >  4:651590/1‑132                                                                                                                                            GCCGAAGGCCAGGGCTGATCAACAAAATCGCTGCCTTCGTCGCTGACAATCAGGAATCCGCCGCAAGAACAGTGGAACGCTTTCCAGAAACTGGCACAAATGCTGATGCATACGCCGTTTAACGCCGAGGGTATCGTCACAAAAATCCTCACTGACGCCAATGGTACGCAGCATATTGGCCTTCATCCTATCCCGGcact                                                              >  2:803933/1‑196                                                                                                                                                                                                     CCGCCGCAAGAACAGTGGAACGCTTTCCAGAAACTGGCACAAATGCTGATGCATACGCCGTTTAACGCCGAGGGTATCGTCACAAAAATCTTCACTGACGCCAATGGTACGCAGCATATTGGCCTTCATCCGATCCCGGAT                                                                <  3:441028/141‑1                                                                                                                                                                                                     CCGCCGCAAGAACAGTGGAACGCTTTCCAGAAACTGGCACAAATGCTGATGCATACGCCGTTTAACGCCGAGGGTATCGTCACAAAAATCTTCACTGACGCCAATGGTACGCAGCATATTGGCCTTCATCCGATCCCGGAT                                                                <  3:614293/141‑1                                                                                                                                                                                                     CCGCCGCAAGAACAGTGGAACGCTTTCCAGAAACTGGCACAAATGCTGATGCATACGCCGTTTAACGCCGAGGGTATCGTCACAAAAATCTTCACTGACGCCAATGGTACGCAGCATATTGGCCTTCATCCGATCCCGGAT                                                                <  3:616492/141‑1                                                                                                                                                                                                        CCGCAAGAACAGTGGAACGCTTTCCAGAAACTGGCACAAATGCTGATGCATACGCCGTTTAACGCCGAGGGTATCGTCACAAAAATCTTCACTGACGTCAATGGTACGCAGCATATTGGCCTTCATCCGATCCCGGATCGTTCCGGCCTGTGGCGCTATCTCAGCACCACATTGCTGCTACTGCCGATACCGGGTAGCGC  >  2:272830/1‑200                                                                                                                                                                                                        CCGCAAGAACAGTGGAACGCTTTCCAGAAACTGGCACAAATGCTGATGCATACGCCGTTTAACGCCGAGGGTATCGTCACAAAAATCTTCACTGACGCCAATGGTACGCAGCATATTGGCCTTCATCCGATCCCGGATCGTTCCGGCCTG                                                    >  1:106007/1‑150                                                                                                                                                                                                        CCGCAAGAACAGTGGAACGCTTTCCAGAAACTGGCACAAATGCTGATGCATACGCCGTTTAACGCCGAGGGTATCGTCACAAAAATCTTCACTGACGCCAATGGTACGCAGCATATTGGCCTTCATCCGATCCCGGATCGT                                                             >  3:67888/1‑141                                                                                                                                                                                                                                                                                                                                                                                                                 GCCAATATGCTGCGTACCATTGGCGTCAGTGAAGATTTTTGTGACGATACCCTCGGCGTTAAACGGCGTATGCATCAGCATTTGTGCCAGTTTCTGGAAAGCGTTCCACTGTTCTTGCGGCGGGTAGTCGTAAAGTGATGCCGAAGGCCAGGGCTGATCAACAAAATCGCTGCCTTCGTCGCTGACAATCAGGAATCCGCCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3528394‑3528193 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ccgccgCAAGAACAGTGGAACGCTTTCCAGAAACTGGCACAAATGCTGATGCATACGCCGTTTAACGCCGAGGGTATCGTCACAAAAATCTTCACTGACGCCAATGGTACGCAGCATATTGGCCTTCATCCGATCCCGGATCGTTCCGGCCTGTGGCGCTATCTCAGCACCACATTGCTGCTACTGACGATGCTGGGTAGCGC  >  NC_000913/3528278‑3528474

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 11 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ 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.