New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 4400624	112 (0.870)	14 (0.120)	7/166	NT	11.6%	intergenic (+28/‑48)	hfq/hflX	global sRNA chaperone; HF‑I, host factor for RNA phage Q beta replication/GTPase, stimulated by 50S subunit binding; Mn(2+) homeostasis regulator
	?	NC_000913	= 4400640	109 (0.910)					intergenic (+44/‑32)	hfq/hflX	global sRNA chaperone; HF‑I, host factor for RNA phage Q beta replication/GTPase, stimulated by 50S subunit binding; Mn(2+) homeostasis regulator
Rejected: Frequency below cutoff threshold.

ACCAGCAGTAACTACCATCATGGTAGCAGCGCGCAGAATACTTCCGCGCAACAGGACAGCGAAGAAACCGAATAAGGTTTCGGGCTGTTTTTTTACACGGGGA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/4400522‑4400624 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cggggaACGCAGGATCGCTGGCTCCCCGTGTAAAAAAACAGCCCGAAACCTTATTCGGTTTCTTCGCTGTCCTGTTGCGCGGAAGTATTCTGCGCGCTGCTAC  <  NC_000913/4400640‑4400544                                                                                                                                                                                                          ACCAGCAGTAACTACCATCATGGTAGCAGCGCGCAGAATACTTCCGCGCAACAGGACAGCGAAGAAACCGAATAAGGTTTCGGGCTGTTTTTTTACACGG                                                                                                      <  1:1518507/100‑1   CAGCAGTAACTACCATCATGGTAGCAGCGCGCAGAATACTTCCGCGCAACAGGACAGCGAAGAAACCGAATAAGGTTTCGGGCTGTTTTTTTACACGGGG                                                                                                    <  2:3593802/100‑1    gcgcgctgCTACCATGATGGTAGCAGCGCGCAGAATACTTCCGCGCAACAGGACAGCGAAGAAACCGAATAAGGTTTCGGGCTGTTTTTTTACACGGGGA                                                                                                   >  1:645483/9‑100      CAGTAACTACCATCATGGTAGCAGCGCGCAGAATACTTCCGCGCAACAGGACAGCGAAGAAACCGCATAAGGTTTCGGGCTGTTTTTTTAAACAGG                                                                                                     >  2:214433/1‑96                 ATCATGGTAGCAGCGCGCAGAATACTTCCGCGCAACAGGACAGCGAAGAAACCGAATAAGGTTTCGGGCTGTTTTTTTACACGGGGAGCGCAGGATCGC                                                                                       <  2:222144/99‑1                        TAGCAGCGCGCAGAATACTTCCGCGCAACAGGACAGCGAAGAAACCGAATAAGGTTTCGGGCTGTTTTTTTACACGGGGAACGCAGGATCGCTGGCTCCC                                                                               <  1:640435/100‑1                        TAGCAGCGCGCAGAATACTTCCGCCCAACAGGACAGCGAAGAAACCGAATAAGGTTTCGGGCTGTGTTTTTACACGGGGAACGCAGTATCGCTGGCTCCC                                                                               <  2:1597550/100‑1                           CAGCGCGCAGAATACTTCCGCGCAACAGGACAGCGAAGAAACCGAATAAGGTTTCGGGCTGTTTTTTTACACGGGGAACGCAGGATCGCTGGCTCCCCGT                                                                            <  2:717792/100‑1                            AGCGCGCAGAATACTTCCGCGCAACAGGACAGCGAAGAAACCGAATAAGGTTTCGGGCTGTTTTTTTACACGGGGATCGCAGGATCGCTGGCTCCCCGTG                                                                           <  2:1297299/100‑1                            AGCGCGCAGAATACTTCCGCGCAACAGGACAGCGAAGAAACCGAATAAGGTTTCGGGCTGTTTTTTTACACGGGGAACGCAGGATCGCTGGCTCCCCGTG                                                                           <  1:3023546/100‑1                            AGCGCGCAGAATACTTCCGCGCAACAGGACAGCGAAGAAACCGAATAAGGTTTCGGGCTGTTTTTTTACACGGGGAACGCAGGATCGCTGGCTCCCCGTG                                                                           <  1:1800502/100‑1                             GCGCGCAGAATACTTCCGCGCAACAGGACAGCGAAGAAACCGAATAAGGTTTCGGGCTGTTTTTTTACACGGGGAACGCAGGATCGCTGGCTCCCCGTGT                                                                          <  1:3351542/100‑1                             GCGCGCAGAATACTTCCGCGCAACAGGACAGCGAAGAAACCGAATAAGGTTTCGGGCTGTTTTTTTACACGGGGAACGCAGGATCGCTGGCTCCCCGTGT                                                                          <  1:447960/100‑1                             GCGCGCAGAATACTTCCGCGCAACAGGACAGCGAAGAAACCGAAGAAGGTTCCGGGATGTTTTTTTACACGGGGAACGCAGGATCGCTGGCTCCCCGTGT                                                                          <  2:202712/100‑1                              CGCGCAGAATACTTCCGCGCAACAGGACAGCGAAGAAACCGAATAAGGTTTCGGGCTGTTTTTTTACACGGGGAACGCAGGATCGCTGGCTCCCCGTGTA                                                                         <  2:3446925/100‑1                                 GCAGAATACTTCAGCGCAACAGGACAGCGAAGAAGCCGAATAAGGTTTCGGGCTGTTTTTTTACACGGGAAACGCAGGATCGCTGGGTCCCCGTG                                                                           <  2:3284355/95‑1                                   AGAATACTTCCGCGCAACAGGACAGCGAAGAAACCGAATAAGGTTTCGGGCTGTTTTTTTACACGGGGAACGCAGGATCGCTGGCTCCCCGTGTAAAAAA                                                                    <  1:1786940/100‑1                                   AGAATACTTCCGCGCAACAGGACAGCGAAGAAACCGAATAAGGTTTCGGGCTGTTTTTTTACACGGGGAACGCAGGATCGCTGGCTCCCCGTGTAAAAAA                                                                    <  1:3608554/100‑1                                                                                                   GGGGAACGCAGGATCGCTGGCTCCCCGTGTAAAAAAACAGCCCGAAACCTTATTCGGTTTCTTCGCTGTCCTGTTGCGCGGAAGTATTCTGCGCGCTGCT    >  2:3093480/1‑100                                                                                                   GGGGAACGCAGGATCGCTGGCTCCCCGTGTAAAAAAACAGCCCGAAACCTTATTCGGTTTCTTCGCTGTCCTGTTGCGCGGAAGTATTCTGCGCGCTGCT    <  2:1342673/100‑1                                                                                                   GGGGAACGCAGGATCGCTGGCTCCCCGTGTAAAAAAACAGCCCGAAACCTTATTCGGTTTCTTCGCTGTCCTGTTGCGCGGAAGTATTCTGCGCGCTGCT    >  1:2868744/1‑100                                                                                                    GGGAACGCAGGATCGCTGGCTCCCCGTGTAAAAAAACAGCCCGAAACCTTATTCGGTTTCTTCGCTGTCCTGTTGCGCGGAAGTATTCTGCGCGCTGCTA   >  1:2918333/1‑100                                                                                                     GGAACGCAGGATCGCTGGCTCCCCGTGTAAAAAAACAGCCCGAAACCTTATTCGGTTTCTTCGCTGTCCTGTTGCGCGGAAGTATTCTGCGCGCTGCTAC  >  2:2028522/1‑100                                                                                                     GGAACGCAGGATCGCTGGCTCCCCGTGTAAAAAAACAGCCCGAAACCTTATTCGGTTTCTTCGCTGTCCTGTTGCGCGGAAGTATTCTGCGCGCTGCTAC  >  2:2820461/1‑100                                                                                                                                                                                                          ACCAGCAGTAACTACCATCATGGTAGCAGCGCGCAGAATACTTCCGCGCAACAGGACAGCGAAGAAACCGAATAAGGTTTCGGGCTGTTTTTTTACACGGGGA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/4400522‑4400624 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cggggaACGCAGGATCGCTGGCTCCCCGTGTAAAAAAACAGCCCGAAACCTTATTCGGTTTCTTCGCTGTCCTGTTGCGCGGAAGTATTCTGCGCGCTGCTAC  <  NC_000913/4400640‑4400544

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.