New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 2269346	24 (0.340)	39 (0.560)	30/270	NT	61.9%	coding (595/1026 nt)	yejE	microcin C transporter YejABEF, permease subunit; ABC family
	?	CP009273	3576788 =	NA (NA)					intergenic (+10/‑55)	yrhA/insA	pseudogene, interrupted by IS1E/IS1 repressor TnpA

CTGACTCTCTGTTCCAGCGTGATGGGCGTGCTGGCGGGGGCGCTACAAGGCTATTACGGCGGTAAAGTCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP009273/2269199‑2269346 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCGCTATC  >  CP009273/3576788‑3576933                                                                                                                                                                                                                                                                                                        CTGACTCTCTGTTCCAGCGTGATGGGCGTGCTGGCGGGGGCGCTACAAGGCTATTACGGCGGTAAAGTCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGG                                                                                                                                                   >  1:985567/1‑149         CTGTTCCGGCGTGCTGCGCGTTGTGGCGGGGGCGCTACAAGGCTACTACGGCGGTAAAGTCGCTCTCTGGGGACAACGCTTCATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGT                                                                                                                                                 <  2:28423/143‑1               CAGCGTGATGGGCGTGCTGGCGGGGGCGCTACACGGCTATTACGGCGGTAAAGTCGCTCTCAGGGGACAACGGTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTGTTTGATTATTTTACTTTCCAGCGTCGGGGGATGCTGCCAAC                                                                                                                                     >  1:952815/1‑149                         GGCGTGCTGGCGGGGGCGCTACAAGGCTATTACGGCGGTAAAGTCGATCTCTGGGGACAAGGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGGTTGTGTTACTTTCCAGCGTCGGGGGATGCTGCCAACTTcc                                                                                                                                 >  2:28656/1‑141                               CTGGCGGGGGCGCTACAAGGCTATTACGGCGGTAAAGTCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTA                                                                                                                     <  1:828857/149‑1                                  GCGGGGGCGCTACAAGGCTATTACGGCGGTAAAGTCGATCTCTGGGGACAACGCTTTATTGAGGTGTGGTCGGGGATGCCGACGCTGATTGTGATTATTTTACTTTCCAGAGCAGGTGGATGCTGCCAACTTGCTGCTTTAGTGTATGA                                                                                                                  >  1:241684/1‑149                                  GCGGGGGCGCTACAAGGCTATTACGGCGGTAAAGTCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTCCTGCTTAAGT                                                                                                                        >  2:884082/1‑143                                        GCGCTACAAGGCTATTACGGCGGTAAAGTCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGT                                                                                                            <  1:73865/149‑1                                               AAGGCTATTACGGCGGTAAAGTCGATCTCTGGGGACAACGCTTTATTGATGTATGGACGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTT                                                                                                           >  2:736228/1‑143                                                 GGCTATGACGGCGGTAAAGTCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTT                                                                                                         <  2:1031842/143‑1                                                    TATTACGGCGGTAAAGGCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGA                                                                                                      <  2:93962/143‑1                                                     gTTAGGGCGGTAGAGTCGATCTCTGTGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTCTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAG                                                                                                     <  2:322984/142‑1                                                      ttcgGGCGGTAAAGTCGGTCTCTGGGGACAACGCTTTATTGAATTATGGTCGGGGACGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGG                                                                                                    <  2:776158/139‑1                                                         CGGCGGTAAAGTCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGGGGTGC                                                                                                 >  2:644654/1‑143                                                         CGGCGGTAAAGTCGATCTCTGGGGACAACGCTTTATTGAAGCAAGGCCGGGGTGGCCGACGCATTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGT                                                                                           >  1:1281226/1‑149                                                               TAAAGTCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCAACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGT                                                                                           <  2:562525/143‑1                                                               TAAAGTCGATCGTTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTC                                                                                     <  1:1112754/149‑1                                                                  AGTCGATCTCTGGGGACACCCCTTTATGGAATTATGGTCTGGGGTGGCGACGCTGTTTTTGATTGTGTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGGGCTCCATTGGC                                                                                        >  2:1139563/1‑143                                                                      GATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCT                                                                              >  1:1176022/1‑149                                                                       ATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCGTGGTCGGGTGATGCTGCCAACTTACTGGTTTAGTGTATGATGGTGTTTTTGGGGTGCTCCAGTGGCTTCTG                                                                                   >  2:344255/1‑143                                                                           CTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTC                                                                               >  2:665820/1‑143                                                                           CTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTC                                                                               >  2:879684/1‑143                                                                                GACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCA                                                                          >  2:899043/1‑143                                                                                 ACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGCGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGGGGTGCTTCAGTGGCTTCTGTTTCTATCAG                                                                         <  2:565679/143‑1                                                                                             TGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCCGC                                                       >  1:293369/1‑149                                                                                              GAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGT                                                            >  2:966822/1‑143                                                                                                             ATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGACGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTTCCTCCTGTTCAGCTACTGACGGGGTGGTG                                       <  1:847824/149‑1                                                                                                                         TTTTTGCTTATTTTACTTTCCAGCGTCGGGCCATGTTGCCATCTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAA                           <  1:241644/149‑1                                                                                                                            TTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGC                              <  2:1038063/143‑1                                                                                                                               ATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGCCGGGGGGGTGCGTAACGGCAAA                           >  2:372867/1‑143                                                                                                                               ATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTACCGGCAAA                           >  2:845833/1‑143                                                                                                                                     TTACTTTCCGGCGTCGGGGGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGA               <  1:509/149‑1                                                                                                                                     TTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGA               <  1:553/149‑1                                                                                                                                     TTACTTTCCAGCGCCGGGTGATGCTGCCCACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGA               <  1:272280/149‑1                                                                                                                                         TTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATC           >  1:939064/1‑149                                                                                                                                          TTCCCGCGTCGGGTGATGCCGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCA          <  1:94846/149‑1                                                                                                                                          TTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCA          <  1:670187/149‑1                                                                                                                                            cgAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGGGGTGCTCCAGTGGCAGCGGGTTCGATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGAC              <  2:979705/141‑1                                                                                                                                            CCAGCGTCGGGTGGTGCTGCCGACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGAC              <  2:200269/143‑1                                                                                                                                             CAGCGTCGGGTGATGCCGCCAACTTACTGATTTAGTGTATGATGGTGTGTTTGAGGTGCTCCAGTGGCTTCTGTGTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCG       <  1:101867/149‑1                                                                                                                                              AGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTTCGTAACGGCAAAAGCACCGCCGGACATCAGGGC      >  1:551877/1‑149                                                                                                                                                 GTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGAactcac         >  2:363926/1‑137                                                                                                                                                  TCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCGCTATC  >  1:410457/1‑149                                                                                                                                                                                                                                                                                                        CTGACTCTCTGTTCCAGCGTGATGGGCGTGCTGGCGGGGGCGCTACAAGGCTATTACGGCGGTAAAGTCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP009273/2269199‑2269346 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCGCTATC  >  CP009273/3576788‑3576933

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ 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.