New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 2269346	3 (0.060)	45 (0.830)	36/296	0.6	93.8%	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

GACTCTCTGTTCCAGCGTGATGGGCGTGCTGGCGGGGGCGCTACAAGGCTATTACGGCGGTAAAGTCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP009273/2269201‑2269346 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCGCTATCTC  >  CP009273/3576788‑3576935                                                                                                                                                                                                                                                                                                        GACTCTCTGTTCCAGCGTGATGGGCGTGCTGGCGGGGGCGCTACAAGGCTATTACGGCGGTAAAGTCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGT                                                                                                                                                   >  2:671102/1‑149   CTCTCTGTTCCAGCGTGATGGGCGTGCTGGCGGGGGCGCTACAAGGCTATTACGGCGGTAAAGTCGATCTCGGGGGACAACGCTTTATTGAAGACTGGGCGGGGCTGCCGGCGCCGTTTTTAGTTATTTTACTTTCCCGCCGCGGGTGc                                                                                                                                                 >  1:782554/1‑148      TCTGTTCCAGCGTGATGGGCGTGCTGGCGGGGGCGCTACAAGGCTATTACGGCGGTAAAGTCGATCTCTGGGGGCAACGCTTTATTGAAGTATGGTCGGGGATGCCGGCGCTGTTTTTGATTATTTTGCTTTCCAGCGTCGGGTGATGC                                                                                                                                              >  2:106552/1‑149                      GGGCGTGCTGGCGGGGGCGCTACAAGGCTATTACGGCGGTAGAGTCGATGTCTGGGGGCAAGGCTTTATTGAAGTATGGTCGGGGATGGCGACGCTGTTTTTGATTATTTTTCTTTCCAGCGTCGGGTGATGGTGCCAACTTCCTGTTT                                                                                                                              >  1:307338/1‑149                      GGGCGTGCTGGCGGGGGCGCTACAAGGCTATTACGGCGGTAAAGTCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGGTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGAcc                                                                                                                              >  2:326772/1‑147                        GCGTGCTGGCGGGGGCGCTACAAGGCTATTACGGCGGTAAAGTCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTA                                                                                                                            <  1:15944/149‑1                        GCGTGCTGGCGGGGGCGCTACAAGGCTATTACGGCGGTAAAGTCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTGTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTA                                                                                                                            >  2:547949/1‑149                          cTGCTGGCGGGCGCCCTACAAGGCTATTACGGCGGTAAAGTCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGT                                                                                                                          <  2:153826/148‑1                          GTGCTGGCGGGGGCGCTGCAAGGCTATTACGGCGGTAAAGTCGACCTCTCGGGACAACGCTTTAGTGAAGTATGGTCGGGGATGCCGACGCTTTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGT                                                                                                                          <  1:255718/149‑1                           TGCTGGCGGGGGCGCTACAAGGCTATTACGGCGGTAAAGTCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTACCAACTTACTGATTTAGTG                                                                                                                         <  2:648393/149‑1                               gaCGGGGGCGCTACAAGGCTATTACGGCGGTAAAGGCGATCTCTGGGGACAACGCTTTATTGACGGATGGTCGGGGCTGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTTATGCTGCCAACTTACGTATTTAGGTTATG                                                                                                                     >  1:10967/3‑149                                GCGGGGGCGCTACAAGGCTATTACGGCGGTAAAGTCGATCTCTGGGGACAACGCTTTATTGAAGTATAGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCACCTTACTGATTTAGTGTATGA                                                                                                                    >  2:540265/1‑149                                  GGGGGCGCTACAAGGCTATTACGGCGGTAAAGTCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATG                                                                                                                  >  2:310232/1‑149                                  GGGGGCGCTACAAGGCTATTACGGCGGTAAAGTCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGGATGATG                                                                                                                  >  1:830785/1‑149                                       CGCTACAAGGCTATTACGGCGGTAAAGTCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTT                                                                                                             <  2:720681/149‑1                                         CTACAAGGCTATTACGGCGGTAAAGTCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGGCGGGTGGTGCTGCCAACTTACTGATGTAGTGTATGCTGGTGTTTT                                                                                                           >  2:888559/1‑149                                          TACAAGGCTATTACGGCGGTAAAGTCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGTTTATTTTACTTTCCAGCGTCGGGCGATCCTGCCAACTTACTGGTTTTGTGTATGATGGGGTTTTT                                                                                                          >  1:519826/1‑149                                                     TACGGCGGTAAAGTCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTCCTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCA                                                                                               >  1:52987/1‑149                                                      cCGGCGGTAAAGTCGATCTCCGGGGGCAACGCTTTATTGAAGTCTGGGCGGGGATGCCGACGCTGTTTTTGATTATTTCACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAG                                                                                              <  1:230214/148‑1                                                          CGGTAAAGCCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGCTTATTTTTCTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGC                                                                                          <  1:339647/149‑1                                                              AAAGTCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGAGGATGCCGTCGCTGTCTGTGAGTCCTTTTCTTTCCAGCGTCGGGTGATGCTTCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCT                                                                                      <  1:433168/149‑1                                                               AAGGCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTG                                                                                     <  2:84822/149‑1                                                                AGTCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGTTGCTCCAGTGGCTTCTGT                                                                                    >  2:740621/1‑149                                                                     ATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTTAGGTGCTCCAGTGGCTTCTGTTTCTA                                                                               >  1:344584/1‑149                                                                       CTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGTCGCTGTTTTTGATTATTTTACTTCTCCGCGTCGGGTCAAGCTGGCAACTGACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATC                                                                             <  2:211403/149‑1                                                                        TCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCA                                                                            >  2:811892/1‑149                                                                         tTGGGGACAACGTTTGTTTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTGCCAGCGTCGGGTGATGCTGCCACCTTACTGATTTAGTGTATGATGGTGCTTTTGAGGCGCTCCAGTGGCTTCTGTTTCTATCAG                                                                           <  1:11295/148‑1                                                                         CTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAG                                                                           <  2:672532/149‑1                                                                                     CTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTG                                                               <  1:658639/149‑1                                                                                      TTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTGTGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCGGTTTCTATCAGCTGTCCCTCCTGT                                                              >  2:691105/1‑149                                                                                      TTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTTTTTCTATCAGCTGTCCCTCCTGT                                                              >  1:54223/1‑149                                                                                      TTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGT                                                              >  2:849572/1‑149                                                                                      TTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGAGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGT                                                              >  2:579057/1‑149                                                                                      TTTATTGAAGTATGGTCCGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGT                                                              <  1:387876/149‑1                                                                                       TTAGTGAAGGATGGTCGGGGATGCCGGCGCTGTTTTTGATTGTCTCACCTTGCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGATGTCCCTCCTGTT                                                             <  1:408020/149‑1                                                                                         ATTGGAGTATCGGCGGGGCTGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGTGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCA                                                           <  1:441305/149‑1                                                                                           TGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCACCTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAac                                                         >  2:787399/1‑147                                                                                             AAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTA                                                       >  2:689782/1‑149                                                                                                    GTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTCAGGTGATGTTTTGGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGG                                                <  2:392496/149‑1                                                                                                            ttccaACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGC                                        <  1:888559/144‑1                                                                                                              CCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCGGGTGCTGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGT                                      >  2:229808/1‑149                                                                                                                                  TTTACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGG                  >  2:867518/1‑149                                                                                                                                    TACTTTCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCGGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGTGGGGTGCGGAACGGCACAAGCACCGCCGGgc                >  2:763781/1‑147                                                                                                                                        tgCCAGCGTCGGGTGATGCTGCCAACTTACTGATTTAGTGTATCATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCA            <  1:54034/147‑1                                                                                                                                                  GGGTGATGCTGCCAACTTACTGATTTGGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTTTTTCTACCAGCTGCCCCTCCTGTCCAGCTACTGCCGGGGTGGTGCGTAACGGCAAAAGCTCCGCCGGACATCAGCGCTATCTC  <  1:311704/149‑1                                                                                                                                                                                                                                                                                                        GACTCTCTGTTCCAGCGTGATGGGCGTGCTGGCGGGGGCGCTACAAGGCTATTACGGCGGTAAAGTCGATCTCTGGGGACAACGCTTTATTGAAGTATGGTCGGGGATGCCGACGCTGTTTTTGATTATTTTACTTTCCAGCGTCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP009273/2269201‑2269346 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCGCTATCTC  >  CP009273/3576788‑3576935

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ 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.