New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	1584814 =	36 (0.720)	4 (0.080)	4/274	NT	10.1%	intergenic (‑21/+297)	yneL/hipA	pseudogene, AraC family/inactivating GltX kinase facilitating persister formation; toxin of HipAB TA pair; autokinase
	?	CP009273	= 1645804	NA (NA)					intergenic (+10/‑4)	insD1/intQ	IS2 transposase TnpB;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related/pseudogene, Qin prophage; phage integrase family;Phage or Prophage Related

AAAGAACCTTGCAGAGGCGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACAGGTGAACTAC‑GCTCCTCTGTTTGTTACGCAATAAAAACTGGTGTTTTCGACTATGCAAAACAGTTTCCCTCCTCACGCAATCTGGAAAAATTTGGTGAGGCCCGACAAGATTTAACCATAAAAGAACTGGCTGAAAAATTTCTGG  >  CP009273/1645659‑1645952                                                                                                                                                  |                                                                                                                                                      aaaGAACCTTGCAGAGGCGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGAAGAGTGCCCTGGCGCCAAGGGAAAAACACCGGCAGCGGGCTTGAAATGGGTTAAGTGATAACAGATGTCTGGAAAGATAGGGGCAAATCcaca                                                                                                                                                    >  2:206388/1‑149 (MQ=11)    gAACCTTGCAGAGGCGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACAGGt                                                                                                                                                 <  2:785735/149‑1 (MQ=32)       ccTTGAAGAGGCGTTCCAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACAGGTGaa                                                                                                                                              <  2:350749/149‑1 (MQ=25)           gCAGAGGCGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACAGGTGAACTAc                                                                                                                                          >  2:665372/1‑149 (MQ=38)              gagGCGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATATGGGCAAATCCACAGGTGAACTAC‑Gct                                                                                                                                      <  1:114424/149‑1 (MQ=255)                ggCGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGGTAACAGATGTCTGGAAATATAGGGGCAAATCCACAGGTGACCTAC‑Gctcc                                                                                                                                    >  2:48016/1‑149 (MQ=255)                   gctCGAGCATTATACCGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACAGGTGAACTAC‑GCTCctct                                                                                                                                 <  2:246224/147‑1 (MQ=255)                         gCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGTAAATCCACAGGTGAACTAC‑GCTCCTCtgtttgt                                                                                                                           <  2:555401/149‑1 (MQ=255)                          cATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACAGGTGAACTAC‑GCTCCTCtgtttgtt                                                                                                                          >  2:797856/1‑149 (MQ=255)                           aTTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACAGGTGAACTAC‑GCTCCTCTGTTTGTTa                                                                                                                         >  2:409460/1‑149 (MQ=255)                           aTTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACAGGTGAACTAC‑GCTCCTCTGTTTGTTa                                                                                                                         >  1:101540/1‑149 (MQ=255)                             tataACGAATGGCATCCGCATAGGGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACAGGTGAACTAC‑GCTCCTCTGTTTGTTACg                                                                                                                       <  2:355983/149‑1 (MQ=255)                                       ggCATCCGCAGAGTGCTCTGGGTTATCGCTTGCCACGGGAATAGCTACGGCAGCGTGCTTGTAATGGGTTAACTGATAACAGATGTCGGGAAATATAGGGGCAAATCCACATTTGAACTAC‑GCTCCTCTGTTTGTTACGCAATAAAAAc                                                                                                             <  1:650715/149‑1 (MQ=17)                                             cGCATAGTGCGCTGGGTTATCGCTCGCAACGGAAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACATGTGAACTAC‑GCTCCTCTGTTTGTTACGCAATAAAAACTGgtgt                                                                                                       <  2:384987/149‑1 (MQ=255)                                                   gTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGCGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACAGGTGAACTAC‑GCTCCTCTGTTTGTTACGCAATAAAAACTGGTGTTTTCGa                                                                                                 <  1:223728/149‑1 (MQ=255)                                                       gcTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACAGGTGAACTAC‑GCTCCTCTGTTTGTTACGCAATAAAAACTGGTGTTTTCGACTAt                                                                                             <  2:683338/149‑1 (MQ=255)                                                       gcTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACAGGTGAACTAC‑GCTCCTCTGTTTGTTACGCAATAAAAACTGGTGTTTTCGACTAt                                                                                             <  2:572515/149‑1 (MQ=255)                                                           ggttagccgccgcCACGGGAATATCTGGGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACAGGGGAACTAC‑GCTCCTCTGTTTGTTACGCAATAAAAACTGGTGTTTTCGACTATGCaa                                                                                         <  1:26550/139‑1 (MQ=21)                                                           ggTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACAGGTGAACTAC‑GCTCCTCTGTTTGTTACGCAATAAAAACTGGTGTTTTCGACTATGCaa                                                                                         >  1:785298/1‑149 (MQ=255)                                                                        cACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACAGGTGAACTAC‑GCTCCTCTGTTTGTTACGCAATAAAAACTGGTGTTTTCGACTATGCAAAACAGTTTCcctc                                                                            <  1:848409/149‑1 (MQ=255)                                                                                  tCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACAGGTGAACTAC‑GCTCCTCTGTTTGTTACGCAATAAAAACTGGTGTTTTCGACTATGCAAAACAGTTTCCCTCCTCACGCAAt                                                                  >  2:738672/1‑149 (MQ=255)                                                                                      cGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCGGGAAATATAGGGGCAAATCCACAGGTGAACTAC‑GCTCCTCTGTTTGTTACGCAATAAAAACTGGTGTTTTCGACTATGCAAAACAGTTTCCCTCCTCACGCAATCTgg                                                              <  1:665372/149‑1 (MQ=255)                                                                                             gggCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGTGCAAATCCACAGGTGAACTAC‑GCTCCTCTGTTTGTTACGCAATAAAAACTGGTGTTTTCGACTATGCAAAAAAGTTTCCCTCATCACGCACTCTGAAAAAAtt                                                       >  2:221836/1‑149 (MQ=38)                                                                                             gggCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACAGGTGAACTAC‑GCTCCTCTGTTTGTTACGCAATAAAAACTGGTGTTTTCGACTATGCAAAACAGTTTCCCTCCTCACGCAATCTGGAAAAAtt                                                       <  1:797856/149‑1 (MQ=255)                                                                                                    tAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACAGGTGAACTAC‑GCTCCTCTGTTTGTTACGCAATAAAAACTGGTGTTTTCGACTATGCAAAACAGTTTCCCTCCTCACGCAATCTGGAAAAATTTGGTGAg                                                >  2:291021/1‑149 (MQ=255)                                                                                                        gggTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACAGGTGAACTAC‑GCTCCTCTGTTTGTTACGCAATAAAAACTGGTGTTTTCGACTATGCAAAACAGTTTCCCTCCTCACGCAATCTGGAAAAATTTGGTGAGGccc                                            >  2:321840/1‑149 (MQ=255)                                                                                                          gTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACAGGTGAACTAC‑GCTCCTCTGTTTGTTACGCAATAAAAACTGGTGTTTTCGACTATGCAAAACAGTTTCCCTCCTCACGCAATCTGGAAAAATTTGGTGAGGCCCGa                                          >  1:702357/1‑149 (MQ=255)                                                                                                               gTGCTAACAGATAACTGAAAATATAGGGGCAAATCCACAGGAGACCTAC‑GACCCTCTGTTTGTCACGCACTAAAAAATGGTGTTCTCGCCTATCCAACACAGTTGCCCCCCTCACGCACTCGGGAAACATTTGGTGAGGCCCGACAAGa                                     >  1:237158/1‑149 (MQ=255)                                                                                                               gTGATAACAGATGACTGGAAATATAGGGGCAAATCCACAGGTGAACTAC‑GCTCCTCTGTTTGTTACGCAATAAAAACTGGTGTTTTCGACTATGCAAAACAGTTTCCCTCCTCACGCAATCTGGAAAAATTTGGTGAGGCCCGACAAGa                                     >  2:593636/1‑149 (MQ=255)                                                                                                                tGATAACAGATGTCTGGAAATATAGGGGCAAATCCACAGGTGAACTAC‑GCTCCTCTGTTTGTTACGCAATAAAAACTGGTGTTTTCGACTATGCAAAACAGTTTCCCTCCTCACGCAATCTGGAAAAATTTGGTGAGGCCCGACAAGAt                                    >  2:515707/1‑149 (MQ=255)                                                                                                                                gAAATATAGGGGCAAATCCACAGGTGAACTACGGCTTC‑CTGGTTGTTACGCAATAAAAACTGGTGTTTTCGACTATGCAAAACAGTTTCCCTCCTCACGCAATCTGGAAAAATTTGGTGAGGCCCGACAAGATTTAACCATAAAAGAAc                    >  2:425643/1‑149 (MQ=255)                                                                                                                                   agataGTGGCAAATCCACAGGTTAACTAC‑GCTCCTCTGTTTGTTACGCAATAAAAACTTGTGTTTTCGACTATGCAAAACAGTTTCCCTCCTCACGCAATCTTGAAAAATTTTGTGAGGCCCGACAAGATTTAACCATAAAAGAACTgg                 <  1:499802/147‑1 (MQ=255)                                                                                                                                                  cacaGGTGAACTAC‑GCTCCTCTGTTTGTTACGCAATAAACACGGGTGTTTTCGACTATGCAAAACAGTTTCCCTCCTCACGCAATCTGGAAAAAATTGGTGAGGCCCGACAAGATTTAACCATAAAAGAACTGGCGGAAAAATTTCTgg  >  1:540207/1‑149 (MQ=255)                                                                                                                                                  |                                                                                                                                                      AAAGAACCTTGCAGAGGCGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACAGGTGAACTAC‑GCTCCTCTGTTTGTTACGCAATAAAAACTGGTGTTTTCGACTATGCAAAACAGTTTCCCTCCTCACGCAATCTGGAAAAATTTGGTGAGGCCCGACAAGATTTAACCATAAAAGAACTGGCTGAAAAATTTCTGG  >  CP009273/1645659‑1645952

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.