New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 312194	NA (NA)	9 (0.180)	8/276	NT	11.0%	intergenic (+30/+3)	insF1/ykgA	IS3 transposase B/pseudogene, AraC family;putative regulator; Not classified; putative ARAC‑type regulatory protein
	?	CP009273	= 642348	73 (1.470)					coding (618/879 nt)	citG	2‑(5''‑triphosphoribosyl)‑3'‑dephosphocoenzyme‑A synthase

CAACGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCAAAAGTTTCAACCGTGAGCAAATCGACCGATTTTGTTGACGGTTCAAACGTGGAAACGAAATAGATATCCGTCTTAAAATTCTTC  >  CP009273/312061‑312341                                                                                                                                      |                                                                                                                                                    cAACGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTc                                                                                                                                      <  1:687218/149‑1 (MQ=255)         tttAATTATATCGGATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTCGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCa                                                                                                                              <  1:654372/149‑1 (MQ=255)              ttATAGCGAATGTGATTACGATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCtt                                                                                                                         <  1:284890/149‑1 (MQ=255)              ctatagcgcaggggATTACAATCGGTGGCGGCGGCACGGTTGGTGTGGCGGCCTCAGTCCGGAACAGTTTGAAGGCAAGAACCTCGCTTGGGCCGGTGTCCATATTACGTGGGGAGGATCATAAAGTGCGCGGGTCGTGGTCCACTCtt                                                                                                                         <  1:301815/136‑1 (MQ=14)                 tatCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTg                                                                                                                      >  2:540927/1‑149 (MQ=255)                 tatCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCGGTGTCCATATTACGTGGGTAGGATCAGAAAGTCCTCGGGTCGTTGTCCACGCTGTTg                                                                                                                      >  2:829042/1‑149 (MQ=255)                        tgtgATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTc                                                                                                               >  2:101238/1‑149 (MQ=255)                            aTTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCa                                                                                                           >  2:385317/1‑149 (MQ=255)                                cAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATAtt                                                                                                       <  2:852297/149‑1 (MQ=255)                                cAATCGGGGGCGGCGGCACATTTGGTGTGCCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGCTCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATAtt                                                                                                       <  1:567957/149‑1 (MQ=255)                                  aTCGGTGTCGGCGGGAAAGTAGGATTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTca                                                                                                     >  1:407750/1‑149 (MQ=21)                                            gcggcACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTAc                                                                                           >  2:267907/1‑149 (MQ=255)                                              gtcgcaGTTGGTGTGGCGGCCCCAGTCCGTAACAATTTCAAAACCAGAACCCCCCTTAGGCCTGTGTCCATATTACGTGGCTAGGATCATAAAGTCCTCGGGGCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCa                                                                                         <  1:552705/145‑1 (MQ=25)                                              ggcACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTAccc                                                                                         >  1:472597/1‑148 (MQ=255)                                               gcACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTATTTTGGCATGTCAGCGTATTGACATACCGTGccgg                                                                                        >  1:663083/1‑147 (MQ=255)                                                 acaGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCAGGTCAGCATATTCACATACCGTACCAGCa                                                                                      >  1:61751/1‑149 (MQ=255)                                                    gTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCaaaa                                                                                   >  2:856876/1‑149 (MQ=255)                                                        gtgtGGCTGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCAAAAGttt                                                                               <  1:731064/149‑1 (MQ=255)                                                          gtgGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGATCCCGCAAAAGTTTCa                                                                             >  1:177462/1‑149 (MQ=255)                                                             gcggcCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCAAAAGTTTCAAcc                                                                          >  1:416090/1‑149 (MQ=255)                                                               ggcCTCAGTCCGGAACAATTTGAAAACCAGTGCCGCTCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCAAAAGTTTCAACCgc                                                                        >  1:618720/1‑148 (MQ=37)                                                               ggcCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCAAAAGTTTCAACCGt                                                                        >  1:345245/1‑149 (MQ=255)                                                                               aaTTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTATCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCAAAAGTTTCAGCCGTGCGCAAATCGACCgct                                                        >  1:117434/1‑147 (MQ=255)                                                                                     aaaaCAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGGCCTCGGGTCGTTGTCCACTCTTTTGGCATGTGAGCATATTCACATACCGTACCAGCAAAAGTTTCAACCGTGAGCACATCGACCGGtttgttt                                                  >  2:225619/1‑145 (MQ=38)                                                                                         cAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCAAAAGTTTCAACCGTGAGCAAATCGACCGATTTTGTTGACg                                              <  2:407750/149‑1 (MQ=255)                                                                                          aaGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGTTCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCAAAAGTTTCCACCGTGAGCAAATCGACCGATTTTGTTGACgg                                             <  1:829042/149‑1 (MQ=255)                                                                                          aaGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCAAAAGTTTCAACCGTGAGCAAATCGACCGATTTTGTTGACgg                                             <  1:540927/149‑1 (MQ=255)                                                                                            gAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCAAAAGTTTCAACCGTGAGCAAATCGACCGATTTTGTTGACGGtt                                           >  1:300286/1‑149 (MQ=255)                                                                                              aCCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATAACGTACCAGCAAAAGTTTCAACCGTGAGCAAATAGACCGATTTTGTTGACGGTTCa                                         >  2:395181/1‑149 (MQ=255)                                                                                                   cgtcatgCCTGTGTCCAACTTACCTGGGTAGGTTCTTAATGTGCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCCCACACTGTACTTGCAAACGTTTCCACCGTGAGCAAATCGACCGATTTTGTTGACGGTTCAAACgc                                    <  1:453929/143‑2 (MQ=255)                                                                                                       aGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGGCCGCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCAAAAGTTTCAACCGTGAGCAAATCGACCGATTTTGTTGACGGTTCAAACGTGGaa                                <  2:489087/149‑1 (MQ=255)                                                                                                         gCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCAAAAGTTTCAACCGTGAGCAAATCGACCGATTTTGTTGACGGTTCAAACGTGGAAAc                              <  1:409093/149‑1 (MQ=255)                                                                                                              tgtCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCAAAAGTTTCAACCGTGAGCAAATGGACCGATATTGTTGACGGTTCAGACGTGGGAACGAAAt                         >  1:462559/1‑149 (MQ=255)                                                                                                               gtCCATATTACGTGGGTAGGATCATAAAGTCCTGGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCAAAAGTTTCAACCGTGAGCAAATCGACCGATTTTGTTGACGGTTCAAACGTGGAAACGAAATa                        >  2:726870/1‑149 (MQ=255)                                                                                                               gtCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCCAAAGTTTCAACCGTGAGCAAATCGACCGATTTTGTTGCAGGGTAAAACGTGGAAACGAAATa                        >  2:395645/1‑149 (MQ=255)                                                                                                                 ccATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCAAAAGTTTCAACCGTGAGCAAATCGACCGATTTTGTTGACGGTTCAAACGTGGAAACGAAATAGa                      >  1:800818/1‑149 (MQ=255)                                                                                                                   atatTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCAAAAGTTTCAACCGTGAGCAAATCGACCGATTTTGTTGACGGTTCAAACGTGGAAACGAAATAGata                    >  1:597972/1‑149 (MQ=255)                                                                                                                   aggttACGTGGGTAGGAGCATAAAGTCCTCGGGTCGTTGTCCCCTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCAAAAGTTTCAACCGTGAGCAAATCGACCGATTTTGTTGACGGTTCAAACGTGGAAACGAAATAGata                    <  2:275029/146‑1 (MQ=255)                                                                                                                        cctggggTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCCTGTCAGCATATTCACATACCGTACCAGCAAAAGTTTCAACCGTGAGCAAATCGACCGATTTTGTTGACGGTTCAAACGTGGAAACGAAATAGATATCCGt               <  1:845792/145‑1 (MQ=255)                                                                                                                        ccGTGGGTAGCATCATAAAGTTCTCGGGTCGTTGTCCACTCCTGTGGCATGTCAGCATATTCACATACCGTACCAGCAAAAGTTTCAACCGTGAGCAAATCGACCGATTTTGTTGACGGTTCAAACGTGGAAACGAAATAGATATCCGt               <  1:818580/148‑1 (MQ=255)                                                                                                                                   aTCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCAAAAGTTTCAACCGTGAGCAAATCGACCGATTTTGTTGACGGTTCAAACGTGGAAACGAAATAGATATCCGTCTTAAAAttct    >  1:381247/1‑149 (MQ=255)                                                                                                                                    tCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGGCAGCATATTCACATACCGTACCAGCAAAAGTTTCAACCGTGAGCAAATCGACCGATTTTGTTGACGGTTCAAACGTGGAAACGAAATAGATATCCGTCTTAAAAttctt   <  1:13050/149‑1 (MQ=255)                                                                                                                                     cATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCAAAAGTTTCAACCGTGAGCAAATCGACCGATTTTGTTGACGGTTCAAACGTGGAAACGAAATAGATATCCGTCTTAAAAttcttc  >  2:754160/1‑149 (MQ=255)                                                                                                                                      |                                                                                                                                                    CAACGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCAAAAGTTTCAACCGTGAGCAAATCGACCGATTTTGTTGACGGTTCAAACGTGGAAACGAAATAGATATCCGTCTTAAAATTCTTC  >  CP009273/312061‑312341

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