New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	1973115 =	5 (0.220)	16 (0.690)	14/268	NT	76.2%	intergenic (‑661/‑119)	flhD/uspC	flagellar class II regulon transcriptional activator, with FlhC/universal stress protein
	?	CP009273	= 3577555	NA (NA)					intergenic (+15/‑1)	insB1/yrhA	IS1 transposase B/pseudogene, interrupted by IS1E

CATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCATAATAATCAAAAGGAAACAAAAAT  >  CP009273/3577418‑3577690                                                                                                                                          |                                                                                                                                        cATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACCTTa                                                                                                                                  >  2:152084/1‑145 (MQ=14)    aaCCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCAACATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTaaaa                                                                                                                               >  2:374803/1‑145 (MQ=21)      ccTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGGCATTAACAGt                                                                                                                             >  2:113715/1‑145 (MQ=18)                  gcagcaCCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGaa                                                                                                                 >  2:369425/1‑145 (MQ=255)                  gcagcaCCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGaa                                                                                                                 <  2:168735/145‑1 (MQ=255)                    agcaCCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAAt                                                                                                               >  1:418479/1‑145 (MQ=255)                                                        tctcAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTc                                                                           <  1:94302/145‑1 (MQ=255)                                                         ctcAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCg                                                                          >  2:384418/1‑145 (MQ=255)                                                                   gTGGAGCTGCATGACAAAGTCATCGGGAAGTGAAACTGCATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTGTTTTGAAATTAGAGATAATATTGGCACAGAAAAGATATTCAGTCCGTTTCGTGAtt                                                                >  1:92173/1‑145 (MQ=25)                                                                      gAGCCGCATGACAAAGGCATCGGGCATTATCTGAACATAAACCACTATCAATAAGTCGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTtct                                                             <  2:68855/145‑1 (MQ=255)                                                                        tgtGCACGAGAAAGCTATCGGCCATTAACTGAACAGAAAACACTATCAATAAGTTGGAGTCAGTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTctct                                                           <  1:237904/143‑1 (MQ=37)                                                                         cTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCtttt                                                          >  2:387381/1‑145 (MQ=255)                                                                                     gTCATCCTGCAATATCTGCACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGTCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACg                                              <  1:129888/145‑1 (MQ=38)                                                                                        atggggCATTATCTGAACATAAAACACTATCAATAAGGTGGAGGCTTGACGGGCATTAACAGTATCTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTGCTCTTCAGTCTTAAGCGaaa                                           <  1:152084/142‑1 (MQ=37)                                                                                         tCGGGCATTATCTGAACATAAAACACTATGAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGGACAGAAAATATATTCAGTTCGTTTAGTGATTTCTATTCATTCTTAAACGAAAt                                          >  2:267982/1‑145 (MQ=255)                                                                                                          aTAGAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAAGGAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCat                         >  1:318822/1‑145 (MQ=255)                                                                                                          aTAAAACACTACCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCat                         <  1:70233/145‑1 (MQ=255)                                                                                                            aaaaCACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCataa                       <  1:141281/145‑1 (MQ=255)                                                                                                                        atatGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCATAATAATCAAAAGGa           <  1:81649/145‑1 (MQ=255)                                                                                                                        aTAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAACATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCATAATAATCAAAAGGa           <  1:128729/145‑1 (MQ=255)                                                                                                                                 aGTCATTACCGACATTAAAAGTAACTTTTTTGATATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCATAATAATCAGAAGGAAACAAAAAt  >  2:270888/1‑145 (MQ=255)                                                                                                                                          |                                                                                                                                        CATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCATAATAATCAAAAGGAAACAAAAAT  >  CP009273/3577418‑3577690

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.