New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 1391495	NA (NA)	11 (0.570)	9/276	NT	61.1%	intergenic (+146/‑127)	insH1/ynaJ	IS5 transposase and trans‑activator/DUF2534 family putative inner membrane protein
	?	CP009273	= 1972751	7 (0.360)					intergenic (‑297/‑483)	flhD/uspC	flagellar class II regulon transcriptional activator, with FlhC/universal stress protein

TAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCG  >  CP009273/1391368‑1391633                                                                                                                                |                                                                                                                                           tacaTGGGGAAGAAACGGTCTATTTAGGCTGATTTAAGGCATTTACGGGAGAAAAAAGCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGAt                                                                                                                       <  2:316987/146‑1 (MQ=14)  aaaTGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACCTAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGAtt                                                                                                                      <  2:7707/149‑1 (MQ=255)                  gTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATAAAGACATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACGTTCCCGAACTAATCAATGCGTTGATTGTAAATCCAGCTAaga                                                                                                      >  2:127692/1‑149 (MQ=255)                       aaTAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAgaggtga                                                                                                 <  1:32988/149‑1 (MQ=255)                              tGATGCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGGATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGAGTTGATTGTAAATCAAGCTAAGAGGTGAGGGTTTc                                                                                          >  2:293808/1‑149 (MQ=18)                                          tttACGGGCGAAAAAATCGGCTCAAACATGAAGAAATGACATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTACCTAATCCATGCGTTGGTTGTAAATCCAGCACAGAGTCGCGGTCTTCacagagcaggcg                                                                              >  2:280131/1‑141 (MQ=14)                                             aCGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTTAGAACGGGTAACGGt                                                                           >  2:80603/1‑149 (MQ=18)                                                   gaAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAAATTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATg                                                                     >  1:170058/1‑149 (MQ=255)                                                     aaaaaTCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAATTGTc                                                                   >  2:230297/1‑149 (MQ=255)                                                        aaTCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGGAATGTCATg                                                                >  2:238569/1‑149 (MQ=255)                                                               tCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGt                                                         >  2:80930/1‑149 (MQ=255)                                                                        aagaaATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAg                                                >  2:293695/1‑149 (MQ=255)                                                                        aagaaATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAg                                                >  1:28165/1‑149 (MQ=255)                                                                           aaatgaaatgACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCAACTTACCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGGGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGGTACGTTTAGGTa                                             >  1:288441/1‑149 (MQ=255)                                                                                                cGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTAATTATAAATCAAACAAAGAGATGAGGTTTTCAGAGCAGAAAACGGTGAAATGTCATGGTATTGTTACGTATAGGTAACAAGAAATTTGTCTGcacat                        >  1:36438/1‑148 (MQ=38)                                                                                                                gCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGGTTAGGTAACAAGAGATTTTTCTGCACAAGGAGTACACAATGAtt        >  2:210367/1‑149 (MQ=255)                                                                                                                      tCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCAAAGAGGTAAGGTTTTCAGAGCAGACAACGATGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAACTTTGTCTGCACAAGGATTACATCATGATTATGGCg  >  1:67788/1‑149 (MQ=255)                                                                                                                                |                                                                                                                                           TAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCG  >  CP009273/1391368‑1391633

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.