New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	1972748 =	2 (0.040)	47 (1.000)	30/294	0.6	95.9%	intergenic (‑294/‑486)	flhD/uspC	flagellar class II regulon transcriptional activator, with FlhC/universal stress protein
	?	CP009273	= 2283592	NA (NA)					noncoding (1/1195 nt)	IS5	repeat region

GGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAGCTCCATACCCGGAGTC  >  CP009273/2283447‑2283737                                                                                                                                                  |                                                                                                                                                  ggACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATa                                                                                                                                                >  2:87430/1‑149 (MQ=32)    caagagcagctgttttCTGTTCTGACGGGGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGCACCCTGTTCTATGGCTCCAGATGACAAACATGATCGCATATCAGGGACTTGTTCGCACCTTCCATAACg                                                                                                                                             <  2:264003/137‑1 (MQ=11)          aaTCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCCCCTTCCATAACGCTGTAg                                                                                                                                       >  2:552677/1‑149 (MQ=38)          aaTCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATactgcactcc                                                                                                                                       >  1:191768/1‑140 (MQ=12)              ttctttCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTACGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGccac                                                                                                                                   <  2:705671/146‑1 (MQ=255)                            aCGTCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACACACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTg                                                                                                                     <  1:707538/149‑1 (MQ=255)                            aCGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCCTAACGCTGTAGCCCGCGGGACAGatatag                                                                                                                     >  1:724800/1‑147 (MQ=14)                              ggCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCg                                                                                                                   >  2:581836/1‑149 (MQ=255)                                  cTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAAc                                                                                                               <  2:518576/149‑1 (MQ=255)                                       tgctgAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCTGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACaa                                                                                                          <  1:562331/149‑1 (MQ=255)                                             aTTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGaa                                                                                                    <  2:55146/149‑1 (MQ=255)                                                   tgccgaagAACGTCAGTTAATGACTCATGAAAAACCCTGTTCAATGCCCCCAGATCACAAAAACAATATAAAAACAAGGACTTGTTCGCACCTTCAATAAGGCTAGAGACCCCAGACGAGAGATTGCAGAACGACAAAGAGAAACAGac                                                                                              >  1:182228/8‑148 (MQ=255)                                                   tGTCGGCGAAGGTAAGTTGATGACCCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGaa                                                                                              >  2:390767/1‑149 (MQ=255)                                                    gTCGGTGAAGGTAAGTTGACTCATCAGGATGAACCCTGTTCTCCGTCTCCATATGACAAACATGCTCTCATATCAGGGACTTCTTCGTACCTTCCATAACCCTGTAGCCACCATAACAGATATTGCGGAACGACAAAGAGTAACATAAc                                                                                             <  1:641806/149‑1 (MQ=255)                                                              gTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTTCGCAACGACAAAGGGCACCAGAACCAGTTTGATg                                                                                   >  2:122355/1‑149 (MQ=21)                                                               tAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGc                                                                                  <  1:87430/149‑1 (MQ=255)                                                                     gatgaCTCCTGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGCAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAg                                                                            <  2:611386/149‑1 (MQ=255)                                                                     gatgaCTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGCTGCATTgcg                                                                            >  2:97849/1‑147 (MQ=255)                                                                           tCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAACCAGAACCAGATTGATGcctccatcgtgca                                                                      >  1:273544/1‑137 (MQ=25)                                                                             atgatgAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATc                                                                    >  2:524232/1‑149 (MQ=255)                                                                                      ccTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTAAGACATCAACCTATGAaat                                                           >  1:313155/1‑149 (MQ=37)                                                                                        tGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTCCATCCAATGAaatta                                                         >  1:199378/1‑149 (MQ=255)                                                                                               tGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTg                                                  >  1:33952/1‑149 (MQ=255)                                                                                                    ccAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTaaa                                             <  2:184905/149‑1 (MQ=255)                                                                                                          gACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAAAGCTGTAACCAGCAGAACAGATATTGCGGAACGACAAAGAGGAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTTCTGTTAAAAGCAtt                                       >  1:129596/1‑149 (MQ=39)                                                                                                           aCAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCCCCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTg                                      <  1:250553/149‑1 (MQ=255)                                                                                                             aaaCATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTggg                                    >  2:663327/1‑149 (MQ=255)                                                                                                                gctgcgtgcATAGCAGGGGCGTGTTCGAGCCTTCCCTCACGCTGTAGCGACCAGAACAGATATTGCGGAATGACAAAGAGAAACAGAAACAGATTGATTCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTAc                                 <  1:9237/141‑1 (MQ=255)                                                                                                                    aTCTCATATCAGGGACTTGTTCGCACCTGCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGaa                             <  1:248481/149‑1 (MQ=255)                                                                                                                     tctcATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGaaa                            >  1:582712/1‑149 (MQ=255)                                                                                                                        cacatCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCGTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATa                         <  1:69666/146‑1 (MQ=255)                                                                                                                        cATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATa                         >  2:401627/1‑149 (MQ=255)                                                                                                                        cATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTAGGTACAGAAAATa                         >  2:205628/1‑149 (MQ=255)                                                                                                                           atCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTAATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAACAAccc                      >  1:557015/1‑149 (MQ=255)                                                                                                                             cacgtacgttgtgtcACCTTCCATAACTCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATCGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCAt                    <  1:451096/135‑1 (MQ=255)                                                                                                                             cAGGGATTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCAt                    <  2:305151/149‑1 (MQ=255)                                                                                                                              aGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTAAAGAAAATACCCATa                   >  2:205788/1‑149 (MQ=255)                                                                                                                               gggACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGACTTGAGCTATCATCCTATGAAATCAATTGCTGTCAAACGCATGGGGTACAGAAAATACCCATAg                  >  1:59699/1‑149 (MQ=255)                                                                                                                                ggACTTGTTCGCACCTTCCATAACGCTGTAGCTACCATAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAGc                 <  2:244829/149‑1 (MQ=255)                                                                                                                                         cGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAGCTCCATAccc        >  1:764576/1‑149 (MQ=255)                                                                                                                                             ccTTCCATAACGCCGTAGCCACCAGAACCCATATTGCACAACAACAAAGACAAACAAAACCAGATGAATGCATCTAGCCTTCATCCTATGAAATTAATACCTGTTAAAACCATTGAGTACAGAAAATACCCATAGCTCCATACCCGGAg    <  1:67517/149‑1 (MQ=255)                                                                                                                                               ttCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAGCTCCATACCCGGAGTc  >  2:227600/1‑149 (MQ=255)                                                                                                                                                  |                                                                                                                                                  GGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAGCTCCATACCCGGAGTC  >  CP009273/2283447‑2283737

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.