New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	1217678 =	28 (0.810)	3 (0.100)	3/234	4.8	9.9%	intergenic (+7/‑430)	USA300HOU_1144/USA300HOU_1145	hypothetical protein/possible 3‑demethylubiquinone‑9 3‑methyltransferase
	?	CP000730	1217746 =	30 (0.990)					intergenic (+75/‑362)	USA300HOU_1144/USA300HOU_1145	hypothetical protein/possible 3‑demethylubiquinone‑9 3‑methyltransferase
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

TAGTAGTCACGATGTCGACGAAAGTTCAACGAAGCAAAAACATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGAATACGA  >  CP000730/1217545‑1217809                                                                                                                                      |                                                                                                                                     tagtagTCACGATGTCGACGAAAGTTCAACGAAGCAAAAACATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCta                                                                                                                               >  1:178087/1‑141 (MQ=255)       tCACGATGTCGACGAAAGTTCAACGAAGCAAAAACATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAgtgt                                                                                                                         >  1:110091/1‑141 (MQ=255)         aCGATGTCGACGAAAGTTCAACGAAGCAAAAACATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGttt                                                                                                                       <  1:406318/141‑1 (MQ=255)           gATGTCGACGAAAGTTCAACGAAGCAAAAACATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTaa                                                                                                                     >  1:413687/1‑141 (MQ=255)                               gAAGCAAAAACATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATATAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCg                                                                                                 <  1:239999/141‑1 (MQ=255)                                        aCATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGGACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAat                                                                                        <  1:302037/141‑1 (MQ=255)                                                     aaaaCAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACta                                                                           >  1:184821/1‑141 (MQ=255)                                                       aacaacTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACtata                                                                         >  1:148446/1‑141 (MQ=255)                                                       aacaacTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATAGTagacccgaaacc                                                                         >  2:111096/1‑130 (MQ=255)                                                                    cATAATGATGATTTATTTAAAAATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATtatat                                                            <  2:419483/141‑1 (MQ=255)                                                                                ttatttaAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑Tttatt                                               <  2:297428/141‑1 (MQ=255)                                                                                              aaaGGATATATTACGTAAACAAGAACAAAATTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAAc                                 <  2:134951/141‑1 (MQ=255)                                                                                                 ggATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACttt                              <  1:357651/141‑1 (MQ=255)                                                                                                 ggATATATTACGTAAACAAGAACAAATATAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACttt                              <  2:140520/141‑1 (MQ=255)                                                                                                    tatatTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTttatt                           <  1:380943/141‑1 (MQ=255)                                                                                                     atatTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTttatta                          <  1:417417/141‑1 (MQ=255)                                                                                                          aCGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATc                     >  2:358695/1‑141 (MQ=255)                                                                                                           cGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATcc                    >  1:239468/1‑141 (MQ=255)                                                                                                                aCAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATccaacca               >  2:403983/1‑141 (MQ=255)                                                                                                                aCAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATccaacca               >  1:322078/1‑141 (MQ=255)                                                                                                                 cAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATccaaccaa              <  2:95369/141‑1 (MQ=255)                                                                                                                 cAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATccaaccaa              >  2:84724/1‑141 (MQ=255)                                                                                                                    gAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTa           <  1:142889/141‑1 (MQ=255)                                                                                                                     aaCAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTaa          >  2:368337/1‑141 (MQ=255)                                                                                                                         aaTTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGAAt      <  1:216400/141‑1 (MQ=255)                                                                                                                          aTTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGAATa     <  2:413687/141‑1 (MQ=255)                                                                                                                            ttAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAATTTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGAATAc    <  2:360853/141‑1 (MQ=255)                                                                                                                             aaaaaaCAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGATTACGa  <  2:88711/140‑1 (MQ=255)                                                                                                                                      |                                                                                                                                     TAGTAGTCACGATGTCGACGAAAGTTCAACGAAGCAAAAACATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGAATACGA  >  CP000730/1217545‑1217809

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