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.

CATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGAATACGAGTAATAGGACTAATACTGGAATCACATAATGTAACATAACGTCCCTCCTTTAACTTAATTTTAATTGTAATCAAATT  >  CP000730/1217612‑1217886                                                                                                                                       |                                                                                                                                              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                                                                                            >  1:322078/1‑141 (MQ=255)                                             aCAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATccaacca                                                                                            >  2:403983/1‑141 (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)                                                                    aaaGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGAATACGAGTAATAGGAc                                                                     <  1:116276/141‑1 (MQ=255)                                                                    aaaGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGAATACGAGTAATAGGAc                                                                     >  1:135034/1‑141 (MQ=255)                                                                          ataGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGAATACGAGTAATAGGACTAATAc                                                               <  1:368337/141‑1 (MQ=255)                                                                           taGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTTTTTTATTTATAC‑TTTATTAACAGATAATTAACTTTATTAAAATCCAACCAATTAAGAATACGATTAATATTAGTAATACt                                                              >  2:143667/1‑141 (MQ=255)                                                                             gtgtTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGAATACGAGTAATAGGACTAATACTgg                                                            >  1:390532/1‑141 (MQ=255)                                                                                 ttAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGAATACGAGTAATAGGACTAATACTGGAATc                                                        <  2:314691/141‑1 (MQ=255)                                                                                 ttAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGAATACGAGTAATAGGACTAATACTGGAATc                                                        <  1:180911/141‑1 (MQ=255)                                                                                     tatCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGAATACGAGTAATAGGACTAATACTGGAATCACAt                                                    <  1:154409/141‑1 (MQ=255)                                                                                                  ttAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGAATACGAGTAATAGGACTAATACTGGAATCACATAATGTAACATAAc                                       <  2:143036/141‑1 (MQ=255)                                                                                                      ccGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGAATACGAGTAATAGGACTAATACTGGAATCACATAATGTAACATAACGTcc                                   <  2:178087/141‑1 (MQ=255)                                                                                                      ccGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGAATACGAGTAATAGGACTAATACTGGAATCACATAATGTAACATAACGTcc                                   >  1:411163/1‑141 (MQ=255)                                                                                                                                  cTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGAATACGAGTAATAGGACTAATACTGGAATCACATAATGTAACATAACGTCCCTCCTTTAACTTAATTTTAATTGCAATc       >  1:380405/1‑141 (MQ=255)                                                                                                                                      tattatATAAAAAA‑TTTATTCACCGATAATTAACTTTTTTAAAATGCAATCAATTAAGAATACGAGTAATATGACTAATACTGGAATCACATAATGTAACATAACGTCCCTCCTTTAACTTAATTTTAATTGTAATCAAAt   >  2:346735/1‑141 (MQ=255)                                                                                                                                       attatATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGAATACGAGTAATAGGACTAATACTGGAATCACATAATGTAACATAACGTCCCTCCTTTAACTTAATTTTAATTGTAATCAAAtt  <  1:175761/141‑1 (MQ=255)                                                                                                                                       attatATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGAATACGAGTAATAGGACTAATACTGGAATCACATAATGTAACATAACGTCCCTCCTTTAACTTAATTTTAATTGTAATCAAAtt  <  1:231557/141‑1 (MQ=255)                                                                                                                                       |                                                                                                                                              CATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAA‑TTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGAATACGAGTAATAGGACTAATACTGGAATCACATAATGTAACATAACGTCCCTCCTTTAACTTAATTTTAATTGTAATCAAATT  >  CP000730/1217612‑1217886

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.