New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	1217678 =	51 (0.780)	3 (0.050)	3/226	NT	6.9%	intergenic (+7/‑430)	USA300HOU_1144/USA300HOU_1145	hypothetical protein/possible 3‑demethylubiquinone‑9 3‑methyltransferase
	?	CP000730	1217746 =	36 (0.630)					intergenic (+75/‑362)	USA300HOU_1144/USA300HOU_1145	hypothetical protein/possible 3‑demethylubiquinone‑9 3‑methyltransferase

ATCTATCTAGTAGTCACGATGTCGACGAAAGTTCAACGAAGCAAAAACATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAATTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGAATACGAGTAAT  >  CP000730/1217538‑1217814                                                                                                                                             |                                                                                                                                         atttgattacaattaaaattaagttaaaggagggacgttatgttacattatgtgattccagtattagtcctattactcgtattcttaattggttggattttaataaagttaattatccgctaataaattttttatataata                                                                                                                                          >  1:221864‑M1/141‑141 (MQ=255) atttgattacaattaaaattaagttaaaggagggacgttatgttacattatgtgattccagtattagtcctattactcgtattcttaattggttggattttaataaagttaattatccgctaataaattttttatataata                                                                                                                                          >  1:480555‑M1/141‑141 (MQ=255)       ttacaattaaaattaagttaaaggagggacgttatgttacattatgtgattccagtattagtcctattactcgtattcttaattggttggattttaataaagttaattatccgctaataaattttttatataatAAAAGCt                                                                                                                                    >  1:169582‑M1/135‑141 (MQ=255)       ttacaattaaaattaagttaaaggagggacgttatgttacattatgtgattccagtattagtcctattaatcgtattcttaattggttggattttaataaagttaattatccgctaataaattttttatataatAAAAGCt                                                                                                                                    >  1:665032‑M1/135‑141 (MQ=255)        tagtagTCACGATGTCGACGAAAGTTCAACGAAGCAAAAACATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCta                                                                                                                                   >  1:212680/1‑141 (MQ=255)          gtagtCACGATGTCGACGAAAGTTCAACGAAGCAAAAACATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCtata                                                                                                                                 <  2:207775/141‑1 (MQ=255)            attaaaattaagttaaaggagggacgttatgttacattatgtgattccagtattagtcctattactcgtattcttaattggttggattttaataaagttaattatccgctaataaattttttatataatAAAAGCTATAgt                                                                                                                               >  1:621346‑M1/130‑141 (MQ=255)             gtCACGATGTCGACGAAAGTTCAACGAAGCAAAAACATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAgtg                                                                                                                              <  1:320435/141‑1 (MQ=255)             gtCACGATATCGACGAAAGATCAAAGAAGAAAAAACATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAgtg                                                                                                                              <  2:510155/141‑1 (MQ=255)             gtCAAGATGTCGAAGAAAGTACAACGAAGCAAAAATATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATATAAAGAATATATTACGTAAACAAGAACAAAAAAAAAAAAAAAAAAGCTATAgtg                                                                                                                              <  2:510174/141‑1 (MQ=255)               aaCGATGTAGACGAAAGTTCAACGAAGCAAAAACATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAAATTAAAAACAAAAAAGCTATAGTGtt                                                                                                                            <  2:81712/140‑1 (MQ=255)                aaattaagttaaaggagggacgttatgttacattatgtgattccagtattagtcctattactcgtattcttaattggttggattttaataaagttaattatccgctaataaattttttatataatAAAAGCTATAGTGttt                                                                                                                           <  1:584676‑M1/16‑1 (MQ=255)                aCGATGTCGACGAAAGTTCAACGAAGCAAAAACATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGttt                                                                                                                           <  1:351686/141‑1 (MQ=255)                  gATGTCGACGAAAGTTCAACGAAGCAAAAACATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTaa                                                                                                                         >  2:284886/1‑141 (MQ=255)                           gaAAGTTCAACGAAGCAAAAACATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAgggg                                                                                                                <  2:219646/141‑1 (MQ=255)                           gaAAGTTCAACGAAGCAAAAACATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATAACAgagt                                                                                                                >  1:707722/1‑138 (MQ=255)                                 tCAACGAACCAAAAACATATAAAAAACAAAACAACAATAGATCATAATGAAGATATAAATAAACATGTAAAGGTTATATTACGTAAACAAAAAAAAAAAAAAACAAAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCtt                                                                                                          <  2:774561/141‑1 (MQ=255)                                  cAACGAAGCAAAAACATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTa                                                                                                         >  1:263147/1‑141 (MQ=255)                                    aCGAAGCAAAAACATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAAc                                                                                                       >  1:626042/1‑141 (MQ=255)                                     gttatgttacattatgtgattccagtattagtcctattactcgtattcttaattggttggattttaataaagttaattatccgctaataaattttttatataatAAAAg                                                                                                                                      >  2:374585‑M1/105‑109 (MQ=255)                                     gttatgttacattatgtgattccagtattagtcctattactcgtattcttaattggttggattttaataaagttaattatccgctaataaattttttatataatAAAAg                                                                                                                                      <  1:374585‑M1/5‑1 (MQ=255)                                           aaaaaCATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATcc                                                                                                <  1:776168/141‑1 (MQ=255)                                            aaaaCATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCg                                                                                               <  1:73607/141‑1 (MQ=255)                                            aaaaCATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCg                                                                                               >  2:33710/1‑141 (MQ=255)                                             aaaCATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACAGCATCCGa                                                                                              >  2:446337/1‑141 (MQ=255)                                              aaCATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGaa                                                                                             <  1:628712/141‑1 (MQ=255)                                               aCATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAat                                                                                            >  2:472842/1‑141 (MQ=255)                                               aCATAGAAAAAATAAAACAACGATAGAGCAGAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAat                                                                                            <  1:112517/141‑1 (MQ=255)                                                cATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGACTGCTTAACCGCATCCGAata                                                                                           >  1:696921/1‑141 (MQ=255)                                                  tataAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAAAAAGAACAAATTAAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATAtt                                                                                         <  2:445680/141‑1 (MQ=255)                                                         tccagtattagtcctattactcgtattcttaattggttggattttaataaagttaattatccgctaataaattttttatataatAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAaca                                                                                  >  2:760113‑M1/85‑141 (MQ=255)                                                          ccagtattagtcctattactcgtattcttaattggttggattttaataaagttaattatccgctaataaattttttatataatAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAacac                                                                                 >  2:430353‑M1/84‑141 (MQ=255)                                                          aTAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAacac                                                                                 <  1:542905/141‑1 (MQ=255)                                                            aaaaCAACTATAGATCATAATGATGATTTATTTAAAAATGTAAAGGATATATTACGTAAACAAGAACAAAATTAAAAACAAAAAAGCTATAGTGTTTAATATCAGTGGCTGCTTAACCGCATCCGAATATTACAAACACta                                                                               >  2:528314/1‑141 (MQ=255)                                                              tattagtcctattactcgtattcttaattggttggattttaataaagttaattatccgctaataaattttttatataatAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACtata                                                                             >  2:611906‑M1/80‑141 (MQ=255)                                                              aacaacTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACtata                                                                             >  2:98648/1‑141 (MQ=255)                                                              aacaacTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACtata                                                                             <  2:217998/141‑1 (MQ=255)                                                                caacTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACtatacc                                                                           >  2:619424/1‑139 (MQ=255)                                                                 aacTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCt                                                                          >  1:60104/1‑141 (MQ=255)                                                                   cTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCttt                                                                        <  1:11099/141‑1 (MQ=255)                                                                        gATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTttatta                                                                   >  1:444629/1‑141 (MQ=255)                                                                           cATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATtatat                                                                <  1:578422/141‑1 (MQ=255)                                                                           cATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATtatat                                                                <  1:578615/141‑1 (MQ=255)                                                                           aaTAATGATGATATAATTAAACAAGTAAAAAATATATTACGTAAAAAAAAAAAAAAATAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCtaaaaaaaaaa                                                                <  2:465319/140‑11 (MQ=255)                                                                                      tttatttaAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAATttat                                                     >  1:545194/1‑141 (MQ=255)                                                                                            taAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAATTTATTAGCgg                                               >  1:265841/1‑141 (MQ=255)                                                                                                 aTGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAATTTATTAGCGGATAAt                                          <  1:628853/141‑1 (MQ=255)                                                                                                  tGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAATTTATTAGCGGATAAtt                                         >  1:324402/1‑141 (MQ=255)                                                                                                  agTAAAGGATATATAACGTAAACAAGAACAAATCTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGATTAACCGCATCCGAATATTACAAACACTATAGCTTTAATTATATAACACATTTATTAGCGGATAAtt                                         >  2:115345/2‑141 (MQ=255)                                                                                                     aaaaaatatatTACGTAAACAATAAAAAAATTAAAAACAAAAAAGCTATAGTGTTTAATATCAGAGGTGGTTTAGAAGCATCCGAATATTACAATCACTATAGTTTTTATTATATAAAAAATTTATTAGCGGATAATTAAc                                      <  2:628290/136‑1 (MQ=255)                                                                                                                  cGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCTGAATATTACAAACACTATAGCTTTTATTATATAAAAAATTTATTAGCGGATAATTAACTTTATTAAAATcc                         >  1:681480/1‑141 (MQ=255)                                                                                                                  cGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAATTTATTAGCGGATAATTAACTTTATTAAAATcc                         >  1:524568/1‑141 (MQ=255)                                                                                                                   gTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAATTTATTAGCGGATAATTAACTTTATTAAAATcca                        <  1:5831/141‑1 (MQ=255)                                                                                                                   aaaaagagaaaCAAAATTAAAAAGAAAAAAGCTATAGTGTTTAATATCAGGAGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAATTTATTAGCGGATAATTAACTTTATTAAATTcca                        <  2:85276/132‑1 (MQ=255)                                                                                                                      aaCAAGAAAAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTACTTAACCGCATCCAAATATTAAAAACACTATAGCTTTTATTATATAAAAAATTTATTAGCGAATAATTAACTTTATTAAAATccaacc                     <  1:313865/141‑1 (MQ=255)                                                                                                                         aaGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAATTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAAt                  <  2:157274/141‑1 (MQ=255)                                                                                                                           gAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAATTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTa                <  1:715355/141‑1 (MQ=255)                                                                                                                            aaCAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAATTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTaa               >  1:546443/1‑141 (MQ=255)                                                                                                                                aaTTTAAAAGCAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAATTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGAAt           >  1:691499/1‑141 (MQ=255)                                                                                                                                aaTTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACAGCATCCGAATATTACAAACACTATAGCTTTTATTATATACAAAATTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGAAt           >  2:373482/1‑141 (MQ=255)                                                                                                                                  tttAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAATTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGAATAc         <  1:226534/141‑1 (MQ=255)                                                                                                                                    tAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAATTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGAATACGa       >  2:560950/1‑141 (MQ=255)                                                                                                                                         aCAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAATTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGAATACGAGTAAt  <  2:60921/141‑1 (MQ=255)                                                                                                                                             |                                                                                                                                         ATCTATCTAGTAGTCACGATGTCGACGAAAGTTCAACGAAGCAAAAACATATAAAAAATAAAACAACTATAGATCATAATGATGATTTATTTAAACATGTAAAGGATATATTACGTAAACAAGAACAAATTTAAAAACAAAAAAGCTATAGTGTTTAATATCAGGGGCTGCTTAACCGCATCCGAATATTACAAACACTATAGCTTTTATTATATAAAAAATTTATTAGCGGATAATTAACTTTATTAAAATCCAACCAATTAAGAATACGAGTAAT  >  CP000730/1217538‑1217814

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ 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.